Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 125 of 253
Found at i:39662111 original size:40 final size:40
Alignment explanation
Indices: 39662074--39662298 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
39662064 GCTACTCGTT
* * *
39662074 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
39662114 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39662154 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39662194 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
39662233 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39662274 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39662299 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39662258 original size:119 final size:120
Alignment explanation
Indices: 39662074--39662298 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
39662064 GCTACTCGTT
*
39662074 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
39662139 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
39662194 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCAGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
39662256 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
39662299 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39668980 original size:79 final size:82
Alignment explanation
Indices: 39668869--39669053 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
39668859 GCTACTCGTT
* *
39668869 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39668932 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39668949 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39669012 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39669029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39669054 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39669053 original size:40 final size:40
Alignment explanation
Indices: 39668850--39669053 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39668840 CGGAATTTAA
** *
39668850 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39668890 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39668930 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39668969 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39669009 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39669049 CCGGA
1 CCGGA
39669054 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39676906 original size:79 final size:82
Alignment explanation
Indices: 39676795--39676979 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
39676785 GCTACTCGTT
* *
39676795 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39676858 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39676875 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39676938 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39676955 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39676980 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39676979 original size:40 final size:40
Alignment explanation
Indices: 39676776--39676979 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39676766 CGGAATTTAA
** *
39676776 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39676816 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39676856 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39676895 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39676935 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39676975 CCGGA
1 CCGGA
39676980 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39682705 original size:132 final size:132
Alignment explanation
Indices: 39682446--39682945 Score: 745
Period size: 132 Copynumber: 3.8 Consensus size: 132
39682436 GACATTTTCC
* * * * * *
39682446 TAAGGGTTGGTACATGTATGCTTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTC-AGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * * *
39682510 GACGACACTTTTGTGACTACA-TTTCCTAAATGTTGGGATAGACTATGTTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
39682574 TA
131 TA
* *
39682576 TAAGGGTTAGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * *
39682641 GAAGACACTTTTGTGGTGACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
39682706 TA
131 TA
*
39682708 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
* * *
39682773 GACGACACTTTTGTGGCGACACTTTTCTAAGTGTTGGAATAGACTACGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
39682838 TA
131 TA
* * *
39682840 TAAGGGTTGGGATATGTATGCCTAAGACAATGCTTGAATAAGAGTTGGC-TCTTGTCTAGTCTTA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTC-TGTCTAGTCCTA
* * *
39682904 AGACGACAGTTTTGGGGCGACACTTTTCTAAGTGTTGGGATA
65 AGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATA
39682946 CACTTGTCAG
Statistics
Matches: 336, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
130 48 0.14
131 26 0.08
132 262 0.78
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTCTAGTCCTAA
GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:39683281 original size:15 final size:15
Alignment explanation
Indices: 39683249--39683283 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
39683239 AGTTTAAAGT
*
39683249 TTTA-GGGTTTTGTG
1 TTTATGGGTTTGGTG
39683263 TTTATGGGTTTGGTG
1 TTTATGGGTTTGGTG
39683278 TTTATG
1 TTTATG
39683284 ATTTTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (15 bp):
TTTATGGGTTTGGTG
Found at i:39683281 original size:37 final size:37
Alignment explanation
Indices: 39683240--39683317 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
39683230 AGTTTATATA
* * * *
39683240 GTTTAA-AGTTTTAGGGTTTTGTGTTTATGGGTTTGGT
1 GTTTAAGA-TTTTAGGGTTTTATGATTATGGATTTGGG
*
39683277 GTTTATGATTTTAGGGTTTTATGATTATGGATTTGGG
1 GTTTAAGATTTTAGGGTTTTATGATTATGGATTTGGG
39683314 GTTT
1 GTTT
39683318 TGTGATTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (37 bp):
GTTTAAGATTTTAGGGTTTTATGATTATGGATTTGGG
Found at i:39683328 original size:22 final size:22
Alignment explanation
Indices: 39683268--39683333 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
39683258 TTGTGTTTAT
* * *
39683268 GGGTTTGGTGTTTAT-GATTTTA
1 GGGTTTTGTGATTATGGA-TTTG
*
39683290 GGGTTTTATGATTATGGATTTG
1 GGGTTTTGTGATTATGGATTTG
*
39683312 GGGTTTTGTGATTATGGGTTTG
1 GGGTTTTGTGATTATGGATTTG
39683334 TGATTAATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.52
Consensus pattern (22 bp):
GGGTTTTGTGATTATGGATTTG
Found at i:39683331 original size:37 final size:37
Alignment explanation
Indices: 39683251--39683332 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
39683241 TTTAAAGTTT
* * * * *
39683251 TAGGGTTTTGTGTTTATGGGTTTGGTGTTTATGATTT
1 TAGGGTTTTATGATTATGGATTTGGGGTTTATGATTA
*
39683288 TAGGGTTTTATGATTATGGATTTGGGGTTTTGTGATTA
1 TAGGGTTTTATGATTATGGATTTGGGG-TTTATGATTA
39683326 T-GGGTTT
1 TAGGGTTT
39683333 GTGATTAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 29 0.76
38 9 0.24
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (37 bp):
TAGGGTTTTATGATTATGGATTTGGGGTTTATGATTA
Found at i:39683459 original size:22 final size:22
Alignment explanation
Indices: 39683424--39683465 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39683414 TTATGACTAC
*
39683424 GGTTTAGGGTTTTATGGTTTGT
1 GGTTTAGGGTTTTAAGGTTTGT
39683446 GGTTTAGGAG-TTTAAGGTTT
1 GGTTTAGG-GTTTTAAGGTTT
39683466 ATTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GGTTTAGGGTTTTAAGGTTTGT
Found at i:39683464 original size:15 final size:15
Alignment explanation
Indices: 39683446--39683489 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
39683436 TATGGTTTGT
*
39683446 GGTTTAGGAGTTTAA
1 GGTTTAGGATTTTAA
**
39683461 GGTTTATTATTTTAA
1 GGTTTAGGATTTTAA
39683476 GGTTTAGGATTTTA
1 GGTTTAGGATTTTA
39683490 TGGTCTTGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
GGTTTAGGATTTTAA
Found at i:39684019 original size:47 final size:47
Alignment explanation
Indices: 39683950--39684122 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
39683940 TTAAGAATGT
*
39683950 ATGCATACTTTACCCGGATAAAGTATGTATCAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
39683997 ATGCATACTTTACCTGGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
39684044 ATGCATACTTTACCCGGATAAAGTATGTATTAGTAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
* *
39684091 ATGCATACTTTACCCGGGTAAAGTATGCATTA
1 ATGCATACTTTACCCGGATAAAGTATGTATTA
39684123 TTTATTTGAT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
Found at i:39686828 original size:7 final size:6
Alignment explanation
Indices: 39686786--39686824 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
39686776 TTCAATCTTT
*
39686786 ATTTTA ATTTTA ATTTTA ATTTTGT ATTTTAA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTTA A
39686825 ATTTCTTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:39686990 original size:39 final size:37
Alignment explanation
Indices: 39686936--39687366 Score: 132
Period size: 38 Copynumber: 11.7 Consensus size: 37
39686926 ATTATACGTG
* * *
39686936 TCTATCCCAATCTTTTTTTATAGGTTGTTTTAAATAATA
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTAAA-AAGA
* *
39686975 TCTATCCCAACC--TTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * * *
39687010 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTA-AAAAGA
* * * *
39687048 TCTATCCCAACC--TTTTTAAGGTTACCTT-AGACGA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * * * *
39687082 GTCTATTCCGACCTATTTTAAAGGTTGCCTTAGACATGG
1 -TCTATCCCAACCTTTTTTTAAGGTTGCTTTA-AAAAGA
* * * * * *
39687121 TCTATCCTAACC--TGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* *
39687156 TCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATG-
1 TCTATCCCAACCTTTTTTTA-AGGTTGCTTTA-A-AAAGA
* * * ** *
39687195 TCGATCCCAACC--TTTTTAAGGTTGCATTAGACGGC
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
* * * * *
39687230 TCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAGA
1 TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAA-AAGA
* ** * * * *
39687268 ACTATATCGACC--TTTTTAAGGTTG-TCTTAGACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCT-TTAAAAAGA
* * ** * ** *
39687303 TTTATCACAACCTTTTTCAAAGGTTGGTCTTAACTAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCT-TTAAAAAGA
* *
39687341 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAACCTTTTTTTAAGGTTG
39687367 GCATTGACTA
Statistics
Matches: 292, Mismatches: 79, Indels: 43
0.71 0.19 0.10
Matches are distributed among these distances:
34 5 0.02
35 55 0.19
36 64 0.22
37 69 0.24
38 72 0.25
39 25 0.09
40 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTTAAGGTTGCTTTAAAAAGA
Found at i:39687004 original size:36 final size:35
Alignment explanation
Indices: 39686975--39687366 Score: 304
Period size: 37 Copynumber: 10.7 Consensus size: 35
39686965 TTAAATAATA
* * *
39686975 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* *
39687010 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
*
39687048 TCTATCCCAACCTTTTTAAGGTTACCTTAGACGA-G
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-ATG
