Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 88 of 222
Found at i:27412762 original size:30 final size:31
Alignment explanation
Indices: 27412723--27412782 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
27412713 GGAGGTGGGA
*
27412723 TGGGAAGGGAATAAAAGTTTT-AGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGA-GGGAAAAG
*
27412754 TGGG-AGGGAGTAAAAATTTTGAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
27412783 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
Found at i:27412955 original size:30 final size:30
Alignment explanation
Indices: 27412896--27412955 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27412886 GGGGAGGGGA
* * ***
27412896 GTAAAAGTTTTGGGGGGAAAGTGGGAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
27412926 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
27412956 TTGGAAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (30 bp):
GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
Found at i:27413088 original size:19 final size:18
Alignment explanation
Indices: 27413066--27413108 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27413056 GAAAAAAAAT
*
27413066 TCGAGTTGATTCAAATAAC
1 TCGA-TTGACTCAAATAAC
*
27413085 TCGATTGACTCGAATAAC
1 TCGATTGACTCAAATAAC
27413103 TCGATT
1 TCGATT
27413109 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (18 bp):
TCGATTGACTCAAATAAC
Found at i:27414626 original size:18 final size:18
Alignment explanation
Indices: 27414583--27414618 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27414573 TGAATTTAAT
27414583 AAATAAAACATGAAAGAA
1 AAATAAAACATGAAAGAA
27414601 AAATAAAACATGAAAGAA
1 AAATAAAACATGAAAGAA
27414619 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (18 bp):
AAATAAAACATGAAAGAA
Found at i:27419979 original size:21 final size:22
Alignment explanation
Indices: 27419940--27419980 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27419930 CTTTATTTAA
* *
27419940 TTATTAAATTACCTTAATAACC
1 TTATTAAATTAACTAAATAACC
27419962 TTATT-AATTAACTAAATAA
1 TTATTAAATTAACTAAATAA
27419981 AACATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATTAAATTAACTAAATAACC
Found at i:27429511 original size:15 final size:14
Alignment explanation
Indices: 27429489--27429520 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
27429479 TAATAATTAT
27429489 ATAATAAATAGTGA
1 ATAATAAATAGTGA
27429503 ATAATTAAATAGTGA
1 ATAA-TAAATAGTGA
27429518 ATA
1 ATA
27429521 CATGTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (14 bp):
ATAATAAATAGTGA
Found at i:27431998 original size:114 final size:115
Alignment explanation
Indices: 27431855--27432083 Score: 433
Period size: 114 Copynumber: 2.0 Consensus size: 115
27431845 GTTTCCAGAT
*
27431855 AAATATGGATTAGAAATTGTGAAATGTGGTACCACACAAGTCGAATCTACAGAATTTTCTGAGTG
1 AAATATGGATTAGAAATTGTGAAATGTGGTACCACACAAGTCGAATCTACAGAATTTTCTAAGTG
27431920 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
66 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
*
27431970 AAATAT-GATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTG
1 AAATATGGATTAGAAATTGTGAAATGTGGTACCACACAAGTCGAATCTACAGAATTTTCTAAGTG
27432034 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
66 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
27432084 TACCCAGTTT
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 106 0.95
115 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (115 bp):
AAATATGGATTAGAAATTGTGAAATGTGGTACCACACAAGTCGAATCTACAGAATTTTCTAAGTG
TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
Found at i:27438215 original size:11 final size:10
Alignment explanation
Indices: 27438166--27438214 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
27438156 TTTAATTTCA
27438166 AATTTTTTTG
1 AATTTTTTTG
*
27438176 AATTTTTTTTC
1 AA-TTTTTTTG
27438187 AATTTTTTTG
1 AATTTTTTTG
27438197 AATTTTTTT-
1 AATTTTTTTG
27438206 AATTTTTTT
1 AATTTTTTT
27438215 TCACATACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
9 9 0.25
10 18 0.50
11 9 0.25
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:27438215 original size:21 final size:21
Alignment explanation
Indices: 27438161--27438214 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
27438151 TTTTTTTTAA
27438161 TTTCAAATTTTTTTGAATTTTT
1 TTTC-AATTTTTTTGAATTTTT
27438183 TTTCAATTTTTTTGAA-TTTT
1 TTTCAATTTTTTTGAATTTTT
27438203 TTT-AATTTTTTT
1 TTTCAATTTTTTT
27438215 TCACATACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.28
20 7 0.22
21 12 0.38
22 4 0.12
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTCAATTTTTTTGAATTTTT
Found at i:27438434 original size:44 final size:44
Alignment explanation
Indices: 27438417--27438530 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
27438407 TTTAGTTAGG
*
27438417 GAATGGTATTGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
1 GAATGGTATAGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
** * *
27438461 GAATGGTATAGGTTTTGGTACAAAAT-GAATTTTGGTGTAAGTAC
1 GAATGGTATAGGTTTTGGTACAAAATAG-GGTTTGGTATAGGTAC
* *
27438505 GAAAGGGTATGGGTTTTGGTACAAAA
1 G-AATGGTATAGGTTTTGGTACAAAA
27438531 ATGGATCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 38 0.62
45 22 0.36
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (44 bp):
GAATGGTATAGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
Found at i:27439432 original size:20 final size:20
Alignment explanation
Indices: 27439407--27439451 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
27439397 TAAATTCACA
27439407 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
27439427 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
27439447 TAATT
1 TAATT
27439452 CGGTTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:27455312 original size:6 final size:6
Alignment explanation
Indices: 27455301--27455333 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
27455291 ACAAAAATGT
*
27455301 AATGAC AATGAC AATGAA AATG-C AATGAC AATG
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATG
27455334 TATACTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (6 bp):
AATGAC
Found at i:27459974 original size:79 final size:78
Alignment explanation
Indices: 27459872--27460095 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
27459862 GCTCCTCGTT
* *
27459872 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27459937 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
27459952 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
27460016 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
27460030 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCAATTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AACTCGCACAAATGCCTTCGGGACTTAGCCCG
27460094 GA
63 GA
27460096 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 35 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:27459989 original size:39 final size:40
Alignment explanation
Indices: 27459872--27460095 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
27459862 GCTCCTCGTT
* * *
27459872 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTATCTCGCA
* * *
27459912 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27459952 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27459991 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
27460030 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCAAT-TAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT--ATCTCGCA
27460071 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27460096 CATCATTCAA
Statistics
Matches: 167, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.01
39 74 0.44
40 76 0.46
41 13 0.08
42 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27468030 original size:79 final size:78
Alignment explanation
Indices: 27467930--27468153 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
27467920 GCTCCTCGTT
* *
27467930 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27467995 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
27468010 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
27468074 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * *
27468088 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
27468152 GA
63 GA
27468154 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 58 0.46
80 31 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:27468047 original size:39 final size:39
Alignment explanation
Indices: 27467930--27468153 Score: 256
Period size: 39 Copynumber: 5.6 Consensus size: 39
27467920 GCTCCTCGTT
* * *
27467930 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCA
* *
27467970 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
27468010 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
27468049 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
27468088 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
27468129 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
27468154 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 78 0.48
40 75 0.46
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:27468153 original size:40 final size:40
Alignment explanation
Indices: 27467930--27468153 Score: 234
Period size: 40 Copynumber: 5.7 Consensus size: 40
27467920 GCTCCTCGTT
* * *
27467930 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
27467970 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
27468010 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
27468049 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
27468088 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
27468129 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27468154 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.02
39 69 0.42
40 78 0.48
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:27478682 original size:40 final size:39
Alignment explanation
Indices: 27478579--27478740 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 39
27478569 AACCTATGTT
** * * *
27478579 TTATATTA-CCTGAGAATCCACGACAAGGGTTGGATCTCA
1 TTATATTACCCTGAGAATCTGCAACAA-GGCTAGATCTCA
* *
27478618 TTATATT-GCCTGAGAACCTGCAACAAGGCTAGATCTCA
1 TTATATTACCCTGAGAATCTGCAACAAGGCTAGATCTCA
*
27478656 TTATATTACCCTTGAGAATCTGCAACAAGGCTAGATCTCG
1 TTATATTACCC-TGAGAATCTGCAACAAGGCTAGATCTCA
* ** ** *
27478696 TTGTATTACCCCAAGAATCTGCAACAAAAACTAGATCTTA
1 TTATATTACCCTGAGAATCTGCAAC-AAGGCTAGATCTCA
27478736 TTATA
1 TTATA
27478741 ATCTATAATA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 17 0.17
