Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 312 of 770
Found at i:95307341 original size:46 final size:46
Alignment explanation
Indices: 95307243--95307404 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 46
95307233 TGCCGATGCC
* * * * *
95307243 ATGTCTCAGACATGGTCTTACAATGG-CTCATCACGTAGCCAG-TGC
1 ATGTCCCAGACATGGTCTTACACTGGCCTCATCTCG-AGGCAGATGT
95307288 ATGTCCCAGACAT-GTCTTACACTGGCCTACATCTCGAGGCAGATGT
1 ATGTCCCAGACATGGTCTTACACTGGCCT-CATCTCGAGGCAGATGT
* * * ** * *
95307334 ATGTCCCAGACAT-TTCTTACACTAGCTCTCGTCTTAATGCCGATGT
1 ATGTCCCAGACATGGTCTTACACTGGC-CTCATCTCGAGGCAGATGT
95307380 CATGTCCCAGACATGGTCTTACACT
1 -ATGTCCCAGACATGGTCTTACACT
95307405 AGCTCACAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
44 11 0.11
45 19 0.19
46 44 0.45
47 15 0.15
48 9 0.09
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGGTCTTACACTGGCCTCATCTCGAGGCAGATGT
Found at i:95312112 original size:19 final size:19
Alignment explanation
Indices: 95312088--95312137 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
95312078 ACAAAGCATG
95312088 ATAAATGATAATGC-ATGAA
1 ATAAATGATAATGCGA-GAA
*
95312107 ATAAATGAAAATGCGAGAA
1 ATAAATGATAATGCGAGAA
95312126 ATAAATGATAAT
1 ATAAATGATAAT
95312138 ACTCGATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (19 bp):
ATAAATGATAATGCGAGAA
Found at i:95317138 original size:20 final size:20
Alignment explanation
Indices: 95317110--95317161 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
95317100 GAGGCAAAAC
* *
95317110 ACACACCCGTGTGCTTGGGG
1 ACACGCCCGTGTGCTTGGGA
*
95317130 ACACGCCCGTGTGCTTTGGA
1 ACACGCCCGTGTGCTTGGGA
95317150 ACACGCCCGTGT
1 ACACGCCCGTGT
95317162 CCCTCACCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTGGGA
Found at i:95326081 original size:18 final size:18
Alignment explanation
Indices: 95326046--95326094 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
95326036 AATTTAATTT
*
95326046 TGTTTAAAATAATATGAAA
1 TGTTTAAAAT-TTATGAAA
95326065 TGTTTAAAATTTATGAAA
1 TGTTTAAAATTTATGAAA
*
95326083 TAGTTAAAAATT
1 T-GTTTAAAATT
95326095 AAGTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTTTAAAATTTATGAAA
Found at i:95326254 original size:13 final size:14
Alignment explanation
Indices: 95326233--95326268 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95326223 TTTTCAATAT
95326233 TTAATTTTTAGCAC
1 TTAATTTTTAGCAC
* *
95326247 TTATTTTTTAGTAC
1 TTAATTTTTAGCAC
95326261 TTAATTTT
1 TTAATTTT
95326269 CAATTTATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (14 bp):
TTAATTTTTAGCAC
Found at i:95338558 original size:26 final size:26
Alignment explanation
Indices: 95338529--95338578 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
95338519 AATTAATGCA
*
95338529 AATTAAACTGGAATATTGAATGTTCG
1 AATTAAACTGAAATATTGAATGTTCG
*
95338555 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
95338579 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCG
Found at i:95343769 original size:26 final size:26
Alignment explanation
Indices: 95343740--95343789 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
95343730 AATTAATGCT
95343740 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
95343766 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
95343790 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:95345874 original size:26 final size:26
Alignment explanation
Indices: 95345845--95345894 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
95345835 AATTAATGCT
95345845 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
95345871 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
95345895 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:95347974 original size:26 final size:26
Alignment explanation
Indices: 95347945--95347994 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
95347935 AATTAATGCT
95347945 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
95347971 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
95347995 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:95353035 original size:29 final size:27
Alignment explanation
Indices: 95353001--95353103 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
95352991 TACTCAATCA
*
95353001 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
95353030 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
95353059 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
95353088 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
95353104 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:95356664 original size:26 final size:26
Alignment explanation
Indices: 95356635--95356684 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
95356625 AATTAATGCT
95356635 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
95356661 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
