Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 122 of 322
Found at i:39899665 original size:55 final size:55
Alignment explanation
Indices: 39899577--39899685 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
39899567 ATCTCAAAAG
* * * *
39899577 ACAGTATGCTTAGAGACTTGATTAAACCTCAATTTTAGGAAAAAAAAAGAAGAAT
1 ACAGTATGCTTAGAAACTTGATTAAACCCCAATTTTAGCAAAAAAAAAAAAGAAT
39899632 ACAGTATGCTTAGAAACTTGATTAAACCCCAATTTTAGCAAAAAAAAAAAAGAA
1 ACAGTATGCTTAGAAACTTGATTAAACCCCAATTTTAGCAAAAAAAAAAAAGAA
39899686 GAAGAAGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.24
Consensus pattern (55 bp):
ACAGTATGCTTAGAAACTTGATTAAACCCCAATTTTAGCAAAAAAAAAAAAGAAT
Found at i:39906482 original size:39 final size:39
Alignment explanation
Indices: 39906395--39906708 Score: 504
Period size: 39 Copynumber: 8.1 Consensus size: 39
39906385 ATTATATTAT
* ** *
39906395 CAGCACAAAGCCTGCGGGACTTT-AACCTGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
39906433 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
* *
39906472 CAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
* *
39906511 CAGCACGAAGCCTGCGGGACTTTGGCCCGAATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
* * *
39906550 CAGCACGAAGCCTGCGAGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
39906589 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
39906628 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
39906667 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
39906706 CAG
1 CAG
39906709 TGTCTTGCAT
Statistics
Matches: 258, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
38 22 0.09
39 236 0.91
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
Found at i:39911378 original size:63 final size:63
Alignment explanation
Indices: 39911279--39911403 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
39911269 GAAAATTTTG
*
39911279 GTTGCAATAAACTTTTCTTTTGGTGTGTAAATAAAACTAACCAACTCCACTAAATAATTACAT
1 GTTGCAAAAAACTTTTCTTTTGGTGTGTAAATAAAACTAACCAACTCCACTAAATAATTACAT
39911342 GTTGCAAAAAACTTTTCTTTTGGTGTGTAAATAAAACTAACCAACTCCACTAAATAATTACA
1 GTTGCAAAAAACTTTTCTTTTGGTGTGTAAATAAAACTAACCAACTCCACTAAATAATTACA
39911404 AACGGAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (63 bp):
GTTGCAAAAAACTTTTCTTTTGGTGTGTAAATAAAACTAACCAACTCCACTAAATAATTACAT
Found at i:39913320 original size:40 final size:40
Alignment explanation
Indices: 39913246--39913467 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
39913236 AACCCAAGTA
* *
39913246 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
39913285 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
39913325 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
39913365 CCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
39913405 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
39913445 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39913468 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:39916033 original size:40 final size:40
Alignment explanation
Indices: 39915972--39916148 Score: 309
Period size: 40 Copynumber: 4.4 Consensus size: 40
39915962 TGTGCATAGT
* *
39915972 ATTCATGCGGGTTATTTTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
39916012 ATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
39916052 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
39916092 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
39916132 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
39916149 CATCCGAGCC
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:39916168 original size:80 final size:80
Alignment explanation
Indices: 39916002--39916168 Score: 262
Period size: 80 Copynumber: 2.1 Consensus size: 80
39915992 CCGGGTTAAG
39916002 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
39916067 TATAACCGGGCTAAG
66 TACAACCGAGCCAAA
* *
39916082 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
39916147 TACATCCGAGCCAAA
66 TACAACCGAGCCAAA
*
39916162 TTCCGAA
1 TCCCGAA
39916169 AGTATTTATG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TACAACCGAGCCAAA
Found at i:39928352 original size:65 final size:65
Alignment explanation
Indices: 39928270--39928594 Score: 641
Period size: 65 Copynumber: 5.0 Consensus size: 65
39928260 AGCTCCAGCG
*
39928270 TTGATGTTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
1 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
39928335 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
1 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
39928400 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
1 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
39928465 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
1 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
39928530 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
1 TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
39928595 GGTGCTTGAA
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 259 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (65 bp):
TTGATGCTATCTTCTATCCCATTGAGACATAATATTTCATAAATCGATTCCCAGCAAGGAGTCGA
Found at i:39937620 original size:27 final size:26
Alignment explanation
Indices: 39937590--39937952 Score: 82
Period size: 27 Copynumber: 13.7 Consensus size: 26
39937580 ACTCAACTTG
39937590 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
39937617 TAAAATTATCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
* *
39937644 TAAAATTACTGAAATA------A--GA
1 TAAAATTAC-CAAATACCCCCGATTTA
* ** *
39937663 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* ** ** *
39937690 CAAAATTATTGAAATACCCTTGGTTTA
1 TAAAATTA-CCAAATACCCCCGATTTA
* ** **
39937717 CAAAATTACCCAAATACCATCGATCAA
1 TAAAATTA-CCAAATACCCCCGATTTA
* * *
39937744 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACC-AAATACCCCCGATTTA
*** *
39937771 TAAAATTACCAAAATACCTTTGGTTTA
1 TAAAATTACC-AAATACCCCCGATTTA
* * *
39937798 TAAAATTACTAAAATA-CCCCTAGTTTG
1 TAAAATTAC-CAAATACCCCCGA-TTTA
* ** * *
39937825 TAAAATTACTAAAATACCCTTTGGTTTG
1 TAAAATTAC-CAAATACCC-CCGATTTA
** *
39937853 TAAAATTACCAAAATA-CCCTTAGTTTG
1 TAAAATTACC-AAATACCCCCGA-TTTA
* * *
39937880 TAAAATTACCAAAATA-TCCCTAGTTTG
1 TAAAATTACC-AAATACCCCCGA-TTTA
* * *
39937907 TAAAATTATCGAAATACCCCTGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
*
39937934 TGAAATTACCGAAATACCC
1 TAAAATTACC-AAATACCC
39937953 TTGTAGGGTA
Statistics
Matches: 253, Mismatches: 61, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
18 1 0.00
19 10 0.04
21 1 0.00
25 1 0.00
26 6 0.02
27 204 0.81
28 30 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:39937801 original size:54 final size:54
Alignment explanation
Indices: 39937701--39937951 Score: 270
Period size: 54 Copynumber: 4.6 Consensus size: 54
39937691 AAAATTATTG
* ** * * * * **
39937701 AAATACCCTTGGTTTACAAAATTACCCAAATACCATCGATCAATAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTATAAAATTACCA
*
39937755 AAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTATAAAATTACTA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTATAAAATTACCA
* * *
39937809 AAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGGTTTGTAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTTTGGTTTATAAAATTACCA
* * * * * * *
39937864 AAATACCCTTAGTTTGTAAAATTACCAAAATATCC-CTAGTTTGTAAAATTATCG
1 AAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTTTGGTTTATAAAATTACCA
* * *
39937918 AAATACCCCTGATTTGTGAAATTACCGAAATACC
1 AAATACCCCTGGTTTGTAAAATTACCAAAATACC
39937952 CTTGTAGGGT
Statistics
Matches: 170, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.01
54 116 0.68
55 52 0.31
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTATAAAATTACCA
Found at i:39937889 original size:109 final size:109
Alignment explanation
Indices: 39937744--39937954 Score: 293
Period size: 109 Copynumber: 1.9 Consensus size: 109
39937734 CATCGATCAA
* * *
39937744 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTTTGGTTTATAAAATTA-C
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCC-CTAGTTTATAAAATTATC
*
39937807 TAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCTTTGGTTTG
65 -AAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTTTGGTTTG
* * *
39937853 TAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAATTATCG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTAGTTTATAAAATTATCA
* *
39937918 AAATACCCCTGATTTGTGAAATTACCGAAATACCCTT
66 AAATACCCCTGATTTGTAAAATTACCAAAATACCCTT
39937955 GTAGGGTAGA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
109 86 0.96
110 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (109 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTAGTTTATAAAATTATCA
AAATACCCCTGATTTGTAAAATTACCAAAATACCCTTTGGTTTG
Found at i:39937967 original size:27 final size:27
Alignment explanation
Indices: 39937937--39938266 Score: 464
Period size: 27 Copynumber: 12.3 Consensus size: 27
39937927 TGATTTGTGA
*
39937937 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39937964 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39937991 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39938018 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
39938045 AATTATTGCAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
39938072 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39938099 AATTACCAAAATACTCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39938126 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39938153 AATTATCGCAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39938180 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39938207 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
39938234 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