* *
39687083 TCTATTCCGACCTATTTTAAAGGTTGCCTTAGACATGG
1 TCTATCCCAACCT-TTTT-AAGGTTGCCTTAGACAT-G
* * *
39687121 TCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
**
39687156 TCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATG
1 TCTATCCCAACC--TTTTTA-AGGTTGCCTTAGAC-ATG
* * *
39687195 TCGATCCCAACCTTTTTAAGGTTGCATTAGAC-GG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
39687229 CTCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAG
1 -TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACATG
* ** * * *
39687267 AACTATATCGACCTTTTTAAGGTTGTCTTAGACAGG
1 -TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
39687303 TTTATCACAACCTTTTTCAAAGGTTGGTCTTA-ACTAGG
1 TCTATCCCAACCTTTTT--AAGGTT-GCCTTAGAC-ATG
39687341 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAA-CCTTTTT-AAGGTTG
39687367 GCATTGACTA
Statistics
Matches: 291, Mismatches: 45, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
34 1 0.00
35 58 0.20
36 71 0.24
37 72 0.25
38 69 0.24
39 20 0.07
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
Found at i:39687058 original size:73 final size:73
Alignment explanation
Indices: 39686975--39687366 Score: 407
Period size: 73 Copynumber: 5.3 Consensus size: 73
39686965 TTAAATAATA
* * * *
39686975 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
39687040 AGACATGG
66 AGACATGG
* * * *
39687048 TCTATCCCAACCTTTTTAAGGTTACCTTAGAC-GAGTCTATTCCGACCTATTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTTTTTAAAGGTTGCCT
39687112 TAGACATGG
65 TAGACATGG
* * * **
39687121 TCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTTATAGGTTGTTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTTAAAGGTTGCCT
39687186 TAGACAAT-G
65 TAGAC-ATGG
* * * * *
39687195 TCGATCCCAACCTTTTTAAGGTTGCATTAGAC-GGCTCTATTCCAACCGTTTTTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG-TCTATCCCAACCTTTTTTAAAGGTTGCCT
* * *
39687259 TAAACAAGA
65 TAGACATGG
* ** * * * * * *
39687268 ACTATATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGTCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTT-GCCT
39687333 TA-AC-TAGG
65 TAGACAT-GG
39687341 TCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAA-CCTTTTT-AAGGTTG
39687367 GCATTGACTA
Statistics
Matches: 258, Mismatches: 50, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
72 2 0.01
73 174 0.67
74 73 0.28
75 9 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
AGACATGG
Found at i:39687248 original size:147 final size:145
Alignment explanation
Indices: 39686965--39687371 Score: 444
Period size: 147 Copynumber: 2.8 Consensus size: 145
39686955 ATAGGTTGTT
* * * * *
39686965 TTAAATAATATCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAA
1 TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAA
* ** * * *
39687030 AAGTTACCTTAGACATGGTCTATCCCAACCTTTTTAAGGTTACCTTAGACGAGTCTATTCCGACC
66 AGGTTGTCTTAGACAT-GTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAGTCTATTCCAACC
*
39687095 TATTTTAAAGGTTGCC
130 TATTTTAAAAGTTGCC
* * * *
39687111 TTAGACATGGTCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTTA
1 TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTTA
* * *
39687176 TAGGTTGTTTTAGACAATGTCGATCCCAACCTTTTTAAGGTTGCATTAGACG-GCTCTATTCCAA
65 AAGGTTGTCTTAGAC-ATGTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAG-TCTATTCCAA
39687240 CCGT-TTTTAAAAGTTGCC
128 CC-TATTTTAAAAGTTGCC
* * * * * * *
39687258 TTAAACAAGAACTAT-ATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCA
1 TTAAACAAGATCTATCCT-AACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTA
*
39687322 AAGGTTGGTCTTA-ACTAGGTCTATCCCAACCCTTTTTAAAGGTTGGCATT
65 AAGGTT-GTCTTAGAC-ATGTCTATCCCAA-CCTTTTT-AAGGTT-GCATT
39687372 GACTAAGCCT
Statistics
Matches: 217, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
146 74 0.34
147 129 0.59
148 9 0.04
149 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (145 bp):
TTAAACAAGATCTATCCTAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAA
AGGTTGTCTTAGACATGTCTATCCCAACCTTTTTAAGGTTGCATTAGACGAGTCTATTCCAACCT
ATTTTAAAAGTTGCC
Found at i:39687345 original size:220 final size:222
Alignment explanation
Indices: 39686935--39687366 Score: 538
Period size: 220 Copynumber: 2.0 Consensus size: 222
39686925 TATTATACGT
* * *
39686935 GTCTATCCCAATCTTTTTTTATAGGTTGTTTTAAATAATATCTATCCCAACCTTTTTAAGGTTGC
1 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
* * * * ** *
39687000 TTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGGTCTATCCCAACCTTTTT
66 ATTAAACAGGTCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTTT
* *
39687065 AAGGTTACCTTAGACGAGTCTATTCCGACCTATTTTAAAGGTTGCCTTAGACATGGTCTATCCTA
131 AAGGTTACCTTAGACGAGTCTATTCCAACCTATTTTAAAGGTTGCCTTAGACATGGTCTATCCCA
39687130 A-CCTGTTT-AAGGTTGCCTTAGACAG
196 ACCCTGTTTAAAGGTTGCCTTAGACAG
* *
39687155 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATGTCGATCCCAACCTTTTTAAGGTTGC
1 GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
* * * * *
39687220 ATTAGAC-GGCTCTATTCCAACCGTTTTTAAAAGTTGCCTTAAACAAGAACTATATCGACCTTTT
66 ATTAAACAGG-TCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTT
** * *
39687284 TAAGGTTGTCTTAGAC-AGGTTTA-TCACAACCT-TTTTCAAAGGTTGGTCTTA-AC-TAGGTCT
130 TAAGGTTACCTTAGACGA-GTCTATTC-CAACCTATTTT-AAAGGTT-GCCTTAGACAT-GGTCT
*
39687344 ATCCCAACCCTTTTTAAAGGTTG
190 ATCCCAACCCTGTTTAAAGGTTG
39687367 GCATTGACTA
Statistics
Matches: 180, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
219 10 0.06
220 152 0.84
221 11 0.06
222 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (222 bp):
GTCTATCCCAACCTTTTTTTATAGGTTGTTTTAAACAATATCGATCCCAACCTTTTTAAGGTTGC
ATTAAACAGGTCTATCCCAACCGTTTTTAAAAGTTACCTTAAACAAGAACTATACCAACCTTTTT
AAGGTTACCTTAGACGAGTCTATTCCAACCTATTTTAAAGGTTGCCTTAGACATGGTCTATCCCA
ACCCTGTTTAAAGGTTGCCTTAGACAG
Found at i:39687676 original size:16 final size:17
Alignment explanation
Indices: 39687645--39687677 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39687635 AGAAGTGTAG
39687645 TTTTATATTGATTTTAC
1 TTTTATATTGATTTTAC
*
39687662 TTTTAT-TTTATTTTAC
1 TTTTATATTGATTTTAC
39687678 CACTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTATATTGATTTTAC
Found at i:39692710 original size:17 final size:17
Alignment explanation
Indices: 39692690--39692728 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39692680 AGTTTTATGG
* *
39692690 TTTTTTTTATTTTAGAA
1 TTTTTTTAATGTTAGAA
*
39692707 TTTTTTTAATGTTATAA
1 TTTTTTTAATGTTAGAA
39692724 TTTTT
1 TTTTT
39692729 GAATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTTTTAATGTTAGAA
Found at i:39698008 original size:56 final size:56
Alignment explanation
Indices: 39697922--39698041 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39697912 ACAAGGGATG
39697922 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39697978 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39698034 ATGGGCAA
1 ATGGGCAA
39698042 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39700016 original size:22 final size:22
Alignment explanation
Indices: 39699989--39700110 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
39699979 CATGTGTATG
39699989 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
39700011 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
39700036 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
39700058 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
39700083 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
39700105 TGTGAT
1 TGTGAT
39700111 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:39700144 original size:47 final size:47
Alignment explanation
Indices: 39699494--39700137 Score: 940
Period size: 47 Copynumber: 13.6 Consensus size: 47
39699484 TATTTGAATA
*
39699494 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
39699541 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699590 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699639 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
39699686 AATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
39699734 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
39699781 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699830 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699877 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699924 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39699971 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39700018 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
39700065 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
39700112 GATGTGGAAGTGTATAAATGTG-TAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39700138 TCCCGAAGGG
Statistics
Matches: 566, Mismatches: 24, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
46 5 0.01
47 374 0.66
48 46 0.08
49 140 0.25
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:39713471 original size:40 final size:40
Alignment explanation
Indices: 39713360--39713575 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
39713350 AGATGATAAT
* *
39713360 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
* *
39713400 CGGGCTAAG-CCCAAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
39713439 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
39713479 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
39713519 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
39713559 C-GACTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
39713576 TACCGGGTTG
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 49 0.31
40 110 0.69
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:39721388 original size:80 final size:80
Alignment explanation
Indices: 39721215--39721435 Score: 279
Period size: 79 Copynumber: 2.8 Consensus size: 80
39721205 TATTCGGATG
* * * *
39721215 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCAAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
*
39721278 ATTCGTGTGAGTTACT
65 ATTCGTGCGAGTTACT
* **
39721294 ATATCTAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
39721359 TTTGTGCGAGTTACT
66 TTCGTGCGAGTTACT
* * * *
39721374 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
39721436 TACCGGGTTG
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 63 0.51
80 60 0.49
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCGAGTTACT
Found at i:39721431 original size:119 final size:119
Alignment explanation
Indices: 39721219--39721435 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 119
39721209 CGGATGATAA
* * * *
39721219 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCAAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTCGA
* *
39721284 GTGAGTTACTATATCTAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
66 GCGAGTTACTATATCTAGGCTAAATCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
39721338 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGCATTC
* *
39721402 GAGCGAG-TAGTTATATC-CGGCTAAATCCCGAAGG