95356685 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:95358230 original size:2 final size:2
Alignment explanation
Indices: 95358223--95358248 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95358213 CGGCTCTAGC
95358223 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95358249 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95359096 original size:39 final size:40
Alignment explanation
Indices: 95358947--95359124 Score: 170
Period size: 39 Copynumber: 4.5 Consensus size: 40
95358937 TTCGAATGAT
* * *
95358947 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
95358987 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * *
95359027 AACCGGGTTAAGT-CCAAAGGCATTTATGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
95359066 ATCCGGGCTAATTCCCGAA-GCAATTGTGCGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
95359106 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGCTAAT-TCCCGAAG
95359125 ACAATCTAGC
Statistics
Matches: 114, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
38 2 0.02
39 63 0.55
40 41 0.36
41 8 0.07
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:95359137 original size:79 final size:79
Alignment explanation
Indices: 95358982--95359138 Score: 176
Period size: 79 Copynumber: 2.0 Consensus size: 79
95358972 GTGCTAAGTG
* * * * *
95358982 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCAAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCAAAGA
*
95359047 CATTTATGCGAGTT
66 CATCTATGCGAGTT
* * * *
95359061 ACTAAATCCGGG-CTAATTCCCGAA-GCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGT-CCAAA
95359124 GACAATCTA-GCGAGT
64 GAC-ATCTATGCGAGT
95359139 CGCTATATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
78 27 0.42
79 34 0.52
80 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCAAAGA
CATCTATGCGAGTT
Found at i:95366280 original size:2 final size:2
Alignment explanation
Indices: 95366273--95366298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95366263 CGGCTCTAGC
95366273 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95366299 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95367153 original size:79 final size:81
Alignment explanation
Indices: 95367007--95367184 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 81
95366997 CGAATGATAT
* * *
95367007 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
95367072 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
95367088 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAAT-CGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
95367150 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
95367167 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
95367185 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 48 0.57
80 10 0.12
81 25 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:95367156 original size:39 final size:39
Alignment explanation
Indices: 95367007--95367184 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 39
95366997 CGAATGATAT
* * * *
95367007 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
95367047 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* * *
95367088 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
95367127 TCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AA
95367167 CCGGGCT-ATGTCCCGAAG
1 CCGGGCTAAT-TCCCGAAG
95367185 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.31
40 51 0.44
41 29 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:95367205 original size:40 final size:40
Alignment explanation
Indices: 95367128--95367210 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
95367118 GTTACTAAAT
* * *
95367128 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
1 CGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAAC
* * *
95367168 CGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATC
1 CGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAAC
95367208 CGG
1 CGG
95367211 TTAAATTCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (40 bp):
CGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAAC
Found at i:95368689 original size:32 final size:32
Alignment explanation
Indices: 95368653--95368805 Score: 216
Period size: 32 Copynumber: 4.8 Consensus size: 32
95368643 ACTATGCTAG
*
95368653 TTTTTTATATGTAAAACTAATGTATAATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
95368685 TTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
95368717 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
95368749 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* *
95368781 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAAACTAATGTAT
95368806 CATATTTTTT
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 104 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:95368762 original size:64 final size:64
Alignment explanation