39938260 AATTACC
1 AATTACC
39938267 ATTTTTCCCC
Statistics
Matches: 270, Mismatches: 33, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 16 0.06
27 254 0.94
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:39938745 original size:22 final size:22
Alignment explanation
Indices: 39938693--39938757 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
39938683 TTAAAGCCTT
* *
39938693 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
39938715 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* * *
39938737 TTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
39938758 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:39948030 original size:40 final size:41
Alignment explanation
Indices: 39947941--39948090 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
39947931 CGCTGACTCA
* *
39947941 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
39947982 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
39948022 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
39948063 AAAAGCCCTTCGAGACCAAGCTAGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
39948091 TAAACCCCGA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:39955845 original size:41 final size:41
Alignment explanation
Indices: 39955755--39955920 Score: 253
Period size: 41 Copynumber: 4.1 Consensus size: 41
39955745 AAGTGGCTTA
* * * * * * * *
39955755 ATTATGACATTGGCCCGAAGGCCCTTCGAAACTAGGTTCGG
1 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
39955796 -TTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
1 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
39955836 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
1 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
39955877 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
1 ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
39955918 ATT
1 ATT
39955921 TAAACCCCAA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 32 0.28
41 84 0.72
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (41 bp):
ATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG
Found at i:39958482 original size:48 final size:48
Alignment explanation
Indices: 39958289--39958497 Score: 189
Period size: 48 Copynumber: 4.5 Consensus size: 48
39958279 TAGGGTTATG
* * *
39958289 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTAGCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
39958337 TGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGATG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* ** * * *
39958385 TGTAATTTCGT-TAAGACCATAG-CTGGG-C-T---ATCGGCATCGAAA
1 TGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* * *
39958427 TATGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGTTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
39958475 TGCGATCCCATGTTATACCATGT
1 TGTGATCCCATGTAAGACCATGT
39958498 TCAGTATATG
Statistics
Matches: 124, Mismatches: 29, Indels: 16
0.73 0.17 0.09
Matches are distributed among these distances:
42 17 0.14
43 13 0.10
44 1 0.01
45 2 0.02
46 1 0.01
47 13 0.10
48 77 0.62
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:39962918 original size:15 final size:13
Alignment explanation
Indices: 39962901--39962953 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 13
39962891 AGTTTCCATC
39962901 TATTATTATATTAT
1 TATTA-TATATTAT
39962915 CTATTTATATATTAT
1 -TA-TTATATATTAT
*
39962930 TTTTATATATTAT
1 TATTATATATTAT
39962943 TA-TATATATTA
1 TATTATATATTA
39962954 AAGCCTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 9 0.26
13 12 0.34
14 1 0.03
15 10 0.29
16 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:39962927 original size:23 final size:25
Alignment explanation
Indices: 39962901--39962953 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
39962891 AGTTTCCATC
39962901 TATTA-TTATAT-TATCTATT-TATA
1 TATTATTTATATATAT-TATTATATA
*
39962924 TATTATTTTTATATATTATTATATA
1 TATTATTTATATATATTATTATATA
39962949 TATTA
1 TATTA
39962954 AAGCCTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 9 0.35
25 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTATTTATATATATTATTATATA
Found at i:39972457 original size:44 final size:46
Alignment explanation
Indices: 39972393--39972484 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
39972383 CAATGCCATA
*
39972393 TCCTAGACATGGTCTTACACTGAC-ACAT-TTAATAGCCGATGCATG
1 TCCTAGACATCGTCTTACACTGACTACATCTTAA-AGCCGATGCATG
* *
39972438 TCCTAGACA-CGTCTTACACTGGCTTCATCTTAAAGCCGATGCATG
1 TCCTAGACATCGTCTTACACTGACTACATCTTAAAGCCGATGCATG
39972483 TC
1 TC
39972485 TGATAGTCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 12 0.29
45 26 0.62
46 4 0.10
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
TCCTAGACATCGTCTTACACTGACTACATCTTAAAGCCGATGCATG
Found at i:39973578 original size:30 final size:30
Alignment explanation
Indices: 39973544--39973603 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
39973534 GACACGGCCA
39973544 TGACACACGGGCGTGTAG-TCTACCCGTGTG
1 TGACACACGGGCGTGTAGATC-ACCCGTGTG
*
39973574 TGACACACGGGCGTGTGGATCACCCGTGTG
1 TGACACACGGGCGTGTAGATCACCCGTGTG
39973604 GAAGTGCCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (30 bp):
TGACACACGGGCGTGTAGATCACCCGTGTG
Found at i:39974312 original size:30 final size:30
Alignment explanation
Indices: 39974269--39974325 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39974259 TAAAATTCAC
* *
39974269 GTCTTAGGTAAAATGATCATTTTGCCCTTA
1 GTCTTAGGCAAAATGACCATTTTGCCCTTA
*
39974299 GTCTTTGGCAAAATGACCATTTTGCCC
1 GTCTTAGGCAAAATGACCATTTTGCCC
39974326 CTATGCTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (30 bp):
GTCTTAGGCAAAATGACCATTTTGCCCTTA
Found at i:39974607 original size:16 final size:16
Alignment explanation
Indices: 39974586--39974619 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39974576 CCTAAACTCT
39974586 TAATCATTTTGCAAAA
1 TAATCATTTTGCAAAA
39974602 TAATCATTTTGCAAAA
1 TAATCATTTTGCAAAA
39974618 TA
1 TA
39974620 GACCCCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATCATTTTGCAAAA
Found at i:39975875 original size:26 final size:26
Alignment explanation
Indices: 39975824--39975874 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
39975814 AGTTGTAGCG
*
39975824 AGAAAATTATCTGAAGAGATTATTTT
1 AGAAAATTATCTAAAGAGATTATTTT
*
39975850 AGAAAATT-TCTAAAGATATTATTTT
1 AGAAAATTATCTAAAGAGATTATTTT
39975875 TGATTCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (26 bp):
AGAAAATTATCTAAAGAGATTATTTT
Found at i:39979216 original size:39 final size:39
Alignment explanation
Indices: 39979159--39979234 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
39979149 CACGTTTTTT
* *
39979159 AGTATTGCAATATATGCTTGAACATTATGTAATTATATG
1 AGTATTACAATATATGCTTAAACATTATGTAATTATATG
* *
39979198 AGTATTACGATATGTGCTTAAACATTATGTAATTATA
1 AGTATTACAATATATGCTTAAACATTATGTAATTATA
39979235 CGTATAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (39 bp):
AGTATTACAATATATGCTTAAACATTATGTAATTATATG
Found at i:39979248 original size:39 final size:39
Alignment explanation
Indices: 39979168--39979258 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
39979158 TAGTATTGCA
* * *
39979168 ATATATGCTTGAACATTATGTAATTATATGAGTATTACG
1 ATATATGCTTAAACATTATGTAATTATACGAGTAATACG
* *
39979207 ATATGTGCTTAAACATTATGTAATTATACGTA-TAATGCG
1 ATATATGCTTAAACATTATGTAATTATACG-AGTAATACG
39979246 ATATATGCTTAAA
1 ATATATGCTTAAA
39979259 AGTGAATATG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 44 0.98
40 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (39 bp):
ATATATGCTTAAACATTATGTAATTATACGAGTAATACG
Found at i:39988927 original size:14 final size:14
Alignment explanation
Indices: 39988891--39988928 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
39988881 CATCTATATT
*
39988891 CATACATCCGCATA
1 CATACATCTGCATA
39988905 CATACATCTGCATA
1 CATACATCTGCATA
39988919 CATACATCTG
1 CATACATCTG
39988929 TATATAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (14 bp):
CATACATCTGCATA
Found at i:39992574 original size:24 final size:24
Alignment explanation
Indices: 39992547--39992599 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
39992537 TGGGGGTAGG
39992547 ATCTGTGACTGCATCTGTATCTAA
1 ATCTGTGACTGCATCTGTATCTAA
* * *
39992571 ATCTGTGTCTGCATTTGTATCTGA
1 ATCTGTGACTGCATCTGTATCTAA
39992595 ATCTG
1 ATCTG
39992600 AATACGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
ATCTGTGACTGCATCTGTATCTAA
Found at i:40005704 original size:11 final size:11
Alignment explanation
Indices: 40005684--40005714 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
40005674 TCAAATCATC
*
40005684 AAGAATAAATT
1 AAGAACAAATT
40005695 AAGAACAAATT
1 AAGAACAAATT
40005706 AAGAACAAA
1 AAGAACAAA
40005715 ACTAGATGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (11 bp):
AAGAACAAATT
Found at i:40011691 original size:17 final size:15
Alignment explanation
Indices: 40011661--40011694 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
40011651 TTAAGCATAT
40011661 TTTAAAAAAAAATAA
1 TTTAAAAAAAAATAA
40011676 TTTAATAAAAACAATAA
1 TTTAA-AAAAA-AATAA
40011693 TT
1 TT
40011695 GTATTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
TTTAAAAAAAAATAA
Found at i:40011924 original size:19 final size:20
Alignment explanation
Indices: 40011884--40011924 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
40011874 TTCTAATTAA
* *
40011884 TTTAATAAATGTGTGTTGAT
1 TTTAATAAAAGTGTGTTCAT
40011904 TTTAATAAAAGTG-GTTCAT
1 TTTAATAAAAGTGTGTTCAT
40011923 TT
1 TT
40011925 AAAAAGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (20 bp):
TTTAATAAAAGTGTGTTCAT
Found at i:40012167 original size:26 final size:28
Alignment explanation