39 35 0.34
40 50 0.49
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (39 bp):
TTATATTACCCTGAGAATCTGCAACAAGGCTAGATCTCA
Found at i:27479983 original size:21 final size:22
Alignment explanation
Indices: 27479946--27479986 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27479936 TATTTAATTA
*
27479946 AATTTTAATATATATTTTTAAT
1 AATTTTAATAAATATTTTTAAT
27479968 AATTTT-ATAAATATTTTTA
1 AATTTTAATAAATATTTTTA
27479987 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTTTAATAAATATTTTTAAT
Found at i:27480074 original size:21 final size:21
Alignment explanation
Indices: 27480034--27480076 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27480024 TCAAATTCGT
*
27480034 TATACGTTTTAACTTAATTGA
1 TATACGTTTTAACCTAATTGA
* *
27480055 TATACGTTTTGACCTGATTGA
1 TATACGTTTTAACCTAATTGA
27480076 T
1 T
27480077 GGATCTAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (21 bp):
TATACGTTTTAACCTAATTGA
Found at i:27480751 original size:53 final size:55
Alignment explanation
Indices: 27480682--27480786 Score: 151
Period size: 53 Copynumber: 1.9 Consensus size: 55
27480672 GTTAAAACTT
*
27480682 TCAATTTTTTATAAAAAGTTACTAATGTAACATTTTAAAT-AAAAAATAATCTAG
1 TCAATTTTTTAAAAAAAGTTACTAATGTAACATTTTAAATAAAAAAATAATCTAG
* * * *
27480736 TCAA-TTTTTAAAAAAATTTATTAATGTGACGTTTTAAATAAAAAAATAATC
1 TCAATTTTTTAAAAAAAGTTACTAATGTAACATTTTAAATAAAAAAATAATC
27480787 ACACAGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 30 0.67
54 15 0.33
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.39
Consensus pattern (55 bp):
TCAATTTTTTAAAAAAAGTTACTAATGTAACATTTTAAATAAAAAAATAATCTAG
Found at i:27497302 original size:69 final size:69
Alignment explanation
Indices: 27497191--27497343 Score: 279
Period size: 69 Copynumber: 2.2 Consensus size: 69
27497181 CAGGACTAAA
* *
27497191 ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAGAAAATAAACACGGTGAAACATAAGGTG
1 ACCATAGTTGGACTATGCCATCCTAGTACTCTACCAAGAAAATAAACACGATGAAACATAAGGTG
27497256 TAAG
66 TAAG
27497260 ACCATAGTTGGACTATGCCATCCTAGTACTCTACCAAGAAAATAAACACGATGAAACATAAGGTG
1 ACCATAGTTGGACTATGCCATCCTAGTACTCTACCAAGAAAATAAACACGATGAAACATAAGGTG
27497325 TAAG
66 TAAG
*
27497329 ACCATAGCTGGACTA
1 ACCATAGTTGGACTA
27497344 AAGCCACTGC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 81 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (69 bp):
ACCATAGTTGGACTATGCCATCCTAGTACTCTACCAAGAAAATAAACACGATGAAACATAAGGTG
TAAG
Found at i:27497514 original size:27 final size:27
Alignment explanation
Indices: 27497483--27497535 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
27497473 ACGGCAACAA
*
27497483 AGATAGTCTGACGGGACATTAAACATG
1 AGATAGTCTGACGGGACATCAAACATG
*
27497510 AGATAGTTTGACGGGACATCAAACAT
1 AGATAGTCTGACGGGACATCAAACAT
27497536 AGGGTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (27 bp):
AGATAGTCTGACGGGACATCAAACATG
Found at i:27500007 original size:42 final size:43
Alignment explanation
Indices: 27499921--27500042 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 43
27499911 GGCTCGTACA
** * * * *
27499921 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCCAATATCCCAGACGTGGTCTTACACGAAAACACAAATCG
*
27499964 ATGCCACTATCCCAGACAG-GGT-TTACACGAAAACACAAATCG
1 ATGCCAATATCCCAGAC-GTGGTCTTACACGAAAACACAAATCG
* *
27500006 ATGCCAATGTCCCAGACGTGGTCTTACATGAAAACAC
1 ATGCCAATATCCCAGACGTGGTCTTACACGAAAACAC
27500043 TTTTCGAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 34 0.52
43 30 0.45
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (43 bp):
ATGCCAATATCCCAGACGTGGTCTTACACGAAAACACAAATCG
Found at i:27501999 original size:17 final size:18
Alignment explanation
Indices: 27501957--27501999 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27501947 AACACAAGAT
*
27501957 TTCGCAAGGTAACTATAG
1 TTCGCAAGATAACTATAG
* *
27501975 TTCACAAGATACCTA-AG
1 TTCGCAAGATAACTATAG
27501992 TTCGCAAG
1 TTCGCAAG
27502000 CTTTAGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (18 bp):
TTCGCAAGATAACTATAG
Found at i:27503939 original size:27 final size:27
Alignment explanation
Indices: 27503891--27503988 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
27503881 TTGCAACTCA
* * * *
27503891 ACTGGCAAACCCCGGTTCGCCAAATAG
1 ACTGGCGAACCCCAGCTAGCCAAATAG
* *
27503918 AATGGTGAACCCCAGCTAGCCAAATAG
1 ACTGGCGAACCCCAGCTAGCCAAATAG
* * * *
27503945 ACTAGCAAACCCTAGCTTGCCAAATAG
1 ACTGGCGAACCCCAGCTAGCCAAATAG
27503972 ACTGGCGAACCCCAGCT
1 ACTGGCGAACCCCAGCT
27503989 CATCAGCACG
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.33, C:0.32, G:0.20, T:0.15
Consensus pattern (27 bp):
ACTGGCGAACCCCAGCTAGCCAAATAG
Found at i:27504857 original size:7 final size:7
Alignment explanation
Indices: 27504845--27504876 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
27504835 TAAATTTGAA
27504845 TAAACCC
1 TAAACCC
27504852 TAAACCC
1 TAAACCC
*
27504859 TAAATCC
1 TAAACCC
27504866 TAAACCC
1 TAAACCC
27504873 TAAA
1 TAAA
27504877 AAATTAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:27513739 original size:19 final size:20
Alignment explanation
Indices: 27513706--27513744 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27513696 AATCCCTCAA
27513706 CCCCCAAAACTTTTTATTTC
1 CCCCCAAAACTTTTTATTTC
27513726 CCCCCAAAAC-TTTTATTTC
1 CCCCCAAAACTTTTTATTTC
27513745 TCACCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (20 bp):
CCCCCAAAACTTTTTATTTC
Found at i:27515761 original size:31 final size:31
Alignment explanation
Indices: 27515718--27515780 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
27515708 ATCACTAAAT
27515718 TATTCAAAAAATTTTATTTAAGCCACTGAAC
1 TATTCAAAAAATTTTATTTAAGCCACTGAAC
* * *
27515749 TATTTAAAAAATTTTATTTAAGTCATTGAAC
1 TATTCAAAAAATTTTATTTAAGCCACTGAAC
27515780 T
1 T
27515781 GTTAAATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (31 bp):
TATTCAAAAAATTTTATTTAAGCCACTGAAC
Found at i:27523627 original size:48 final size:47
Alignment explanation
Indices: 27523494--27523628 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 47
27523484 CTATTTACCT
* * **
27523494 TGTAGGTTTAACCCTAACGGGTAACTAGACACTATTACTCATTATTTG
1 TGTAGGTTTAACCCTAAC-GGTAACCAGACACTATTATTCATTATTCA
* * *
27523542 TGTAGGTTTAACCTTGACGAGTAATCAGACACTATTATTCATTATTCA
1 TGTAGGTTTAACCCTAACG-GTAACCAGACACTATTATTCATTATTCA
* *
27523590 TGTAGGTTTAACCCAAACAGGTAACCAGGCACTATTATT
1 TGTAGGTTTAACCCTAAC-GGTAACCAGACACTATTATT
27523629 TTCACCTGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 71 0.97
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (47 bp):
TGTAGGTTTAACCCTAACGGTAACCAGACACTATTATTCATTATTCA
Found at i:27526941 original size:59 final size:59
Alignment explanation
Indices: 27526872--27526984 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
27526862 GATAAGGGCG
* * * * *
27526872 TAAGACCATGGATGAAAGATATCATGGAAACAAGGTATATGGTATAAGGTATATAAAAT
1 TAAGACCATGGATGAAAAACACCATGGAAACAAGGTAAATGATATAAGGTATATAAAAT
*
27526931 TAAGACCATGGATGAAAAACGCCATGGAAACAAGGTAAATGATATAAGGTATAT
1 TAAGACCATGGATGAAAAACACCATGGAAACAAGGTAAATGATATAAGGTATAT
27526985 GACTTAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (59 bp):
TAAGACCATGGATGAAAAACACCATGGAAACAAGGTAAATGATATAAGGTATATAAAAT
Found at i:27527298 original size:28 final size:28
Alignment explanation
Indices: 27527258--27527312 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
27527248 TAAGTCTATC
*
27527258 GGGACAGTAAACACGAGCTAGGTTTGTT
1 GGGACAGTAAACACGAGCTAAGTTTGTT
*
27527286 GGGACAGTAAACACGAGGTAAGTTTGT
1 GGGACAGTAAACACGAGCTAAGTTTGT
27527313 CGGGGTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGACAGTAAACACGAGCTAAGTTTGTT
Found at i:27531210 original size:43 final size:43
Alignment explanation
Indices: 27531162--27531258 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 43
27531152 TATGAATTCC
* * * *
27531162 TGTAAGACCATGTCTAGAACATTGGCATTGATATGAGATTACG
1 TGTAAGACCATGTCTAGAACAGTGGCATCGATATGAGATAACA
* * * * *
27531205 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTAGAACAGTGGCATCGATATGAGATAACA
27531248 TGTAAGACCAT
1 TGTAAGACCAT
27531259 ATTTGGGATA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGAACAGTGGCATCGATATGAGATAACA
Found at i:27531264 original size:43 final size:42
Alignment explanation
Indices: 27531184--27531285 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 42
27531174 TCTAGAACAT
* * * * *
27531184 TGGCATTGATATGAGATTACGTGTAAGACCCTGTTTGGGACA
1 TGGCATTGATATGTGATAACATGTAAGACCATATTTGGGACA
* *
27531226 GTGGCATCGATATGTGATAACATGTAAGACCATATTTGGGATA
1 -TGGCATTGATATGTGATAACATGTAAGACCATATTTGGGACA
27531269 TGGCATTG-TATGTGATA
1 TGGCATTGATATGTGATA
27531286 TATGTGTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 9 0.18
42 7 0.14
43 35 0.69
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (42 bp):
TGGCATTGATATGTGATAACATGTAAGACCATATTTGGGACA
Found at i:27536186 original size:54 final size:52
Alignment explanation
Indices: 27536120--27536287 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 52
27536110 TGGCCATGGG
*
27536120 AAGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATATA-GGA
1 AAGAAGA-CATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATAGGGA
* *
27536172 AAGTGAAGATCATATAGTGTAAGACCTAGTCATTATGG-CCATGGCATCATATAGGGA
1 AA--GAAGA-CATATAGTGTAAGACCTAGTC--T-GGGACTATGGCATCATATAGGGA
* * * *
27536229 AAGAAGACTACATAGTGTAAGACCTAGTTTGAGACTATGGCATCATGT-GGGA
1 AAGAAGAC-ATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATAGGGA
*
27536281 AAAAAGA
1 AAGAAGA
27536288 TAAAAGATGG
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
52 13 0.13
53 13 0.13
54 26 0.27
55 23 0.24
56 15 0.15
57 7 0.07
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (52 bp):
AAGAAGACATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATAGGGA
Found at i:27538343 original size:43 final size:43
Alignment explanation
Indices: 27538296--27538406 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
27538286 AAATAGAAGA
*
27538296 AAATATACTGGCACACACAGTGCATCATTGGACAAACCAAAGC
1 AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
* * * * ** *
27538339 AAATATACTAGTACAGACATTATATCATTGGACGAACCAAAGC
1 AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
27538382 AAATATACTGGAACACGA-AGTGCAT
1 AAATATACTGGAACAC-ACAGTGCAT
27538407 AAACCCGTAC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 53 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (43 bp):
AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