64 GAGCGAGTTA-CTATATCTAGGCTAAATCCCGAAGG
39721436 TACCGGGTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 2 0.02
119 60 0.71
120 22 0.26
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTCGA
GCGAGTTACTATATCTAGGCTAAATCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:39721435 original size:39 final size:40
Alignment explanation
Indices: 39721219--39721435 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
39721209 CGGATGATAA
* * *
39721219 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
39721259 CCGGGCTAAG-CCCAAAGGCATTCGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
39721298 CTAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39721338 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39721378 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
39721418 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39721436 TACCGGGTTG
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 46 0.30
40 108 0.70
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39727757 original size:21 final size:20
Alignment explanation
Indices: 39727733--39727771 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39727723 CCGTGTTGAT
39727733 TTCGTACATTGGCCCATTTTC
1 TTCGT-CATTGGCCCATTTTC
**
39727754 TTCGTTTTTGGCCCATTT
1 TTCGTCATTGGCCCATTT
39727772 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.26, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCGTCATTGGCCCATTTTC
Found at i:39730894 original size:40 final size:39
Alignment explanation
Indices: 39730704--39730887 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
39730694 CGAATGATGT
* * * *
39730704 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
39730744 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
39730784 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39730822 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39730863 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39730888 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39730909 original size:79 final size:79
Alignment explanation
Indices: 39730756--39730910 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
39730746 GGACTAAGAT
* **
39730756 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
39730821 ATCCAGGTTAAGTC
66 ATCCAGGTTAAGTC
* * *
39730835 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
39730898 TATATCC-GGTTAA
63 TAAATCCAGGTTAA
39730911 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCAGGTTAAGTC
Found at i:39734036 original size:61 final size:62
Alignment explanation
Indices: 39733971--39734088 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
39733961 CACGGGCAAT
* *
39733971 GGACACGGGCATGTGTCCAAG-TGTGTAACTCATTGTTTATGGTATAAAACCACACAGCCAA
1 GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACAGCCAA
*** *
39734032 GGACACGGGCATGTGTTTTAGCTGTGTAACTCACTATTTGTGGTATAAAACCACACA
1 GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACA
39734089 ATGAGGGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 18 0.36
62 32 0.64
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (62 bp):
GGACACGGGCATGTGTCCAAGCTGTGTAACTCACTATTTATGGTATAAAACCACACAGCCAA
Found at i:39737019 original size:20 final size:20
Alignment explanation
Indices: 39736975--39737035 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
39736965 CCGTGTGCCT
*
39736975 CACACGACATTAGACAAGCC
1 CACACGGCATTAGACAAGCC
* *
39736995 CACACGGCATTAGACACGCT
1 CACACGGCATTAGACAAGCC
* * *
39737015 GACACTGCATTAGACATGCC
1 CACACGGCATTAGACAAGCC
39737035 C
1 C
39737036 GTGTGTCTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.34, G:0.18, T:0.15
Consensus pattern (20 bp):
CACACGGCATTAGACAAGCC
Found at i:39742028 original size:42 final size:43
Alignment explanation
Indices: 39741923--39742086 Score: 118
Period size: 43 Copynumber: 3.8 Consensus size: 43
39741913 CAATGCCAAC
* * *
39741923 GTCCCAGATGTGGTCTTACATGTAACCAAATATCGATGCCATT
1 GTCCCAGATATGGTCTTACACGAAACCAAATATCGATGCCATT
* * * * *
39741966 GTTCCAGACAAGGTCTTACACGAAATCAAATAT-GATGTCGA-T
1 GTCCCAGATATGGTCTTACACGAAACCAAATATCGATG-CCATT
* * * **
39742008 GTCCCAGATATGGTCATACACGAAAATCATAA-GTCGATGCCAAC
1 GTCCCAGATATGGTCTTACACG-AAACCA-AATATCGATGCCATT
* * * * *
39742052 GTCACAGATGTGGCCTTACACGAAAACACATATCG
1 GTCCCAGATATGGTCTTACACGAAACCAAATATCG
39742087 GATCCTATGT
Statistics
Matches: 93, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
42 24 0.26
43 45 0.48
44 24 0.26
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
GTCCCAGATATGGTCTTACACGAAACCAAATATCGATGCCATT
Found at i:39762530 original size:45 final size:45
Alignment explanation
Indices: 39762474--39762565 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
39762464 TTTATTTGCC
* * *
39762474 TACACTCGAAAATTCATTTGAAATTTGAGAAGATTTAAATAAAAA
1 TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
* *
39762519 TACACTTGAAAATTCATTTAAAATTTTAAAAAATTTAAATAAAAA
1 TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
39762564 TA
1 TA
39762566 TTATGCTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.34
Consensus pattern (45 bp):
TACACTCGAAAATTCATTTAAAATTTGAAAAAATTTAAATAAAAA
Found at i:39770589 original size:47 final size:47
Alignment explanation
Indices: 39770535--39770728 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
39770525 TTAGGATTTT
** * *
39770535 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39770582 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39770629 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
39770676 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39770723 ATGTGA
1 ATGTGA
39770729 AATATTTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39770635 original size:22 final size:22
Alignment explanation
Indices: 39770564--39770635 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
39770554 GTATATATGA
39770564 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
39770586 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
39770611 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
39770633 GAT
1 GAT
39770636 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:39770684 original size:25 final size:25
Alignment explanation
Indices: 39770609--39770684 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39770599 ATGCATATAT
39770609 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39770634 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39770656 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39770681 GTGA
1 GTGA
39770685 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39770761 original size:48 final size:48
Alignment explanation
Indices: 39770698--39770879 Score: 294
Period size: 48 Copynumber: 3.8 Consensus size: 48
39770688 TGAACATGCA
39770698 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATG
*
39770746 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATG
* *
39770794 CATATGTGGTAAAGCCGAATGG-TCAATCTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATAT-T-TATGAGATATG
*
39770844 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
39770880 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 1 0.01
48 79 0.64
50 42 0.34
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATG
Found at i:39770853 original size:98 final size:96
Alignment explanation
Indices: 39770699--39770882 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
39770689 GAACATGCAT
*
39770699 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATCTGAAATATTTATGAGATATGTATATGTGGTAAAGCCGA
39770764 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
39770795 ATATGTGGTAAAGCCGAATGG-TCAATCTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATCTGAAATAT-T-TATGAGATATGTATATGTGGTAAAGC
*
39770859 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
39770883 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 32 0.39
97 1 0.01
98 49 0.59
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATCTGAAATATTTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:39771078 original size:37 final size:37
Alignment explanation
Indices: 39771028--39771099 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
39771018 GGAAATATAT
* *
39771028 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTAGAGATTTTG
*
39771065 TCCGGGTAAGACCCGATAACTTCGTGTAGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTAGAGATTT
39771100 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTAGAGATTTTG
Found at i:39775180 original size:48 final size:47
Alignment explanation
Indices: 39775124--39775337 Score: 193
Period size: 48 Copynumber: 4.5 Consensus size: 47
39775114 TGATGTGTGT
* *
39775124 GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCCATGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATG-TATGAGA
* * * **
39775172 GCCAGTGTAAGACCATG-CTTGGAACATAGCTTCGGTAATGTAATGAGA
1 GCCAGTGTAAGACCATGTC-TGGGACATGGCATCGGCCATGT-ATGAGA
* * *
39775220 GCCAGTGTAAAACCATGTCTAGGACATGGCA-CAGACTACAT-TATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGC--CATGTATGAGA
* * *
39775268 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TG-TATGAGA
* *
39775316 ACTAGTGTAAGACCATGTCTGG
1 GCCAGTGTAAGACCATGTCTGG
39775338 TCGACATGTG
Statistics
Matches: 132, Mismatches: 24, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 3 0.02
48 121 0.92
49 3 0.02
50 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGTATGAGA
Found at i:39782645 original size:25 final size:27
Alignment explanation
Indices: 39782593--39782656 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
39782583 TTATCGCTAT
* *
39782593 TATGTGTTGAATGATTGATTTTGCATAA
1 TATGTGTTGAATGA-TGATTATGAATAA
39782621 TATGT-TTGAATG-TGATTATGAATAA
1 TATGTGTTGAATGATGATTATGAATAA
* *
39782646 TGTGTGATGAA
1 TATGTGTTGAA
39782657 ATTAATGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 15 0.48
26 4 0.13
27 7 0.23
28 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (27 bp):
TATGTGTTGAATGATGATTATGAATAA
Found at i:39782794 original size:48 final size:48
Alignment explanation
Indices: 39782735--39782931 Score: 213
Period size: 48 Copynumber: 4.1 Consensus size: 48
39782725 TATGTGTGCT
*
39782735 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * *
39782783 AGTGTAAGACCATGTTTGGAACATGGCATCAGCAATG-TAATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGAT-ATGAGAGCC
* * * *
39782831 AGTGTAAGACCATGTTTGGGACATGGCATCAG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAG-AGCC
* * *
39782879 AGTGTAACACCATGTCTGGGACATGGCATCGGCCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCC
39782927 AGTGT
1 AGTGT
39782932 CCCAGACAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
47 4 0.03
48 118 0.94
49 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
Found at i:39782903 original size:96 final size:96
Alignment explanation
Indices: 39782732--39782908 Score: 250
Period size: 96 Copynumber: 1.8 Consensus size: 96
39782722 TGATATGTGT
* *