Indices: 95368653--95368805 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
95368643 ACTATGCTAG
* *
95368653 TTTTTTATATGTAAAACTAATGTATAATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATAATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
95368717 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATAATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
*
95368781 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAACCTAATGTAT
95368806 CATATTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATAATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:95372354 original size:21 final size:21
Alignment explanation
Indices: 95372328--95372383 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
95372318 TACCGCTGTT
95372328 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
95372349 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
95372370 ACTAATCTCACCGC
1 TCTAATCTCACCGC
95372384 CACCGCTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.27
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:95374241 original size:8 final size:9
Alignment explanation
Indices: 95374203--95374238 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
95374193 CTGCCCCAAA
*
95374203 TAAAAATTT
1 TAAAATTTT
95374212 TAAAATTTT
1 TAAAATTTT
95374221 TAAAATTTT
1 TAAAATTTT
95374230 TAAAATTTT
1 TAAAATTTT
95374239 AAATTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAAAATTTT
Found at i:95377193 original size:53 final size:53
Alignment explanation
Indices: 95377112--95377262 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
95377102 CTTACACGGT
* *
95377112 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
95377167 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
95377220 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95377263 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95384709 original size:53 final size:53
Alignment explanation
Indices: 95384628--95384778 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
95384618 CTTACACGGT
* *
95384628 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
95384683 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
95384736 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95384779 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95388550 original size:30 final size:30
Alignment explanation
Indices: 95388495--95388654 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
95388485 ATAGTGAATC
95388495 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
95388524 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
95388554 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
95388583 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
95388611 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
95388641 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95388655 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:95388587 original size:59 final size:57
Alignment explanation
Indices: 95388495--95388654 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
95388485 ATAGTGAATC
*
95388495 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
95388554 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
95388611 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
95388655 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:95396021 original size:30 final size:29
Alignment explanation
Indices: 95395966--95396124 Score: 198
Period size: 30 Copynumber: 5.5 Consensus size: 29
95395956 ATAGTGAATC
95395966 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
95395995 CGCACAGTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
95396025 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
95396054 -GCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
95396081 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
95396111 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95396125 CAATCTTGTC
Statistics
Matches: 115, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
26 2 0.02
27 3 0.03
28 35 0.30
29 29 0.25
30 45 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:95396085 original size:28 final size:27
Alignment explanation
Indices: 95395966--95396095 Score: 145
Period size: 28 Copynumber: 4.6 Consensus size: 27
95395956 ATAGTGAATC
*
95395966 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA--ATCAGCT
*
95395995 CGCACAGTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAA---TCAGCT
*
95396025 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA--ATCAGCT
*
95396054 -GCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AGCT
95396081 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95396096 GTACAATTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 15
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.02
27 3 0.03
28 33 0.38
29 25 0.28
30 25 0.28