Found at i:27542825 original size:18 final size:20
Alignment explanation
Indices: 27542802--27542843 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
27542792 TATTTAACCT
27542802 TTAATCAAA-CATAATTAA-
1 TTAATCAAATCATAATTAAG
*
27542820 TTAATCAAATCTTAATTAAG
1 TTAATCAAATCATAATTAAG
27542840 TTAA
1 TTAA
27542844 AGTTACGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATCAAATCATAATTAAG
Found at i:27546843 original size:5 final size:5
Alignment explanation
Indices: 27546833--27546872 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
27546823 AGCTTGCACC
27546833 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
27546873 TTATTTAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:27555563 original size:25 final size:25
Alignment explanation
Indices: 27555514--27555568 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
27555504 GAGAAAAGAG
27555514 AAAGTTAGGGATTTAGTGGTGATAT
1 AAAGTTAGGGATTTAGTGGTGATAT
27555539 CAAAGTTAGGGATTT-GTGGTGATAT
1 -AAAGTTAGGGATTTAGTGGTGATAT
27555564 AAAGT
1 AAAGT
27555569 AATAAGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.17
25 10 0.34
26 14 0.48
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (25 bp):
AAAGTTAGGGATTTAGTGGTGATAT
Found at i:27567177 original size:36 final size:36
Alignment explanation
Indices: 27567131--27567203 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
27567121 TTATGTATGC
27567131 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
1 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
*
27567167 ATGCATTCAAACTTACTTAAAAATATTTAAGAACTT
1 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
27567203 A
1 A
27567204 GTCCAAGGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (36 bp):
ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
Found at i:27572796 original size:10 final size:10
Alignment explanation
Indices: 27572781--27572809 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
27572771 TTAAATTCTA
27572781 AAAGATAAAT
1 AAAGATAAAT
27572791 AAAGATAAAT
1 AAAGATAAAT
27572801 AAAGATAAA
1 AAAGATAAA
27572810 AACTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27579156 original size:22 final size:21
Alignment explanation
Indices: 27579117--27579157 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27579107 AGATTTCTTT
*
27579117 AATTTCATTACTTAAATATTC
1 AATTTCAGTACTTAAATATTC
*
27579138 AATTTCAAGTACTTGAATAT
1 AATTTC-AGTACTTAAATAT
27579158 ATTATTGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (21 bp):
AATTTCAGTACTTAAATATTC
Found at i:27585410 original size:27 final size:27
Alignment explanation
Indices: 27585369--27585431 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
27585359 ATGGGTTAAT
*
27585369 TTTAAAAT-AAGTAATATGTAAAATAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
27585395 TTTAAAATAAAATAATATGTAAAGTAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
27585422 CTTAAAATAA
1 TTTAAAATAA
27585432 TTAGACTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTAAAATAAAATAATATGTAAAATAA
Found at i:27585479 original size:21 final size:21
Alignment explanation
Indices: 27585450--27585489 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27585440 ATAAGTTAGG
27585450 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
27585471 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
27585490 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:27588151 original size:50 final size:50
Alignment explanation
Indices: 27587855--27588151 Score: 252
Period size: 50 Copynumber: 5.9 Consensus size: 50
27587845 CAGGGAAACG
* * * *
27587855 AGATTCACCATCGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
* * * ** * * * *
27587905 AAATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
* * * **
27587955 AGATTCGCTGTTGTGGCTTTAATCTGTTCCACTACACCACCAGGGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
* * * **
27588005 AGATTCGCCGTTGTGGCTTTAATCTATTCCACTACACTGCTTGGGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
* * ** * * * * *
27588055 AGATTCACCGCTGTGGCTTTAATCTTTTTAAGTGCAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
* * * * * *
27588105 AGATTCGCCATTGTGGCTTTAATTTGTTGCACTGCATTGCCTGGGAA
1 AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAA
27588152 AACTGGCTTC
Statistics
Matches: 193, Mismatches: 54, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 193 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
AGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTA
Found at i:27595557 original size:27 final size:27
Alignment explanation
Indices: 27595516--27595578 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
27595506 ATAGGTTAAT
*
27595516 TTTAAAAT-AAGTAATATGTAAAATAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
27595542 TTTAAAATAAAATAATATGTAAAGTAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
27595569 CTTAAAATAA
1 TTTAAAATAA
27595579 TTAGACTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTAAAATAAAATAATATGTAAAATAA
Found at i:27595626 original size:21 final size:21
Alignment explanation
Indices: 27595597--27595636 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27595587 ATAAGTTAGG
27595597 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
27595618 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
27595637 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:27613916 original size:40 final size:40
Alignment explanation
Indices: 27613686--27613909 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
27613676 TTGAATGATG
* * * *
27613686 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
27613725 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27613765 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27613804 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27613844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27613885 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27613910 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
39 53 0.33
40 99 0.62
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27613916 original size:80 final size:79
Alignment explanation
Indices: 27613686--27613928 Score: 289
Period size: 79 Copynumber: 3.1 Consensus size: 79
27613676 TTGAATGATG
* * * *
27613686 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
*
27613749 TGTGCGAGATACTAAT
65 TGTGCGAG-TACTAAA
*
27613765 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACTAAGATCCGAAGGCATT
27613828 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
* * *
27613844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT-CCGAAGGCATT
** *
27613908 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
27613924 TCCGG
1 TCCGG
27613929 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
78 10 0.07
79 67 0.47
80 64 0.45
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:27618278 original size:39 final size:40
Alignment explanation
Indices: 27618183--27618405 Score: 241
Period size: 39 Copynumber: 5.7 Consensus size: 40
27618173 TTGAATGATG
*
27618183 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27618221 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27618262 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
27618301 TCCGTGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27618340 TCCGGGTTAAGTCCCGAAGGCATTTG-GCCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGA-TACTAAT
* *
27618379 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27618406 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
39 92 0.57
40 57 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27623199 original size:27 final size:27
Alignment explanation
Indices: 27623169--27623373 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
27623159 TTATTGAGCC
* * *
27623169 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
27623196 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
27623223 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* * **
27623250 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAAAT
** ** *
27623278 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
**
27623305 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAAAT
* * *
27623332 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACATAATCAAAT
27623359 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27623374 GTACAATTTA
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:27623253 original size:54 final size:55
Alignment explanation
Indices: 27623169--27623373 Score: 218
Period size: 54 Copynumber: 3.8 Consensus size: 55
27623159 TTATTGAGCC
* * * * *
27623169 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAAT-CAAAT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
* * * *
27623223 CGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
** ** * *
27623278 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTA-CATAATCCATAT
* * *
27623332 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCT
27623374 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
54 85 0.67
55 41 0.33
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
Found at i:27623288 original size:82 final size:81
Alignment explanation
Indices: 27623169--27623373 Score: 216
Period size: 82 Copynumber: 2.5 Consensus size: 81
27623159 TTATTGAGCC
* * * * * *
27623169 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
*
27623234 TGC-TACGTAAT-CAAAT
66 TGCAT-CAT-ATCCAAAT
* ** ** *
27623250 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 CGCACACTTAGTGCAACATAGTCCA-CTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
**
27623315 GTGCATCATATCCATTT
65 GTGCATCATATCCAAAT
* *
27623332 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCT
27623374 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 37 0.36
82 65 0.63
83 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
TGCATCATATCCAAAT
Found at i:27629177 original size:38 final size:38
Alignment explanation
Indices: 27629013--27629217 Score: 134
Period size: 38 Copynumber: 5.6 Consensus size: 38
27629003 GAATGAGTCC
* *
27629013 GGCTAAGTCCCGAAGGC-TTGTGCTAAGTGAC-AATATCCG
1 GGCTAAGTCCCGAAGGCATT-TG-TGAGTTACTAA-ATCCG
* * * *
27629052 GACTAAGAT-CCGAAGGCA-TTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGAGTTACTAAATCCG
27629089 GGCTAAG--CC--A-G-ATTTGTCGAGTTAC-AAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGT-GAGTTACTAAATCCG
*