39782732 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAACACCATG
*
39782797 TTTGGAACATGGCATCAGCAATGTAATGAGA
66 TCTGGAACATGGCATCAGCAATGTAATGAGA
* * * *
39782828 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATTGATATGTGCA-CTAGTGTAACACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAG-AGCCAGTGTAACACCA
*
39782891 TGTCTGGGACATGGCATC
64 TGTCTGGAACATGGCATC
39782909 GGCCACATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 2 0.03
96 68 0.96
97 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAACACCATG
TCTGGAACATGGCATCAGCAATGTAATGAGA
Found at i:39783472 original size:48 final size:48
Alignment explanation
Indices: 39783420--39783511 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
39783410 CAAACATGGT
* *
39783420 CTTACACTAGCTCACATGT-TGAA-GCCGATGCCATGTCCCAGACAATGC
1 CTTACACTAACT--CATGTCTGAATGCCGATACCATGTCCCAGACAATGC
* *
39783468 CTTACACTAACTCTTGTCTTAATGCCGATACCATGTCCCAGACA
1 CTTACACTAACTCATGTCTGAATGCCGATACCATGTCCCAGACA
39783512 TACTAAGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 4 0.11
47 3 0.08
48 31 0.82
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (48 bp):
CTTACACTAACTCATGTCTGAATGCCGATACCATGTCCCAGACAATGC
Found at i:39783653 original size:196 final size:196
Alignment explanation
Indices: 39783319--39783687 Score: 571
Period size: 196 Copynumber: 1.9 Consensus size: 196
39783309 ATCATTATCA
*
39783319 TAAGCTTTAAAATAACCAGTGTAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
1 TAAGCTTTAAAATAACCAGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
* * * *
39783384 AAGGGTGAATTGTCGATGCCATGTTTCAAACATGGTCTTACACTAGCTCACATGTTGAAGCCGAT
66 AAGGGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCAT
**
39783449 GCCATGTCCCAGACAAT-GCCTTACACTAACTCTTGTCTTAATGCCGATACCATGTCCCAGACAT
131 GCCATGTCCCAGAC-ATGGCCTTACACTAACTCTCATCTTAATGCCGATACCATGTCCCAGACAT
39783513 AC
195 AC
* * *
39783515 TAAGCTTTAAAATAACTC-GTGAAACCATTTGGAATATTAAAGGATATCTGACAAGGTTTACACA
1 TAAGCTTTAAAATAAC-CAGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACA
* * *
39783579 AAAGGGTGAATTGCCGATGCCATGTTCCAAGCATGGTCTTACACTGGCTCACATGTCGAGGCCCA
65 AAAGGGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCA
* *
39783644 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATG
130 TGCCATGTCCCAGACATGGCCTTACACTAACTCTCATCTTAATG
39783688 TCTGGAACAT
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
195 2 0.01
196 153 0.98
197 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (196 bp):
TAAGCTTTAAAATAACCAGTGAAACCATTTGGAATACTAAAGGATATCTGACAAGCTATACACAA
AAGGGTGAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAAGCCCAT
GCCATGTCCCAGACATGGCCTTACACTAACTCTCATCTTAATGCCGATACCATGTCCCAGACATA
C
Found at i:39785773 original size:39 final size:40
Alignment explanation
Indices: 39785684--39785786 Score: 172
Period size: 39 Copynumber: 2.6 Consensus size: 40
39785674 AGTCCGGTTA
*
39785684 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
39785724 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
39785763 TAGTATCTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
39785787 AATCTTAGTC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 34 0.57
40 26 0.43
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
Found at i:39785840 original size:40 final size:40
Alignment explanation
Indices: 39785656--39785840 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
39785646 GCTACTCGTT
* * *
39785656 CAAATGCCTTCGGGACATAGTCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
39785696 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39785736 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
39785775 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39785816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39785841 CATCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39796960 original size:39 final size:40
Alignment explanation
Indices: 39796890--39797070 Score: 198
Period size: 39 Copynumber: 4.7 Consensus size: 40
39796880 GCTACTCGTT
* *
39796890 CAAATGCCTTC-GGACATAGTCCGG-TTATAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39796928 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
39796968 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
39797007 CAAATGCCTTC-GGATCTTAGTCCGGA-TT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39797046 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39797071 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 32 0.26
39 65 0.53
40 26 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39797440 original size:32 final size:32
Alignment explanation
Indices: 39797399--39797462 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
39797389 GAAAGAATGT
39797399 GTGTGAGTGTTCCCCCCCATTGCCGTGAGTTA
1 GTGTGAGTGTTCCCCCCCATTGCCGTGAGTTA
39797431 GTGTGAGTGTTCCCCCCCATTGCCGTGAGTTA
1 GTGTGAGTGTTCCCCCCCATTGCCGTGAGTTA
39797463 AAGAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.28, G:0.28, T:0.31
Consensus pattern (32 bp):
GTGTGAGTGTTCCCCCCCATTGCCGTGAGTTA
Found at i:39798824 original size:40 final size:40
Alignment explanation
Indices: 39798710--39798853 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
39798700 TACTCGAATG
*
39798710 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
39798751 ACATCCGGACTAAGAT--CGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
39798790 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
39798830 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39798854 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 19 0.21
40 57 0.63
41 12 0.13
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:39806818 original size:40 final size:40
Alignment explanation
Indices: 39806724--39806868 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
39806714 TACTCGAATG
*
39806724 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
39806765 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
39806805 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
39806845 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39806869 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:39808995 original size:3 final size:3
Alignment explanation
Indices: 39808989--39809038 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
39808979 TGTGACGATG
39808989 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39809036 ATA
1 ATA
39809039 GGAATGACAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:39810448 original size:37 final size:37
Alignment explanation
Indices: 39810398--39810477 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
39810388 TTATTACGAA
* * * *
39810398 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTTCCCGGACAAAATCCCCACACGAAGTCATCGG
*
39810435 GTCTTTCCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTTCCCGGACAAAATCCCCACACGAAGTCATCGG
39810472 GTCTTT
1 GTCTTT
39810478 GGAGCTCGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTTCCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39810664 original size:47 final size:47
Alignment explanation
Indices: 39810595--39811242 Score: 963
Period size: 47 Copynumber: 13.4 Consensus size: 47
39810585 CCTTTCGGGA
** *
39810595 CTTATCACATTTATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
39810642 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
39810689 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39810736 CTTATTACATATATACACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATAT----ACACTTTCACATTCATCACATCGGCTATTAGGC
*
39810787 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
39810834 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39810881 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGC
*
39810932 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
39810979 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
39811026 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGC
* *
39811077 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39811128 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39811177 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
39811224 CTTATCACACATATACACT
1 CTTATCACACATATACACT
39811243 CTCTTGGCTG
Statistics
Matches: 560, Mismatches: 25, Indels: 32
0.91 0.04 0.05
Matches are distributed among these distances:
47 334 0.60
49 52 0.09
51 166 0.30
53 4 0.01
55 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:39810799 original size:98 final size:97
Alignment explanation
Indices: 39810595--39811240 Score: 954
Period size: 98 Copynumber: 6.7 Consensus size: 97
39810585 CCTTTCGGGA
* *
39810595 CTTATCACATTTATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT---A
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAA
*
39810657 CACTTTCACATTCATCACGTCGGCTATTAGGC
66 CACTTTCACATTCATCACATCGGCTATTAGGC
* * *
39810689 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA-
39810754 ACACTTTCACATTCATCACATCGGCTATTAGGC
65 ACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39810787 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATAT---A
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAA
39810849 CACTTTCACATTCATCACATCGGCTATTAGGC
66 CACTTTCACATTCATCACATCGGCTATTAGGC
*
39810881 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
*
39810946 ---ACACTTTCACATTCATCACGTCGGCTATTAGGC
62 ACAACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
39810979 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA-
* *
39811044 ATACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCTATTAGGC
*
39811077 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATAT
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
*
39811140 ACATACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACA-ACACTTTCACATTCATCACATCGGCTATTAGGC
*
39811177 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
39811241 CTCTCTTGGC
Statistics
Matches: 508, Mismatches: 26, Indels: 32
0.90 0.05 0.06
Matches are distributed among these distances:
94 146 0.29
96 39 0.08
98 232 0.46
100 52 0.10
102 39 0.08
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAA
CACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:39810873 original size:145 final size:145
Alignment explanation
Indices: 39810610--39811242 Score: 1103
Period size: 145 Copynumber: 4.4 Consensus size: 145
39810600 CACATTTATG
39810610 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
39810675 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
39810740 TTACATATATACACA
131 TTACATATATACATA
39810755 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
39810820 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
39810885 TTACATATATACATA
131 TTACATATATACATA
*
39810900 TACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
39810965 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
39811030 TTACATATATACATA
131 TTACATATATACATA
* * *
39811045 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACATTCA
