Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 90 of 230
Found at i:25159333 original size:19 final size:19
Alignment explanation
Indices: 25159309--25159351 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
25159299 TGTTTTATGT
25159309 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
25159328 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
25159347 ATATA
1 ATATA
25159352 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:25159361 original size:24 final size:25
Alignment explanation
Indices: 25159315--25159379 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
25159305 ATGTATATAT
* *
25159315 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
25159339 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
25159364 TTACTATAATATAATA
1 ATAATATAATATAATA
25159380 TTTTTTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:25161954 original size:20 final size:20
Alignment explanation
Indices: 25161929--25161967 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25161919 TACTTATAAT
*
25161929 ATTTATTATTTTATAAAATC
1 ATTTATTATCTTATAAAATC
*
25161949 ATTTATTATCTTGTAAAAT
1 ATTTATTATCTTATAAAAT
25161968 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTATTATCTTATAAAATC
Found at i:25163008 original size:17 final size:17
Alignment explanation
Indices: 25162983--25163044 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
25162973 ACACATTTAT
*
25162983 ATAATATTCATCATCAA
1 ATAACATTCATCATCAA
* *
25163000 ATAACATTCA-CTATTTAT
1 ATAACATTCATC-A-TCAA
*
25163018 ATAATATTCATCATCAA
1 ATAACATTCATCATCAA
25163035 ATAACATTCA
1 ATAACATTCA
25163045 CTTTAATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.60
18 12 0.34
19 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAACATTCATCATCAA
Found at i:25163016 original size:35 final size:35
Alignment explanation
Indices: 25162977--25163046 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
25162967 AATAAAACAC
25162977 ATTTATATAATATTCATCATCAAATAACATTCACT
1 ATTTATATAATATTCATCATCAAATAACATTCACT
25163012 ATTTATATAATATTCATCATCAAATAACATTCACT
1 ATTTATATAATATTCATCATCAAATAACATTCACT
25163047 TTAATTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (35 bp):
ATTTATATAATATTCATCATCAAATAACATTCACT
Found at i:25164886 original size:8 final size:8
Alignment explanation
Indices: 25164873--25164911 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
25164863 ATATATACTA
25164873 AATAAAAT
1 AATAAAAT
25164881 AATAAAATAAT
1 AAT--AA-AAT
25164892 AATAAAAT
1 AATAAAAT
25164900 AATAAAAT
1 AATAAAAT
25164908 AATA
1 AATA
25164912 TTTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 18 0.64
9 2 0.07
10 2 0.07
11 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAAAAT
Found at i:25164897 original size:19 final size:19
Alignment explanation
Indices: 25164873--25164911 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25164863 ATATATACTA
25164873 AATAAAATAATAAAATAAT
1 AATAAAATAATAAAATAAT
25164892 AATAAAATAATAAAATAAT
1 AATAAAATAATAAAATAAT
25164911 A
1 A
25164912 TTTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAATAATAAAATAAT
Found at i:25164911 original size:11 final size:11
Alignment explanation
Indices: 25164878--25164904 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25164868 TACTAAATAA
25164878 AATAATAAAAT
1 AATAATAAAAT
25164889 AATAATAAAAT
1 AATAATAAAAT
25164900 AATAA
1 AATAA
25164905 AATAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:25166311 original size:40 final size:40
Alignment explanation
Indices: 25166262--25166401 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 40
25166252 AACACACCAG
* *
25166262 TTTGGCACCCAGTGCCTCATCAGATAATTCGAAATAAAAA
1 TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
* * * **
25166302 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT--AAA
1 TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
*
25166340 TTAG-CACCCAGTGCCTCATC-GAATATATTCGAAGTAATAAA
1 TTTGACACCCAGTGCCTCATCAG-ATA-ATTCGAAGTAA-AAA
*
25166381 -TTGACACCCAGTGTCTCATCA
1 TTTGACACCCAGTGCCTCATCA
25166402 ACTCGAAGTC
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 17 0.22
38 13 0.16
40 30 0.38
41 18 0.23
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
Found at i:25167357 original size:25 final size:22
Alignment explanation
Indices: 25167301--25167353 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
25167291 TTTTCTTTTC
25167301 TTTATT-TCATTTACTTTTTTAT
1 TTTATTAT-ATTTACTTTTTTAT
25167323 TTTATTATATTTACTTTTTTA-
1 TTTATTATATTTACTTTTTTAT
25167344 -TTATTATATT
1 TTTATTATATT
25167354 ATATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.33
22 19 0.63
23 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTATATTTACTTTTTTAT
Found at i:25167374 original size:29 final size:28
Alignment explanation
Indices: 25167319--25167375 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
25167309 ATTTACTTTT
* ***
25167319 TTATTTTATTATATTTACTTTTTTATTA
1 TTATATTATTATATTTACTTAAATATTA
25167347 TTATATTATATATATTTACTTAAATATTA
1 TTATATTAT-TATATTTACTTAAATATTA
25167376 AGTAATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATTATTATATTTACTTAAATATTA
Found at i:25168975 original size:31 final size:34
Alignment explanation
Indices: 25168919--25168982 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
25168909 ACAAAAAAGA
**
25168919 CAAAATGATTTGAACTCTAAATTGACCT-AAATC
1 CAAAATGATCCGAACTCTAAATTGACCTGAAATC
25168952 CAAAATGATCCGAAC-C-AAATTGACCTGAAAT
1 CAAAATGATCCGAACTCTAAATTGACCTGAAAT
25168983 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.36
32 5 0.18
33 13 0.46
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (34 bp):
CAAAATGATCCGAACTCTAAATTGACCTGAAATC
Found at i:25173853 original size:32 final size:33
Alignment explanation
Indices: 25173816--25173882 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
25173806 CTTTAGGGAT
* *
25173816 TTAAGTTTTTGTTACATG-ATTTTAGGAATAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
* * *
25173848 TTAAGTGTTTGTGGCATGTTTTTTAGGAGTAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
25173881 TT
1 TT
25173883 TTGCAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (33 bp):
TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
Found at i:25174113 original size:412 final size:408
Alignment explanation
Indices: 25173313--25174133 Score: 1484
Period size: 412 Copynumber: 2.0 Consensus size: 408
25173303 GATAACAAAT
*
25173313 CCTATTAAGACAACCAGTGTTTTTAATATAGATGTTGAGGATGTGCCTTAGACTTGCTTAATAAT
1 CCTATTAAGACAACCAGTGTTTTTAATATAGATGTTGAGGATGTGCCTTAGACTTGCTTAATAAC
25173378 ATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTAAGT
66 ATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTAAGT
25173443 GTTTGTGACATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTGCTATATAATA
131 GTTTGTGACATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTGCTATATAATA
* *
25173508 TGAACAATACAACAGATTATAGTGTTCTTTCAATATATCTTTCTTTAATATTTTTTGTGTTTTAT
196 TGAACAATACAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTTTTAT
25173573 ATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTGAGAG
261 ATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTGAGAG
25173638 AAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATTTTTG
326 AAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATTTTTG
25173703 ATGGTGGTAACTATCAAG
391 ATGGTGGTAACTATCAAG
* *
25173721 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
1 CCTATTAAGACAACCAGTGTTTTTAATAT--A-GATGTTGAGGATGTGCCTTAGACTTGCTTAAT
25173786 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
63 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
*
25173851 AGTGTTTGTGGCATG-TTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATA
128 AGTGTTTGTGACATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTA--TTTTTTTTGCTATA
*
25173915 TAATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGT
191 TAATATGAACAATACAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGT
25173980 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
256 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
* *
25174045 GAGAGAAACACATAAGCTTTAGACATGGAAGTTGACATAACGTTTTCTCATATTGTTCCA-CTAA
321 GAGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATC-AA
*
25174109 TTTTTGATGGTGGTAACTGTCAAG
385 TTTTTGATGGTGGTAACTATCAAG
25174133 C
1 C
25174134 TTGGGTTGTT
Statistics
Matches: 397, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
408 28 0.07
410 34 0.09
411 110 0.28
412 225 0.57
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (408 bp):
CCTATTAAGACAACCAGTGTTTTTAATATAGATGTTGAGGATGTGCCTTAGACTTGCTTAATAAC
ATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTAAGT
GTTTGTGACATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTGCTATATAATA
TGAACAATACAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTTTTAT
ATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTGAGAG
AAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATTTTTG
ATGGTGGTAACTATCAAG
Found at i:25179384 original size:17 final size:17
Alignment explanation
Indices: 25179362--25179406 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
25179352 CTTTGTTCTC
*
25179362 AAAAAACAAAAAGATATA
1 AAAAAACAAAAAAAT-TA
*
25179380 AAAAAAGAAAAAAATT-
1 AAAAAACAAAAAAATTA
25179396 AAAAAACAAAA
1 AAAAAACAAAA
25179407 TGCAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 1 0.04
18 13 0.54
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.09
Consensus pattern (17 bp):
AAAAAACAAAAAAATTA
Found at i:25183138 original size:27 final size:26
Alignment explanation
Indices: 25183108--25183185 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