27629120 GACTAAGAT-CCGAAGGCATTTGTGAGTTACTAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGAGTTACTAAATCCG
* * *
27629158 GGTTAAGTCCCGAAGGCA-TTGTGCGAATACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGAG-TTACTA-AATCCG
*
27629196 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
27629218 AACGAGGAGC
Statistics
Matches: 132, Mismatches: 17, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
31 9 0.07
32 7 0.05
33 9 0.07
35 3 0.02
36 8 0.06
37 31 0.23
38 44 0.33
39 20 0.15
40 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (38 bp):
GGCTAAGTCCCGAAGGCATTTGTGAGTTACTAAATCCG
Found at i:27641557 original size:76 final size:78
Alignment explanation
Indices: 27641458--27641609 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 78
27641448 TGACAATATC
*
27641458 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGT
1 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
27641522 ACGAGTTACTAAT
66 ACGAGTTACTAAT
* *
27641535 CGGACTAAGAT-CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
*
27641599 GCGAGTTACTA
66 ACGAGTTACTA
27641610 TAACCGGGCT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 34 0.49
77 36 0.51
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
ACGAGTTACTAAT
Found at i:27641644 original size:40 final size:39
Alignment explanation
Indices: 27641418--27641637 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 39
27641408 TGAATGATGT
* * *
27641418 CCGGGCTAAGTCCCAAAGGC--TTGTGCTAAGTGAC-AATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
27641456 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
27641497 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACT-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27641534 TCGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27641572 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27641613 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27641638 AACGAGTAGC
Statistics
Matches: 151, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 30 0.20
38 4 0.03
39 45 0.30
40 61 0.40
41 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27648163 original size:40 final size:37
Alignment explanation
Indices: 27648106--27648349 Score: 193
Period size: 40 Copynumber: 6.1 Consensus size: 37
27648096 TTGAATGATG
* * *
27648106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
27648146 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
27648185 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
27648225 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
* **
27648265 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-A
* * * **
27648305 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTA-CTA-A
27648345 TCCGG
1 TCCGG
27648350 TTAAATTCCG
Statistics
Matches: 175, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
39 37 0.21
40 129 0.74
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:27648238 original size:79 final size:81
Alignment explanation
Indices: 27648106--27648330 Score: 300
Period size: 80 Copynumber: 2.8 Consensus size: 81
27648096 TTGAATGATG
* * * *
27648106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
27648170 TGTGCGAGATACT-AAT
65 TGTGCGAGATACTAAAT
*
27648186 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
27648250 GTGCGAGTTACTAAAT
66 GTGCGAGATACTAAAT
* * *
27648266 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
27648328 TTG
64 TTG
27648331 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
79 61 0.47
80 67 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAAT
Found at i:27655980 original size:27 final size:27
Alignment explanation
Indices: 27655950--27656127 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27655940 ATATTGAGTC
* * * *
27655950 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27655977 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27656004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27656032 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27656059 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27656086 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27656113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27656128 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27656089 original size:82 final size:81
Alignment explanation
Indices: 27655971--27656126 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27655961 TGCTATATAA
* *
27655971 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27656036 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27656053 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27656117 CACTTAGTGC
65 CACTTAGTGC
27656127 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27669911 original size:3 final size:3
Alignment explanation
Indices: 27669903--27669948 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
27669893 ATAAAAAAGG
* * *
27669903 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAC AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27669949 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:27669915 original size:9 final size:9
Alignment explanation
Indices: 27669906--27669948 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
27669896 AAAAAGGAAT
*
27669906 AATAATAAT
1 AATAATAAC
27669915 AATAATAAC
1 AATAATAAC
27669924 AATAATAAC
1 AATAATAAC
27669933 AATAATAAC
1 AATAATAAC
27669942 AATAATA
1 AATAATA
27669949 GTATTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAATAAC
Found at i:27669992 original size:5 final size:6
Alignment explanation
Indices: 27669973--27670030 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
27669963 TTTGGAATTC
* * *
27669973 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
*
27670024 AGATAA A
1 AAATAA A
27670031 CTAAATTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 32 0.74
7 7 0.16
8 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:27673061 original size:47 final size:47
Alignment explanation
Indices: 27672988--27673086 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
27672978 CTTCTAGGAT
* *
27672988 ACTCTCATATGGTTATTCCAGCAACTTTTACCAATGGGAAGTTTTAG
1 ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
* *
27673035 ACTCTCATATGGTTATTCCCGTAACTTTTACAAATGGGAAGTTTCAG
1 ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
27673082 ACTCT
1 ACTCT
27673087 GGGACCCTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (47 bp):
ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
Found at i:27677888 original size:88 final size:88
Alignment explanation
Indices: 27677572--27677992 Score: 467
Period size: 87 Copynumber: 4.8 Consensus size: 88
27677562 AAAATAAAGT
* * * *
27677572 TCAGTTGCAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTACATTGACAGTGAAGCAAAT
1 TCAGTTGCAGTGGAGCGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
*
27677637 CGAA-AACAAAGCCTTGCCTCCA
66 CGAAGAACAAAGCCTTGCCTCCC
* * *
27677659 TCAGTTGCAGTGGAGTGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAACAGAT
1 TCAGTTGCAGTGGAGCGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
* * *
27677724 C-AAAAACAAAGACTTGCCTTCC
66 CGAAGAACAAAGCCTTGCCTCCC
*
27677746 TC-GATTGCAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
1 TCAG-TTGCAGTGGAGCGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
* * ** *
27677810 TTGAAGACCCCAGCCTTGCCCCCC
65 TCGAAGAACAAAGCCTTGCCTCCC
* ** * * * **
27677834 TCGGTTGCAGTGGAGTAGGTTGCAA-ATAACAGATCTTGCCTTCCTGCGTAGACAGTAAAGCAGA
1 TCAGTTGCAGTGGAGCGGGTTG-AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
*
27677898 TCGAAG-ACACCAG-CTTCGCCTCCC
65 TCGAAGAACA-AAGCCTT-GCCTCCC
* * ** * * *
27677922 TCAGTTACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATACTGACGGCAAAGCAGAT
1 TCAGTTGCAGTGGAGCGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
27677987 CGAAGA
66 CGAAGA
27677993 CGGTGAATCT
Statistics
Matches: 280, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
86 3 0.01
87 139 0.50
88 135 0.48
89 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (88 bp):
TCAGTTGCAGTGGAGCGGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
CGAAGAACAAAGCCTTGCCTCCC
Found at i:27678131 original size:129 final size:129
Alignment explanation
Indices: 27677982--27678265 Score: 460
Period size: 129 Copynumber: 2.2 Consensus size: 129
27677972 GACGGCAAAG
*
27677982 CAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAGTCATTTC
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAGTCATTTC
*
27678047 TCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAGCAGGTCTTATCCCCCTGAAGTTACAGTGGGA
66 TCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAGCAGGTCTTATCCCCCTAAAGTTACAGTGGGA
* * *
27678111 CAGATCGAAGACGGCGAATCTTATCTTCAAGTTTAAGGAAGCAGATTTAAGCCACAAGTCCTTTC
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAGTCATTTC
* * *
27678176 TCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAGCAGGTCTTATCCCTCTAAAGTTGCAGTGGGG
66 TCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAGCAGGTCTTATCCCCCTAAAGTTACAGTGGGA
* * * *
27678240 CAAATCGAAGATGGCAAATCTCATCT
1 CAGATCGAAGACGGCGAATCTTATCT
27678266 CCTTGAGGAT
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 143 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (129 bp):
CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAGTCATTTC
TCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAGCAGGTCTTATCCCCCTAAAGTTACAGTGGGA
Found at i:27678455 original size:44 final size:45
Alignment explanation
Indices: 27678386--27678480 Score: 106
Period size: 44 Copynumber: 2.1 Consensus size: 45
27678376 ATCGCATCAG
* *
27678386 GTCTTATCTCCCTAAGGTTACAGTGGAGCAGGCTGAGAA-AGCAA
1 GTCTTATCCCCCTAAGGTTACAGTGGAGCAGACTGAGAATAGCAA
* *
27678430 GTCTTATCCCCCTGAA-GTT-CTAGTGGGGCAGATTGAGAATAGCAA
1 GTCTTATCCCCCT-AAGGTTAC-AGTGGAGCAGACTGAGAATAGCAA
*
27678475 ATCTTA
1 GTCTTA
27678481 CTGCCCAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 30 0.70
45 12 0.28
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (45 bp):
GTCTTATCCCCCTAAGGTTACAGTGGAGCAGACTGAGAATAGCAA
Found at i:27678848 original size:13 final size:13
Alignment explanation
Indices: 27678830--27678854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27678820 TTAAAAGTCC
27678830 AATTACAATGGGT
1 AATTACAATGGGT
27678843 AATTACAATGGG
1 AATTACAATGGG
27678855 CCAAATTCAT
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:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (13 bp):