Indices: 40012126--40012188 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
40012116 TACTCCATAC
40012126 TAATTTTTATGAAC-T-TTTTATATTTT-
1 TAATTTTTATGAACTTATTTTA-ATTTTA
40012152 TAATTTTTATTG-ACTTATTTTAATTTTA
1 TAATTTTTA-TGAACTTATTTTAATTTTA
40012180 TAATTTTTA
1 TAATTTTTA
40012189 AATTATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 11 0.33
27 8 0.24
28 14 0.42
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
TAATTTTTATGAACTTATTTTAATTTTA
Found at i:40012183 original size:28 final size:26
Alignment explanation
Indices: 40012126--40012188 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 26
40012116 TACTCCATAC
40012126 TAATTTTTATGAACTTTTTATATTTT
1 TAATTTTTATGAACTTTTTATATTTT
40012152 TAATTTTTATTG-ACTTATTT-TAATTTT
1 TAATTTTTA-TGAACTT-TTTAT-ATTTT
40012179 ATAATTTTTA
1 -TAATTTTTA
40012189 AATTATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.42
27 10 0.30
28 9 0.27
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (26 bp):
TAATTTTTATGAACTTTTTATATTTT
Found at i:40013810 original size:5 final size:5
Alignment explanation
Indices: 40013800--40013827 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
40013790 GACATTATTT
40013800 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
40013828 TTCAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:40015077 original size:21 final size:21
Alignment explanation
Indices: 40015052--40015108 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
40015042 TTAAATGTCC
*
40015052 TTGTTATTTTTATAATTAGTA
1 TTGTTATTATTATAATTAGTA
* * *
40015073 TTGTTATTATTATTATTATTG
1 TTGTTATTATTATAATTAGTA
*
40015094 TTGTTACTATATATA
1 TTGTTATTAT-TATA
40015109 TTGGCATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
TTGTTATTATTATAATTAGTA
Found at i:40017790 original size:92 final size:92
Alignment explanation
Indices: 40017693--40017876 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
40017683 TTAGTATTTT
*
40017693 AAACCTAGACAATTATGACACGTAACAAAACAACTAAGTCTGCTATACATGCTATATTTCAAAAT
1 AAACCTAGACAATTATGACACGTAACAAAACAACTAAGTCTGCTATACATGCCATATTTCAAAAT
40017758 GTTGAGTTCAAATACCAAGAGTATTGA
66 GTTGAGTTCAAATACCAAGAGTATTGA
*
40017785 AAACCTAGACAATTATGACACGTAACAAAATAACTAAGTCTGCTATACATGCCATATTTCAAAAT
1 AAACCTAGACAATTATGACACGTAACAAAACAACTAAGTCTGCTATACATGCCATATTTCAAAAT
*
40017850 GTTGAGTTCAGATACCAAGAGTATTGA
66 GTTGAGTTCAAATACCAAGAGTATTGA
40017877 TAGTGCGGGC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (92 bp):
AAACCTAGACAATTATGACACGTAACAAAACAACTAAGTCTGCTATACATGCCATATTTCAAAAT
GTTGAGTTCAAATACCAAGAGTATTGA
Found at i:40023897 original size:11 final size:11
Alignment explanation
Indices: 40023881--40023913 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
40023871 ACCTAAACTA
40023881 AAAAAGAAAAG
1 AAAAAGAAAAG
40023892 AAAAAGAAAAG
1 AAAAAGAAAAG
*
40023903 AGAAAGAAAAG
1 AAAAAGAAAAG
40023914 CTAATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:40023923 original size:41 final size:40
Alignment explanation
Indices: 40023864--40023947 Score: 132
Period size: 41 Copynumber: 2.1 Consensus size: 40
40023854 AAAAAGAAAC
40023864 AAAGAAAACCTAAACTAAAAAAGAAAAGAAAAAGAAAAGAG
1 AAAGAAAACCTAAACTAAAAAAGAAAAGAAAAAGAAAA-AG
* * *
40023905 AAAGAAAAGCTAATCTAAAAATGAAAAGAAAAAGAAAAAG
1 AAAGAAAACCTAAACTAAAAAAGAAAAGAAAAAGAAAAAG
40023945 AAA
1 AAA
40023948 AAAGAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 5 0.12
41 35 0.88
ACGTcount: A:0.73, C:0.06, G:0.14, T:0.07
Consensus pattern (40 bp):
AAAGAAAACCTAAACTAAAAAAGAAAAGAAAAAGAAAAAG
Found at i:40023947 original size:47 final size:46
Alignment explanation
Indices: 40023882--40023972 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 46
40023872 CCTAAACTAA
* * *
40023882 AAAAGAAAAGAAAAAGAAAAGAGAAAGAAAAGCTAATCTAAAAATG
1 AAAAGAAAAGAAAAAGAAAAAAGAAAGAAAACCCAATCTAAAAATG
*
40023928 AAAAGAAAAAGAAAAAGAAAAAAGAAAGAAATCCCAATCTAAAAA
1 AAAAG-AAAAGAAAAAGAAAAAAGAAAGAAAACCCAATCTAAAAA
40023973 CTATAAACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 5 0.12
47 35 0.88
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.08
Consensus pattern (46 bp):
AAAAGAAAAGAAAAAGAAAAAAGAAAGAAAACCCAATCTAAAAATG
Found at i:40030495 original size:29 final size:30
Alignment explanation
Indices: 40030453--40030516 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
40030443 TGTCTTAGGC
40030453 CGTGTGGGCATTCAAAATAAGGCACACAG-
1 CGTGTGGGCATTCAAAATAAGGCACACAGT
*
40030482 CGTGTGGGCATTCAAAATAGGGCACACAGT
1 CGTGTGGGCATTCAAAATAAGGCACACAGT
40030512 CGTGT
1 CGTGT
40030517 CCTAGCCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (30 bp):
CGTGTGGGCATTCAAAATAAGGCACACAGT
Found at i:40035438 original size:30 final size:31
Alignment explanation
Indices: 40035371--40035440 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
40035361 CCACCCTTAA
* *
40035371 AATATTTACACTATTAGTCCTTCAAAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
*
40035402 CATATTTACACT-TTAATCCCTC-AAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
40035431 AAGTATTTAC
1 AA-TATTTAC
40035441 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.24
30 15 0.44
31 11 0.32
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAAATTTT
Found at i:40038727 original size:7 final size:7
Alignment explanation
Indices: 40038715--40038740 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40038705 GAATGAGGTA
40038715 TTGAATG
1 TTGAATG
40038722 TTGAATG
1 TTGAATG
40038729 TTGAATG
1 TTGAATG
40038736 TTGAA
1 TTGAA
40038741 ATGAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
TTGAATG
Found at i:40041149 original size:12 final size:13
Alignment explanation
Indices: 40041116--40041149 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
40041106 TTAAATGTAA
40041116 AAAAAT-AAATCT
1 AAAAATAAAATCT
40041128 AAAAATAAAAT-T
1 AAAAATAAAATCT
40041140 AAAAATAAAA
1 AAAAATAAAA
40041150 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAATCT
Found at i:40041149 original size:32 final size:31
Alignment explanation
Indices: 40041086--40041150 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
40041076 TTCAAATAGT
* **
40041086 AAAAAAACTAAAAATTGAAATTAAATGTAAA
1 AAAAAAACTAAAAATTAAAATTAAAAATAAA
40041117 AAAATAAATCTAAAAA-TAAAATTAAAAATAAA
1 AAAA-AAA-CTAAAAATTAAAATTAAAAATAAA
40041149 AA
1 AA
40041151 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 4 0.14
32 18 0.62
33 7 0.24
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (31 bp):
AAAAAAACTAAAAATTAAAATTAAAAATAAA
Found at i:40046181 original size:13 final size:13
Alignment explanation
Indices: 40046165--40046220 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 13
40046155 CATCTGTTCC
40046165 ATTTATCTTTTTT
1 ATTTATCTTTTTT
40046178 ATTT-TCTTTTTT
1 ATTTATCTTTTTT
* *
40046190 ATTTTTCTAATTTTA
1 ATTTATCT--TTTTT
40046205 ATTTAT-TTTTTT
1 ATTTATCTTTTTT
40046217 ATTT
1 ATTT
40046221 GGCTTAGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 20 0.54
13 7 0.19
14 1 0.03
15 9 0.24
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATCTTTTTT
Found at i:40048465 original size:89 final size:84
Alignment explanation
Indices: 40048329--40048564 Score: 260
Period size: 87 Copynumber: 2.7 Consensus size: 84
40048319 AAAAAATTTG
* * * * *
40048329 AATTAAACCCCTATTTTTTTGCACTCAATTGATATTTAAACTTTCAAAATGCATAAAAAAATGTC
1 AATTAAGCCCCTATTTTTTTTCACTCAATTGATACTTAAACTTTCAAAATGCATTAAAAAAT-CC
40048394 ATCAAACT-TTTTCAAAAAAA
65 ATC-AACTGTTTTCAAAAAAA
* *
40048414 GCAATTAAGTCCCTACTTTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCATTAAAAAA
1 --AATTAAGCCCCTA-TTTTTTTTCACTCAATT-GATACTTAAACTTTCAAAATGCATTAAAAAA
* *
40048479 TCCCTCAATTGTTTTCAAAAAAA
62 TCCATCAACTGTTTTCAAAAAAA
* * * *
40048502 AATTAAGCCCCTGATTTTTTTTACACTCAATTAGTTACTTCAACTGT-AAAATGCCTTAAAAAA
1 AATTAAGCCCCT-ATTTTTTTT-CACTCAATT-GATACTTAAACTTTCAAAATGCATTAAAAAA
40048565 GCTGTTTAAC
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
86 34 0.26
87 35 0.27
88 31 0.24
89 29 0.22
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (84 bp):
AATTAAGCCCCTATTTTTTTTCACTCAATTGATACTTAAACTTTCAAAATGCATTAAAAAATCCA
TCAACTGTTTTCAAAAAAA
Found at i:40053871 original size:87 final size:86
Alignment explanation
Indices: 40053773--40054379 Score: 521
Period size: 87 Copynumber: 7.0 Consensus size: 86
40053763 CTAAATCTGC
* *
40053773 TTCTTCGATTTGTTCCTTG-ACAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTATAAA
1 TTCTTCGATTTGCTCCTTGTA-AACACA-AGATGCCAAATCATCTTGGATCTGCTTCAGTATAAA
*
40053837 CATCTGAAGGTCAGACCTGCTAT
64 CATCTGAAGGTCAGATCTGCTAT
*
40053860 TTCTTCGATTTGCTTCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
1 TTCTTCGATTTGCTCCTTGTAAACACAA-GATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
40053925 ATCTGAAGGTCAGACCTGCTAT
65 ATCTGAAGGTCAGATCTGCTAT
* *
40053947 TTCTTCGATTTGCTTCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAG
1 TTCTTCGATTTGCTCCTTGTAAACACAA-GATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
40054012 ATCTAAAGGTTAGATCTGCTAT
65 ATCTGAAGGTCAGATCTGCTAT
* * *** * *
40054034 GTGTC-T-G--CT-CTCCGTCG-AATA-TGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTTA
1 -T-TCTTCGATTTGCTCC-TTGTAA-ACACAAGATGCCAAATC----ATCTTGGATCTGC-TTCA
* **
40054092 TGTGA-AAACATCTGAAAGTCAGATCTGCCGT
57 -GT-ATAAACATCTGAAGGTCAGATCTGCTAT
* * *
40054123 GTCTTCTATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAAC
1 TTCTTCGATTTGCTCCTTGTAAACACAAG-ATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
40054188 ATCTAAAGGTTAGATCTGCTAT
65 ATCTGAAGGTCAGATCTGCTAT
* * *** * *
40054210 GTGTC-T-G--CT-CTCC--GTCGAA-TGGAGACGCCAAATCTGTTATCTTGGATCTGCTT-TGT
1 -T-TCTTCGATTTGCTCCTTGT-AAACACAAGATGCCAAATC----ATCTTGGATCTGCTTCAG-
* *
40054266 TGTGAAAACATCTGAAAGTCAGATCTGCTAT
58 TAT--AAACATCTGAAGGTCAGATCTGCTAT