25183098 CACCAAAATG
25183108 ATCCAGTCAGAGTATGCCACAAAGACA
1 ATCCA-TCAGAGTATGCCACAAAGACA
* * * *
25183135 ATCCAATCAGAAT-TCACCACAAAGGCT
1 ATCC-ATCAGAGTAT-GCCACAAAGACA
*
25183162 ATCTATACAGAGTATGCCACAAAG
1 ATCCAT-CAGAGTATGCCACAAAG
25183186 GCTGGCAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (26 bp):
ATCCATCAGAGTATGCCACAAAGACA
Found at i:25185210 original size:97 final size:96
Alignment explanation
Indices: 25185027--25185244 Score: 244
Period size: 97 Copynumber: 2.2 Consensus size: 96
25185017 AGGGTGTTAC
*
25185027 ATAAC-TCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTA
1 ATAACTTC-TTTATTTATATATATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTA
25185091 TATAAATCATTATGTTAAAA-ATATTTTTAATTA
65 TATAAATCATTATGTTAAAATATA-TTTT-ATTA
* * * * *
25185124 ATAACTTCTTTATTTATATATATAAATTAGTAAATATGTAATTTTATAATGAAATTATATTTTTT
1 ATAACTTCTTTATTTATATATATAAAATAATAAATATGTAATTATATAAT-AAA-AATATATTTT
** *
25185189 ATATTTATCATTGTGTT-AAATATATTTTATTA
64 ATATAAATCATTATGTTAAAATATATTTTATTA
* ** *
25185221 TTAACTAATTTGTTTGATATATAT
1 ATAACTTCTTTATTT-ATATATAT
25185245 TTTTATTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
97 58 0.56
98 20 0.19
99 25 0.24
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (96 bp):
ATAACTTCTTTATTTATATATATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
ATAAATCATTATGTTAAAATATATTTTATTA
Found at i:25185215 original size:99 final size:97
Alignment explanation
Indices: 25185027--25185216 Score: 256
Period size: 97 Copynumber: 1.9 Consensus size: 97
25185017 AGGGTGTTAC
25185027 ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
1 ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
25185092 ATAAATCATTATGTTAAAAATATTTTTAATTA
66 ATAAATCATTATGTTAAAAATATTTTTAATTA
* * * * * *
25185124 ATAACT-TCTTTATTTATATATATAAATTAGTAAATATGTAATTTTATAATGAAATTATATTTTT
1 ATAACTCT-TTTATTTATATAAATAAAATAATAAATATGTAATTATATAAT-AAA-AATATATTT
** * *
25185188 TATATTTATCATTGTGTTAAATATATTTT
63 TATATAAATCATTATGTTAAAAATATTTT
25185217 ATTATTAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 1 0.01
97 44 0.55
98 3 0.04
99 32 0.40
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (97 bp):
ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
ATAAATCATTATGTTAAAAATATTTTTAATTA
Found at i:25185425 original size:28 final size:28
Alignment explanation
Indices: 25185394--25185448 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
25185384 AACATAATGA
25185394 TATATAA-TATATATTTT-TATTATATAAT
1 TATATAATTAT-TATTTTAT-TTATATAAT
25185422 TATATAATTATTATTTTATTTATATAA
1 TATATAATTATTATTTTATTTATATAA
25185449 ATGAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATAATTATTATTTTATTTATATAAT
Found at i:25190858 original size:16 final size:16
Alignment explanation
Indices: 25190837--25190873 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
25190827 TTTGGTTTGC
25190837 TGTATTGGATTAAAGG
1 TGTATTGGATTAAAGG
*
25190853 TGTATTGGATTAGAGG
1 TGTATTGGATTAAAGG
25190869 TGTAT
1 TGTAT
25190874 GCAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAAAGG
Found at i:25191127 original size:18 final size:17
Alignment explanation
Indices: 25191106--25191140 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25191096 TTATTATTAA
*
25191106 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25191124 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25191141 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25191271 original size:16 final size:16
Alignment explanation
Indices: 25191234--25191275 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25191224 TTAATCATAT
*
25191234 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25191250 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25191265 TTAAAATATAT
1 TTAAAATATAT
25191276 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25191277 original size:148 final size:148
Alignment explanation
Indices: 25191009--25191300 Score: 548
Period size: 148 Copynumber: 2.0 Consensus size: 148
25190999 TAAATTTGTT
* *
25191009 TTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATA
1 TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
*
25191074 ATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAA
66 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
25191139 ATTCTTAATAATTAGCAG
131 ATTCTTAATAATTAGCAG
*
25191157 TTGGTAAATTATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
1 TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
25191222 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
66 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
25191287 ATTCTTAATAATTA
131 ATTCTTAATAATTA
25191301 ATATTCTTAT
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 140 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (148 bp):
TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
ATTCTTAATAATTAGCAG
Found at i:25191282 original size:14 final size:15
Alignment explanation
Indices: 25191243--25191284 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25191233 TTTAAACATA
*
25191243 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25191258 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25191272 A-TATAATTTAATA
1 ATTATAATTAAATA
25191285 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25191364 original size:148 final size:148
Alignment explanation
Indices: 25191044--25191364 Score: 346
Period size: 148 Copynumber: 2.2 Consensus size: 148
25191034 ATTTAAATTT
* * * *
25191044 TAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * * *
25191109 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGTTGGTAAATTATTATTA
66 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAGTTCGTAAATAATTATCA
* ** * * **
25191174 TTATTGTTATTTAAATTT
131 TAATCATAATATAAATAC
* * *
25191192 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * *
25191257 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA-TTCTTATATGAATTTAC
66 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAGTTCGTAAAT-AA-TTA-
*
25191321 TCA-AATCATAATATATGATAC
128 TCATAATCATAATATA-AATAC
*
25191342 T-GTAA-AATATAAATTAAC-ATAAT
1 TAATAAGAATATAAA-TAACAATAAT
25191365 TATTATTAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
147 6 0.04
148 120 0.82
149 16 0.11
150 5 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (148 bp):
TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAGTTCGTAAATAATTATCA
TAATCATAATATAAATAC
Found at i:25191402 original size:14 final size:15
Alignment explanation
Indices: 25191353--25191524 Score: 62
Period size: 15 Copynumber: 11.6 Consensus size: 15
25191343 GTAAAATATA
25191353 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25191368 TATTAAATATATTAT
1 AATTAAATATATTAT
*
25191383 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
25191401 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
25191416 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
25191431 -A-TAAATTTACTCA-
1 AATTAAATATA-TTAT
* *
25191444 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
25191460 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
25191473 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25191488 TATTAAATATATTAT
1 AATTAAATATATTAT
25191503 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25191516 AATTTAATA
1 AATTAAATA
25191525 AAATTCTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.13
14 25 0.21
15 41 0.35
16 23 0.20
17 5 0.04
18 5 0.04
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25191621 original size:15 final size:15
Alignment explanation
Indices: 25191594--25191641 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
25191584 TAAAATATAA
25191594 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
25191609 ATTAAATATATTATA
1 ATTAAATATATTATT
*
25191624 ATTAAAATATATAATT
1 ATT-AAATATATTATT
25191640 AT
1 AT
25191642 GGAGCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:25191633 original size:16 final size:16
Alignment explanation
Indices: 25191593--25191635 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
25191583 GTAAAATATA
*
25191593 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
25191608 TATT-AAATATATTAT
1 AATTAAAATATATTAT
25191623 AATTAAAATATAT
1 AATTAAAATATAT
25191636 AATTATGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:25191702 original size:123 final size:120
Alignment explanation
Indices: 25191237--25191772 Score: 925
Period size: 120 Copynumber: 4.4 Consensus size: 120
25191227 ATCATATTTA
25191237 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25191302 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25191357 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25191422 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25191477 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25191542 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
25191597 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTATGGAGCAAAATTCTTAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT-T--AATAAAATTCTTAATAAT
* *
25191662 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AATTTT
63 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA-ATT
* * *
25191720 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25191773 TAAAATAATT
Statistics
Matches: 399, Mismatches: 11, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
120 288 0.72
121 1 0.00
122 7 0.02
123 101 0.25
124 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:25191883 original size:91 final size:91
Alignment explanation
Indices: 25191788--25192002 Score: 281
Period size: 91 Copynumber: 2.3 Consensus size: 91