AATTACAATGGGT
Found at i:27684476 original size:10 final size:10
Alignment explanation
Indices: 27684461--27684511 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
27684451 TTGGGTTAAG
27684461 ATTGAGCTGA
1 ATTGAGCTGA
27684471 ATTGAGCTCGA
1 ATTGAGCT-GA
27684482 A-TGAGCTGA
1 ATTGAGCTGA
* *
27684491 CTTGAGCTCA
1 ATTGAGCTGA
*
27684501 AGTGAGCTGA
1 ATTGAGCTGA
27684511 A
1 A
27684512 CTAAGTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:27684488 original size:20 final size:20
Alignment explanation
Indices: 27684463--27684511 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
27684453 GGGTTAAGAT
27684463 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
27684483 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
27684503 TGAGCTGAA
1 TGAGCTGAA
27684512 CTAAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:27686937 original size:24 final size:25
Alignment explanation
Indices: 27686910--27686956 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
27686900 CTGTGGTTAA
* *
27686910 ATGACTGGTTTGTTTGTG-TTTGGT
1 ATGACTGATTTGTCTGTGATTTGGT
27686934 ATGACTGATTTGTCTGTGATTTG
1 ATGACTGATTTGTCTGTGATTTG
27686957 AGTGATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.13, C:0.06, G:0.30, T:0.51
Consensus pattern (25 bp):
ATGACTGATTTGTCTGTGATTTGGT
Found at i:27687194 original size:32 final size:32
Alignment explanation
Indices: 27687142--27687328 Score: 241
Period size: 32 Copynumber: 5.8 Consensus size: 32
27687132 ACGATGCTAT
* *
27687142 TGATGGCTTTGTGCCAATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * * *
27687174 TAATGGCTATGTACCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
27687206 TGATGG-TTGTGTGCCGATCATATTACTACTAT
1 TGATGGCTT-TGTGCCGATCATATTACTATTAC
* *
27687238 TGATGGCTTTGTACCGATCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
27687270 TGATGGCTATGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
27687302 TGATGGCTTTGTGCCAATCATATTACT
1 TGATGGCTTTGTGCCGATCATATTACT
27687329 GTACTTGTGG
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
31 1 0.01
32 130 0.98
33 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:27687258 original size:96 final size:96
Alignment explanation
Indices: 27687138--27687328 Score: 285
Period size: 96 Copynumber: 2.0 Consensus size: 96
27687128 TACTACGATG
* * *
27687138 CTATTGATGGCTTTGTGCCAATCATATTACCATTACTAATGGCTATGTACCGATCATATTACCAT
1 CTATTGATGGCTTTGTACCAATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
*
27687203 TACTGATGG-TTGTGTGCCGATCATATTACTA
66 TACTGATGGCTT-TGTGCCAATCATATTACTA
* * * * *
27687234 CTATTGATGGCTTTGTACCGATCATACTACTATTACTGATGGCTATGTGCCGATCATATTACTAC
1 CTATTGATGGCTTTGTACCAATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
27687299 TACTGATGGCTTTGTGCCAATCATATTACT
66 TACTGATGGCTTTGTGCCAATCATATTACT
27687329 GTACTTGTGG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 83 0.98
97 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (96 bp):
CTATTGATGGCTTTGTACCAATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
TACTGATGGCTTTGTGCCAATCATATTACTA
Found at i:27695844 original size:17 final size:18
Alignment explanation
Indices: 27695811--27695844 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27695801 ATGATGTGCC
*
27695811 AAACTATTTTTATGCTTG
1 AAACTATTTTGATGCTTG
27695829 AAACTA-TTTGATGCTT
1 AAACTATTTTGATGCTT
27695845 ACTATCCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (18 bp):
AAACTATTTTGATGCTTG
Found at i:27702610 original size:20 final size:20
Alignment explanation
Indices: 27702581--27702621 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27702571 CATAGACATA
27702581 CATACAATCTCTAAATCAAG
1 CATACAATCTCTAAATCAAG
*
27702601 CATACCATCTCTAAATCAAG
1 CATACAATCTCTAAATCAAG
27702621 C
1 C
27702622 CCTCGAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
CATACAATCTCTAAATCAAG
Found at i:27702900 original size:25 final size:25
Alignment explanation
Indices: 27702866--27702945 Score: 115
Period size: 25 Copynumber: 3.2 Consensus size: 25
27702856 GTCAGACGGT
* * *
27702866 CGTGTCACACGCCCATGAGCCAAGC
1 CGTGTCACACGCCTATGTGCCAGGC
*
27702891 CGTGTCACACGCCTGTGTGCCAGGC
1 CGTGTCACACGCCTATGTGCCAGGC
*
27702916 CATGTCACACGCCTATGTGCCAGGC
1 CGTGTCACACGCCTATGTGCCAGGC
27702941 CGTGT
1 CGTGT
27702946 AACTCTCTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (25 bp):
CGTGTCACACGCCTATGTGCCAGGC
Found at i:27707463 original size:51 final size:51
Alignment explanation
Indices: 27707335--27707518 Score: 196
Period size: 51 Copynumber: 3.6 Consensus size: 51
27707325 TATCATTCAA
* ** *
27707335 TACACATAGTAGCCTTCACATAGTACTACACACGTG-ATCACGTTTTACGG
1 TACACATAGTAGCCTTCACATAGTACTACACATGTGAAAAAAGTTTTACGG
* *
27707385 TTCACATAGTAGCCTTCACATAGTACTACACATGTGAAAAAAGCTTTT-TGG
1 TACACATAGTAGCCTTCACATAGTACTACACATGTGAAAAAAG-TTTTACGG
* ** * *
27707436 TACACATAGTAGCCTTCACTTAGTACTACACATGTG--ACCATTATTTATCGA
1 TACACATAGTAGCCTTCACATAGTACTACACATGTGAAAAAAGT-TTTA-CGG
* *
27707487 TACACGTACTAGCCTTCACATAGTACTACACA
1 TACACATAGTAGCCTTCACATAGTACTACACA
27707519 CGTGTTCATC
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 5 0.04
50 34 0.30
51 69 0.61
52 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (51 bp):
TACACATAGTAGCCTTCACATAGTACTACACATGTGAAAAAAGTTTTACGG
Found at i:27714993 original size:51 final size:50
Alignment explanation
Indices: 27714861--27715053 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 50
27714851 ACTATTATCA
* *
27714861 TTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATC-AAGTT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAAGTT
* * * *
27714910 TTATGGTTCACATAGTAGCCTTCACATGGTACTACACACGTGA-CAAAAGCTT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AAAG-TT
* * * *
27714962 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATTA-TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCA-AAGTT
*
27715012 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTG
27715054 TCCATCGATA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.02
50 37 0.31
51 75 0.62
52 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAAGTT
Found at i:27714999 original size:26 final size:26
Alignment explanation
Indices: 27714967--27715049 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
27714957 AGCTTTTCGG
27714967 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * *
27714993 TACACAT-GTGATCATT-ATTTA-T-C
1 TACACATAGT-AGCCTTCACTTAGTAC
* *
27715016 GATACACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
27715044 TACACA
1 TACACA
27715050 CGTGTCCATC
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 16 0.39
26 21 0.51
27 1 0.02
28 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:27715004 original size:101 final size:102
Alignment explanation
Indices: 27714861--27715053 Score: 273
Period size: 101 Copynumber: 1.9 Consensus size: 102
27714851 ACTATTATCA
* * *
27714861 TTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAGT-TTTAT-GGTTCACATA
1 TTCGATACACATAGTAGCCTTCACATAATACTACACACGTGATC-AGTATTTATCGATACACATA
*
27714924 GTAGCCTTCACATGGTACTACACACGTGACAAAAGCTT
65 GTAGCCTTCACATAGTACTACACACGTGACAAAAGCTT
* * * * * *
27714962 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATTATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACATAATACTACACACGTGATCAGTATTTATCGATACACATAG
27715027 TAGCCTTCACATAGTACTACACACGTG
66 TAGCCTTCACATAGTACTACACACGTG
27715054 TCCATCGATA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 2 0.03
101 44 0.55
102 34 0.43
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACATAATACTACACACGTGATCAGTATTTATCGATACACATAG
TAGCCTTCACATAGTACTACACACGTGACAAAAGCTT
Found at i:27716543 original size:27 final size:27
Alignment explanation
Indices: 27716505--27716674 Score: 250
Period size: 27 Copynumber: 6.3 Consensus size: 27
27716495 TAGATTAGGT
27716505 ATTCCTTTCATATATTGCCACAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
* *
27716532 ATTCCTTTCATATATTACCACAAAGGA
1 ATTCCTTTCATATATTGCCACAAAGGC
** *
27716559 ATTCCTTTCATATATTGTGAAAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
27716586 ATTCCTTTCATATATTGCCACAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
* *
27716613 GTTCCTTTCATATATTGCCACAAAGCC
1 ATTCCTTTCATATATTGCCACAAAGGC
* * *
27716640 AATCCTTTCATATATTGCCAAAAAGCC
1 ATTCCTTTCATATATTGCCACAAAGGC
27716667 ATTCCTTT
1 ATTCCTTT
27716675 TCTAGCGTGT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (27 bp):
ATTCCTTTCATATATTGCCACAAAGGC
Found at i:27719182 original size:40 final size:40
Alignment explanation
Indices: 27719098--27719322 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
27719088 TTGAATGATG
* * *
27719098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * *
27719138 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
*
27719178 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
27719217 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
27719257 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
*
27719298 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27719323 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:27719340 original size:80 final size:80
Alignment explanation
Indices: 27719098--27719355 Score: 233
Period size: 80 Copynumber: 3.2 Consensus size: 80
27719088 TTGAATGATG
* * * * * *
27719098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** * *
27719161 TTGTGCAAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * * *
27719178 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
27719242 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
*
27719257 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
27719321 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
27719337 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27719356 TACGTGATTT
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 76 0.50
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:27719344 original size:119 final size:119
Alignment explanation
Indices: 27719098--27719355 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
27719088 TTGAATGATG
* *
27719098 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
27719163 GTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
27719217 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
27719280 TTGTGCAA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCAAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