* *
40054297 GTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAAC
1 TTCTTCGATTTGCTCCTTGTAAACACAAG-ATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
40054362 ATCTGAAGGTTAGATCTG
65 ATCTGAAGGTCAGATCTG
40054380 TTATGCTTTG
Statistics
Matches: 417, Mismatches: 61, Indels: 84
0.74 0.11 0.15
Matches are distributed among these distances:
81 9 0.02
82 4 0.01
83 12 0.03
84 11 0.03
85 23 0.06
86 3 0.01
87 246 0.59
88 11 0.03
89 56 0.13
90 6 0.01
91 6 0.01
92 12 0.03
93 18 0.04
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (86 bp):
TTCTTCGATTTGCTCCTTGTAAACACAAGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
TCTGAAGGTCAGATCTGCTAT
Found at i:40054177 original size:176 final size:174
Alignment explanation
Indices: 40053900--40054384 Score: 771
Period size: 174 Copynumber: 2.8 Consensus size: 174
40053890 ATGCCAAATC
* * * * *
40053900 ATCTTGGATCTGC-TTCA-GT-ATAAACATCTGAAGGTCAGACCTGCTATTTCTTCGATTTGCTT
1 ATCTTGGATCTGCTTTTATGTGA-AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
* * *
40053962 CTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAGATCTAAAGGTTAGAT
65 CTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGAT
* *
40054027 CTGCTATGTGTCTGCTCTCCGTCGAATATGGAGATGCCAGATCTGTT
130 CTGCTATGTGTCTGCTCTCCGTCG-A-ATGGAGACGCCAAATCTGTT
** *
40054074 ATCTTGGATCTGCTTTTATGTGAAAACATCTGAAAGTCAGATCTGCCGTGTCTTCTATTTGCTCC
1 ATCTTGGATCTGCTTTTATGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCC
40054139 TTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGATC
66 TTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGATC
40054204 TGCTATGTGTCTGCTCTCCGTCGAATGGAGACGCCAAATCTGTT
131 TGCTATGTGTCTGCTCTCCGTCGAATGGAGACGCCAAATCTGTT
40054248 ATCTTGGATCTGCTTTGT-TGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGCTTT-TATGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
*
40054312 CTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGAT
65 CTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGAT
*
40054377 CTGTTATG
130 CTGCTATG
40054385 CTTTGGTCTG
Statistics
Matches: 289, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
174 161 0.56
175 5 0.02
176 122 0.42
177 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (174 bp):
ATCTTGGATCTGCTTTTATGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCC
TTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGATC
TGCTATGTGTCTGCTCTCCGTCGAATGGAGACGCCAAATCTGTT
Found at i:40070983 original size:44 final size:44
Alignment explanation
Indices: 40070921--40071018 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
40070911 CGGATTAAAC
* *
40070921 CGAAGT-AACAGTAGCAGTACGACACACATGGTGCCTCATCGACT
1 CGAAGTCAA-AGTAACAGTACGACACACATAGTGCCTCATCGACT
**
40070965 CGAAGTCAAAGTAACAGTACGACACTTATAGTGCCTCATCGACT
1 CGAAGTCAAAGTAACAGTACGACACACATAGTGCCTCATCGACT
40071009 C-AAGGTCAAA
1 CGAA-GTCAAA
40071019 TTATCCCTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.04
44 44 0.92
45 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (44 bp):
CGAAGTCAAAGTAACAGTACGACACACATAGTGCCTCATCGACT
Found at i:40071919 original size:18 final size:19
Alignment explanation
Indices: 40071879--40071920 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
40071869 CTTTTATGTT
* *
40071879 TTATTTTATTATTATATTA
1 TTATTTTAGTAATATATTA
40071898 -TATTTTAGTAATA-ATTA
1 TTATTTTAGTAATATATTA
40071915 TTATTT
1 TTATTT
40071921 ACTTAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATTTTAGTAATATATTA
Found at i:40079325 original size:19 final size:18
Alignment explanation
Indices: 40079296--40079332 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
40079286 CTAATTTTCC
40079296 CTTTTTCTTTCTTTCTCT
1 CTTTTTCTTTCTTTCTCT
40079314 CTTTTTCGTTTCTTTCTCT
1 CTTTTTC-TTTCTTTCTCT
40079333 GTTCTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTCTTTCTCT
Found at i:40079423 original size:18 final size:19
Alignment explanation
Indices: 40079383--40079424 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
40079373 CTTTTATGTT
* *
40079383 TTATTTTATTAGTATATTA
1 TTATTTTAGTAATATATTA
40079402 -TATTTTAGTAATA-ATTA
1 TTATTTTAGTAATATATTA
40079419 TTATTT
1 TTATTT
40079425 ACTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTTTAGTAATATATTA
Found at i:40081944 original size:21 final size:23
Alignment explanation
Indices: 40081903--40081945 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
40081893 ATTATTAATA
*
40081903 TAATAAATATAATTTATTATTTT
1 TAATAAATATAATTTAATATTTT
40081926 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
40081946 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATAAATATAATTTAATATTTT
Found at i:40081979 original size:16 final size:16
Alignment explanation
Indices: 40081957--40081993 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
40081947 AATTTTATTT
40081957 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
40081974 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
40081989 TAATA
1 TAATA
40081994 CTATTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:40082561 original size:15 final size:15
Alignment explanation
Indices: 40082523--40082562 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
40082513 CTAGAAAAGT
40082523 AAATCA-TTTTCTAG
1 AAATCATTTTTCTAG
40082537 AAATCATTTTTC-AG
1 AAATCATTTTTCTAG
*
40082551 AAGTCATTTTTC
1 AAATCATTTTTC
40082563 AATAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (15 bp):
AAATCATTTTTCTAG
Found at i:40088590 original size:19 final size:18
Alignment explanation
Indices: 40088566--40088624 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
40088556 TGATTAGTTA
40088566 ATTAAATTAGGGTTATTAG
1 ATTAAATTAGGGTTATT-G
* *
40088585 ATTAAATGAGCGTTAATTG
1 ATTAAATTAGGGTT-ATTG
*
40088604 ATTAATTTAGGGTTAATTG
1 ATTAAATTAGGGTT-ATTG
40088623 AT
1 AT
40088625 ACATAATGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 31 0.91
20 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (18 bp):
ATTAAATTAGGGTTATTG
Found at i:40088971 original size:126 final size:126
Alignment explanation
Indices: 40088746--40089040 Score: 563
Period size: 126 Copynumber: 2.3 Consensus size: 126
40088736 TTAGGTTAAT
40088746 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
1 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
*
40088811 TTCAGAAAAAAGCTTCCACGTGGACGCACTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
66 TTCAGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
40088872 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
1 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
*
40088937 TTCAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
66 TTCAGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
*
40088998 TGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAG
1 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAG
40089041 AAAAAAGCTC
Statistics
Matches: 166, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 166 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (126 bp):
TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
TTCAGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
Found at i:40089053 original size:99 final size:99
Alignment explanation
Indices: 40088940--40089139 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 99
40088930 GCAAAATTTC
40088940 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
40089005 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
66 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
40089039 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
*
40089104 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCA
66 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
40089138 AG
1 AG
40089140 CAGGATGCAC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (99 bp):
AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
ACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
Found at i:40089205 original size:225 final size:225
Alignment explanation
Indices: 40088814--40089364 Score: 1048
Period size: 225 Copynumber: 2.4 Consensus size: 225
40088804 GCAAAATTTC
* *
40088814 AGAAAAAAGCTTCCACGTGGACGCACTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
40088879 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCAGAA
66 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCAGAA
40088944 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACAT
131 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACAT
40089009 TTCTGAACAAATAGTGTCAAAAACGCTTCA
196 TTCTGAACAAATAGTGTCAAAAACGCTTCA
40089039 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
*
40089104 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCGGAA
66 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCAGAA
*
40089169 AAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACAT
131 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACAT
40089234 TTCTGAACAAATAGTGTCAAAAACGCTTCA
196 TTCTGAACAAATAGTGTCAAAAACGCTTCA
*
40089264 AGAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
*
40089329 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAG
66 ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAG
40089365 AAAAAAGCTC
Statistics
Matches: 320, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 320 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (225 bp):
AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCAGAA
AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACAT
TTCTGAACAAATAGTGTCAAAAACGCTTCA
Found at i:40089279 original size:99 final size:99
Alignment explanation
Indices: 40089166--40089463 Score: 569
Period size: 99 Copynumber: 3.0 Consensus size: 99
40089156 CAAAATTTCG