25191778 TAATTATAAC
* * * *
25191788 TAATAAATTATATTTTATGAATTTGTATAATTTAAAA-AAATAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATAAAATTTAAAATAAATAA-TATTAAATATAATTTAATAA
*
25191852 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * * *
25191879 TAATAAATTTTCTTATATGAATTTATAAAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATAAAATTTAAAATAAATAATATTAAATATAATTTAATAAT
*
25191944 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
25191970 TAATAAAATGT-TCTTATATGAATTTACTAAAAT
1 TAAT-AAAT-TATATTATATGAATTTA-TAAAAT
25192003 CAATATATAA
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
91 79 0.72
92 24 0.22
93 7 0.06
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATAAAATTTAAAATAAATAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:25191911 original size:47 final size:47
Alignment explanation
Indices: 25191855--25192002 Score: 121
Period size: 47 Copynumber: 3.2 Consensus size: 47
25191845 TTAATAATAA
* *
25191855 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATAAAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
** * *
25191902 TATAAAA-TT--TAAAATAATTAATATTAAATATAATT-TAATAGTG-A--
1 TATAAAATTTCATAAAATTCTTAATAATAAAT-T--TTCTTATA-TGAATT
* *
25191946 TATATAATTTCATAAAATTCTTAATAATAAAATGTTCTTATATGAATT
1 TATAAAATTTCATAAAATTCTTAATAAT-AAATTTTCTTATATGAATT
25191994 TACTAAAAT
1 TA-TAAAAT
25192003 CAATATATAA
Statistics
Matches: 75, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
44 22 0.29
45 7 0.09
46 12 0.16
47 23 0.31
48 6 0.08
49 5 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (47 bp):
TATAAAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
Found at i:25197778 original size:22 final size:21
Alignment explanation
Indices: 25197749--25197790 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
25197739 AAAGGTGTAA
25197749 GAAATGAAACAGGAAGAGGCT
1 GAAATGAAACAGGAAGAGGCT
25197770 GAAAGTGAAACAGGAAGAGGC
1 GAAA-TGAAACAGGAAGAGGC
25197791 CGATGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.36, T:0.07
Consensus pattern (21 bp):
GAAATGAAACAGGAAGAGGCT
Found at i:25199140 original size:11 final size:13
Alignment explanation
Indices: 25199124--25199156 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25199114 ATTTCACAGA
25199124 AAAATTTCG-T-G
1 AAAATTTCGTTCG
25199135 AAAATTTCGTTCG
1 AAAATTTCGTTCG
25199148 AAAATTTCG
1 AAAATTTCG
25199157 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:25199937 original size:51 final size:51
Alignment explanation
Indices: 25199889--25200182 Score: 274
Period size: 51 Copynumber: 5.8 Consensus size: 51
25199879 TATTGATGAA
*
25199889 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * * * * * *
25199940 CACATGTATAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
* *
25199991 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * *
25200042 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--ATGGT
* * *** *
25200093 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA-C-AGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA-TAAATGATGGT
* *
25200143 CACGTGTGTAGTACTATGTGAAGGCTACTAAGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
25200183 ATGATAAAAG
Statistics
Matches: 191, Mismatches: 43, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 41 0.21
51 146 0.76
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
Found at i:25200065 original size:102 final size:102
Alignment explanation
Indices: 25199889--25200183 Score: 425
Period size: 102 Copynumber: 2.9 Consensus size: 102
25199879 TATTGATGAA
*
25199889 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
25199954 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
25199991 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
25200056 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * *** * *
25200093 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA-C-AGTAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA-TAAATGATGGTCACATGTGTAGTA
* *
25200156 CTATGTGAAGGCTACTAA-GTGTATCGAA
65 CTAAGTGAAGGCTAC-AATGTGTACCGAA
25200184 TGATAAAAGT
Statistics
Matches: 175, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
100 1 0.01
101 43 0.25
102 131 0.75
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:25200442 original size:37 final size:38
Alignment explanation
Indices: 25200373--25200445 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
25200363 ATGTGTGGAA
* **
25200373 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
25200411 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
25200446 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:25203482 original size:28 final size:28
Alignment explanation
Indices: 25203419--25203491 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
25203409 ATATGATAGC
* * *
25203419 CTGTCAAGATTATCTTATATGTGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
* * *
25203447 CCGCCAGGAGTATCTTATATGGGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
*
25203475 TTGTCAGGACTATCTTA
1 CTGTCAGGACTATCTTA
25203492 CGTGTATGAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (28 bp):
CTGTCAGGACTATCTTATATGGGGAAGT
Found at i:25205869 original size:18 final size:18
Alignment explanation
Indices: 25205856--25205900 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
25205846 ATAGAAGAAA
25205856 AAGAAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
*
25205874 AAGGAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
25205892 AAGAAGAAG
1 AAGAAGAAG
25205901 AAATGGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGGAGAAGGAG
Found at i:25205902 original size:6 final size:6
Alignment explanation
Indices: 25205860--25205900 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
25205850 AAGAAAAAGA
*
25205860 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGA AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
25205901 AAATGGACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:25232427 original size:16 final size:16
Alignment explanation
Indices: 25232406--25232442 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
25232396 TTTGGTTTGC
25232406 TGTATTGGATTAAAGG
1 TGTATTGGATTAAAGG
*
25232422 TGTATTGGATTAGAGG
1 TGTATTGGATTAAAGG
25232438 TGTAT
1 TGTAT
25232443 GCAATCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAAAGG
Found at i:25232695 original size:18 final size:17
Alignment explanation
Indices: 25232674--25232708 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25232664 TTATTATTAA
*
25232674 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25232692 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25232709 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25232806 original size:147 final size:147
Alignment explanation
Indices: 25232577--25232866 Score: 528
Period size: 147 Copynumber: 2.0 Consensus size: 147
25232567 TAAATTTGTT
* *
25232577 TTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATA
1 TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
*
25232642 ATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAA
66 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
25232707 ATTCTT-ATAATTAGCAG
131 A-TCTTAATAATTAGCAG
*
25232724 TTGGTAAATTATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
1 TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
25232789 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
66 ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
25232854 ATCTTAATAATTA
131 ATCTTAATAATTA
25232867 ATATTCTTAT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
146 4 0.03
147 134 0.97
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATA
ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
ATCTTAATAATTAGCAG
Found at i:25232838 original size:16 final size:16
Alignment explanation
Indices: 25232801--25232842 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25232791 TTAATCATAT
*
25232801 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25232817 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25232832 TTAAAATATAT
1 TTAAAATATAT
25232843 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25232849 original size:14 final size:15
Alignment explanation
Indices: 25232810--25232851 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25232800 TTTAAACATA
*
25232810 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25232825 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25232839 A-TATAATTTAATA
1 ATTATAATTAAATA
25232852 AAATCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25232930 original size:147 final size:147
Alignment explanation
Indices: 25232612--25232930 Score: 326
Period size: 147 Copynumber: 2.2 Consensus size: 147
25232602 ATTTAAATTT
* * * *
25232612 TAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * * *
25232677 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGTTGGTAAATTATTATTAT
66 TATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTAACAGTTCGTAAATAATTATCAT
* ** * * **
25232742 TATTGTTATTTAAATTT
131 AATCATAATATAAATAC
* * *
25232759 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * *
25232824 TATTATAATTAAAATATATAATTTAATAAAA-TCTTAATAATTAATA-TTCTTATATGAATTTAC
66 TATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTAACAGTTCGTAAAT-AA-TTA-
*
25232887 TCA-AATCATAATATATGATAC
127 TCATAATCATAATATA-AATAC
*
25232908 T-GTAA-AATATAAATTAAC-ATAAT
1 TAATAAGAATATAAA-TAACAATAAT
25232931 TATTATTAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
146 10 0.07
147 114 0.79
148 16 0.11
149 5 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (147 bp):
TAATAAGAATATAAATAACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTAACAGTTCGTAAATAATTATCAT
AATCATAATATAAATAC
Found at i:25232968 original size:14 final size:15
Alignment explanation
Indices: 25232919--25233090 Score: 62
Period size: 15 Copynumber: 11.6 Consensus size: 15
25232909 GTAAAATATA
25232919 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25232934 TATTAAATATATTAT
1 AATTAAATATATTAT
*
25232949 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
25232967 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
25232982 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
25232997 -A-TAAATTTACTCA-
1 AATTAAATATA-TTAT
* *
25233010 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
25233026 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
25233039 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25233054 TATTAAATATATTAT
1 AATTAAATATATTAT
25233069 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25233082 AATTTAATA
1 AATTAAATA
25233091 AAATTCTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.13
14 25 0.21
15 41 0.35
16 23 0.20
17 5 0.04
18 5 0.04
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25233027 original size:120 final size:120
Alignment explanation
Indices: 25232804--25233335 Score: 898
Period size: 120 Copynumber: 4.4 Consensus size: 120
25232794 ATCATATTTA
25232804 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA-TCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25232868 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25232923 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25232988 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25233043 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25233108 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
25233163 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTATGGAGCAAAATTCTTAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT-T--AATAAAATTCTTAATAAT
* *
25233228 TAATATTCTTATATGAA-TTACTC-AATCATAATATATGATACTAT-AAATGA-AATTTT
63 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA-ATT
* *
25233284 GAA-ATAATTAATATTAAATATATT-TAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25233336 AAAATAATTA
Statistics
Matches: 396, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
117 7 0.02
119 52 0.13
120 252 0.64
121 44 0.11
122 8 0.02
123 33 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:25233187 original size:15 final size:15
Alignment explanation
Indices: 25233160--25233207 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
25233150 TAAAATATAA
25233160 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
25233175 ATTAAATATATTATA
1 ATTAAATATATTATT
*
25233190 ATTAAAATATATAATT
1 ATT-AAATATATTATT
25233206 AT
1 AT
25233208 GGAGCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:25233199 original size:16 final size:16
Alignment explanation
Indices: 25233159--25233201 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
25233149 GTAAAATATA
*
25233159 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
25233174 TATT-AAATATATTAT
1 AATTAAAATATATTAT
25233189 AATTAAAATATAT
1 AATTAAAATATAT
25233202 AATTATGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:25233332 original size:17 final size:17
Alignment explanation
Indices: 25233301--25233334 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25233291 TTAATATTAA
25233301 ATATATTTAATTAAAAT
1 ATATATTTAATTAAAAT
25233318 ATATGATTTAA-TAAAAT
1 ATAT-ATTTAATTAAAAT
25233335 TAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATATTTAATTAAAAT
Found at i:25233471 original size:47 final size:47
Alignment explanation
Indices: 25233415--25233562 Score: 121
Period size: 47 Copynumber: 3.2 Consensus size: 47
25233405 TTAATAATAA
* *
25233415 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATAAAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
** * *
25233462 TATAAAA-TT--TAAAATAATTAATATTAAATATAATT-TAATAGTG-A--
1 TATAAAATTTCATAAAATTCTTAATAATAAAT-T--TTCTTATA-TGAATT
* *
25233506 TATATAATTTCATAAAATTCTTAATAATAAAATGTTCTTATATGAATT
1 TATAAAATTTCATAAAATTCTTAATAAT-AAATTTTCTTATATGAATT
25233554 TACTAAAAT
1 TA-TAAAAT
25233563 CAATATATAA
Statistics
Matches: 75, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
44 22 0.29
45 7 0.09
46 12 0.16
47 23 0.31
48 6 0.08
49 5 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (47 bp):
TATAAAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
Found at i:25233509 original size:91 final size:90
Alignment explanation
Indices: 25233350--25233562 Score: 295
Period size: 91 Copynumber: 2.3 Consensus size: 90
25233340 TAATTATAAC
* * * * *
25233350 TAATAAATTATATT-TATGAATTTGTATAATTTAAAAAATAATTATTACATATAATTTAATAATA
1 TAATAAATTTTCTTATATGAATTTATAAAATTTAAAAAATAATTATTAAATATAATTTAATAATA
*
25233414 ATATATAATTTCATAAAATTCTTGA
66 ATATATAATTTCATAAAATTCTTAA
*
25233439 TAATAAATTTTCTTATATGAATTTATAAAATTTAAAATAATTAA-TATTAAATATAATTTAATAG
1 TAATAAATTTTCTTATATGAATTTATAAAATTTAAAA-AA-TAATTATTAAATATAATTTAATAA
*
25233503 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
*
25233530 TAATAAAATGTTCTTATATGAATTTACTAAAAT
1 TAAT-AAATTTTCTTATATGAATTTA-TAAAAT
25233563 CAATATATAA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
89 12 0.11
90 20 0.18
91 49 0.45
92 23 0.21
93 6 0.05
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTTTCTTATATGAATTTATAAAATTTAAAAAATAATTATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:25239308 original size:22 final size:21
Alignment explanation
Indices: 25239279--25239320 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
25239269 AAAGGTGTAA
25239279 GAAATGAAACAGGAAGAGGCT
1 GAAATGAAACAGGAAGAGGCT
25239300 GAAAGTGAAACAGGAAGAGGC
1 GAAA-TGAAACAGGAAGAGGC
25239321 CGATGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.36, T:0.07
Consensus pattern (21 bp):
GAAATGAAACAGGAAGAGGCT
Found at i:25240671 original size:11 final size:13
Alignment explanation
Indices: 25240655--25240687 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25240645 ATTTCACAGA
25240655 AAAATTTCG-T-G
1 AAAATTTCGTTCG
25240666 AAAATTTCGTTCG
1 AAAATTTCGTTCG
25240679 AAAATTTCG
1 AAAATTTCG
25240688 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:25241469 original size:51 final size:51
Alignment explanation
Indices: 25241421--25241714 Score: 274
Period size: 51 Copynumber: 5.8 Consensus size: 51
25241411 TATTGATGAA
*
25241421 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * * * * * *
25241472 CACATGTATAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
* *
25241523 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * *
25241574 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--ATGGT
* * *** *
25241625 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA-C-AGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA-TAAATGATGGT
* *
25241675 CACGTGTGTAGTACTATGTGAAGGCTACTAAGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
25241715 ATGATAAAAG
Statistics
Matches: 191, Mismatches: 43, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 41 0.21
51 146 0.76
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
Found at i:25241597 original size:102 final size:102
Alignment explanation
Indices: 25241421--25241715 Score: 425
Period size: 102 Copynumber: 2.9 Consensus size: 102
25241411 TATTGATGAA
*
25241421 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
25241486 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
25241523 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
25241588 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * *** * *
25241625 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA-C-AGTAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA-TAAATGATGGTCACATGTGTAGTA
* *
25241688 CTATGTGAAGGCTACTAA-GTGTATCGAA
65 CTAAGTGAAGGCTAC-AATGTGTACCGAA
25241716 TGATAAAAGT
Statistics
Matches: 175, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
100 1 0.01
101 43 0.25
102 131 0.75
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:25241974 original size:37 final size:38
Alignment explanation
Indices: 25241905--25241977 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
25241895 ATGTGTGGAA
* **
25241905 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
25241943 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
25241978 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:25245019 original size:28 final size:28
Alignment explanation
Indices: 25244956--25245028 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
25244946 ATATGATAGC
* * *
25244956 CTGTCAAGATTATCTTATATGTGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
* * *
25244984 CCGCCAGGAGTATCTTATATGGGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
*
25245012 TTGTCAGGACTATCTTA
1 CTGTCAGGACTATCTTA
25245029 CGTGTATGAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (28 bp):
CTGTCAGGACTATCTTATATGGGGAAGT
Found at i:25247401 original size:18 final size:18
Alignment explanation
Indices: 25247388--25247432 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
25247378 ATAGAAGAAA
25247388 AAGAAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
*
25247406 AAGGAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
25247424 AAGAAGAAG
1 AAGAAGAAG
25247433 AAATGGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGGAGAAGGAG
Found at i:25247434 original size:6 final size:6
Alignment explanation
Indices: 25247392--25247432 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
25247382 AAGAAAAAGA
*
25247392 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGA AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