27719337 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27719356 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:27727109 original size:39 final size:40
Alignment explanation
Indices: 27727008--27727231 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
27726998 TTGAATGATG
*
27727008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27727047 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27727088 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27727127 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27727166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
27727205 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27727232 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
39 75 0.45
40 76 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27727195 original size:79 final size:81
Alignment explanation
Indices: 27727008--27727231 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
27726998 TTGAATGATG
* * *
27727008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
27727071 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
27727088 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
27727149 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
27727166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
27727230 TG
66 TG
27727232 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
78 37 0.29
79 54 0.42
80 37 0.29
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:27727253 original size:79 final size:79
Alignment explanation
Indices: 27727008--27727264 Score: 226
Period size: 79 Copynumber: 3.3 Consensus size: 79
27726998 TTGAATGATG
* * * *
27727008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
27727070 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
27727088 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
27727152 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
27727166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
27727229 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
27727246 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27727265 TACGTGATTT
Statistics
Matches: 154, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
77 1 0.01
78 37 0.24
79 67 0.44
80 48 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:27746660 original size:39 final size:40
Alignment explanation
Indices: 27746565--27746826 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27746555 TTGAATGATG
*
27746565 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27746603 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27746644 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
27746683 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27746722 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27746761 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
27746800 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27746827 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27746859 original size:79 final size:79
Alignment explanation
Indices: 27746617--27746851 Score: 266
Period size: 78 Copynumber: 3.0 Consensus size: 79
27746607 GGACTAAGAT
* **
27746617 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTA
* * *
27746681 ATTCCGGGCT-AAGC
65 AATCCGGGTTAAATC
* ** *
27746695 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
27746760 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
27746774 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
27746836 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
27746852 TCTGAAGGTA
Statistics
Matches: 140, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 73 0.52
79 41 0.29
80 25 0.18
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:27754757 original size:40 final size:40
Alignment explanation
Indices: 27754519--27754743 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
27754509 TTGAATGATG
* * * *
27754519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
27754559 TCCGGACTAAGAT-CCGAAGCCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27754599 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27754638 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27754678 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27754719 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27754744 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27754765 original size:119 final size:119
Alignment explanation
Indices: 27754519--27754766 Score: 274
Period size: 119 Copynumber: 2.1 Consensus size: 119
27754509 TTGAATGATG
* *
27754519 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGCCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCCATTT
* ** *
27754584 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * ** *
27754638 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGCCAT
* *
27754701 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
27754758 TCC-GGTTAA
1 TCCGGGTTAA
27754767 ATTCCAAAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
118 4 0.04
119 73 0.67
120 32 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:27763153 original size:13 final size:13
Alignment explanation
Indices: 27763135--27763162 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27763125 AAGTACACTG
27763135 TTGCATTTTAGTA
1 TTGCATTTTAGTA
27763148 TTGCATTTTAGTA
1 TTGCATTTTAGTA
27763161 TT
1 TT
27763163 ACAGGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGCATTTTAGTA
Found at i:27765181 original size:30 final size:30
Alignment explanation
Indices: 27765150--27765345 Score: 150
Period size: 30 Copynumber: 6.6 Consensus size: 30
27765140 GGAGGTTATT
* *
27765150 AAATTATGAAAAGGGATGGTGACGACCATT
1 AAATAATGAAAAGGGATGGTGACGACCATC
*
27765180 AAATAATGAAAAGGGATGGTGATGACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
* * * * *
27765210 GAACAATGAAAAGGGATGGCT-TCGGCTATC
1 AAATAATGAAAAGGGATGG-TGACGACCATC
* ** * * * *
27765240 CAATTGTAAAAATGGAGA-GCT-TCTG-CTATC
1 AAATAATGAAAA-GG-GATGGTGAC-GACCATC
* *
27765270 AAATTATGAGAAGGGATGGTGACGACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
* *
27765300 -AACAATGAAAAGGGATGGTGACGACTATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
27765329 AAATAATGAAAAGGGAT
1 AAATAATGAAAAGGGAT
27765346 AGCTTCGGTT
Statistics
Matches: 131, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 30 0.23
30 92 0.70
31 5 0.04
32 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (30 bp):
AAATAATGAAAAGGGATGGTGACGACCATC
Found at i:27765312 original size:29 final size:30
Alignment explanation
Indices: 27765275--27765345 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 30
27765265 CTATCAAATT
*
27765275 ATGAGAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* *
27765304 ATGAAAAGGGATGGTGACGACTATCAAATA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
27765334 ATGAAAAGGGAT
1 ATGAAAAGGGAT
27765346 AGCTTCGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCAAACA
Found at i:27765367 original size:89 final size:90
Alignment explanation
Indices: 27765185--27765388 Score: 225
Period size: 89 Copynumber: 2.3 Consensus size: 90
27765175 CCATTAAATA
* * * * **
27765185 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGCTTCGGCTATCCAATTGTAAA
1 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACTATCAAATAATAAA
* * *
27765250 AATGGAGAGCTTCTGCTATCAAATT
66 AAGGGAGAGCTTCGGCTATCAAACT
* *
27765275 ATGAGAAGGGATGGTGACGACCATC-AACAATGAAAAGGGATGG-TGACGACTATCAAATAATGA
1 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCT-ACGACTATCAAATAATAA
* * * *
27765338 AAAGGGATAGCTTCGGTTATCGAGCT
65 AAAGGGAGAGCTTCGGCTATCAAACT
* *
27765364 ATGAAAAGGGTTGG-GACAACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
27765389 TGATTTTATT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
88 10 0.11
89 61 0.65
90 23 0.24
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACTATCAAATAATAAA
AAGGGAGAGCTTCGGCTATCAAACT
Found at i:27772065 original size:75 final size:75
Alignment explanation
Indices: 27771932--27772079 Score: 242
Period size: 75 Copynumber: 2.0 Consensus size: 75
27771922 AGAAAATCAT
* * *
27771932 GATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATTACATTCTTTTCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTACATTCTTTCCAA
27771997 AAGAATATAA
66 AAGAATATAA
* **
27772007 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATTAATTTTATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTACATTCTTTCCAA
27772072 AAGAATAT
66 AAGAATAT
27772080 TAATTATCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTACATTCTTTCCAA
AAGAATATAA
Found at i:27772401 original size:138 final size:138
Alignment explanation
Indices: 27772052--27772767 Score: 936
Period size: 138 Copynumber: 5.1 Consensus size: 138
27772042 AGTTAGAAAA
* * *
27772052 ATTAATTTTATTCTTTCCAAAAGAATATTAATTAT-CATGTCTTTTATATTTTGACCGAAATTAA
1 ATTAATTATATTCTTTCCAAAAGAATATTAATT-TCCATATATTTTATATTTTGACCGAAATTAA
* * * *
27772116 TTAATATAATTGTTTATATTAATAAATTTC-ATAAAATATATACATTTAATTATATTCTATGAAT
65 TTAATATAATTGTTTATATTAATAAA-TTCGGTAAAATATATACAATTAA-TATTTTGTATGAAT
27772180 CAAATTCATATATAT
128 CAAATTC----ATAT
* * * *
27772195 ATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATCTCTTTTATATTTTGACCAAAATTAAT
1 ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
27772260 TAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAA
66 TAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAA
27772325 ATTCATAT
131 ATTCATAT
* * *
27772333 ATTAATTATATTATTTTCAAAAGAATATTAATTTCCATATATTTTATATTTTGATCGAAATTAAT
1 ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
* ** *
27772398 TAATATAACTGTTTATATTAATAAATTTAGTAAAAATATATAAACAAATAATATTTTGTATGAAT
66 TAATATAATTGTTTATATTAATAAATTCGGT-AAAATATAT--ACAATTAATATTTTGTATGAAT
27772463 CAAATTCATAT
128 CAAATTCATAT
* *
27772474 ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTGACCGAAATTAAT
1 ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
* * *
27772539 TAATACAATTGTTTATGTTAATAAATTCGGTAAAAAATATACAATTAATATTTTGTATGAATCAA
66 TAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAA
27772604 ATTC--AT
131 ATTCATAT
*
27772610 ATTAATTATATTCTTTCCAAAAGAATATTAATTTTCAATATTAATTTTCATGTCTTTTATATTTT
1 ATTAATTATATTCTTTCCAAAAGAATATTAA-TTTC--CA-T-A---T-A----TTTTATATTTT
* * * *
27772675 GACCAAAATTTATTAATATAATTGTTTTTATTAATAAATTCGGTAAAATATATACAATTAATTTT
53 GACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATT
*
27772740 TTATATGAATCAAATTCATAT
118 TTGTATGAATCAAATTCATAT
27772761 ATTAATT
1 ATTAATT
27772768 TTATCTATGT
Statistics
Matches: 512, Mismatches: 41, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
136 33 0.06
137 4 0.01
138 118 0.23
139 10 0.02
140 9 0.02
141 118 0.23
142 23 0.04
143 102 0.20
144 1 0.00
145 1 0.00
149 84 0.16
151 9 0.02
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
TAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAA
ATTCATAT
Found at i:27772562 original size:279 final size:274
Alignment explanation
Indices: 27772052--27772767 Score: 950
Period size: 279 Copynumber: 2.5 Consensus size: 274
27772042 AGTTAGAAAA
* * *
27772052 ATTAATTTTATTCTTTCCAAAAGAATATTAATTAT-CATGTCTTTTATATTTTGACCGAAATTAA
1 ATTAATTATATTCTTTCCAAAAGAATATTAATT-TCCATATATTTTATATTTTGACCGAAATTAA
* * *
27772116 TTAATATAATTGTTTATATTAATAAATTTCA-TAAAATATATACATTTAATTATATTCTATGAAT
65 TTAATATAATTGTTTATATTAATAAATTT-AGTAAAATATATACAATTAA-TATTTTATATGAAT
* * *
27772180 CAAATTCATATATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATCTCTTTTATATT
128 CAAATTC----ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATCTATTTTACATT
* *
27772245 TTGACCAAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATA
189 TTGACCAAAATTAATTAATACAATTGTTTATATTAATAAATTCGGTAAAAAATATACAATTAATA
27772310 TTTTGTATGAATCAAATTCATAT
254 TTTTGTATGAATCAAATTC--AT
* * *
27772333 ATTAATTATATTATTTTCAAAAGAATATTAATTTCCATATATTTTATATTTTGATCGAAATTAAT
1 ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
* * *
27772398 TAATATAACTGTTTATATTAATAAATTTAGTAAAAATATATAAACAAATAATATTTTGTATGAAT
66 TAATATAATTGTTTATATTAATAAATTTAGT-AAAATATAT--ACAATTAATATTTTATATGAAT
*
27772463 CAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTGA
128 CAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATCTATTTTACATTTTGA
* *
27772528 CCGAAATTAATTAATACAATTGTTTATGTTAATAAATTCGGTAAAAAATATACAATTAATATTTT
193 CCAAAATTAATTAATACAATTGTTTATATTAATAAATTCGGTAAAAAATATACAATTAATATTTT
27772593 GTATGAATCAAATTCAT
258 GTATGAATCAAATTCAT
*
27772610 ATTAATTATATTCTTTCCAAAAGAATATTAATTTTCAATATTAATTTTCATGTCTTTTATATTTT
1 ATTAATTATATTCTTTCCAAAAGAATATTAA-TTTC--CA-T-A---T-A----TTTTATATTTT
* * * ** *
27772675 GACCAAAATTTATTAATATAATTGTTTTTATTAATAAATTCGGTAAAATATATACAATTAATTTT
53 GACCGAAATTAATTAATATAATTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATT
27772740 TTATATGAATCAAATTCATATATTAATT
118 TTATATGAATCAAATTCATATATTAATT
27772768 TTATCTATGT
Statistics
Matches: 385, Mismatches: 32, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
277 31 0.08
278 4 0.01
279 130 0.34
280 3 0.01
281 86 0.22
282 10 0.03
283 19 0.05
284 6 0.02
285 1 0.00
286 1 0.00
287 37 0.10
289 9 0.02
290 48 0.12
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (274 bp):
ATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAAT
TAATATAATTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTATATGAATCAA
ATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATCTATTTTACATTTTGACCA
AAATTAATTAATACAATTGTTTATATTAATAAATTCGGTAAAAAATATACAATTAATATTTTGTA
TGAATCAAATTCAT
Found at i:27772651 original size:13 final size:13
Alignment explanation
Indices: 27772633--27772659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27772623 TTTCCAAAAG
27772633 AATATTAATTTTC
1 AATATTAATTTTC
27772646 AATATTAATTTTC
1 AATATTAATTTTC
27772659 A
1 A
27772660 TGTCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTAATTTTC
Found at i:27779569 original size:43 final size:43
Alignment explanation
Indices: 27779521--27779608 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
27779511 AGTAATTATT
27779521 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
1 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
* *
27779564 TTATGTGATTAATTTAATATTAATTTTTCAAATCTACAATCCC
1 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
27779607 TT
1 TT
27779609 GGGTACGATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (43 bp):
TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
Found at i:27783670 original size:40 final size:40
Alignment explanation
Indices: 27783615--27783802 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
27783605 ACTGAAGTGT
* *
27783615 AAACAGGGGCATGTATGTGCAATCTGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
** * *
27783655 AAACAGGGGCGTGTATGTGCAATCAGGGGTAACGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
* * *
27783695 AAACAAGGGCACGTATGTGCAATCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
* * *
27783735 AAACAGTGGCACGTATGTGCAATCAGGGATACCAAAATAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
27783775 AAACAGGGGCACGTATGTGCAATTCAGG
1 AAACAGGGGCACGTATGTGCAA-TCAGG
27783803 TATAATTAAC
Statistics
Matches: 132, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 127 0.96
41 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
Found at i:27791108 original size:40 final size:40
Alignment explanation
Indices: 27791064--27791194 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
27791054 GGTACATATT
* *
27791064 TGCAATCAGGGGTACTAAAGTAAAAATACGGGCACGTATG
1 TGCAATCAGGGGTACTAAAGTACAAATAGGGGCACGTATG
* * *
27791104 TGCAATCAGGGGTACCAAAGTACAAACAGGGGCATGTATG
1 TGCAATCAGGGGTACTAAAGTACAAATAGGGGCACGTATG
* * *
27791144 TGTAATTAGGGGTA-TCGAAGTACAAATAGGGGCACGTATG
1 TGCAATCAGGGGTACT-AAAGTACAAATAGGGGCACGTATG
*
27791184 TGAAATTCAGG
1 TGCAA-TCAGG
27791195 TATAATTAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 72 0.95
41 4 0.05
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (40 bp):
TGCAATCAGGGGTACTAAAGTACAAATAGGGGCACGTATG
Found at i:27793048 original size:21 final size:20
Alignment explanation
Indices: 27793020--27793086 Score: 109
Period size: 19 Copynumber: 3.4 Consensus size: 20
27793010 AGGTAGGCAA
*
27793020 CTTTTTTTTTGCACTTTTTG
1 CTTTTTTTTTGCGCTTTTTG
27793040 CTTCTTTTTTTGCGCTTTTTG
1 CTT-TTTTTTTGCGCTTTTTG
27793061 C-TTTTTTTTGCGCTTTTTG
1 CTTTTTTTTTGCGCTTTTTG
27793080 CTTTTTT
1 CTTTTTT
27793087 ATTCTGTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 18 0.41
20 9 0.20
21 17 0.39
ACGTcount: A:0.01, C:0.16, G:0.12, T:0.70
Consensus pattern (20 bp):
CTTTTTTTTTGCGCTTTTTG
Found at i:27793698 original size:31 final size:32
Alignment explanation
Indices: 27793639--27793703 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27793629 GGCAAATAAC
27793639 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27793671 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27793702 AA
1 AA
27793704 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27799793 original size:15 final size:15
Alignment explanation
Indices: 27799747--27799794 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 15
27799737 CACCATAAGA
27799747 TTCTACCCCATCAAC
1 TTCTACCCCATCAAC
*
27799762 TTCACCTTCCCCATCAAC
1 TT---CTACCCCATCAAC
*
27799780 TTCTACCCCTTCAAC
1 TTCTACCCCATCAAC
27799795 ATCACCCTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 13 0.48
18 14 0.52
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (15 bp):
TTCTACCCCATCAAC
Found at i:27800506 original size:117 final size:116
Alignment explanation
Indices: 27800300--27800624 Score: 524
Period size: 117 Copynumber: 2.8 Consensus size: 116
27800290 GGTAACAGAA
* * *
27800300 ATCAACAGCATCGGGACCACTGTCACATCACAAATCGACAAAACAAAACCTACATTGTGGCACTA
1 ATCAACAACATCGGGACCACTGTCGCATCACAAATCGACAAAAC-AAACCTACATTGTGGCACTG
* *
27800365 AAATTGCAATAATAAATCACAAATAACCATATACAATTTTAACAACAGCTTT
65 AAATTGCAATAATAAATCACAAATAACCATATACAAGTTTAACAACAACTTT
* * *
27800417 ATCAACAACATCGAGACCATTGTCGCATCACAAATTGACAAAACAAACCTTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTGTCGCATCACAAATCGACAAAACAAACC-TACATTGTGGCACTG
*
27800482 AAATTGCAATAATAAATCACAAATAACCATCTACAAGTTTAACAACAACTTT
65 AAATTGCAATAATAAATCACAAATAACCATATACAAGTTTAACAACAACTTT
*
27800534 ATCAACAACATTGGGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTGTCGCATCACAAATCGACAAAACAAA-CCTACATTGTGGCACTG
*
27800599 AAATTACAATAATAAATCACAAATAA
65 AAATTGCAATAATAAATCACAAATAA
27800625 TCAACAAACT
Statistics
Matches: 192, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
116 5 0.03
117 185 0.96
118 2 0.01
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (116 bp):
ATCAACAACATCGGGACCACTGTCGCATCACAAATCGACAAAACAAACCTACATTGTGGCACTGA
AATTGCAATAATAAATCACAAATAACCATATACAAGTTTAACAACAACTTT
Found at i:27800886 original size:16 final size:16
Alignment explanation
Indices: 27800867--27800913 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
27800857 AATGTTATGG
27800867 ATTTGGGGATTTTACC
1 ATTTGGGGATTTTACC
* *
27800883 ATTTGGGGAATTTAACG
1 ATTTGGGG-ATTTTACC
*
27800900 AGTTGGGGATTTTA
1 ATTTGGGGATTTTA
27800914 GAACTTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.23, C:0.06, G:0.30, T:0.40
Consensus pattern (16 bp):
ATTTGGGGATTTTACC
Found at i:27803288 original size:36 final size:37
Alignment explanation
Indices: 27803248--27803322 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
27803238 GATATAGATG
*
27803248 ATACTATTGTAATATCAGTACAT-CCAATTTAATGAA
1 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
27803284 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
1 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
27803321 AT
1 AT
27803323 TATTCAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 23 0.62
37 14 0.38
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
Found at i:27805266 original size:32 final size:32
Alignment explanation
Indices: 27805225--27805291 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
27805215 TCTAAACAAG
27805225 ATTTGGGAAAACTATTTCCTATGATGTATAAT
1 ATTTGGGAAAACTATTTCCTATGATGTATAAT
27805257 ATTTGGGAAAACTATTTCCTATGATGTATAAT
1 ATTTGGGAAAACTATTTCCTATGATGTATAAT
27805289 ATT
1 ATT
27805292 CTCTTTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (32 bp):
ATTTGGGAAAACTATTTCCTATGATGTATAAT
Found at i:27812585 original size:19 final size:18
Alignment explanation
Indices: 27812545--27812587 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27812535 TAGGGGTTTA
* *
27812545 TTTAACTAAATAAATTAC
1 TTTAAATAAATAAAGTAC
*
27812563 TTTAAATAAAGTAAAGTAG
1 TTTAAATAAA-TAAAGTAC
27812582 TTTAAA
1 TTTAAA
27812588 GGGTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
TTTAAATAAATAAAGTAC
Found at i:27818017 original size:28 final size:28
Alignment explanation
Indices: 27817986--27818269 Score: 122
Period size: 28 Copynumber: 10.2 Consensus size: 28