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAGCT
Found at i:95396116 original size:58 final size:56
Alignment explanation
Indices: 95395966--95396124 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 56
95395956 ATAGTGAATC
* * * *
95395966 CGCACACTTAGTGCTATATATTTTCAGCTCGCACAGTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTT-AACCCGCACACTTAGTGCTATATAA--TTCAACT
* * *
95396025 CGCACACTTAGTGCTATATATTTTCAGCTGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATATTTTAACCCGCACACTTAGTGCTATATAATTC-AACT
* *
95396081 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTT-AACCCGCACACTTAGTGC
95396125 CAATCTTGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
55 2 0.02
56 20 0.24
57 5 0.06
58 34 0.40
59 24 0.28
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATATTTTAACCCGCACACTTAGTGCTATATAATTCAACT
Found at i:95399839 original size:30 final size:30
Alignment explanation
Indices: 95399803--95399864 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
95399793 AAGTTCTAGT
95399803 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
95399833 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
95399863 TG
1 TG
95399865 CTCAGCGGTA
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:0.32, C:0.03, G:0.37, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTAGGATCAGAG
Found at i:95400905 original size:27 final size:27
Alignment explanation
Indices: 95400875--95401592 Score: 845
Period size: 27 Copynumber: 26.7 Consensus size: 27
95400865 TGATTTGTAA
**
95400875 AATTACCGAAATACCCCTGTAAAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
95400902 AATTACTGAAATACCCCTGTAAGTTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95400929 AATAACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95400956 AATAACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95400983 AATTATCGAAATACCCCTGT-GAGGTAG
1 AATTACCGAAATACCCCTGTAG-GGTAG
* *
95401010 AATTATCGAAATACCCCTGT-GAGGTAC
1 AATTACCGAAATACCCCTGTAG-GGTAG
* * *
95401037 AATTACTGAAATACCCCAGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95401064 AATTACCAAAATACACTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
95401091 AATTGCTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401118 AATTACCG-AATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
95401144 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95401171 AATTACAGAAATACCTCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
95401198 AATTACTGAAATACCCCTATAACGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
95401225 AATTATTGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401252 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95401279 AATTATCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95401306 AATTATCGAAATA-CCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401332 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
95401359 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401385 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95401412 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401439 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401466 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95401493 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401520 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95401547 -ATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95401573 AATTATCGAAATACCCCTGT
1 AATTACCGAAATACCCCTGT
95401593 TATCGAAATA
Statistics
Matches: 605, Mismatches: 80, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
26 92 0.15
27 513 0.85
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:95400914 original size:54 final size:54
Alignment explanation
Indices: 95400875--95401676 Score: 902
Period size: 54 Copynumber: 15.1 Consensus size: 54
95400865 TGATTTGTAA
* * * * *
95400875 AATTACCGAAATACCCCTGTAAAGTAGAATTACTGAAATACCCCTGTAAGTTAA
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
95400929 AATAACTGAAATACCCCTGT-AGAGTAGAATAACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAG-GTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
95400983 AATTA-TCGAAATACCCCTGTGAGGTAGAATTA-TCGAAATACCCCTGT-GAGGTAC
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAG-GGTAG
* ** * *
95401037 AATTACTGAAATACCCCAGTAAGGTAGAATTACCAAAATACACTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
95401091 AATTGCTAAAATACCCTTGTAAGGTAGAATTACCG-AATACCCCTGTAGTGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * *
95401144 AATTACTAAAATACCCCTGTAAGGTAGAATTACAGAAATACCTCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
95401198 AATTACTGAAATACCCCTATAACGTAGAATTATTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
95401252 AATTACTGAAATACCCCTGTAGGGTAGAATTA-TCGAAATATCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
*