25247433 AAATGGACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:25248379 original size:22 final size:22
Alignment explanation
Indices: 25248335--25248379 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25248325 TCGCTAGAAG
* *
25248335 TATTGTTTGGATTGGAGTGAAA
1 TATTGTTTGGATTGCAGTAAAA
*
25248357 TATTGTTTGGATTGCATTAAAA
1 TATTGTTTGGATTGCAGTAAAA
25248379 T
1 T
25248380 CAGAGTTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (22 bp):
TATTGTTTGGATTGCAGTAAAA
Found at i:25261332 original size:13 final size:14
Alignment explanation
Indices: 25261309--25261337 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25261299 TGACGAGGCT
25261309 CTTTCGCTTCTTTG
1 CTTTCGCTTCTTTG
25261323 CTTT-GCTTCTTTG
1 CTTTCGCTTCTTTG
25261336 CT
1 CT
25261338 GATGGTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.00, C:0.28, G:0.14, T:0.59
Consensus pattern (14 bp):
CTTTCGCTTCTTTG
Found at i:25264531 original size:22 final size:22
Alignment explanation
Indices: 25264503--25264545 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25264493 ATTTTACTAG
25264503 TTTACTAGAATAAGGAAATTAA
1 TTTACTAGAATAAGGAAATTAA
25264525 TTTACTAGAATAAGGAAATTA
1 TTTACTAGAATAAGGAAATTA
25264546 TTTTCCCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (22 bp):
TTTACTAGAATAAGGAAATTAA
Found at i:25273646 original size:15 final size:16
Alignment explanation
Indices: 25273615--25273649 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25273605 AGAAGATCCC
*
25273615 AATGCAATTGAATCTA
1 AATGCAAATGAATCTA
25273631 AATGCAAATG-ATCTA
1 AATGCAAATGAATCTA
25273646 AATG
1 AATG
25273650 AATGAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (16 bp):
AATGCAAATGAATCTA
Found at i:25281952 original size:9 final size:9
Alignment explanation
Indices: 25281938--25281964 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25281928 CTGGAATGTA
25281938 GTGAACTGG
1 GTGAACTGG
25281947 GTGAACTGG
1 GTGAACTGG
25281956 GTGAACTGG
1 GTGAACTGG
25281965 TAAGCTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (9 bp):
GTGAACTGG
Found at i:25282499 original size:34 final size:34
Alignment explanation
Indices: 25282396--25282500 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 34
25282386 GGAGCGGCAT
*
25282396 CGTGTAAAAGATATACAGGTCCTACAGGGCGACAC
1 CGTGTAAAAG-TATACAAGTCCTACAGGGCGACAC
*
25282431 CGTGTAAATAGTATACAAGTCCTACAGGGTGACAC
1 CGTGTAAA-AGTATACAAGTCCTACAGGGCGACAC
** ** * *
25282466 TTTGTAAAAGTATACATTTCCTTCGGGGCGACAC
1 CGTGTAAAAGTATACAAGTCCTACAGGGCGACAC
25282500 C
1 C
25282501 TCAAAAGGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 21 0.36
35 36 0.61
36 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (34 bp):
CGTGTAAAAGTATACAAGTCCTACAGGGCGACAC
Found at i:25300905 original size:105 final size:105
Alignment explanation
Indices: 25300749--25300989 Score: 320
Period size: 105 Copynumber: 2.3 Consensus size: 105
25300739 AGATTGCAAC
* * *** * * *
25300749 TGATATTATTAAGGTTAGCTGATTTAATATTGTAACCTAAGTTTAATCGAGTTAGCTTATTTAAG
1 TGATTTTATTAAGGTTAGCTGATTTAAGATCACAACCTAAATTTAATCGAGTTAACTAATTTAAG
*
25300814 ATAGCAACTCTTACACAACTCGCTAACCTACGTTCACAGG
66 ATAGCAACTCCTACACAACTCGCTAACCTACGTTCACAGG
* * * *
25300854 TGATTTTATTAAGGTTAACTGATTTAAGATCACAAGCTAAATTTATTCGAGTTAACTAATTTAAT
1 TGATTTTATTAAGGTTAGCTGATTTAAGATCACAACCTAAATTTAATCGAGTTAACTAATTTAAG
* * * *
25300919 ATTGCAACTCCTACACAGCTCGCTGACCTATGTTCACAGG
66 ATAGCAACTCCTACACAACTCGCTAACCTACGTTCACAGG
*
25300959 TGATTTTATTAAGGTTAGTTGATTTAAGATC
1 TGATTTTATTAAGGTTAGCTGATTTAAGATC
25300990 GCATGTAATG
Statistics
Matches: 117, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 117 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (105 bp):
TGATTTTATTAAGGTTAGCTGATTTAAGATCACAACCTAAATTTAATCGAGTTAACTAATTTAAG
ATAGCAACTCCTACACAACTCGCTAACCTACGTTCACAGG
Found at i:25302299 original size:50 final size:52
Alignment explanation
Indices: 25302190--25302341 Score: 200
Period size: 50 Copynumber: 2.9 Consensus size: 52
25302180 ATTTGGGTAA
* *
25302190 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGATCA-G
25302246 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA-C-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATCAG
** * *
25302296 AGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
25302342 TATGAGATGT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
50 43 0.48
52 1 0.01
53 4 0.04
55 2 0.02
56 40 0.44
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATCAG
Found at i:25303989 original size:105 final size:105
Alignment explanation
Indices: 25303807--25304567 Score: 546
Period size: 105 Copynumber: 7.1 Consensus size: 105
25303797 CGTTCACCGC
* *
25303807 TGATTTAAGATCGCAACCTAAATTTATTCAAGTTAG-TTGATTTAAGATTGCAACTCCTACATAG
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTT-ATTTAAGATTGCAACTCCTACACAG
* *
25303871 CTCACTGACCTACGTTCACAGTTAATTTTATTAAGATTTGT
65 CTCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
25303912 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
* *
25303977 TCACTGACCTACGTTCAAAGCTAATTTTATTAAGGTTA-T
66 TCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
* * * * *
25304016 TAGATTTAAGATCACAATCTAAGTTTATTTGAGTTCA-CTTATTTAAGATCGCAACTCCTA-ACA
1 T-GATTTAAGATCGCAACCTAAATTTATTCGAGTT-AGCTTATTTAAGATTGCAACTCCTACACA
** ** * * * * * * * *
25304079 GCGT-GTTGATTTAAGATCGCAATTGATATTATTAAGGCTAGG
64 GC-TCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
* * * * * *
25304121 TGATTTACGATCGCAACTTAAGTTAATTTGAGTTTATTGATTTAAGATCACTGATTTAAGATCGC
1 TGATTTAAGATCGCAACCT-A---AATTT-A---T-TCGAGTT-AG----CTTATTTAAGATTGC
* *** ** * * *
25304186 AACTCCTA-ACAACTTGTTGATTTAAGATCGCA-TCTAATTTTATTAAGGTTAGT
52 AACTCCTACACAGCTCACTGACCTACGTTCACAGT-TAATTTTATTAAGGTTAGT
* * * * * * * * *
25304239 TGATTTACGATTGTAACCTAAATTTATTTGAGTTAGCTTATTTAATATCGTAACTCTTCCACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
* * * *
25304304 TTACTGACCTACATTCACAGTTGATTTTATTAAAGGTTAAT
66 TCACTGACCTACGTTCACAGTTAATTTTATT-AAGGTTAGT
* * * * *
25304345 TGATTTAAGATCGCAACCTAAATCTATTCAAGTTAGCTAATTTAAGATTGCAACTTCTACACAAC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
* * ** * * * *
25304410 TCACTAACTTGTGTTCATAGTTGATTTTATTAAGGGTAGC
66 TCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
* * * * * * ** *
25304450 TAATTTAAGATCGCAACCTAAATTTTTTCAAGTTAGCTGATTTAATATTACATTTCCTACATAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
** * * * * ** * *
25304515 TCGTTGGCCTACGTTCATAGCTGATAATACTAAGGTTAAT
66 TCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
25304555 TGATTTAAGATCG
1 TGATTTAAGATCG
25304568 TAGCCACCGA
Statistics
Matches: 524, Mismatches: 108, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
104 62 0.12
105 270 0.52
106 87 0.17
108 6 0.01
109 7 0.01
110 1 0.00
112 1 0.00
113 8 0.02
114 5 0.01
117 3 0.01
118 74 0.14
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (105 bp):
TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
TCACTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
Found at i:25304268 original size:118 final size:118
Alignment explanation
Indices: 25304050--25304272 Score: 322
Period size: 118 Copynumber: 1.9 Consensus size: 118
25304040 TTATTTGAGT
* * *
25304050 TCACTTATTTAAGATCGCAACTCCTAACAGCGTGTTGATTTAAGATCGCAATTGATATTATTAAG
1 TCACTGATTTAAGATCGCAACTCCTAACAACGTGTTGATTTAAGATCGCAATTAATATTATTAAG
* *
25304115 GCTAGGTGATTTACGATCGCAACTTAAGTTAATTTGAGTTTATTGATTTAAGA
66 GCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAGTTTATTGATTTAAGA
* *
25304168 TCACTGATTTAAGATCGCAACTCCTAACAACTTGTTGATTTAAGATCGC-ATCTAATTTTATTAA
1 TCACTGATTTAAGATCGCAACTCCTAACAACGTGTTGATTTAAGATCGCAAT-TAATATTATTAA
* * * * *
25304232 GGTTAGTTGATTTACGATTGTAACCTAAATTTATTTGAGTT
65 GGCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAGTT
25304273 AGCTTATTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 2 0.02
118 90 0.98
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (118 bp):
TCACTGATTTAAGATCGCAACTCCTAACAACGTGTTGATTTAAGATCGCAATTAATATTATTAAG
GCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAGTTTATTGATTTAAGA
Found at i:25304381 original size:106 final size:105
Alignment explanation
Indices: 25304222--25304497 Score: 302
Period size: 106 Copynumber: 2.6 Consensus size: 105
25304212 ATCGCATCTA
* * * ** *
25304222 ATTTTATTAAGGTTAGTTGATTTACGATTGTAACCTAAATTTATTTGAGTTAGCTTATTTAATAT
1 ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
* * * * *
25304287 CGTAAC-TCTTCCACAGCTTACTGACCTACATTCACAGTTG
66 CGCAACTTC-TACACAACTCACTAACCTACATTCACAGTTG
* * *
25304327 ATTTTATTAAAGGTTAATTGATTTAAGATCGCAACCTAAATCTATTCAAGTTAGCTAATTTAAGA
1 ATTTTATT-AAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATA
* * *** *
25304392 TTGCAACTTCTACACAACTCACTAACTTGTGTTCATAGTTG
65 TCGCAACTTCTACACAACTCACTAACCTACATTCACAGTTG
* * * * *
25304433 ATTTTATTAAGGGTAGCTAATTTAAGATCGCAACCTAAATTTTTTCAAGTTAGCTGATTTAATAT
1 ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
25304498 TACATTTCCT
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
105 57 0.40
106 82 0.58
107 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (105 bp):
ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
CGCAACTTCTACACAACTCACTAACCTACATTCACAGTTG
Found at i:25305548 original size:31 final size:28
Alignment explanation
Indices: 25305506--25305593 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 28
25305496 TTACACCACA
25305506 GGTCACCCAACTATGGGTTTGTTTCTTTTTT
1 GGTCA-CCAACTAT-GG-TTGTTTCTTTTTT
*
25305537 GGTCACTCAACTATAGAATTGTTTCTTTTTT
1 GGTCAC-CAACTAT-G-GTTGTTTCTTTTTT
25305568 -GTCACCAAACTATGGTTGTTT-TTTTT
1 GGTCACC-AACTATGGTTGTTTCTTTTT