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATACACTTTCACATTCA
* * * *
39811110 TCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAG
62 TCACGTCGGCTATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCACATCGGCTATTAG
39811175 GCCTTATTAC--ATAT--ATA
125 GCCTTATTACATATATACATA
39811192 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
39811243 CTCTTGGCTG
Statistics
Matches: 471, Mismatches: 11, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
143 7 0.01
145 330 0.70
147 44 0.09
149 48 0.10
151 42 0.09
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (145 bp):
CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
TTACATATATACATA
Found at i:39815476 original size:97 final size:95
Alignment explanation
Indices: 39815321--39815588 Score: 304
Period size: 97 Copynumber: 2.8 Consensus size: 95
39815311 TTTAATCAAT
* * * *
39815321 TCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGCTCCTACTGCAACTTCAGGGA
1 TCCACTGTAACTTCAGGG-AATGAGA-TTGCTATCTTCAGTCTACTCCTACTGTAACTTCAGGGA
* *
39815386 GATTAGACTCATAACTTTTAGCTTCAATCTGC
64 GATAAGACTCATAACTTGTAGCTTCAATCTGC
* * * * *
39815418 TCCACTGTAACTTTAGGGAGATAAGATCTGCTATCTTTAGGCTACTCCTACTGTAACTTCAAGGA
1 TCCACTGTAACTTCAGGGA-ATGAGAT-TGCTATCTTCAGTCTACTCCTACTGTAACTTCAGGGA
* * *
39815483 GATGAGACTCGTAACTTGTAGCTTTAATCTGC
64 GATAAGACTCATAACTTGTAGCTTCAATCTGC
* * * * *
39815515 TCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTC-ACTATATCTTCAGGGA
1 TCCACTGTAACTTCAG-GGAATGAGATT-GCTATCTTCAGTCTACTCCTACTGTAACTTCAGGGA
39815579 GATAAGACTC
64 GATAAGACTC
39815589 GTGACTTCAA
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
96 25 0.17
97 115 0.80
98 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (95 bp):
TCCACTGTAACTTCAGGGAATGAGATTGCTATCTTCAGTCTACTCCTACTGTAACTTCAGGGAGA
TAAGACTCATAACTTGTAGCTTCAATCTGC
Found at i:39815539 original size:51 final size:50
Alignment explanation
Indices: 39815359--39815540 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 50
39815349 TGCTATCTTC
* *
39815359 AATCTGCTCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTC
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAAC-TTTAGCTTT
* * * * *
39815411 AATCTGCTCC-ACTGTAACTTTAGGGAGATAAGA-TCT-GC--TATCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
** * * *
39815456 AGGCTACTCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTGTAGCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAACTT-TAGCTTT
39815508 AATCTGCTCC-ACTGCAACTTCAGAGGA-ATGAGA
1 AATCTGCTCCTACTGCAACTTCAG-GGAGATGAGA
39815541 TTCACTATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 12 0.12
46 20 0.19
47 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 37 0.36
52 26 0.25
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
Found at i:39815706 original size:45 final size:45
Alignment explanation
Indices: 39815321--39815751 Score: 192
Period size: 44 Copynumber: 9.3 Consensus size: 45
39815311 TTTAATCAAT
* *
39815321 TCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGC
1 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * ** *
39815366 TCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTCAATCTGC
1 TCC-ACTGTAACTTCAGGGAAATAAGA-T--T---TGCTATCTTCAATCTGC
* * * * ** *
39815418 TCCACTGTAACTTTAGGGAGATAAGATCTGCTATCTTTAGGCTAC
1 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * *
39815463 TCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTG-TAGCTTTAATCTGC
1 TCC-ACTGTAACTTCAGGGAAAT-A-A---G--ATTTGCTATCTTCAATCTGC
* * ** * *
39815515 TCCACTGCAACTTCAGAGG-AATGAGATTCACTATCTTCAGTCTAC
1 TCCACTGTAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
39815560 TTCACTATATCTTCAGGGAGATAAGACTCG-TGA-CTTCAATCTGT
1 TCCACTGTAACTTCAGGGAAATAAGATTTGCT-ATCTTCAATCTGC
** * * * * *
39815604 TCCACTACAACTTCAAGAAAATAAGA-TTGAC-AGCTTTAATCTGT
1 TCCACTGTAACTTCAGGGAAATAAGATTTG-CTATCTTCAATCTGC
** *
39815648 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCCGC
1 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * *
39815693 TCCACTGTAACTTCAGGGAGATAGGACTCG-TAACTTCAACCTGC
1 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* *
39815737 CCCACTGCAACTTCA
1 TCCACTGTAACTTCA
39815752 AGGGGATAAG
Statistics
Matches: 289, Mismatches: 73, Indels: 49
0.70 0.18 0.12
Matches are distributed among these distances:
43 3 0.01
44 92 0.32
45 82 0.28
46 37 0.13
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 34 0.12
52 32 0.11
53 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
Found at i:39815761 original size:133 final size:133
Alignment explanation
Indices: 39815502--39815753 Score: 335
Period size: 133 Copynumber: 1.9 Consensus size: 133
39815492 CGTAACTTGT
* * * * *
39815502 AGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTCACTA
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
* * * **
39815567 TATCTTCAGGGAGATAAGACTCGTGACTTCAATCTGTTCCACTACAACTTCAAGAAAATAAGATT
66 TAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTACAACTTCAAGAAAATAAGATT
39815632 GAC
131 GAC
* ** *
39815635 AGCTTTAATCTGTTCCACTACAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCCGCTCCACT
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGG-AATAAGATTCACTATCTTCAATCCACTCCACT
* * *
39815699 GTAACTTCAGGGAGATAGGACTCGTAACTTCAACCTGCCCCACTGCAACTTCAAG
65 ATAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTACAACTTCAAG
39815754 GGGATAAGGT
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
132 2 0.02
133 99 0.98
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (133 bp):
AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
TAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTACAACTTCAAGAAAATAAGATT
GAC
Found at i:39816065 original size:111 final size:111
Alignment explanation
Indices: 39815871--39816097 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
39815861 ATCTGAATGA
39815871 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
39815936 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
*
39815982 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATGCAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
*
39816047 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTGCTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
39816093 ATCAA
1 ATCAA
39816098 GTTTCTATTG
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (111 bp):
ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
Found at i:39816475 original size:45 final size:44
Alignment explanation
Indices: 39816384--39816475 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 44
39816374 GAAGTGGAAT
* *
39816384 AATCACGGTAGCAAATTTTGCTAAAATATAAAATGATAATAAATG
1 AATCACGGTAGCAAATTTTGCAAAAATACAAAATGA-AATAAATG
*
39816429 AATCA-GGATAGCACATTTTGCCAAAAATACAAAATG-AATAAGATG
1 AATCACGG-TAGCAAATTTTG-CAAAAATACAAAATGAAATAA-ATG
39816474 AA
1 AA
39816476 AATAGGTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 7 0.17
45 21 0.51
46 13 0.32
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (44 bp):
AATCACGGTAGCAAATTTTGCAAAAATACAAAATGAAATAAATG
Found at i:39826822 original size:19 final size:19
Alignment explanation
Indices: 39826798--39826839 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
39826788 AATAAAATAC
39826798 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
39826817 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
39826836 CACA
1 CACA
39826840 ACCCTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (19 bp):
CACATCCAGTACGTTAGGA
Found at i:39828750 original size:14 final size:13
Alignment explanation
Indices: 39828728--39828759 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
39828718 TAATAGATTC
39828728 AAAAAGAAAAATA
1 AAAAAGAAAAATA
39828741 AAAAAGGAAAAATA
1 AAAAA-GAAAAATA
39828755 AAAAA
1 AAAAA
39828760 ATTCACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAATA
Found at i:39828801 original size:14 final size:15
Alignment explanation
Indices: 39828782--39828810 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39828772 AAACTTTAAT
39828782 CTTTTTTT-TATTTG
1 CTTTTTTTGTATTTG
39828796 CTTTTTTTGTATTTG
1 CTTTTTTTGTATTTG
39828811 ATAGCCGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (15 bp):
CTTTTTTTGTATTTG
Found at i:39849024 original size:16 final size:15
Alignment explanation
Indices: 39849000--39849029 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39848990 AACTATTTTA
39849000 TTACAAATTTCACTC
1 TTACAAATTTCACTC
39849015 TTACATAATTTCACT
1 TTACA-AATTTCACT
39849030 TACTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:39849466 original size:50 final size:50
Alignment explanation
Indices: 39849220--39849467 Score: 273
Period size: 50 Copynumber: 5.0 Consensus size: 50
39849210 CACCCTTGTA
** *
39849220 ACCGAACTATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCG
1 ACCGAACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCG
* * * *
39849270 ACC-AACAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ACCGAACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCG
* * * * * * *
39849319 ACCTAACCATCTGCTACACGTAGTAGCCTACACTTAGTACTACATACGTG
1 ACCGAACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCG
* * * * * * *
39849369 ATCGAAGTTGTCGGGTACCCATAGTAGCCTGCACTTAGTACTACACATGCA
1 ACCGAA-CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCG
* *
39849420 ACCTAACTATCTGGTACACGTACTAGCCTGCACTTAGTACTACACATG
1 ACCGAACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG
39849468 TAAACTAAAA
Statistics
Matches: 162, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 42 0.26
50 84 0.52
51 36 0.22
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
ACCGAACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCG
Found at i:39854013 original size:47 final size:47
Alignment explanation
Indices: 39853946--39854713 Score: 1221
Period size: 47 Copynumber: 16.1 Consensus size: 47
39853936 GAAATGATAG
* * *
39853946 TAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39853993 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39854042 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39854089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39854138 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39854185 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
39854234 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39854281 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39854328 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39854375 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39854424 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39854471 TAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39854518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39854567 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39854616 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
39854663 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39854710 TAAG