95401306 AATTA-TCGAAATA-CCCTGTATGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
*
95401359 AATTACCGAAATACCCCTGT-AGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
95401412 AATTA-TCGAAATACCCCTATAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* *
95401466 AATTA-TCGAAATACCCCTGTAGGGTAGAATTA-TCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* *
95401520 AATTA-TCGAAATACCCCTGTAGGGTAG-ATTACTGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
95401573 AATTA-TCGAAATACCCCTGT----T---A-T-C-GAAATACCCCTGTAGAGTGG
1 AATTACT-GAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
95401617 AATTACTGAAATACCCCTGTAGGGTAGGAA-TACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTA-GAATTACTGAAATACCCCTGTAGGGTAG
95401671 AATTAC
1 AATTAC
95401677 CGAGAAACCC
Statistics
Matches: 655, Mismatches: 64, Indels: 58
0.84 0.08 0.07
Matches are distributed among these distances:
44 35 0.05
45 2 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
52 2 0.00
53 191 0.29
54 417 0.64
55 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:95400931 original size:81 final size:81
Alignment explanation
Indices: 95400875--95401679 Score: 905
Period size: 81 Copynumber: 10.1 Consensus size: 81
95400865 TGATTTGTAA
* * * * *
95400875 AATTACCGAAATACCCCTGTAAAGTAGAATTACTGAAATACCCCTGTAAGTTAAAATAACTGAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
*
95400940 TACCCCTGTAGAGTAG
66 TACCCCTGTAGGGTAG
* * * *
95400956 AATAACTGAAATACCCCTGTAAGGTAGAATTA-TCGAAATACCCCTGTGAGGTAGAATTATCGAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAAGGTAGAATTACCGAA
*
95401020 ATACCCCTGT-GAGGTAC
65 ATACCCCTGTAG-GGTAG
* * ** * * * * **
95401037 AATTACTGAAATACCCCAGTAAGGTAGAATTACCAAAATACACTTGTAGGGTAGAATTGCTAAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
* *
95401102 TACCCTTGTAAGGTAG
66 TACCCCTGTAGGGTAG
* *
95401118 AATTACCG-AATACCCCTGT-AGTGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACAGAA
1 AATTACCGAAATACCCCTGTAAG-GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAA
* *
95401181 ATACCTCTGTAGGGTAA
65 ATACCCCTGTAGGGTAG
* * * * * * *
95401198 AATTACTGAAATACCCCTATAACGTAGAATTATTGAAATACCCCTATATGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
95401263 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
95401279 AATTATCGAAATATCCCTGTAAGGTAGAATTA-TCGAAATA-CCCTGTATGGTAGAATTACTGAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAAGGTAGAATTACCGAA
95401342 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* *
95401359 AATTACCGAAATACCCCTGT-AGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
*
95401423 TACCCCTATAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
95401439 AATTATCGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAGAATTATCAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAAGGTAGAATTACCGAA
95401503 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * * *
95401520 AATTATCGAAATACCCCTGTAGGGTAG-ATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
95401584 TACCCCTGT----T--
66 TACCCCTGTAGGGTAG
* * **
95401594 -A-T--CGAAATACCCCTGT-AGAGTGGAATTACTGAAATACCCCTGTAGGGTAGGAA-TACTAA
1 AATTACCGAAATACCCCTGTAAG-GTAGAATTACTGAAATACCCCTGTAAGGTA-GAATTACCGA
95401653 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
95401671 AATTACCGA
1 AATTACCGA
95401680 GAAACCCTCG
Statistics
Matches: 625, Mismatches: 73, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
69 1 0.00
70 17 0.03
71 38 0.06
72 4 0.01
73 1 0.00
75 1 0.00
76 1 0.00
78 1 0.00
79 20 0.03
80 223 0.36
81 317 0.51
82 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:95401597 original size:17 final size:17
Alignment explanation
Indices: 95401575--95401609 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95401565 TAGGGTAGAA
95401575 TTATCGAAATACCCCTG
1 TTATCGAAATACCCCTG
95401592 TTATCGAAATACCCCTG
1 TTATCGAAATACCCCTG
95401609 T
1 T
95401610 AGAGTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (17 bp):
TTATCGAAATACCCCTG
Found at i:95401620 original size:44 final size:44
Alignment explanation
Indices: 95401553--95401636 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
95401543 GTAGATTACT
* *
95401553 GAAATACCCTTGTAGGGTAGAATTA-TCGAAATACCCCTGTTATC
1 GAAATACCCCTGTAGAGTAGAATTACT-GAAATACCCCTGTTATC
*
95401597 GAAATACCCCTGTAGAGTGGAATTACTGAAATACCCCTGT
1 GAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTGT
95401637 AGGGTAGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.97
45 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (44 bp):
GAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTGTTATC
Found at i:95401635 original size:27 final size:27
Alignment explanation
Indices: 95401597--95401676 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
95401587 CCCTGTTATC
*
95401597 GAAATACCCCTGTAGAGTGGAATTACT
1 GAAATACCCCTGTAGGGTGGAATTACT
95401624 GAAATACCCCTGTAGGGTAGGAA-TACT
1 GAAATACCCCTGTAGGGT-GGAATTACT