40089166 GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
40089231 CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
66 CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
40089265 GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
40089330 CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
66 CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
*
40089364 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
* *
40089429 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAA
66 CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
40089463 G
1 G
40089464 CAGGATGCAC
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 196 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (99 bp):
GAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
CATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
Found at i:40089506 original size:126 final size:126
Alignment explanation
Indices: 40089364--40089901 Score: 657
Period size: 126 Copynumber: 4.4 Consensus size: 126
40089354 AACGCTTCAA
40089364 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
40089429 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
66 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
**
40089490 GAAAAAAGCTCCCACGTGGACGCATTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
40089555 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
66 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
* ** ** *
40089616 GAAAAAAGCTCCCACGTGGACGCGCGTTTGCTACAGTAGTTCGTAG--ACGT--TTCTGAACAAA
1 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
* * *** ** * * * * * * *
40089677 TAGTGTC--AA-AAACGCT-TCAAGCAGGATGCACTGTCAGCAT--AATTTCAG----A-----
66 -CGTTTCTGAACAAATAATGTCAAAAACGCTTCA-AG-CAGGATGCACTGTCAGCAAAATTTCG
* * *
40089726 -AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGAGTAGA
1 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
* *
40089790 CGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTTCG
66 CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
*
40089851 AAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAA
1 GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAA
40089902 CTGAGGCTAT
Statistics
Matches: 339, Mismatches: 50, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
109 42 0.12
111 2 0.01
112 4 0.01
113 7 0.02
114 6 0.02
115 6 0.02
116 15 0.04
119 15 0.04
120 6 0.02
121 7 0.02
122 8 0.02
123 4 0.01
124 2 0.01
126 215 0.63
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (126 bp):
GAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGA
CGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCG
Found at i:40089529 original size:324 final size:324
Alignment explanation
Indices: 40088940--40089589 Score: 1237
Period size: 324 Copynumber: 2.0 Consensus size: 324
40088930 GCAAAATTTC
40088940 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
40089005 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAAAAGCTCCCACGTGGACGCGCTTTTG
66 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAAAAGCTCCCACGTGGACGCGCTTTTG
*
40089070 CTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCT
131 CTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCAAAAACGCT
**
40089135 TCAAGCAGGATGCACTGTCAGCAAAATTTCGGAAAAAAGCTCCCACGTGGACGTGCTTTTGCTAC
196 TCAAGCAGGATGCACTGTCAGCAAAATTTCGGAAAAAAGCTCCCACGTGGACGCACTTTTGCTAC
*
40089200 AGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
261 AGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCAAAAACGCTTCA
*
40089264 AGAAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
1 AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
40089329 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAAAAGCTCCCACGTGGACGCGCTTTTG
66 ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAAAAGCTCCCACGTGGACGCGCTTTTG
40089394 CTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCAAAAACGCT
131 CTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCAAAAACGCT
*
40089459 TCAAGCAGGATGCACTGTCAGCAAAATTTCGGAAAAAAGCTCCCACGTGGACGCATTTTTGCTAC
196 TCAAGCAGGATGCACTGTCAGCAAAATTTCGGAAAAAAGCTCCCACGTGGACGCACTTTTGCTAC
*
40089524 AGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCA
261 AGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCAAAAACGCTTCA
40089588 AG
1 AG
40089590 CAGGATGCAC
Statistics
Matches: 319, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 319 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (324 bp):
AGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
ACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAAAAGCTCCCACGTGGACGCGCTTTTG
CTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAGCAAAATTTCGGAAAAAAGCTCCCACGTGGACGCACTTTTGCTAC
AGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCAAAAACGCTTCA
Found at i:40089858 original size:235 final size:234
Alignment explanation
Indices: 40089424--40089897 Score: 831
Period size: 235 Copynumber: 2.0 Consensus size: 234
40089414 ATAATTCTGA
40089424 GTAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
1 GTAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
* * * * *
40089489 GGAAAAAAGCTCCCACGTGGACGCATTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAG
66 GAAAAAAAGCTCCCACGTGGACGCACTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGAGTAG
*
40089554 ACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCGGAA
131 ACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCGAAA
40089619 AAAAGCTCCCACGTGGACGCGCGTTTGCTACAGTAGTTC
196 AAAAGCTCCCACGTGGACGCGCGTTTGCTACAGTAGTTC
* *
40089658 GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCATAATTTC
1 GTAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
*
40089723 AGAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGAGTA
66 -GAAAAAAAGCTCCCACGTGGACGCACTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGAGTA
* *
40089788 GACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTTCGAA
130 GACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCGAA
*
40089853 AAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTC
195 AAAAAGCTCCCACGTGGACGCGCGTTTGCTACAGTAGTTC
40089893 GTAGA
1 GTAGA
40089898 AAAACTGAGG
Statistics
Matches: 227, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
234 63 0.28
235 164 0.72
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (234 bp):
GTAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
GAAAAAAAGCTCCCACGTGGACGCACTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGAGTAG
ACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCGAAA
AAAAGCTCCCACGTGGACGCGCGTTTGCTACAGTAGTTC
Found at i:40089901 original size:127 final size:127
Alignment explanation
Indices: 40089658--40089901 Score: 445
Period size: 127 Copynumber: 1.9 Consensus size: 127
40089648 ACAGTAGTTC
*
40089658 GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCATAATTTC
1 GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
40089723 AGAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGA
66 AGAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGA
*
40089785 GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTTC
1 GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
* *
40089850 -GAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAA
66 AGAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAA
40089902 CTGAGGCTAT
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 50 0.44
127 63 0.56
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (127 bp):
GTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTC
AGAAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACACTAGTTCGTAAAAAAATAATTCCGA
Found at i:40092739 original size:21 final size:20
Alignment explanation
Indices: 40092709--40092761 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
40092699 AAAATTAAAT
40092709 TAAA-AAAATTAAATTTGCA
1 TAAATAAAATTAAATTTGCA
40092728 TAAATGAAAATTAAATTTGCA
1 TAAAT-AAAATTAAATTTGCA
40092749 TAAAT-AAATTAAA
1 TAAATAAAATTAAA
40092762 GTATCACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.38
21 20 0.62
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAATAAAATTAAATTTGCA
Found at i:40093255 original size:38 final size:38
Alignment explanation
Indices: 40093213--40093303 Score: 182
Period size: 38 Copynumber: 2.4 Consensus size: 38
40093203 ACGCGATTTC
40093213 TGCTGACGTGGACAAAATGCTTCCCTGGGGGAGCGTTT
1 TGCTGACGTGGACAAAATGCTTCCCTGGGGGAGCGTTT
40093251 TGCTGACGTGGACAAAATGCTTCCCTGGGGGAGCGTTT
1 TGCTGACGTGGACAAAATGCTTCCCTGGGGGAGCGTTT
40093289 TGCTGACGTGGACAA
1 TGCTGACGTGGACAA
40093304 TAAAGTAGCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.34, T:0.25
Consensus pattern (38 bp):
TGCTGACGTGGACAAAATGCTTCCCTGGGGGAGCGTTT
Found at i:40098167 original size:6 final size:6
Alignment explanation
Indices: 40098158--40098191 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
40098148 CTTTAAAAAT
*
40098158 AAATAA AAATAA AAGTAA AAGATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AA-ATAA AAATAA AAA
40098192 AGTCTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:40098184 original size:13 final size:12
Alignment explanation
Indices: 40098158--40098191 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
40098148 CTTTAAAAAT
40098158 AAATAAAAATAA
1 AAATAAAAATAA
*
40098170 AAGTAAAAGATAA
1 AAATAAAA-ATAA
40098183 AAATAAAAA
1 AAATAAAAA
40098192 AGTCTTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:40109709 original size:13 final size:13
Alignment explanation
Indices: 40109691--40109715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40109681 CCCAATAGGT
40109691 AATTGGACTTGAA
1 AATTGGACTTGAA
40109704 AATTGGACTTGA
1 AATTGGACTTGA
40109716 GATCATAAAT