25305594 CTAAATTGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 2 0.04
30 12 0.24
31 26 0.51
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (28 bp):
GGTCACCAACTATGGTTGTTTCTTTTTT
Found at i:25305856 original size:10 final size:10
Alignment explanation
Indices: 25305822--25305923 Score: 51
Period size: 10 Copynumber: 10.9 Consensus size: 10
25305812 AAATTTTGTC
25305822 AAAAATATAAT
1 AAAAATAT-AT
25305833 AATAAAT-T-T
1 AA-AAATATAT
25305842 AAAAATATAT
1 AAAAATATAT
25305852 -AAAA-ATA-
1 AAAAATATAT
*
25305859 AAAAAT-TTT
1 AAAAATATAT
* * * *
25305868 GACAAGAAAT
1 AAAAATATAT
*
25305878 AATAATATAT
1 AAAAATATAT
25305888 -AAAAT-T-T
1 AAAAATATAT
*
25305895 AAACATATAT
1 AAAAATATAT
*
25305905 AAAAATGTAT
1 AAAAATATAT
25305915 AAAAATATA
1 AAAAATATA
25305924 ATAATAAAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 21
0.65 0.15 0.21
Matches are distributed among these distances:
7 1 0.02
8 17 0.26
9 16 0.24
10 25 0.38
11 3 0.05
12 4 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:25305903 original size:53 final size:49
Alignment explanation
Indices: 25305812--25305910 Score: 144
Period size: 53 Copynumber: 1.9 Consensus size: 49
25305802 AAATATATAT
*
25305812 AAATTTTGTCAAAAATATAATAATAAATTTAAAAATATATAAAAATAAA
1 AAATTTTGACAAAAATATAATAATAAATTTAAAAATATATAAAAATAAA
*
25305861 AAATTTTGACAAGAAATAATAATATATAAAATTTAAACATATATAAAAAT
1 AAATTTTGACAA-AAAT-ATAATA-AT-AAATTTAAAAATATATAAAAAT
25305911 GTATAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 11 0.25
50 4 0.09
51 6 0.14
52 2 0.05
53 21 0.48
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (49 bp):
AAATTTTGACAAAAATATAATAATAAATTTAAAAATATATAAAAATAAA
Found at i:25306610 original size:50 final size:49
Alignment explanation
Indices: 25306542--25306638 Score: 176
Period size: 50 Copynumber: 2.0 Consensus size: 49
25306532 ATTAGACTTC
25306542 AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
1 AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
*
25306591 AATTTCCCTTTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
1 AATTTCCC-CTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
25306639 GGGATACCCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 8 0.17
50 38 0.83
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (49 bp):
AATTTCCCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
Found at i:25307672 original size:30 final size:31
Alignment explanation
Indices: 25307618--25307686 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
25307608 ACTGTTAATC
* *
25307618 AGTGACTATTTTGTCACTTTTTTTATAACGTT-
1 AGTGACTATTTTATCAC-TTTTTTA-AAAGTTG
25307650 AGTGACTATTTTATCA-TTTTTTAAAAGTTG
1 AGTGACTATTTTATCACTTTTTTAAAAGTTG
25307680 AGTGACT
1 AGTGACT
25307687 GAAATGAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
32 15 0.44
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (31 bp):
AGTGACTATTTTATCACTTTTTTAAAAGTTG
Found at i:25307892 original size:10 final size:10
Alignment explanation
Indices: 25307879--25307919 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
25307869 TTTTATTTTA
25307879 TTTTATATAT
1 TTTTATATAT
25307889 TTTTA-AT-T
1 TTTTATATAT
*
25307897 TAATTATATAT
1 T-TTTATATAT
25307908 TTTTATATAT
1 TTTTATATAT
25307918 TT
1 TT
25307920 CTTTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 2 0.08
9 5 0.19
10 17 0.65
11 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:25310704 original size:13 final size:11
Alignment explanation
Indices: 25310672--25310714 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
25310662 CCATTTTCAA
*
25310672 AATAAAATAAT
1 AATAAAATATT
25310683 AAT-AAATATCT
1 AATAAAATAT-T
25310694 AAGTAAAATATT
1 AA-TAAAATATT
25310706 AATAAAATA
1 AATAAAATA
25310715 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:25312456 original size:27 final size:27
Alignment explanation
Indices: 25312409--25312473 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
25312399 GGTGGTAAAA
* * *
25312409 ACCACGTA-TATCTATTTTGGTGGCTT
1 ACCACATATTATCTATTCTGGTAGCTT
* *
25312435 AGCCACAT-TTATCTGTTCTGGTAGTTT
1 A-CCACATATTATCTATTCTGGTAGCTT
25312462 ACCACATATTAT
1 ACCACATATTAT
25312474 ATATGGCAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (27 bp):
ACCACATATTATCTATTCTGGTAGCTT
Found at i:25312616 original size:12 final size:12
Alignment explanation
Indices: 25312599--25312640 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
25312589 TGGAGGTAGG
25312599 ATCTGAATATGC
1 ATCTGAATATGC
*
25312611 ATCTGAATATGA
1 ATCTGAATATGC
* *
25312623 ATCTTATTATGC
1 ATCTGAATATGC
25312635 ATCTGA
1 ATCTGA
25312641 CTTTGTATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (12 bp):
ATCTGAATATGC
Found at i:25313387 original size:13 final size:13
Alignment explanation
Indices: 25313369--25313393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25313359 TCAAACGATG
25313369 TTTTTCCACATTC
1 TTTTTCCACATTC
25313382 TTTTTCCACATT
1 TTTTTCCACATT
25313394 TTGCACGTAC
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:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCCACATTC
Found at i:25322863 original size:6 final size:7
Alignment explanation
Indices: 25322837--25322862 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25322827 TAGGAATCTT
25322837 TTTTTTA
1 TTTTTTA
25322844 TTTTTTA
1 TTTTTTA
25322851 TTTTTTA
1 TTTTTTA
25322858 TTTTT
1 TTTTT
25322863 ACTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:25326573 original size:125 final size:125
Alignment explanation
Indices: 25326412--25326668 Score: 435
Period size: 125 Copynumber: 2.1 Consensus size: 125
25326402 CTTTCCAAAA
* * *
25326412 GAATATTAACTTCTATAATTATTACCTTAAAGATGTTGTAAATCATATCCACTAGGTAATCCTAC
1 GAATACTAACTTCTATAATTATTAACTTAAAGATGTTGTAAATCATATCCACCAGGTAATCCTAC
* *
25326477 TCGCTAGGTCATTCTATCCGCCAAGCTATACAATTCGCCAGGCAATACTGTCCGCTAGGC
66 TCGCCAGGTAATTCTATCCGCCAAGCTATACAATTCGCCAGGCAATACTGTCCGCTAGGC
* *
25326537 GAATACTAACTTTTATAATTATTAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
1 GAATACTAACTTCTATAATTATTAACTTAAAGATGTTGTAAATCATATCCACCAGGTAATCCTAC
*
25326602 TCGCCAGGTAATTCTATCCGCCAAGCTATACTATTCGCCAGGCAATACTGTCCGCTAGGC
66 TCGCCAGGTAATTCTATCCGCCAAGCTATACAATTCGCCAGGCAATACTGTCCGCTAGGC
25326662 G-ATACTA
1 GAATACTA
25326669 TCCACTAGAC
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
124 6 0.05
125 118 0.95
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (125 bp):
GAATACTAACTTCTATAATTATTAACTTAAAGATGTTGTAAATCATATCCACCAGGTAATCCTAC
TCGCCAGGTAATTCTATCCGCCAAGCTATACAATTCGCCAGGCAATACTGTCCGCTAGGC
Found at i:25326623 original size:17 final size:17
Alignment explanation
Indices: 25326577--25326624 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
25326567 AGATGTTGTA
* *
25326577 AATCGTATCCACCAGGT
1 AATCCTATCCGCCAGGT
25326594 AATCCTA-CTCGCCAGGT
1 AATCCTATC-CGCCAGGT
*
25326611 AATTCTATCCGCCA
1 AATCCTATCCGCCA
25326625 AGCTATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (17 bp):
AATCCTATCCGCCAGGT
Found at i:25326635 original size:17 final size:17
Alignment explanation
Indices: 25326603--25326671 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 17
25326593 TAATCCTACT
* *
25326603 CGCCAGGTAATTCTATC
1 CGCCAGGCAATACTATC
* * *
25326620 CGCCAAGCTATACTATT
1 CGCCAGGCAATACTATC
*
25326637 CGCCAGGCAATACTGTC
1 CGCCAGGCAATACTATC
* *
25326654 CGCTAGGCGATACTATC
1 CGCCAGGCAATACTATC
25326671 C
1 C
25326672 ACTAGACGGT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (17 bp):
CGCCAGGCAATACTATC
Found at i:25326667 original size:34 final size:34
Alignment explanation
Indices: 25326602--25326669 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
25326592 GTAATCCTAC
* * *
25326602 TCGCCAGGTAATTCTATCCGCCAAGCTATACTAT
1 TCGCCAGGCAATACTATCCGCCAAGCGATACTAT
* * *
25326636 TCGCCAGGCAATACTGTCCGCTAGGCGATACTAT
1 TCGCCAGGCAATACTATCCGCCAAGCGATACTAT
25326670 CCACTAGACG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (34 bp):
TCGCCAGGCAATACTATCCGCCAAGCGATACTAT
Found at i:25326732 original size:17 final size:17
Alignment explanation
Indices: 25326691--25326733 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25326681 TATTGTTCGT
*
25326691 CAGACGATACTATCCGC
1 CAGATGATACTATCCGC
*
25326708 CAGGTGATACTTATCCGC
1 CAGATGATAC-TATCCGC
25326726 CA-ATGATA
1 CAGATGATA
25326734 GGAATACGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (17 bp):
CAGATGATACTATCCGC
Found at i:25329236 original size:133 final size:133
Alignment explanation
Indices: 25329063--25329328 Score: 532
Period size: 133 Copynumber: 2.0 Consensus size: 133
25329053 TCCCGGAGTG
25329063 TCTATTTCTGGAAATTTCCATCCTAAAATTTTCTTAGTTGTACCAAGATCCTTTATCTCGAACTT
1 TCTATTTCTGGAAATTTCCATCCTAAAATTTTCTTAGTTGTACCAAGATCCTTTATCTCGAACTT
25329128 GTAATTTTTTGAACAATTAATTTAATAAAATTCAATCATTATCATTAATATCTTTTGTATAACAA
66 GTAATTTTTTGAACAATTAATTTAATAAAATTCAATCATTATCATTAATATCTTTTGTATAACAA
25329193 CCT
131 CCT
25329196 TCTATTTCTGGAAATTTCCATCCTAAAATTTTCTTAGTTGTACCAAGATCCTTTATCTCGAACTT
1 TCTATTTCTGGAAATTTCCATCCTAAAATTTTCTTAGTTGTACCAAGATCCTTTATCTCGAACTT
25329261 GTAATTTTTTGAACAATTAATTTAATAAAATTCAATCATTATCATTAATATCTTTTGTATAACAA
66 GTAATTTTTTGAACAATTAATTTAATAAAATTCAATCATTATCATTAATATCTTTTGTATAACAA
25329326 CCT
131 CCT
25329329 CAACGTTATT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.44
Consensus pattern (133 bp):
TCTATTTCTGGAAATTTCCATCCTAAAATTTTCTTAGTTGTACCAAGATCCTTTATCTCGAACTT
GTAATTTTTTGAACAATTAATTTAATAAAATTCAATCATTATCATTAATATCTTTTGTATAACAA
CCT
Found at i:25336928 original size:23 final size:20
Alignment explanation
Indices: 25336893--25336940 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
25336883 CATAAGAGAG
*
25336893 TTGACCACATCGATCGAGAAA