* *
95401651 AAAATACCCCTGTAGGGTAGAATTAC
1 GAAATACCCCTGTAGGGTGGAATTAC
95401677 CGAGAAACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
26 3 0.06
27 41 0.85
28 4 0.08
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTGGAATTACT
Found at i:95401656 original size:71 final size:70
Alignment explanation
Indices: 95401522--95401663 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 70
95401512 TAGGGTAGAA
* * *
95401522 TTATCGAAATACCCCTGTAGGGTAGATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAATAC
1 TTATCGAAATACCCCTGTAGAGTAGATTACTGAAATACCCCTGTAGGGTAGAATTATCAAAATAC
95401587 CCCTG
66 CCCTG
*
95401592 TTATCGAAATACCCCTGTAGAGTGGAATTACTGAAATACCCCTGTAGGGTAGGAA-TA-CTAAAA
1 TTATCGAAATACCCCTGTAGAGTAG-ATTACTGAAATACCCCTGTAGGGTA-GAATTATC-AAAA
95401655 TACCCCTG
63 TACCCCTG
95401663 T
1 T
95401664 AGGGTAGAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 24 0.37
71 38 0.58
72 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (70 bp):
TTATCGAAATACCCCTGTAGAGTAGATTACTGAAATACCCCTGTAGGGTAGAATTATCAAAATAC
CCCTG
Found at i:95401686 original size:27 final size:27
Alignment explanation
Indices: 95401596--95401704 Score: 107
Period size: 27 Copynumber: 4.0 Consensus size: 27
95401586 CCCCTGTTAT
* *
95401596 CGAAATACCCCTGTAGAGTGGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
95401623 TGAAATACCCCTGTAGGGTAGGAA-TAC
1 CGAAATACCCCTGTAGGGTA-GAATTAC
**
95401650 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
95401677 CGAGAA-A-CCCTCGTGGGGTAAAATTAC
1 CGA-AATACCCCT-GTAGGGTAGAATTAC
95401704 C
1 C
95401705 ATTTTACCCC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.10
27 58 0.83
28 5 0.07
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:95401743 original size:178 final size:177
Alignment explanation
Indices: 95401227--95401702 Score: 470
Period size: 187 Copynumber: 2.6 Consensus size: 177
95401217 TAACGTAGAA
* *
95401227 TTATTGAAATACCCCTATATG-GTAGAATTA-CTGAAATACCCCTGTAGGGTAGAATTATCGAAA
1 TTATCGAAATACCCCTATA-GAGTAGAATTATC-GAAATACCCCTGTAGGGTAGAATTATCAAAA
* * * * * * *
95401290 TATCCCTGTAAGGTAGAATTATCGAAATA-CCCTGTATGGTAGAATTA-CTGAAATACCCCTGTA
64 TACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTATC-CAAATACCCCTG-A
* * *
95401353 GGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTA-CTGAAATACCCCTGTAGGGTAG
127 GGGTA-AATGACTGAAATACCCTTGTAGGGTAGAATTATC-GAAATACCCC-------T-G
* *
95401412 AATTATCGAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAAA
1 --TTATCGAAATACCCCTATAGAGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCAAAA
* * *
95401477 TACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAG
64 TACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTATCCAAATACCCCTG-AG
* *
95401542 GGTAGATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTG
128 GGTAAATGACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTG
* *
95401592 TTATCGAAATACCCCTGTAGAGTGGAATTA-CTGAAATACCCCTGTAGGGTAGGAA-TA-CTAAA
1 TTATCGAAATACCCCTATAGAGTAGAATTATC-GAAATACCCCTGTAGGGTA-GAATTATC-AAA
* *
95401654 ATACCCCTGTAGGGTAGAATTACCGAGAA-A-CCCTCGTGGGGTAAAATTA
63 ATACCCCTGTAGGGTAGAATTACC-AAAATACCCCT-GTAGGGTAAAATTA
95401703 CCATTTTACC
Statistics
Matches: 262, Mismatches: 16, Indels: 31
0.85 0.05 0.10
Matches are distributed among these distances:
177 6 0.02
178 86 0.33
179 6 0.02
180 1 0.00
181 1 0.00
186 1 0.00
187 102 0.39
188 57 0.22
189 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (177 bp):
TTATCGAAATACCCCTATAGAGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCAAAATA
CCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTATCCAAATACCCCTGAGGGT
AAATGACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTG
Found at i:95402142 original size:6 final size:6
Alignment explanation
Indices: 95402115--95402210 Score: 63
Period size: 6 Copynumber: 15.7 Consensus size: 6
95402105 ATTTTAATTT
* * * * * *
95402115 TGATTC TGTTTCC TGATAC TGATTC TGATTT TGAATC TGATCC TG-TCACC
1 TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
95402165 TAATTC TGATTC TGATTC TGATTC T-ATTTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGA-TTC TGATTC TGA-TTC TGAT
95402211 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
5 3 0.04
6 57 0.81
7 9 0.13
8 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:95403188 original size:30 final size:30
Alignment explanation
Indices: 95403152--95403213 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
95403142 AAGTTCTAGT
95403152 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
*
95403182 TGAAGTGTGATAGTGGTAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
95403212 TG
1 TG
95403214 CGCAGCGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.39, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTAGGATCAGAG
Found at i:95405020 original size:27 final size:27
Alignment explanation
Indices: 95404226--95405038 Score: 895