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:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (13 bp):
AATTGGACTTGAA
Found at i:40113693 original size:38 final size:38
Alignment explanation
Indices: 40113646--40113747 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
40113636 TCAATTTATC
* * *
40113646 TATA-AGTATTGCGATATATGCTTGAACATTATGTGAT
1 TATATAGTATTGTGATATATGCTTAAACATTATGTAAT
*
40113683 TA-ATGAGTATTGTGATATGTGCTTAAACATTATGTAAT
1 TATAT-AGTATTGTGATATATGCTTAAACATTATGTAAT
*
40113721 TATATATGTAATGTGATATATGCTTAA
1 TATATA-GTATTGTGATATATGCTTAA
40113748 TAGTGAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
36 1 0.02
37 2 0.04
38 32 0.58
39 20 0.36
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (38 bp):
TATATAGTATTGTGATATATGCTTAAACATTATGTAAT
Found at i:40120206 original size:49 final size:49
Alignment explanation
Indices: 40120074--40120306 Score: 276
Period size: 51 Copynumber: 4.7 Consensus size: 49
40120064 TCTATTGTGA
*
40120074 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAA-TT
* * * * *
40120124 CGATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCG-ATAATT
* *
40120174 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAATT
*
40120223 --TCGATCATGTATGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAATT
1 GGTCG--CATG--TGTAGTACTAAGTGCAGGCTACTACGCGTACCCG-ATAATT
*
40120274 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
40120307 TGCATACCAG
Statistics
Matches: 156, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
47 3 0.02
49 65 0.42
50 11 0.07
51 74 0.47
53 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAATT
Found at i:40120247 original size:100 final size:100
Alignment explanation
Indices: 40120074--40120319 Score: 456
Period size: 100 Copynumber: 2.5 Consensus size: 100
40120064 TCTATTGTGA
40120074 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAG
40120139 TACTAAGTGCAGGCTACTACGTGTACCGAATAATT
66 TACTAAGTGCAGGCTACTACGTGTACCGAATAATT
*
40120174 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTATGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAG
40120239 TACTAAGTGCAGGCTACTACGTGTACCGAATAATT
66 TACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * *
40120274 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
40120320 GCTTTGGCTA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 142 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (100 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAG
TACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:40124889 original size:49 final size:51
Alignment explanation
Indices: 40124759--40124891 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
40124749 TCTATTGTGA
* * *
40124759 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAAATTC
* * * * *
40124810 GATCACGTATGTAGTACTAAGTGCAAGCTACTACGTGTA-CCGAAAAATT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAAATTC
*
40124859 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
40124892 TGCGTACCAG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 27 0.40
50 8 0.12
51 33 0.49
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAAATTC
Found at i:40124899 original size:49 final size:50
Alignment explanation
Indices: 40124759--40124899 Score: 176
Period size: 49 Copynumber: 2.8 Consensus size: 50
40124749 TCTATTGTGA
* *
40124759 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAAAAATTC
* * * * * *
40124810 GATCACGTATGTAGTACTAAGTGCAAGCTACTACGTGTACCGAAAAATT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAAAAATTC
* *
40124859 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
40124900 AGATAGCTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
49 33 0.45
50 8 0.11
51 33 0.45
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAAAAATTC
Found at i:40132839 original size:49 final size:49
Alignment explanation
Indices: 40132745--40132849 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 49
40132735 TTGCACGGGT
* * * *
40132745 AAATTAGGTAAGCCGTGTGAGGCACACAGGCATGTGTGATTACACGAGC
1 AAATCAGGTAAGCCGTGTGAGGCACACAAGCATGTGTAATCACACGAGC
* *
40132794 AAATCAGGTAAGCCGTGTG-GGACACATAAGCATGTCG-AATCACACGGGC
1 AAATCAGGTAAGCCGTGTGAGG-CACACAAGCATGT-GTAATCACACGAGC
*
40132843 AGATCAG
1 AAATCAG
40132850 ATAGGTTGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.04
49 44 0.94
50 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (49 bp):
AAATCAGGTAAGCCGTGTGAGGCACACAAGCATGTGTAATCACACGAGC
Found at i:40133346 original size:24 final size:24
Alignment explanation
Indices: 40133319--40133371 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
40133309 ATGGGGTAGG
40133319 ATCTGTGATTGCATCTGTATCTGA
1 ATCTGTGATTGCATCTGTATCTGA
* *
40133343 ATCTGTGTTTGCATTTGTATCTGA
1 ATCTGTGATTGCATCTGTATCTGA
40133367 ATCTG
1 ATCTG
40133372 AATACGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (24 bp):
ATCTGTGATTGCATCTGTATCTGA
Found at i:40133380 original size:24 final size:24
Alignment explanation
Indices: 40133329--40133386 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
40133319 ATCTGTGATT
* ** **
40133329 GCATCTGTATCTGAATCTGTGTTT
1 GCATATGTATCTGAATCTGAATAC
*
40133353 GCATTTGTATCTGAATCTGAATAC
1 GCATATGTATCTGAATCTGAATAC
40133377 GCATATGTAT
1 GCATATGTAT
40133387 TTGATTATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
GCATATGTATCTGAATCTGAATAC
Found at i:40134250 original size:51 final size:51
Alignment explanation
Indices: 40134193--40134295 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
40134183 ATGTTAAGAG
*
40134193 TTAAATTTATCATTATACCTTAAAAGATACTGATAAAAAATTTATTTTTCT
1 TTAAATTTATCATTATACCTTAAAAGATACTGATAAAAAAATTATTTTTCT
40134244 TTAAATTTATCATTATACCTTAAAAGATACTGATAAAAAAATTATTTTTCT
1 TTAAATTTATCATTATACCTTAAAAGATACTGATAAAAAAATTATTTTTCT
40134295 T
1 T
40134296 CTTAATTGAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (51 bp):
TTAAATTTATCATTATACCTTAAAAGATACTGATAAAAAAATTATTTTTCT
Found at i:40147271 original size:11 final size:11
Alignment explanation
Indices: 40147248--40147281 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
40147238 ATGTCAAATC
*
40147248 ATCAAGAATAA
1 ATCAAGAACAA
*
40147259 ATTAAGAACAA
1 ATCAAGAACAA
40147270 ATCAAGAACAA
1 ATCAAGAACAA
40147281 A
1 A
40147282 ACTAGATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:40150325 original size:12 final size:12
Alignment explanation
Indices: 40150302--40150347 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
40150292 CTTAATTGAC
*
40150302 AAATTGCACCTT
1 AAATTACACCTT
*
40150314 AAACTACACCTT
1 AAATTACACCTT
*
40150326 --ATTGCACCTT
1 AAATTACACCTT
40150336 AAATTACACCTT
1 AAATTACACCTT
40150348 CTTTTTCAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 8 0.30
12 19 0.70
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (12 bp):
AAATTACACCTT
Found at i:40150330 original size:22 final size:22
Alignment explanation
Indices: 40150304--40150347 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
40150294 TAATTGACAA
40150304 ATTGCACCTTAAACTACACCTT
1 ATTGCACCTTAAACTACACCTT
*
40150326 ATTGCACCTTAAATTACACCTT
1 ATTGCACCTTAAACTACACCTT
40150348 CTTTTTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTGCACCTTAAACTACACCTT
Found at i:40150685 original size:13 final size:13
Alignment explanation
Indices: 40150650--40150688 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
40150640 ATGTTAAAAC
40150650 AAACGATTTTAGAA
1 AAACGATTTTA-AA
*
40150664 AAACTATTTTAAA
1 AAACGATTTTAAA
*
40150677 AAGCGATTTTAA
1 AAACGATTTTAA
40150689 CTGCAAGCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (13 bp):
AAACGATTTTAAA
Found at i:40159044 original size:99 final size:99
Alignment explanation
Indices: 40158867--40159045 Score: 286
Period size: 99 Copynumber: 1.8 Consensus size: 99
40158857 TAATTTCTAA
* *
40158867 GAATGTGTTGGGCTGAGTAACCAGGGTGAAGTGCTTGGGTTGTCATCTTTCTTCGCATCAAAAGG
1 GAATGTGCTGGGCTGAGTAACCAGGGTGAAGTGCTTGGGTTGTCATCTCTCTTCGCATCAAAAGG
* * *
40158932 TTCGATATGTTCCTAGGAATAATAAAAAAATTAG
66 TACAATATATTCCTAGGAATAATAAAAAAATTAG
* * *
40158966 GAATGTGCTGGGCTGAGTAACCAGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTTAAAAGG
1 GAATGTGCTGGGCTGAGTAACCAGGGTGAAGTGCTTGGGTTGTCATCTCTCTTCGCATCAAAAGG
40159031 TACAATATATTCCTA
66 TACAATATATTCCTA
40159046 AGTAAAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 72 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (99 bp):
GAATGTGCTGGGCTGAGTAACCAGGGTGAAGTGCTTGGGTTGTCATCTCTCTTCGCATCAAAAGG
TACAATATATTCCTAGGAATAATAAAAAAATTAG
Found at i:40163150 original size:15 final size:15
Alignment explanation
Indices: 40163130--40163159 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40163120 CATTTTATTT
*
40163130 ATATTAGGATAATTA
1 ATATTAAGATAATTA
40163145 ATATTAAGATAATTA
1 ATATTAAGATAATTA
40163160 TGAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:40165908 original size:20 final size:20
Alignment explanation
Indices: 40165883--40165922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
40165873 TACACCAACA
*
40165883 AATGAAAGTTAACAGGCAAT
1 AATGAAAGTGAACAGGCAAT
40165903 AATGAAAGTGAACAGGCAAT
1 AATGAAAGTGAACAGGCAAT
40165923 GAAAAGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.17
Consensus pattern (20 bp):
AATGAAAGTGAACAGGCAAT
Found at i:40165925 original size:17 final size:18
Alignment explanation
Indices: 40165881--40165926 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
40165871 TTTACACCAA
*
40165881 CAAATGAAAGTTAACAGG
1 CAAATGAAAGTGAACAGG
40165899 CAATAATGAAAGTGAACAGG
1 C-A-AATGAAAGTGAACAGG
40165919 C-AATGAAA
1 CAAATGAAA
40165927 AGGTAAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.28
18 1 0.04
19 1 0.04
20 16 0.64
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (18 bp):