1 TTGACCTCATC-ATCGAGAAA
25336914 TTGACCTC-TCATCGAGAAA
1 TTGACCTCATCATCGAGAAA
25336933 TTGACCTC
1 TTGACCTC
25336941 TCAAGGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 17 0.65
20 2 0.08
21 7 0.27
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (20 bp):
TTGACCTCATCATCGAGAAA
Found at i:25336929 original size:19 final size:19
Alignment explanation
Indices: 25336905--25336943 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25336895 GACCACATCG
25336905 ATCGAGAAATTGACCTCTC
1 ATCGAGAAATTGACCTCTC
25336924 ATCGAGAAATTGACCTCTC
1 ATCGAGAAATTGACCTCTC
25336943 A
1 A
25336944 AGGGAAGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
ATCGAGAAATTGACCTCTC
Found at i:25340863 original size:10 final size:10
Alignment explanation
Indices: 25340845--25340924 Score: 67
Period size: 10 Copynumber: 7.9 Consensus size: 10
25340835 AGGTAACCCA
25340845 ATTTTTATTT
1 ATTTTTATTT
25340855 -TTATTTATTT
1 ATT-TTTATTT
*
25340865 ATTATTATTT
1 ATTTTTATTT
*
25340875 ATTATTATTT
1 ATTTTTATTT
*
25340885 ATTATTATTT
1 ATTTTTATTT
25340895 -TTCTTTACTTT
1 ATT-TTTA-TTT
*
25340906 A-TTTTCTTT
1 ATTTTTATTT
25340915 ATTATTTATT
1 ATT-TTTATT
25340925 ACTTATTTGG
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
9 8 0.14
10 40 0.68
11 11 0.19
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:25340869 original size:7 final size:7
Alignment explanation
Indices: 25340845--25340931 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
25340835 AGGTAACCCA
25340845 ATTT-TT
1 ATTTATT
25340851 ATTT-TT
1 ATTTATT
25340857 ATTTATT
1 ATTTATT
25340864 -TATTATT
1 AT-TTATT
25340871 ATTTATT
1 ATTTATT
25340878 A-TTATT
1 ATTTATT
25340884 -TATTATT
1 AT-TTATT
25340891 ATTT-TT
1 ATTTATT
*
25340897 CTTTACTT
1 ATTTA-TT
25340905 -TATT-TT
1 AT-TTATT
*
25340911 CTTTATT
1 ATTTATT
25340918 ATTTATT
1 ATTTATT
*
25340925 ACTTATT
1 ATTTATT
25340932 TGGATATTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
6 25 0.37
7 36 0.54
8 6 0.09
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:25340874 original size:20 final size:21
Alignment explanation
Indices: 25340849--25340924 Score: 97
Period size: 20 Copynumber: 3.8 Consensus size: 21
25340839 AACCCAATTT
25340849 TTATTT-TTATTTATTTATTA
1 TTATTTATTATTTATTTATTA
25340869 TTATTTATTA-TTATTTATTA
1 TTATTTATTATTTATTTATTA
*
25340889 TTATTT-TTCTTTACTTTATT-
1 TTATTTATTATTTA-TTTATTA
*
25340909 TTCTTTATTATTTATT
1 TTATTTATTATTTATT
25340925 ACTTATTTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.04
20 32 0.65
21 15 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTATTATTTATTTATTA
Found at i:25343139 original size:85 final size:85
Alignment explanation
Indices: 25342947--25343191 Score: 348
Period size: 85 Copynumber: 2.9 Consensus size: 85
25342937 CAGTTACTAT
* * **
25342947 CACTTGTTGTGGGTGCACAACATATTTGCAGATTAAACAAAATGCCACATGGTTCAT-ATCGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
* * **
25343011 CACATATTTACAGTTGTTGC
66 CACACATTTGCAGTTGCCGC
*
25343031 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTATTTCATAATCGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
25343096 CACACATTTGCAGTTGCCGC
66 CACACATTTGCAGTTGCCGC
* * * * *
25343116 CACTTCTTGTGAGTGCACAACATATTTGCAAATTAAACAAACTACCACTTACTTCATAATGGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
25343181 CACACCATTTG
66 CACA-CATTTG
25343192 TAGATTAAAC
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
84 53 0.37
85 86 0.59
86 6 0.04
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (85 bp):
CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
CACACATTTGCAGTTGCCGC
Found at i:25343897 original size:29 final size:28
Alignment explanation
Indices: 25343699--25343897 Score: 134
Period size: 28 Copynumber: 6.9 Consensus size: 28
25343689 ATTTTGGGTC
* * * *
25343699 AAACTGTAAAATTTGAAAAATAAGAGACA
1 AAACTATAAAATCTAAAAAATAAG-GGCA
*
25343728 AAACTATAAAATCTAAAAAATTTAGGGCA
1 AAACTATAAAATCTAAAAAA-TAAGGGCA
* * * *
25343757 AAATTATAAAATCTAAAAATTATGGGTA
1 AAACTATAAAATCTAAAAAATAAGGGCA
** * * *
25343785 AATTTGTAAAAT-TTAAAAATCAAGGGTA
1 AAACTATAAAATCTAAAAAAT-AAGGGCA
*
25343813 AAACTATAAAAATCTAAAAAAAATCAA-AG-A
1 AAACTAT-AAAATCT--AAAAAAT-AAGGGCA
* * * *
25343843 AAACTTTTAAATTTTAAAAAATAGGGGCA
1 AAAC-TATAAAATCTAAAAAATAAGGGCA
25343872 AAACTATAAAATCTAAAAAATAAGGG
1 AAACTATAAAATCTAAAAAATAAGGG
25343898 ACACACGGCC
Statistics
Matches: 132, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
27 7 0.05
28 51 0.39
29 48 0.36
30 14 0.11
31 3 0.02
32 9 0.07
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (28 bp):
AAACTATAAAATCTAAAAAATAAGGGCA
Found at i:25344049 original size:12 final size:12
Alignment explanation
Indices: 25344032--25344074 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
25344022 GAGACACGGC
25344032 CGTGTGGCAAGT
1 CGTGTGGCAAGT
25344044 CGTGTGGCAAGT
1 CGTGTGGCAAGT
25344056 CGTGTGGCAAGT
1 CGTGTGGCAAGT
25344068 CGTGTGG
1 CGTGTGG
25344075 AGGGTCTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.16, G:0.44, T:0.26
Consensus pattern (12 bp):
CGTGTGGCAAGT
Found at i:25346617 original size:24 final size:25
Alignment explanation
Indices: 25346585--25346644 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 25
25346575 TAATTTATAT
*
25346585 TTTATATATC-ATTATATTAAATTA
1 TTTAAATATCTATTATATTAAATTA
25346609 TTTAAATATCATGTTATTATATTAAATTA
1 TTTAAATATC----TATTATATTAAATTA
25346638 TTTAAAT
1 TTTAAAT
25346645 CTTATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.30
29 21 0.70
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (25 bp):
TTTAAATATCTATTATATTAAATTA
Found at i:25347778 original size:34 final size:34
Alignment explanation
Indices: 25347711--25347798 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
25347701 ATATAGAAGT
* * *
25347711 TTTATTTCATTATACAAAG-ACAAACTCAGAAAA
1 TTTATATCAATATACAAAGAAAAAACTCAGAAAA
*
25347744 TTTATATCAATATACAAAGAAAAAACTCATAAAA
1 TTTATATCAATATACAAAGAAAAAACTCAGAAAA
* *
25347778 TTCATATTAATATAACAAAGA
1 TTTATATCAATAT-ACAAAGA
25347799 TGAACAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 17 0.36
34 23 0.49
35 7 0.15
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (34 bp):
TTTATATCAATATACAAAGAAAAAACTCAGAAAA
Found at i:25353385 original size:19 final size:19
Alignment explanation
Indices: 25353361--25353408 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
25353351 ATTTGTATTT
25353361 AAATTGACTTTTGATTTTA
1 AAATTGACTTTTGATTTTA
25353380 AAATTGACTTTTGATTTTA
1 AAATTGACTTTTGATTTTA
25353399 AAATTGACTT
1 AAATTGACTT
25353409 GAAGTACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (19 bp):
AAATTGACTTTTGATTTTA
Found at i:25353860 original size:64 final size:66
Alignment explanation
Indices: 25353786--25353923 Score: 235
Period size: 66 Copynumber: 2.1 Consensus size: 66
25353776 GTGGGTGGGT
*
25353786 TTAGGGTTAGCTTGTATTC-ATTTCTATTTGTTTAGGGTTTTTT-TTCATTGGGGCTAGATTTTT
1 TTAGGGTTAGCTTGTATTCGATTTCTATTTGTTTAGGGTTTTTTCCTCATTGGGGCTAGATTTTT
25353849 C
66 C
* *
25353850 TTAGGGTTAGCTTGTATTCGTTTTCTATTTGTTTAGGGTTTTTTCCTCATTTGGGCTAGATTTTT
1 TTAGGGTTAGCTTGTATTCGATTTCTATTTGTTTAGGGTTTTTTCCTCATTGGGGCTAGATTTTT
25353915 C
66 C
25353916 TTAGGGTT
1 TTAGGGTT
25353924 TAGGTAAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 19 0.28
65 23 0.33
66 27 0.39
ACGTcount: A:0.13, C:0.10, G:0.22, T:0.54
Consensus pattern (66 bp):
TTAGGGTTAGCTTGTATTCGATTTCTATTTGTTTAGGGTTTTTTCCTCATTGGGGCTAGATTTTT
C
Found at i:25353889 original size:32 final size:32
Alignment explanation
Indices: 25353784--25353889 Score: 81
Period size: 33 Copynumber: 3.3 Consensus size: 32
25353774 TGGTGGGTGG
25353784 GTTTAGGGTTAGCTTGTATTC-ATTTCTATTT
1 GTTTAGGGTTAGCTTGTATTCGATTTCTATTT
** * * *** **
25353815 GTTTAGGGTT-TTTTTTCATTGGGGCTAGATTT
1 GTTTAGGGTTAGCTTGT-ATTCGATTTCTATTT
* *
25353847 TTCTTAGGGTTAGCTTGTATTCGTTTTCTATTT
1 GT-TTAGGGTTAGCTTGTATTCGATTTCTATTT
25353880 GTTTAGGGTT
1 GTTTAGGGTT
25353890 TTTTCCTCAT
Statistics
Matches: 51, Mismatches: 20, Indels: 7
0.65 0.26 0.09
Matches are distributed among these distances:
30 3 0.06
31 13 0.25
32 14 0.27
33 18 0.35
34 3 0.06
ACGTcount: A:0.13, C:0.08, G:0.24, T:0.55
Consensus pattern (32 bp):
GTTTAGGGTTAGCTTGTATTCGATTTCTATTT
Found at i:25354348 original size:39 final size:39
Alignment explanation
Indices: 25354294--25354372 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
25354284 CATTCCATTC
25354294 ATAAATTTGAGAGAGAGAGAGATCATTTGTCAACGTCTT
1 ATAAATTTGAGAGAGAGAGAGATCATTTGTCAACGTCTT
25354333 ATAAATTTGAGAGAGAGAGAGATCATTTGTCAACGTCTT
1 ATAAATTTGAGAGAGAGAGAGATCATTTGTCAACGTCTT
25354372 A
1 A
25354373 CTTCCCACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (39 bp):
ATAAATTTGAGAGAGAGAGAGATCATTTGTCAACGTCTT
Found at i:25359306 original size:27 final size:27
Alignment explanation
Indices: 25359268--25359321 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
25359258 CATGAAGTAT
25359268 AATGGTGTGTATGTATATAGTCAGTTG
1 AATGGTGTGTATGTATATAGTCAGTTG
25359295 AATGGTGTGTATGTATATAGTCAGTTG
1 AATGGTGTGTATGTATATAGTCAGTTG
25359322 TTGAGAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.41
Consensus pattern (27 bp):
AATGGTGTGTATGTATATAGTCAGTTG
Found at i:25369410 original size:31 final size:30
Alignment explanation
Indices: 25369375--25369434 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
25369365 GGAGGTGGGA
*
25369375 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
25369406 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
25369435 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:25373163 original size:105 final size:105
Alignment explanation
Indices: 25372981--25373196 Score: 362