1 TAAG
39854714 TCCCGAAGGG
Statistics
Matches: 678, Mismatches: 33, Indels: 20
0.93 0.05 0.03
Matches are distributed among these distances:
47 404 0.60
49 274 0.40
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39854110 original size:96 final size:96
Alignment explanation
Indices: 39853946--39854713 Score: 1278
Period size: 96 Copynumber: 8.0 Consensus size: 96
39853936 GAAATGATAG
* * *
39853946 TAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39854011 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
39854042 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39854107 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
39854138 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39854203 GTGATGAATGTGAAAGTGTATACATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
39854234 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39854299 GTGATGAATGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
39854328 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39854393 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * *
39854424 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGCCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39854489 GTGATGAATGTGAAAGTG--TATATACGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
39854518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
39854583 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
39854616 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39854681 GTGATGGATGTGAAAGTGTATA-A-ATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
39854710 TAAG
1 TAAG
39854714 TCCCGAAGGG
Statistics
Matches: 637, Mismatches: 29, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
94 144 0.23
95 1 0.00
96 448 0.70
98 44 0.07
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:39854204 original size:143 final size:143
Alignment explanation
Indices: 39853946--39854713 Score: 1260
Period size: 143 Copynumber: 5.4 Consensus size: 143
39853936 GAAATGATAG
* *
39853946 TAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39854009 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39854074 AGTGTATATACGTGA
129 AGTGTATATACGTGA
39854089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39854154 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
39854219 TGTATACATATGTGA
131 TGTAT--ATACGTGA
*
39854234 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39854297 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39854362 TGTATATACGTGA
131 TGTATATACGTGA
*
39854375 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
39854440 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39854505 TGTATATACGTGA
131 TGTATATACGTGA
*
39854518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39854583 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39854648 AGTATATATATGTGA
129 AGTGTATATACGTGA
* * * * * * *
39854663 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39854714 TCCCGAAGGG
Statistics
Matches: 593, Mismatches: 24, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
141 42 0.07
143 382 0.64
144 1 0.00
145 168 0.28
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATACGTGA
Found at i:39854886 original size:35 final size:37
Alignment explanation
Indices: 39854832--39854908 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
39854822 CCGAGCTCTA
* *
39854832 AAGACCCGATGACTACGTGTGG-GATTTTGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39854867 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39854904 AAGAC
1 AAGAC
39854909 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 20 0.54
36 9 0.24
37 8 0.22
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39863058 original size:21 final size:20
Alignment explanation
Indices: 39863029--39863067 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
39863019 ACACCTACGA
39863029 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
39863049 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
39863068 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:39865746 original size:14 final size:14
Alignment explanation
Indices: 39865727--39865755 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39865717 CATATTTACC
39865727 TTCGATCAATATTA
1 TTCGATCAATATTA
39865741 TTCGATCAATATTA
1 TTCGATCAATATTA
39865755 T
1 T
39865756 CTTTATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTCGATCAATATTA
Found at i:39865865 original size:21 final size:20
Alignment explanation
Indices: 39865833--39865871 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
39865823 ACTCCTACGA
*
39865833 AAAGATCGCTTGGATTTAAG
1 AAAGATCACTTGGATTTAAG
39865853 AAAGAGTCACTTGGATTTA
1 AAAGA-TCACTTGGATTTA
39865872 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAGATCACTTGGATTTAAG
Found at i:39866010 original size:20 final size:20
Alignment explanation
Indices: 39865985--39866023 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39865975 AGGATTTGGT
*
39865985 TTGTTTATTTTATTATTATA
1 TTGTTTATTTTAGTATTATA
39866005 TTGTTTATTTTAGTATTAT
1 TTGTTTATTTTAGTATTAT
39866024 TTATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TTGTTTATTTTAGTATTATA
Found at i:39866062 original size:16 final size:15
Alignment explanation
Indices: 39866035--39866101 Score: 68
Period size: 14 Copynumber: 4.6 Consensus size: 15
39866025 TATCATTTCA
39866035 ATATATAATTTTAAT
1 ATATATAATTTTAAT
39866050 ATATATAAATTTTAAT
1 ATATAT-AATTTTAAT
**
39866066 ATAT-TAATAAT-AT
1 ATATATAATTTTAAT
* *
39866079 ATAAATAATATTAAT
1 ATATATAATTTTAAT
39866094 A-ATATAAT
1 ATATATAAT
39866102 AATACAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.11
14 16 0.36
15 10 0.23
16 13 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTTAAT
Found at i:39866078 original size:11 final size:11
Alignment explanation
Indices: 39866062--39866105 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
39866052 ATATAAATTT
39866062 TAATATATTAA
1 TAATATATTAA
*
39866073 TAATATATAAA
1 TAATATATTAA
39866084 T-A-ATATTAA
1 TAATATATTAA
*
39866093 TAATATAATAA
1 TAATATATTAA
39866104 TA
1 TA
39866106 CAGAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATATATTAA
Found at i:39866105 original size:20 final size:19
Alignment explanation
Indices: 39866062--39866105 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
39866052 ATATAAATTT
39866062 TAAT-ATATTAATAATATA
1 TAATAATATTAATAATATA
39866080 TAAATAATATTAATAATATAA
1 T-AATAATATTAATAATAT-A
39866101 TAATA
1 TAATA
39866106 CAGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.13
20 17 0.74
21 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAATATTAATAATATA
Found at i:39869930 original size:12 final size:12
Alignment explanation
Indices: 39869913--39870044 Score: 59
Period size: 12 Copynumber: 11.2 Consensus size: 12
39869903 TATATTTCTA
39869913 TATTATTTATTT
1 TATTATTTATTT
*
39869925 TATTATTCTA-TC
1 TATTATT-TATTT
*
39869937 TATTA-TTATAT
1 TATTATTTATTT
*
39869948 TATCTA-TTATTA
1 TAT-TATTTATTT
*
39869960 TATTATCTA-TT
1 TATTATTTATTT
39869971 TA-TATATTATTT
1 TATTAT-TTATTT
*
39869983 TA-TATATTATTA
1 TATTAT-TTATTT
39869995 TATATATTT-TTAT
1 TAT-TATTTATT-T
*
39870008 T-TCTATTTA-GT
1 TAT-TATTTATTT
*
39870019 TATTATTTA-GT
1 TATTATTTATTT
39870030 TATTATTTATATT
1 TATTATTTAT-TT
39870043 TA
1 TA
39870045 GTATATTTAG
Statistics
Matches: 94, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
10 5 0.05
11 30 0.32
12 48 0.51
13 8 0.09
14 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:39869931 original size:15 final size:15
Alignment explanation
Indices: 39869913--39870075 Score: 64
Period size: 15 Copynumber: 10.9 Consensus size: 15
39869903 TATATTTCTA
39869913 TATTATTTATTTTAT
1 TATTATTTATTTTAT
*
39869928 TATTCTATCTATTATTA-
1 TA-T-TATTTATT-TTAT
*
39869945 TATTATCTATTATTA-
1 TATTATTTATT-TTAT
*
39869960 TATTATCTA-TTTA-
1 TATTATTTATTTTAT
39869973 TA-TA-TTATTTTA-
1 TATTATTTATTTTAT
*
39869985 TA-TA-TTATTATAT
1 TATTATTTATTTTAT
39869998 ATATT-TTTATTTCTATT
1 -TATTATTTATTT-TA-T
39870015 TAGTTA-TTA-TTTAGT
1 TA-TTATTTATTTTA-T
*
39870030 TATTATTTATATTTAG
1 TATTATTTAT-TTTAT
*
39870046 TA-TATTTAGAATTTAT
1 TATTATTT--ATTTTAT
*
39870062 TATTATTTAATTTA
1 TATTATTTATTTTA
39870076 AGTTAAATAG
Statistics
Matches: 122, Mismatches: 8, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.02
12 17 0.14
13 5 0.04
14 6 0.05
15 48 0.39
16 16 0.13
17 25 0.20
18 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:39870027 original size:11 final size:11
Alignment explanation
Indices: 39870011--39870038 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
39870001 TTTTTATTTC
39870011 TATTTAGTTAT
1 TATTTAGTTAT
39870022 TATTTAGTTAT
1 TATTTAGTTAT
39870033 TATTTA
1 TATTTA
39870039 TATTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:39870061 original size:26 final size:27
Alignment explanation
Indices: 39870003--39870070 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
39869993 TATATATATT
* *
39870003 TTTATTTCTATTTAGTTATTATTTAGT
1 TTTATTTATATTTAGTTATTATTTAGA
39870030 TATTATTTATATTTAG-TA-TATTTAGAA
1 T-TTATTTATATTTAGTTATTATTTAG-A
39870057 TTTA-TTATTATTTA
1 TTTATTTA-TATTTA
39870071 ATTTAAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.08
26 16 0.44
27 4 0.11
28 13 0.36
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTATTTATATTTAGTTATTATTTAGA
Found at i:39870087 original size:31 final size:32
Alignment explanation
Indices: 39870029--39870136 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
39870019 TATTATTTAG
* **
39870029 TTATTATTTATATTT-AGTATATTTAGAATTTA
1 TTATTATTTA-ATTTAAGTATAATTAGAATAAA
*
39870061 TTATTATTTAATTTAAGT-TAAATAGAA-AAA
1 TTATTATTTAATTTAAGTATAATTAGAATAAA
* *
39870091 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TT-ATTATTTAATTTAAGTATAATTAGAATAAA
39870124 TTATTAATTTAAT
1 TTATT-ATTTAAT
39870137 AATTTAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.05
31 26 0.41
32 22 0.35
33 12 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (32 bp):
TTATTATTTAATTTAAGTATAATTAGAATAAA
Found at i:39871112 original size:17 final size:17
Alignment explanation
Indices: 39871083--39871120 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
39871073 TATTACTGAA
*
39871083 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
39871100 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
39871117 TTTA
1 TTTA
39871121 CATCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:39871210 original size:31 final size:31
Alignment explanation
Indices: 39871175--39871234 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
39871165 CGATCGATTT
39871175 AATAGATTTAATATAGATTAAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
39871206 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
39871235 CTATTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:39871311 original size:15 final size:17
Alignment explanation