CAAATGAAAGTGAACAGG
Found at i:40166895 original size:18 final size:18
Alignment explanation
Indices: 40166853--40166896 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
40166843 CAATTTTTAT
*
40166853 TTTATT-TTATTTTATTT
1 TTTATTATTATTTTATTA
* *
40166870 TTTCTTATTATTTTCTTA
1 TTTATTATTATTTTATTA
40166888 TTTATTATT
1 TTTATTATT
40166897 TACAGATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTATTATTTTATTA
Found at i:40167795 original size:98 final size:98
Alignment explanation
Indices: 40167619--40167796 Score: 311
Period size: 98 Copynumber: 1.8 Consensus size: 98
40167609 TAATTTCTAA
* *
40167619 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTTATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
* *
40167684 TTCAATATGTTCCTAGGAATAAAAAAAAATTAG
66 TACAATATATTCCTAGGAATAAAAAAAAATTAG
40167717 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
*
40167782 TACAGTATATTCCTA
66 TACAATATATTCCTA
40167797 AGTAAAAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (98 bp):
GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
TACAATATATTCCTAGGAATAAAAAAAAATTAG
Found at i:40167854 original size:21 final size:21
Alignment explanation
Indices: 40167830--40167879 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
40167820 AAAATTCTAT
40167830 AACAAAAAGA-AAAAAAAGAGA
1 AACAAAAAGAGAAAAAAAGA-A
40167851 AACAAAAA-AGAAAAAAAGAA
1 AACAAAAAGAGAAAAAAAGAA
*
40167871 AAGAAAAAG
1 AACAAAAAG
40167880 TCATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (21 bp):
AACAAAAAGAGAAAAAAAGAA
Found at i:40167859 original size:13 final size:12
Alignment explanation
Indices: 40167839--40167878 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
40167829 TAACAAAAAG
40167839 AAAAAAAAGAGAA
1 AAAAAAAAGA-AA
*
40167852 ACAAAAAAGAAA
1 AAAAAAAAGAAA
40167864 AAAAGAAAAGAAA
1 AAAA-AAAAGAAA
40167877 AA
1 AA
40167879 GTCATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:40167877 original size:11 final size:10
Alignment explanation
Indices: 40167833--40167879 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
40167823 ATTCTATAAC
40167833 AAAAAGAAAA
1 AAAAAGAAAA
40167843 AAAAGAGAAACA
1 AAAA-AGAAA-A
40167855 AAAAAG--AA
1 AAAAAGAAAA
40167863 AAAAAGAAAA
1 AAAAAGAAAA
40167873 GAAAAAG
1 -AAAAAG
40167880 TCATATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 6 0.19
11 13 0.41
12 5 0.16
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:40168464 original size:15 final size:15
Alignment explanation
Indices: 40168444--40168473 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40168434 CATTTTATTT
*
40168444 ATATTAGGATAATTA
1 ATATTAAGATAATTA
40168459 ATATTAAGATAATTA
1 ATATTAAGATAATTA
40168474 TGAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:40169439 original size:12 final size:12
Alignment explanation
Indices: 40169422--40169451 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
40169412 CTACTTCCCC
40169422 TTTACTGTTATT
1 TTTACTGTTATT
40169434 TTTACTGTTATT
1 TTTACTGTTATT
40169446 TTTACT
1 TTTACT
40169452 ATTTTACAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTACTGTTATT
Found at i:40170584 original size:25 final size:25
Alignment explanation
Indices: 40170546--40170594 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
40170536 GTAGTTTTTG
*
40170546 TAACGCCCTGATTTATTTAACTTTC
1 TAACGCCCTAATTTATTTAACTTTC
40170571 TAACGCCCTAATTTATTTAACTTT
1 TAACGCCCTAATTTATTTAACTTT
40170595 GTTTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.45
Consensus pattern (25 bp):
TAACGCCCTAATTTATTTAACTTTC
Found at i:40181278 original size:6 final size:6
Alignment explanation
Indices: 40181267--40181308 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
40181257 CCCATGATCT
40181267 TTTTTG TTTTTG -TTTTG TTTTTG TTTTTTTG TTTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG --TTTTTG -TTTTTG TTTT
40181309 CTTTTTTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
6 15 0.45
7 7 0.21
8 6 0.18
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:40181284 original size:11 final size:11
Alignment explanation
Indices: 40181268--40181308 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
40181258 CCATGATCTT
40181268 TTTTGTTTTTG
1 TTTTGTTTTTG
40181279 TTTTGTTTTTG
1 TTTTGTTTTTG
40181290 TTTT-TTTGTT-
1 TTTTGTTT-TTG
40181300 TTTTGTTTT
1 TTTTGTTTT
40181309 CTTTTTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:40181295 original size:19 final size:20
Alignment explanation
Indices: 40181273--40181315 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
40181263 ATCTTTTTTG
*
40181273 TTTTTGTTTTGT-TTTTGTT
1 TTTTTGTTTTGTGTTTTCTT
*
40181292 TTTTTGTTTTTTGTTTTCTT
1 TTTTTGTTTTGTGTTTTCTT
40181312 TTTT
1 TTTT
40181316 CACTGTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (20 bp):
TTTTTGTTTTGTGTTTTCTT
Found at i:40181302 original size:26 final size:25
Alignment explanation
Indices: 40181266--40181314 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
40181256 CCCCATGATC
*
40181266 TTTTTTGTTTTTGTTTTGTTTTTGT
1 TTTTTTGTTTTTGTTTTCTTTTTGT
40181291 TTTTTTGTTTTTTGTTTTCTTTTT
1 TTTTTTG-TTTTTGTTTTCTTTTT
40181315 TCACTGTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (25 bp):
TTTTTTGTTTTTGTTTTCTTTTTGT
Found at i:40200232 original size:7 final size:7
Alignment explanation
Indices: 40200220--40200299 Score: 65
Period size: 7 Copynumber: 11.4 Consensus size: 7
40200210 GGGTTTGTGA
40200220 TTTAGGG
1 TTTAGGG
40200227 TTTAGGG
1 TTTAGGG
*
40200234 TTTAAGG
1 TTTAGGG
40200241 TTTAGGGG
1 TTTA-GGG
*
40200249 TTAAGGG
1 TTTAGGG
*
40200256 -TTAGTG
1 TTTAGGG
*
40200262 TTTAGGA
1 TTTAGGG
*
40200269 TTTAGGA
1 TTTAGGG
40200276 TTTAGTGG
1 TTTAG-GG
*
40200284 -TTCGGG
1 TTTAGGG
*
40200290 TTTATGG
1 TTTAGGG
40200297 TTT
1 TTT
40200300 TAAAGTTTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
6 6 0.10
7 46 0.79
8 6 0.10
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:40200234 original size:21 final size:20
Alignment explanation
Indices: 40200210--40200299 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
40200200 AGCATTAGCG
40200210 GGGTTTGTGATTTAGGGTTTA
1 GGGTTTGTG-TTTAGGGTTTA
*
40200231 GGGTTTAAG-GTTTAGGGGTTAA
1 GGGTTT--GTGTTTA-GGGTTTA
* *
40200253 GGGTTAGTGTTTAGGATTTA
1 GGGTTTGTGTTTAGGGTTTA
* * *
40200273 GGATTTAGTGGTTCGGGTTTA
1 GGGTTT-GTGTTTAGGGTTTA
*
40200294 TGGTTT
1 GGGTTT
40200300 TAAAGTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
20 10 0.19
21 30 0.57
22 12 0.23
23 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.44
Consensus pattern (20 bp):
GGGTTTGTGTTTAGGGTTTA
Found at i:40200742 original size:17 final size:18
Alignment explanation
Indices: 40200720--40200753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40200710 TATTAATTTT
40200720 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
40200737 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
40200754 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:40201066 original size:20 final size:20
Alignment explanation
Indices: 40201013--40201066 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
40201003 TACATAAAAA
* *
40201013 ATTATATAAAATTTTTAAAT
1 ATTATCTAAATTTTTTAAAT
* *
40201033 TTTATCTAATTTTTTTAAAT
1 ATTATCTAAATTTTTTAAAT
40201053 ATTA-CTTAAATTTT
1 ATTATC-TAAATTTT
40201067 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATCTAAATTTTTTAAAT
Found at i:40201177 original size:39 final size:39
Alignment explanation
Indices: 40201128--40201203 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
40201118 AAAATTGTAA
* *
40201128 AAAAGTCAAGCATTAGCGGCATTTATGATAAAAACGCGT
1 AAAAGGCAAGCAATAGCGGCATTTATGATAAAAACGCGT
* * *
40201167 AAAAGGCAAGCAATAGTGGCGTTTATGATGAAAACGC
1 AAAAGGCAAGCAATAGCGGCATTTATGATAAAAACGC
40201204 CATAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (39 bp):
AAAAGGCAAGCAATAGCGGCATTTATGATAAAAACGCGT
Found at i:40201334 original size:18 final size:18
Alignment explanation
Indices: 40201307--40201341 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
40201297 CTCTCCCCCA
40201307 ATTCCCTTTTCTTTCTCG
1 ATTCCCTTTTCTTTCTCG
*
40201325 ATTCCTTTTTCTTTCTC
1 ATTCCCTTTTCTTTCTC
40201342 AGCCATTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCG
Found at i:40201389 original size:20 final size:18
Alignment explanation
Indices: 40201374--40201409 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
40201364 TATTTCTCTC
*
40201374 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
40201392 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
40201410 TCTTAGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:40201390 original size:72 final size:72
Alignment explanation
Indices: 40201292--40201440 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
40201282 AGTGCCGTTT
* * * *
40201292 TATTTCTCTCCCCCAATTCCCTTTTCTTTCTCGATTCCTTTTTCTTTCTCAGCCATTCTCAGCCT
1 TATTTCTCTCCCCCAATTCCCTTTTCTTTCCCAATTCCCTTTTCTTTCTCAGCCATTCTCAACCT
40201357 GTACTTC
66 GTACTTC
* * *
40201364 TATTTCTCTCCCCCGATTCCCTTTTCTTTCCCAATTCCCTTTTCTTTCTTAGCCTTTCTCAACCT
1 TATTTCTCTCCCCCAATTCCCTTTTCTTTCCCAATTCCCTTTTCTTTCTCAGCCATTCTCAACCT
*
40201429 GTTCTTC
66 GTACTTC
40201436 TATTT
1 TATTT
40201441 TATACTCGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.11, C:0.36, G:0.05, T:0.49
Consensus pattern (72 bp):
TATTTCTCTCCCCCAATTCCCTTTTCTTTCCCAATTCCCTTTTCTTTCTCAGCCATTCTCAACCT
GTACTTC
Found at i:40201665 original size:15 final size:15
Alignment explanation
Indices: 40201645--40201674 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40201635 ATCGTCTTAA
40201645 AATTTTAGAAATTTT
1 AATTTTAGAAATTTT
40201660 AATTTTAGAAATTTT
1 AATTTTAGAAATTTT
40201675 CAATCGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AATTTTAGAAATTTT