Period size: 105 Copynumber: 2.1 Consensus size: 105
25372971 GTAATGAGAA
*
25372981 AACGAATAAATGCATACATTGGTACCACTAGAGTTTGATGTGCAGATAAAAAATGCAATTAGGGC
1 AACGAATAAAGGCATACATTGGTACCACTAGAGTTTGATGTGCAGATAAAAAATGCAATTAGGGC
*
25373046 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCTTTTTT
66 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
* * * *
25373086 AACGAATAAAGGCATACATTGGTGCCAGTGGAGTTTGATGTGCAGATAAAAAATGCAA-TGGGAG
1 AACGAATAAAGGCATACATTGGTACCACTAGAGTTTGATGTGCAGATAAAAAATGCAATTAGG-G
25373150 CTAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
65 CTAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
25373191 AACGAA
1 AACGAA
25373197 ACAAGGTTAG
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 3 0.03
105 101 0.97
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (105 bp):
AACGAATAAAGGCATACATTGGTACCACTAGAGTTTGATGTGCAGATAAAAAATGCAATTAGGGC
TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
Found at i:25375844 original size:25 final size:25
Alignment explanation
Indices: 25375797--25375883 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
25375787 GTACATGTAT
*
25375797 GCTCATACGAGC-G-ATAATAGTAA
1 GCTCATACGAGCTGAATAATGGTAA
* *
25375820 GCTCCTCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
* * *
25375845 GCTCATACGAGCTGAGTATTGATAA
1 GCTCATACGAGCTGAATAATGGTAA
*
25375870 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
25375884 GAATCGGTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.19
24 1 0.02
25 42 0.79
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAATGGTAA
Found at i:25379002 original size:28 final size:28
Alignment explanation
Indices: 25378965--25379091 Score: 148
Period size: 28 Copynumber: 4.5 Consensus size: 28
25378955 TAATGAGATT
* *
25378965 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
* *
25378992 ATGCATTAAGTGTGAGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATGGTAA
25379021 AGCACTAAGTGTGCGAGTATAATGGTAA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
* * * ** *
25379049 AGAACTAAGTGTGCGAGTGTGATTATTA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
25379077 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25379092 TACTTATTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 1 0.01
28 81 0.95
29 3 0.04
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAATGGTAA
Found at i:25392491 original size:19 final size:19
Alignment explanation
Indices: 25392467--25392517 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 19
25392457 AATCACATCT
25392467 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25392486 TCTAAGATTGTATATATCATA
1 TCTAAGATTG--CATATCATA
25392507 TCTAAGATTGC
1 TCTAAGATTGC
25392518 TCATCCTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
21 18 0.64
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25398787 original size:24 final size:24
Alignment explanation
Indices: 25398737--25398788 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25398727 AATCAAAGTC
* *
25398737 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
25398761 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
25398785 AAAT
1 AAAT
25398789 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:25399510 original size:31 final size:30
Alignment explanation
Indices: 25399466--25399567 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 30
25399456 TAAGAATTTC
25399466 TAAAATTTTTAAAAATTATGAGAGGCTTAAT
1 TAAAA-TTTTAAAAATTATGAGAGGCTTAAT
* * * * *
25399497 TCAAACTTTTAAAACCTT-TTAAAGGCTTGA-
1 T-AAAATTTTAAAA-ATTATGAGAGGCTTAAT
25399527 TAATAATTTTTAAAAATTATGAGAGGCTTAAT
1 TAA-AA-TTTTAAAAATTATGAGAGGCTTAAT
*
25399559 TTAAATTTT
1 TAAAATTTT
25399568 CAGAAATTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
29 2 0.04
30 8 0.15
31 37 0.69
32 7 0.13
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (30 bp):
TAAAATTTTAAAAATTATGAGAGGCTTAAT
Found at i:25406457 original size:27 final size:27
Alignment explanation
Indices: 25406423--25406474 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25406413 CCAATGAATC
25406423 GGGGAATCAGCACACAGCAACCCCTTG
1 GGGGAATCAGCACACAGCAACCCCTTG
**
25406450 GGGGAATCAGCACTTAGCAACCCCT
1 GGGGAATCAGCACACAGCAACCCCT
25406475 GCACATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACACAGCAACCCCTTG
Found at i:25406735 original size:102 final size:102
Alignment explanation
Indices: 25406388--25406754 Score: 619
Period size: 103 Copynumber: 3.6 Consensus size: 102
25406378 TAACCGTTAT
* *
25406388 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
*
25406453 GAATCAGCACTTAGCAA-CCCCTGCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* * ** *
25406489 CGATGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* * *
25406554 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
25406592 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
25406657 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
25406694 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
25406755 TATATGTAAT
Statistics
Matches: 245, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
101 75 0.31
102 77 0.31
103 93 0.38
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
Found at i:25410413 original size:84 final size:84
Alignment explanation
Indices: 25410272--25410439 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
25410262 TTTCATGGCA
25410272 TTTTTGCATTTTATTCAATTTGGCCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
1 TTTTTGCATTTTATTCAATTTGGCCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
*
25410337 CCTTTCTTAAACTAAGCTT
66 CCTTTCTTAAAATAAGCTT
* *
25410356 TTTTTTCATTTTATTCAATTTGGTCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
1 TTTTTGCATTTTATTCAATTTGGCCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
25410421 CCTTTCTTAAAATAAGCTT
66 CCTTTCTTAAAATAAGCTT
25410440 AATTTTTATC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (84 bp):
TTTTTGCATTTTATTCAATTTGGCCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
CCTTTCTTAAAATAAGCTT
Found at i:25413427 original size:15 final size:15
Alignment explanation
Indices: 25413407--25413437 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25413397 TAAATATATA
25413407 TAATTATATTTAATT
1 TAATTATATTTAATT
*
25413422 TAATTATATTTTATT
1 TAATTATATTTAATT
25413437 T
1 T
25413438 TATTTTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTATATTTAATT
Found at i:25415539 original size:16 final size:16
Alignment explanation
Indices: 25415518--25415553 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25415508 TTTGGTTCGC
25415518 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25415534 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25415550 TGTA
1 TGTA
25415554 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25415809 original size:18 final size:17
Alignment explanation
Indices: 25415788--25415822 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25415778 TTATTATTAA
*
25415788 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25415806 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25415823 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25415874 original size:156 final size:157
Alignment explanation
Indices: 25415675--25415990 Score: 537
Period size: 156 Copynumber: 2.0 Consensus size: 157
25415665 TAGAATACCC
* *
25415675 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * ** *
25415740 TTATCAGTAATAAATTTTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
25415805 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
25415831 TTAGCAGAAATTAT-TTTTGGTAAATTATTATTGTTATTATTATTTAAATTTTAATAAGATTATT
1 TTAGCAGAAATT-TGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATT
25415895 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
65 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
25415960 ATATATAATTTAATAAAATTCTTAATAA
130 ATATATAATTTAATAAAATTCTTAATAA
25415988 TTA
1 TTA
25415991 ATATTCTTAT
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
156 142 0.95
157 8 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:25415961 original size:16 final size:16
Alignment explanation
Indices: 25415924--25415965 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25415914 TTAATCATAT
*
25415924 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25415940 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25415955 TTAAAATATAT
1 TTAAAATATAT
25415966 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25415972 original size:14 final size:15
Alignment explanation
Indices: 25415933--25415974 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25415923 TTTAAACATA
*
25415933 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25415948 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25415962 A-TATAATTTAATA
1 ATTATAATTAAATA
25415975 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25416024 original size:61 final size:60
Alignment explanation
Indices: 25415959--25416146 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
25415949 TTATAATTAA
25415959 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATACGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
* * * * * * * *
25416020 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTATTA-AATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTA-TAGAATTTACTCA-AATCA
*
25416078 A
60 T
25416079 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
25416140 AATATAT
1 AATATAT
25416147 GATACTGTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 14 0.15
61 35 0.37
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAGAATTTACTCAAATCAT
Done.