Indices: 39871281--39871312 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
39871271 GTCAAAATCT
39871281 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
39871298 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
39871313 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:39871440 original size:27 final size:28
Alignment explanation
Indices: 39871410--39871466 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
39871400 AAATGAATGG
*
39871410 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
39871437 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
39871465 AA
1 AA
39871467 AAAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:39871890 original size:17 final size:17
Alignment explanation
Indices: 39871861--39871898 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
39871851 CGTAGAAAAA
*
39871861 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
39871878 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
39871895 TTTA
1 TTTA
39871899 CATCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:39880882 original size:168 final size:168
Alignment explanation
Indices: 39880604--39880940 Score: 586
Period size: 168 Copynumber: 2.0 Consensus size: 168
39880594 GTTCTGTGGA
*
39880604 TTCTTTTAACTGTAATAGTAGTTGGGGATTTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
1 TTCTTTTAACTGTAATAATAGTTGGGGATTTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
* * * *
39880669 AATATTATAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCT
66 AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTACAGAAATTATATAAAACTGATGTTCT
*
39880734 ACTTGTTCTTCACAAATGTTTGCACACCTATCCCGCTT
131 ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
* *
39880772 TTCTTTTGACTGTAATAATAGGTTGGGTA-TTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATA
1 TTCTTTTAACTGTAATAATA-GTTGGGGATTTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATA
39880836 TAATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTACAGAAATTATATAAAACTGATGTTC
65 TAATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTACAGAAATTATATAAAACTGATGTTC
39880901 TACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
130 TACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
39880940 T
1 T
39880941 CAGCATAAAG
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
168 153 0.96
169 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (168 bp):
TTCTTTTAACTGTAATAATAGTTGGGGATTTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTACAGAAATTATATAAAACTGATGTTCT
ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
Found at i:39882592 original size:39 final size:39
Alignment explanation
Indices: 39882542--39882623 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
39882532 ATTTTTACAA
* *
39882542 AGTATTTGGTTACAAAGTTGTGTTTCCAATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
*
39882581 AGTATTTGGTTACAAAATTGGGTTTCCGATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
39882620 AGTA
1 AGTA
39882624 ATAGTTATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (39 bp):
AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
Found at i:39884384 original size:93 final size:93
Alignment explanation
Indices: 39884269--39884441 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
39884259 CGCCCATAAG
* * *
39884269 CGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39884334 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
39884362 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
39884427 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
39884442 CAAATATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:39884437 original size:46 final size:46
Alignment explanation
Indices: 39884262--39884437 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
39884252 TGTAACCCGC
* * *
39884262 CCATAAGCGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
39884308 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
39884358 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
39884401 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
39884438 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:39894103 original size:30 final size:30
Alignment explanation
Indices: 39894069--39894130 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
39894059 TATTTATTAC
39894069 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
39894099 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
39894129 AT
1 AT
39894131 AACCACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (30 bp):
ATGACATAAAATCTAGTATTTCAACATATA
Found at i:39897765 original size:49 final size:48
Alignment explanation
Indices: 39897692--39897835 Score: 189
Period size: 49 Copynumber: 2.9 Consensus size: 48
39897682 AGCCGAAGCT
*
39897692 ATCTGGTACACATAGTAGCTTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
* * * * *
39897740 AGTCTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
**
39897791 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
39897836 TCACAATAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.02
49 38 0.47
50 37 0.46
51 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
Found at i:39897818 original size:50 final size:51
Alignment explanation
Indices: 39897698--39897839 Score: 191
Period size: 50 Copynumber: 2.8 Consensus size: 51
39897688 AGCTATCTGG
* * **
39897698 TACACATAGTAGCTTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
* * * *
39897747 TACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
39897797 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
39897840 AATAGATCAT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 32 0.41
50 43 0.54
51 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
Found at i:39907971 original size:31 final size:31
Alignment explanation
Indices: 39907933--39908002 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
39907923 AATAAAAATA
**
39907933 TTCATTTTAGGCA-TCATGATCAAAAACTATT
1 TTCATTTTAGGCACT-ACCATCAAAAACTATT
*
39907964 TTCATTTTAGGCACTACCATTAAAAACTATT
1 TTCATTTTAGGCACTACCATCAAAAACTATT
*
39907995 CTCATTTT
1 TTCATTTT
39908003 GGTCACCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (31 bp):
TTCATTTTAGGCACTACCATCAAAAACTATT
Found at i:39908613 original size:31 final size:31
Alignment explanation
Indices: 39908548--39908614 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
39908538 ATAAGTGATC
* * *
39908548 AAAATAAAAATATTTTTTAACGACAGTGCAT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
* *
39908579 AAAATAAAAATAGTTTTTAACAATAATGCTT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
39908610 AAAAT
1 AAAAT
39908615 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (31 bp):
AAAATAAAAATAGTTTTTAACAACAATGCAT
Found at i:39911284 original size:16 final size:17
Alignment explanation
Indices: 39911254--39911305 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
39911244 GGCCCCTAAA
39911254 ATAATTTTTT-T-ATTT
1 ATAATTTTTTATAATTT
39911269 A-AATTTTTTATAATTT
1 ATAATTTTTTATAATTT
* *
39911285 ATAATATTTTA-AATTA
1 ATAATTTTTTATAATTT
39911301 ATAAT
1 ATAAT
39911306 GATAAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 14 0.44
17 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTTTATAATTT
Found at i:39912296 original size:24 final size:24
Alignment explanation
Indices: 39912269--39912320 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39912259 TTAGTAAGTC
*
39912269 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
39912293 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
39912317 AAAT
1 AAAT
39912321 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:39914265 original size:24 final size:24
Alignment explanation
Indices: 39914238--39914289 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39914228 TTAGTAAGTC
*
39914238 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
39914262 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
39914286 AAAT
1 AAAT
39914290 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:39915256 original size:19 final size:19
Alignment explanation
Indices: 39915234--39915277 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
39915224 AAATTACAAA
* *
39915234 AAAAATTAAAATAATTTTT
1 AAAAATTAAAAAAATTTAT
39915253 AAAAA-TAAAAAAATTTAT
1 AAAAATTAAAAAAATTTAT
39915271 AAAAATT
1 AAAAATT
39915278 TCATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTAAAAAAATTTAT
Found at i:39917128 original size:27 final size:27
Alignment explanation
Indices: 39917098--39917173 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
39917088 CTATATACAT
* *
39917098 TATTGT-TTTTATATTATTTTATGTAAA
1 TATTGTCTTTTAAATT-TATTATGTAAA
*
39917125 TATTTTCTTTTAAATTTATTATGTATATA
1 TATTGTCTTTTAAATTTATTATGTA-A-A
* *
39917154 TATTCTCTTTAAAATTTATT
1 TATTGTCTTTTAAATTTATT
39917174 TATGCATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 13 0.32
28 9 0.22
29 19 0.46
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTGTCTTTTAAATTTATTATGTAAA
Found at i:39917135 original size:28 final size:27
Alignment explanation
Indices: 39917116--39917173 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
39917106 TTATATTATT
*
39917116 TTATGTAAATATTTTCTTTTAAATTTA
1 TTATGTAAATATATTCTTTTAAATTTA
*
39917143 TTATGTATATATATTCTCTTTAAAATTTA
1 TTATGTAAATATATTCT-TTT-AAATTTA
39917172 TT
1 TT
39917174 TATGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 15 0.56
28 3 0.11
29 9 0.33
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATGTAAATATATTCTTTTAAATTTA
Found at i:39917143 original size:29 final size:31
Alignment explanation
Indices: 39917111--39917174 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
39917101 TGTTTTTATA
* *
39917111 TTATTTTATGTA-A-ATATTTTCTTTTAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
39917140 TTA--TTATGTATATATATTCTCTTTAAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
39917169 TTATTT
1 TTATTT
39917175 ATGCATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 20 0.69
31 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (31 bp):
TTATTTTATGTATATATATTCTCTTTAAAAT
Found at i:39917947 original size:127 final size:128
Alignment explanation
Indices: 39917802--39918037 Score: 384
Period size: 130 Copynumber: 1.8 Consensus size: 128
39917792 ATTTTCATCT
* *
39917802 CGTGTTTTGGAAATCATGAGGTGATCTCAA-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 CGTGTTTTGGAAATCATGAAGTGATCTCAATTTTTTGGAAGCTTAAAATATCGTGTCCTAACGTG
* * *
39917866 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 CTGAATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
* *
39917929 CGTGTTTTGGAAATCATGAAGTGATCTCAATTTTTTTTGGAAGTTTAAAATATCGTGTCCTAATG
1 CGTGTTTTGGAAATCATGAAGTGATCTCAA--TTTTTTGGAAGCTTAAAATATCGTGTCCTAACG
39917994 TGCTGAATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
64 TGCTGAATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
39918038 CAAACTCGAA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