27817976 ATTCATAAAT
27817986 GCTTCCCTATC-TATAGATTGCAACAAAG
1 GCTTCCCT-TCTTATAGATTGCAACAAAG
* * *
27818014 GCTTCCCTTCTTATAGATTTCCAGAAAG
1 GCTTCCCTTCTTATAGATTGCAACAAAG
* * *
27818042 GCTTCCCTT-TTATA-ATTTTCTAGAAAG
1 GCTTCCCTTCTTATAGA-TTGCAACAAAG
* ** * * *
27818069 ACTTTTCTTTTTATA-ATTTTCCACAAAG
1 GCTTCCCTTCTTATAGA-TTGCAACAAAG
** *
27818097 GCTTCCCTT-TTCATAG-CCGCCACAAAG
1 GCTTCCCTTCTT-ATAGATTGCAACAAAG
* * * *
27818124 GCTTCCATT-TTCATATATCGCCACAAAG
1 GCTTCCCTTCTT-ATAGATTGCAACAAAG
* * *
27818152 ACTTCCCTT-TTCATAGATCGCCACAAAG
1 GCTTCCCTTCTT-ATAGATTGCAACAAAG
* *
27818180 ACTTCCCTTTTTATA-ATT-CACCACAAAG
1 GCTTCCCTTCTTATAGATTGCA--ACAAAG
* * *
27818208 GCTTCCCTT-TTCATAGGTCGCCACAAAG
1 GCTTCCCTTCTT-ATAGATTGCAACAAAG
* * * *
27818236 GCTTCTCTTTTTATAGTTTGCCACAAAAG
1 GCTTCCCTTCTTATAGATTGCAAC-AAAG
27818265 GCTTC
1 GCTTC
27818270 ATCTTTTCTA
Statistics
Matches: 212, Mismatches: 30, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.01
27 51 0.24
28 144 0.68
29 14 0.07
30 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (28 bp):
GCTTCCCTTCTTATAGATTGCAACAAAG
Found at i:27818204 original size:56 final size:55
Alignment explanation
Indices: 27818008--27818269 Score: 233
Period size: 56 Copynumber: 4.7 Consensus size: 55
27817998 ATAGATTGCA
* * * * * ** *
27818008 ACAAAGGCTTCCCTTCTTATAGATT-TCCAGAAAGGCTTCCCTTTT-ATAATTTTCT
1 ACAAAGACTTCCCTTTTTATA-ATTCACCACAAAGGCTTCCCTTTTCAT-AGTCGCC
* ** ** *
27818063 AGAAAGACTTTTCTTTTTATAATTTTCCACAAAGGCTTCCCTTTTCATAGCCGCC
1 ACAAAGACTTCCCTTTTTATAATTCACCACAAAGGCTTCCCTTTTCATAGTCGCC
* * * * *
27818118 ACAAAGGCTTCCATTTTCAT-ATATCGCCACAAAGACTTCCCTTTTCATAGATCGCC
1 ACAAAGACTTCCCTTTTTATAAT-TCACCACAAAGGCTTCCCTTTTCATAG-TCGCC
27818174 ACAAAGACTTCCCTTTTTATAATTCACCACAAAGGCTTCCCTTTTCATAGGTCGCC
1 ACAAAGACTTCCCTTTTTATAATTCACCACAAAGGCTTCCCTTTTCATA-GTCGCC
* * * **
27818230 ACAAAGGCTTCTCTTTTTATAGTTTGCCACAAAAGGCTTC
1 ACAAAGACTTCCCTTTTTATAATTCACCAC-AAAGGCTTC
27818270 ATCTTTTCTA
Statistics
Matches: 169, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
54 5 0.03
55 75 0.44
56 77 0.46
57 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (55 bp):
ACAAAGACTTCCCTTTTTATAATTCACCACAAAGGCTTCCCTTTTCATAGTCGCC
Found at i:27818233 original size:84 final size:83
Alignment explanation
Indices: 27818089--27818262 Score: 222
Period size: 84 Copynumber: 2.1 Consensus size: 83
27818079 TTATAATTTT
* * *
27818089 CCACAAAGGCTTCCCTTTTCATAGCCGCCACAAAGGCTTCCATTTTCATATATCGCCACAAAGAC
1 CCACAAAGACTTCCCTTTTCATAGCCACCACAAAGGCTTCCATTTTCATAGATCGCCACAAAGAC
27818154 TTCCCTTTTCATAGATCG
66 TTCCCTTTTCATAGATCG
* ** * * *
27818172 CCACAAAGACTTCCCTTTTTATAATTCACCACAAAGGCTTCCCTTTTCATAGGTCGCCACAAAGG
1 CCACAAAGACTTCCCTTTTCAT-AGCCACCACAAAGGCTTCCATTTTCATAGATCGCCACAAAGA
* * * *
27818237 CTTCTCTTTTTATAGTTTG
65 CTTCCCTTTTCATAGATCG
27818256 CCACAAA
1 CCACAAA
27818263 AGGCTTCATC
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 20 0.26
84 57 0.74
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (83 bp):
CCACAAAGACTTCCCTTTTCATAGCCACCACAAAGGCTTCCATTTTCATAGATCGCCACAAAGAC
TTCCCTTTTCATAGATCG
Found at i:27824566 original size:12 final size:12
Alignment explanation
Indices: 27824549--27824579 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27824539 GCCACACACA
*
27824549 GCCGTGTGTTAG
1 GCCGTGTGCTAG
27824561 GCCGTGTGCTAG
1 GCCGTGTGCTAG
27824573 GCCGTGT
1 GCCGTGT
27824580 AATTCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.42, T:0.29
Consensus pattern (12 bp):
GCCGTGTGCTAG
Found at i:27831640 original size:26 final size:25
Alignment explanation
Indices: 27831597--27831688 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 25
27831587 CTGTTAAATG
* * *
27831597 AACACTGACTTAAGGCCTGATAATTA
1 AACACCGACTCAAAGCCTGATAA-TA
* *
27831623 AACACCGACTCACAGCCTGCTAGATA
1 AACACCGACTCAAAGCCTGATA-ATA
* *
27831649 AATCACTGGCTCAAAGCCT-ACTAATA
1 AA-CACCGACTCAAAGCCTGA-TAATA
27831675 AACACCGACTCAAA
1 AACACCGACTCAAA
27831689 TCCTACAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
25 10 0.19
26 26 0.50
27 16 0.31
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (25 bp):
AACACCGACTCAAAGCCTGATAATA
Found at i:27831688 original size:25 final size:25
Alignment explanation
Indices: 27831621--27831703 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
27831611 GCCTGATAAT
* *
27831621 TAAACACCGACTCACAGCCTGCTAGA
1 TAAACACCGACTCAAAGCCTACTA-A
* *
27831647 TAAATCACTGGCTCAAAGCCTACTAA
1 TAAA-CACCGACTCAAAGCCTACTAA
* *
27831673 TAAACACCGACTCAAATCCTACAAA
1 TAAACACCGACTCAAAGCCTACTAA
27831698 TAAACA
1 TAAACA
27831704 TCAGCTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 23 0.48
26 9 0.19
27 16 0.33
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.18
Consensus pattern (25 bp):
TAAACACCGACTCAAAGCCTACTAA
Found at i:27837007 original size:28 final size:28
Alignment explanation
Indices: 27836940--27837273 Score: 332
Period size: 28 Copynumber: 12.0 Consensus size: 28
27836930 TACTCTGTAA
* * * *
27836940 CATAGACCGCCATAAAGGCTT-TCATTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
27836967 CATAAATCACCATAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
27836995 CATAGATTGCCATAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * * *
27837023 TATAGTTCGCCACAAAGGTTTCCTTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
27837051 CATAGATCGCCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
** *
27837079 CATAGATCGATACAAAGGCTTCCCTCTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * * **
27837107 -ATTGTTCACCACAAAGGCTTTTCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
27837134 CATATATCACCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
27837162 CATAGATCGCCGCAAAGGCTTTCTTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
27837190 TATA-ATTCGCCACAAAGACTTCCCTTGT
1 CATAGA-TCGCCACAAAGGCTTCCCTTTT
* *
27837218 CATAAATCGCCACAAAGGCTTCCTTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
27837246 TATAGTTTGCCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
27837274 TCTGACGTGT
Statistics
Matches: 249, Mismatches: 54, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
27 38 0.15
28 210 0.84
29 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (28 bp):
CATAGATCGCCACAAAGGCTTCCCTTTT
Found at i:27837072 original size:84 final size:83
Alignment explanation
Indices: 27836947--27837274 Score: 372
Period size: 84 Copynumber: 3.9 Consensus size: 83
27836937 TAACATAGAC
* * * * *
27836947 CGCCATAAAGGCTTT-CATTTCATAAATCACCATAAAGGCTTCCCTTTTCATAGATTGCCATAAA
1 CGCCACAAAGG-TTTCCTTTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
27837011 GGCTTCCCTTTTTATAGTT
65 GGCTTCCCTTTTTATAGTT
* * **
27837030 CGCCACAAAGGTTTCCTTTTTCATAGATCGCCACAAAGGCTTCCCTTTTCATAGATCGATACAAA
1 CGCCACAAAGGTTTCC-TTTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
* *
27837095 GGCTTCCC-TCTTATTGTT
65 GGCTTCCCTTTTTATAGTT
* * * *
27837113 CACCACAAAGGCTTTTCTTTTCATATATCACCACAAAGGCTTCCCTTTTCATAGATCGCCGCAAA
1 CGCCACAAAGG-TTTCCTTTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
* * *
27837178 GGCTTTCTTTTTTATAATT
65 GGCTTCCCTTTTTATAGTT
* * * * * * * *
27837197 CGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCTTTTTTATAGTTTGCCACAAA
1 CGCCACAAAG-GTTTCCTTTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
27837262 GGCTTCCCTTTTT
65 GGCTTCCCTTTTT
27837275 CTGACGTGTT
Statistics
Matches: 203, Mismatches: 37, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
82 3 0.01
83 78 0.38
84 122 0.60
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (83 bp):
CGCCACAAAGGTTTCCTTTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAAG
GCTTCCCTTTTTATAGTT
Found at i:27837200 original size:139 final size:139
Alignment explanation
Indices: 27836973--27837273 Score: 372
Period size: 139 Copynumber: 2.2 Consensus size: 139
27836963 ATTTCATAAA
* ** * * *
27836973 TCACCATAAAGGCTTCCCTTTTCATAGATTGCCATAAAGGCTTCCCTTTTTATAGTTCGCCACAA
1 TCACCACAAAGGCTTCCCTTTTCATAGATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAA
* * * *
27837038 AGGTTTCCTTTTTCATAGATCGCCACAAAGGCTTCCCTTTTCATAGATCGATACAAAGGCTTCCC
66 AGGTTTCCTTTTTCATAGATCGCCACAAAGACTTCCCTTGTCATAAATCGACACAAAGGCTTCCC
27837103 TCTTATTGT
131 TCTTATTGT
** * *
27837112 TCACCACAAAGGCTTTTCTTTTCATATATCACCACAAAGGCTTCCCTTTTCATAGATCGCCGCAA
1 TCACCACAAAGGCTTCCCTTTTCATAGATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAA
* *
27837177 AGGCTTT-CTTTTTTATA-ATTCGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTC
66 AGG-TTTCCTTTTTCATAGA-TCGCCACAAAGACTTCCCTTGTCATAAATCGACACAAAGGCTTC
* * *
27837240 CTTTTTTATAGT
129 C-CTCTTATTGT
**
27837252 TTGCCACAAAGGCTTCCCTTTT
1 TCACCACAAAGGCTTCCCTTTT
27837274 TCTGACGTGT
Statistics
Matches: 136, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
138 1 0.01
139 107 0.79
140 28 0.21
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (139 bp):
TCACCACAAAGGCTTCCCTTTTCATAGATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAA
AGGTTTCCTTTTTCATAGATCGCCACAAAGACTTCCCTTGTCATAAATCGACACAAAGGCTTCCC
TCTTATTGT
Found at i:27837240 original size:167 final size:166
Alignment explanation
Indices: 27836953--27837270 Score: 447
Period size: 167 Copynumber: 1.9 Consensus size: 166
27836943 AGACCGCCAT
* * *
27836953 AAAGGCTTTCATTTCATAAATCACCATAAAGGCTTCCCTTTTCATAGATTGCCATAAAGGCTTCC
1 AAAGGCTTTCATTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAAGGCTTCC
* ** * * *
27837018 CTTTTTATAGTTCGCCACAAAGGTTTCCTTTTTCATAGATCGCCACAAAGGCTTCCCTTTTCATA
66 CTTTTTATAATTCGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCCTTTTCATA
*
27837083 GATCGATACAAAGGCTTCCCTCTTATTGTTCACCAC
131 GATCGACACAAAGGCTTCCCTCTTATTGTTCACCAC
* * * *
27837119 AAAGGCTTTTCTTTTCATATATCACCACAAAGGCTTCCCTTTTCATAGATCGCCGCAAAGGCTTT
1 AAAGGC-TTTCATTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAAGGCTTC
* * *
27837184 CTTTTTTATAATTCGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCTTTTTTAT
65 CCTTTTTATAATTCGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCCTTTTCAT
* * *
27837249 AGTTTGCCACAAAGGCTTCCCT
130 AGATCGACACAAAGGCTTCCCT
27837271 TTTTCTGACG
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
166 6 0.05
167 125 0.95
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.35
Consensus pattern (166 bp):
AAAGGCTTTCATTTCATAAATCACCACAAAGGCTTCCCTTTTCATAGATCGCCACAAAGGCTTCC
CTTTTTATAATTCGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCCTTTTCATA
GATCGACACAAAGGCTTCCCTCTTATTGTTCACCAC
Done.