Found at i:40204432 original size:43 final size:43
Alignment explanation
Indices: 40204366--40204535 Score: 252
Period size: 43 Copynumber: 4.0 Consensus size: 43
40204356 GTTCGTGGCA
* **
40204366 TTTGTGGGAAAAGCACTGCTAAAGGTCATGTTCTTTAGCGGAG
1 TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGAG
** *
40204409 TTTGTGAAAAAAGCGCCGA-TAAAGGTCATGTTCTTTAGCGGCG
1 TTTGTGGGAAAAGCGCC-ACTAAAGGTCATGTTCTTTAGCGGAG
*
40204452 TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGTG
1 TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGAG
*
40204495 TTTGTGGGAAAAGTGCCACTAAAGGTCATGTTCTTTAGCGG
1 TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGG
40204536 CTTCTTTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 114 0.99
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGAG
Found at i:40205797 original size:24 final size:24
Alignment explanation
Indices: 40205770--40205822 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
40205760 TGGGGGTAGG
* *
40205770 ATCTGTGACTATATCTGTATCTGA
1 ATCTGTGACTACATCTGTATCTAA
* *
40205794 ATCTGTGTCTACATTTGTATCTAA
1 ATCTGTGACTACATCTGTATCTAA
40205818 ATCTG
1 ATCTG
40205823 AATACACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (24 bp):
ATCTGTGACTACATCTGTATCTAA
Found at i:40211267 original size:26 final size:26
Alignment explanation
Indices: 40211238--40211292 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
40211228 TTTGGAATAA
40211238 GTTTTTGGATTTGGTT-TT-GTTTTTGG
1 GTTTTT-GATTT-GTTCTTGGTTTTTGG
40211264 GTTTTTGATTTGTTCGTTGGTTTTTGG
1 GTTTTTGATTTGTTC-TTGGTTTTTGG
40211291 GT
1 GT
40211293 GTTCTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 3 0.12
25 5 0.19
26 8 0.31
27 10 0.38
ACGTcount: A:0.04, C:0.02, G:0.31, T:0.64
Consensus pattern (26 bp):
GTTTTTGATTTGTTCTTGGTTTTTGG
Found at i:40212063 original size:30 final size:30
Alignment explanation
Indices: 40212027--40212141 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
40212017 ACTTTTCTCA
*
40212027 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
40212057 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * * *
40212087 ACTAGCCACTCATTTTTCACCACCGACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
40212117 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
40212142 CTTGTACCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:40212092 original size:60 final size:60
Alignment explanation
Indices: 40212027--40212141 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
40212017 ACTTTTCTCA
* *
40212027 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
* *
40212087 ACTAGCCACTCATTTTTCACCACCGACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
40212142 CTTGTACCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:40212718 original size:27 final size:25
Alignment explanation
Indices: 40212637--40212758 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
40212627 ATTATATTTC
* *
40212637 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATATATATATAT
* **
40212661 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATATATATATAT
* *
40212682 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TATATATATAT
* * * *
40212709 TTTATACTATTTTATTTATATATCT
1 TTAATACTATATTATATATATATAT
* *
40212734 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATATATATATAT
40212759 NNNNNNNNNN
Statistics
Matches: 74, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.03
22 15 0.20
23 8 0.11
24 2 0.03
25 35 0.47
26 1 0.01
27 11 0.15
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATACTATATTATATATATATAT
Found at i:40212728 original size:25 final size:25
Alignment explanation
Indices: 40212700--40212758 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
40212690 ATATTACGTA
* *
40212700 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
40212725 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
40212750 TATATATAT
1 TATATATAT
40212759 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:40222453 original size:74 final size:73
Alignment explanation
Indices: 40222352--40222549 Score: 297
Period size: 74 Copynumber: 2.7 Consensus size: 73
40222342 TGATGTTTTT
*
40222352 ATTTCTGATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGA
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGA
*
40222417 GGTATTTTTAA
64 GGTA-ATTTAA
* * *
40222428 ATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
*
40222493 TAATTTCA
66 TAATTTAA
* *
40222501 ATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCC
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
40222550 TCGGCTCTCA
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
73 50 0.44
74 51 0.45
76 12 0.11
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (73 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
TAATTTAA
Found at i:40222545 original size:73 final size:74
Alignment explanation
Indices: 40222367--40222553 Score: 304
Period size: 73 Copynumber: 2.5 Consensus size: 74
40222357 TGATTTTCAA
* * *
40222367 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
*
40222432 CTGTTTTTC
66 CTGTTTGTC
* *
40222441 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
40222505 CTGTTTGTC
66 CTGTTTGTC
*
40222514 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
40222554 CTCTCATGCT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 54 0.51
74 51 0.49
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
CTGTTTGTC
Found at i:40222591 original size:14 final size:14
Alignment explanation
Indices: 40222572--40222599 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
40222562 CTGAGGTCTT
40222572 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
40222586 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
40222600 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:40222773 original size:240 final size:238
Alignment explanation
Indices: 40222365--40222838 Score: 815
Period size: 240 Copynumber: 2.0 Consensus size: 238
40222355 TCTGATTTTC
40222365 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTTAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTTAAAT
* * *
40222430 TTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
66 TTCTATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
* *
40222495 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCTCA
131 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACA
40222560 TGCTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTTCGTA
196 TGCTGAGGTCTTTTCAATTTCTGCTT-TTCAATTTCTGTTCGTA
*
40222603 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTTAAAT
*
40222668 TTCTATTTTTCAAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGG
66 TTCTATTTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGG
* *
40222733 TAATTTCAATTTCTGTTTGTCAAAATTTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCA
129 TAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
* *
40222798 CATGCTGAGGTCTTTTTAATTTCTGCTTTTTAATTTCTGTT
194 CATGCTGAGGTCTTTTCAATTTCTGCTTTTCAATTTCTGTT
40222839 TTTTCAATTT
Statistics
Matches: 222, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
238 74 0.33
240 146 0.66
241 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (238 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTTAAAT
TTCTATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACA
TGCTGAGGTCTTTTCAATTTCTGCTTTTCAATTTCTGTTCGTA
Found at i:40222819 original size:75 final size:74
Alignment explanation
Indices: 40222589--40222822 Score: 281
Period size: 76 Copynumber: 3.1 Consensus size: 74
40222579 TCTGTTCTTC
* *
40222589 AATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTGT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
40222654 AGGTATTTTT
65 AGGTATTTTT
* * * * *
40222664 AAATTTCTATTTTTCAAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGGGACACGCT
1 -AATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* *
40222729 GAGGTAATTTC
64 GAGGTATTTTT
* * * * *
40222740 AATTTCTGTTTGTC-AAAATTTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACATGCT
1 AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCT
*
40222804 GAGGTCTTTTT
64 GAGGTATTTTT
40222815 AATTTCTG
1 AATTTCTG
40222823 CTTTTTAATT
Statistics
Matches: 133, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
73 34 0.26
75 34 0.26
76 65 0.49
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTT
Found at i:40222842 original size:15 final size:14
Alignment explanation
Indices: 40222809--40222848 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
40222799 ATGCTGAGGT
40222809 CTTTTTAATTTCTG
1 CTTTTTAATTTCTG
40222823 CTTTTTAATTTCTG
1 CTTTTTAATTTCTG
*
40222837 TTTTTTCAATTT
1 CTTTTT-AATTT
40222849 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (14 bp):
CTTTTTAATTTCTG
Found at i:40223643 original size:30 final size:30
Alignment explanation
Indices: 40223607--40223679 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
40223597 ACTTTTCTCA
40223607 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
40223637 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
40223667 ACTAGCCAACTCC
1 ACTAGCC-ACTCC
40223680 ACTAGCCACA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 36 0.90
31 4 0.10
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:40223677 original size:13 final size:13
Alignment explanation
Indices: 40223659--40223687 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40223649 TTTTCCACCA
40223659 CCAACTCCACTAG
1 CCAACTCCACTAG
40223672 CCAACTCCACTAG
1 CCAACTCCACTAG
40223685 CCA
1 CCA
40223688 CACCTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.48, G:0.07, T:0.14
Consensus pattern (13 bp):
CCAACTCCACTAG
Done.