127 29 0.29
130 70 0.71
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (128 bp):
CGTGTTTTGGAAATCATGAAGTGATCTCAATTTTTTGGAAGCTTAAAATATCGTGTCCTAACGTG
CTGAATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
Found at i:39925986 original size:103 final size:105
Alignment explanation
Indices: 39925797--39925987 Score: 343
Period size: 103 Copynumber: 1.8 Consensus size: 105
39925787 CTATGTTATG
*
39925797 GGTGTGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGAT
1 GGTGTGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGAT
39925862 TCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATT
66 TCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATT
39925902 GGTG-GTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGA
1 GGTGTGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGA
39925964 TTCCCCCGAGGGGTTGCTAAGTGC
65 TTCCCCCGAGGGGTTGCTAAGTGC
39925988 GATATCCATT
Statistics
Matches: 84, Mismatches: 1, Indels: 4
0.94 0.01 0.04
Matches are distributed among these distances:
103 42 0.50
104 37 0.44
105 5 0.06
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (105 bp):
GGTGTGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGAT
TCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATT
Found at i:39926051 original size:26 final size:26
Alignment explanation
Indices: 39926016--39926067 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
39926006 GAAATGAAAG
* *
39926016 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
39926042 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
39926068 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:39926052 original size:69 final size:70
Alignment explanation
Indices: 39925907--39926055 Score: 230
Period size: 71 Copynumber: 2.1 Consensus size: 70
39925897 TCATTGGTGG
*
39925907 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
39925972 AGGGGT
65 AGGGGT
***
39925978 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
39926041 AGGGGT
65 AGGGGT
39926047 TGCTAAGTG
1 TGCTAAGTG
39926056 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
69 25 0.34
70 20 0.27
71 28 0.38
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
GGGGT
Found at i:39933531 original size:104 final size:104
Alignment explanation
Indices: 39933217--39933539 Score: 541
Period size: 101 Copynumber: 3.2 Consensus size: 104
39933207 TGTATATAAA
** * * *
39933217 AGGGGTTGCTGTGTGCTGATTCCCC-GAT-ATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
39933279 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
39933319 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGT-GTGCTGAGT--GATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
39933381 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39933420 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
39933485 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39933524 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
39933540 GATATCCATT
Statistics
Matches: 208, Mismatches: 7, Indels: 10
0.92 0.03 0.04
Matches are distributed among these distances:
101 90 0.43
102 32 0.15
103 9 0.04
104 77 0.37
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:39933591 original size:71 final size:72
Alignment explanation
Indices: 39933458--39933609 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
39933448 TCATTGGTGG
* *
39933458 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39933523 GAGGGGT
66 GAGGGGT
***
39933530 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39933594 GAGGGGT
66 GAGGGGT
39933601 TGCTAAGTG
1 TGCTAAGTG
39933610 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:39938935 original size:40 final size:40
Alignment explanation
Indices: 39938891--39939122 Score: 279
Period size: 40 Copynumber: 5.8 Consensus size: 40
39938881 ATAACCACAA
* * *
39938891 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
39938931 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
39938971 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
39939011 ACATAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
39939051 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
39939091 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
39939123 CATTCAAATG
Statistics
Matches: 164, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.02
40 153 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:39938975 original size:80 final size:80
Alignment explanation
Indices: 39938871--39939121 Score: 337
Period size: 80 Copynumber: 3.1 Consensus size: 80
39938861 TCTTCGAAAT
* * * *
39938871 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAT
39938935 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
39938950 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAT
39939015 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * * * * *
39939030 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGC
1 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGC
*
39939093 ATAAATGCCTTCGGGAC
64 ATAAATGCCTTCGGGTC
39939110 TTAGCCCGGATA
1 TTAGCCCGGATA
39939122 TCATTCAAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
79 8 0.05
80 142 0.93
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAT
AAATGCCTTCGGGTC
Found at i:39939118 original size:120 final size:120
Alignment explanation
Indices: 39938898--39939118 Score: 379
Period size: 120 Copynumber: 1.8 Consensus size: 120
39938888 CAAGCACAAT
*
39938898 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAA
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAA
* *
39938963 AATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACATAAA
66 AATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTCACATAAA
* *
39939018 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAA
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAA
* *
39939083 AATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
66 AATCACTAGCACAAATGCCTTCGGGACTTAACCCGG
39939119 ATATCATTCA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 94 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAA
AATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTCACATAAA
Found at i:39943470 original size:132 final size:132
Alignment explanation
Indices: 39943253--39943547 Score: 464
Period size: 132 Copynumber: 2.2 Consensus size: 132
39943243 AAATGGCAAG
* * *
39943253 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGTAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
39943318 AGGGAGCAAGTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
39943383 GA
131 GA
* * *
39943385 TCTTATCTACATGTATCGGTTATGGAGTAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGTAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
39943450 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGATTGAAAATTACA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
39943515 GA
131 GA
* *
39943517 TCTTATCTCCATGTATCGACTATGGAATAGA
1 TCTTATCTCCATGTATCGGCTATGGAGTAGA
39943548 TCAAAAATGG
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 147 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGTAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GA
Found at i:39943568 original size:177 final size:176
Alignment explanation
Indices: 39943385--39943790 Score: 578
Period size: 177 Copynumber: 2.3 Consensus size: 176
39943375 AAGTTACAGA
* * *
39943385 TCTTATCTACATGTATCGGTTATGGAGTAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAACA
* ** *
39943450 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGATTGAAAATTACA
65 AGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* *
39943515 GATCTTATCTCCATGTATCGACTATGGAATAGATCAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
* * * * *
39943562 TCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAACA
* * * *
39943627 AGAGAGCGGGTTAAAGGTGCAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
65 AGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
39943692 GATCTTATCTCCATGTGTCGGCTATGGAGCAAATCAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
* *
39943739 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATCT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCCACCAACCTTATCT
39943791 TCCTAAAGTT
Statistics
Matches: 201, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
176 3 0.01
177 198 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (176 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCACCAACCTTATCTCTCTGAGGTAACAA
GAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAG
ATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
Found at i:39943810 original size:44 final size:44
Alignment explanation
Indices: 39943761--39943846 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
39943751 GTATCGGCTA
* **
39943761 TGGAGCAGATTTAAGCCATC-AACCTTATCTTCCTAAAGTTGCAG
1 TGGAGCAGATTGAAGCCA-CAAACAGTATCTTCCTAAAGTTGCAG
* *
39943805 TGGAGCAGGTTGAAGTCACAAACAGTATCTTCCTAAAGTTGC
1 TGGAGCAGATTGAAGCCACAAACAGTATCTTCCTAAAGTTGC
39943847 TGAAAGACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TGGAGCAGATTGAAGCCACAAACAGTATCTTCCTAAAGTTGCAG
Found at i:39943836 original size:177 final size:177
Alignment explanation
Indices: 39943385--39943846 Score: 493
Period size: 177 Copynumber: 2.6 Consensus size: 177
39943375 AAGTTACAGA
** * * * * * *
39943385 TCTTATCTACATGTATCGGTTATGGAGTAGACTTT-AGCCACCAACCTTATCTCTCTGAGGTAAC
1 TCTTATCCCCATGTATCGGCTATGGAGCAGA-TTTAAGCCACCAACCTTATCACTCTAAAGTAGC
* * * ** * ** *
39943449 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGATTGAAAATTAC
65 AAGAGAGCAGGTTAAAGGTGCAAAACGTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTAC
* *
39943514 AGATCTTATCTCCATGTATCGACTATGGAATAGATCAAAAATGGCGAG
130 AGATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
* * * * * * *
39943562 TCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAACCTTATCACTCTAAAGTAGCA
* *** *
39943627 AGAGAGCGGGTTAAAGGTGCAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
66 AGAGAGCAGGTTAAAGGTGCAAAACGTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
39943692 GATCTTATCTCCATGTGTCGGCTATGGAGCAAATCAAAAATGGCGAG
131 GATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
* * *
39943739 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATC-TTCCTAAAGTTGC
1 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAACCTTATCACT-CTAAAGTAGC
* *
39943803 -AGTGGAGCAGGTTGAA-GT-CACAAACAGTATCTTCCTAAAGTTGC
65 AAG-AGAGCAGGTTAAAGGTGCA-AAAC-GTATCTTCCTAAAGTTGC
39943847 TGAAAGACTA
Statistics
Matches: 242, Mismatches: 38, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
175 2 0.01
176 9 0.04
177 231 0.95
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (177 bp):
TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAACCTTATCACTCTAAAGTAGCA
AGAGAGCAGGTTAAAGGTGCAAAACGTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
GATCTTATCTCCATGTATCGACTATGGAACAAATCAAAAATGGCGAG
Done.