Period size: 27 Copynumber: 30.3 Consensus size: 27
95404216 TGATTTGTAA
95404226 AATTACCGAAATACCCCTGT-GAGGTAG
1 AATTACCGAAATACCCCTGTAG-GGTAG
* * * * *
95404253 AATTACTGAAATACCCCTATAAGTTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95404280 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
95404307 AATAACTAAAATTCCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404334 AATTATCGAAATA-CCCTGTAAGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404360 AATTACTGAAATACCCCAGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404387 AATTACCAAAATACACTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** ** *
95404414 AATTGCTAAAATACCATTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404441 AATTACCG-AATA-CCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95404466 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404493 AATTACCCAAATA-CCCTATAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404519 AATTACTGAAATACCCCTGTAAGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404546 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95404573 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
95404600 AATTATTGAAATACCCCTTTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
95404627 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404654 AATTATCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
95404681 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95404708 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404735 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404762 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
95404789 AATAATCGAAATATCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404816 AATAATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404843 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95404870 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404897 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
95404924 AATTATCAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95404951 AATTACTGAAATACCCCTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
**
95404979 AA-TACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95405005 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
95405032 AATTACC
1 AATTACC
95405039 ATTTTACCCC
Statistics
Matches: 668, Mismatches: 109, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
25 16 0.02
26 59 0.09
27 588 0.88
28 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:95405477 original size:6 final size:6
Alignment explanation
Indices: 95405440--95405561 Score: 88
Period size: 6 Copynumber: 19.8 Consensus size: 6
95405430 TTGCATTCAC
* * * *
95405440 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
95405489 -TTACCTG ATACTG ATTTTG ATTCTG ATCCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
95405539 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
95405562 AGCTCTGATA
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:95405481 original size:31 final size:31
Alignment explanation
Indices: 95405440--95405550 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
95405430 TTGCATTCAC
* *
95405440 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
95405471 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
95405502 ATTTTGATTCTGATCCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
95405533 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
95405551 ATTCTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:95405568 original size:18 final size:18
Alignment explanation
Indices: 95405529--95405570 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
95405519 GTCACCTAAT
*
95405529 TCTGATTCTGATTCTGAT
1 TCTGATTCTGATTCTGAC
95405547 TCTGATTCTGATTCT-AGC
1 TCTGATTCTGATTCTGA-C
95405565 TCTGAT
1 TCTGAT
95405571 AATGTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.48
Consensus pattern (18 bp):
TCTGATTCTGATTCTGAC
Found at i:95406497 original size:30 final size:30
Alignment explanation
Indices: 95406461--95406522 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
95406451 AAGTTCTAGT
95406461 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
95406491 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
95406521 TG
1 TG
95406523 CGCAGCGGTA
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:0.32, C:0.03, G:0.37, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTAGGATCAGAG
Found at i:95407536 original size:27 final size:27
Alignment explanation
Indices: 95407506--95408158 Score: 696
Period size: 27 Copynumber: 24.2 Consensus size: 27
95407496 CGATTTGTAA
*
95407506 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * * *
95407533 AATTACTAAAATACCCTTATAAGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAG
95407560 AATTA-TCGAAATACCCCTGT-AGAGTAG
1 AATTACT-GAAATACCCCTGTAAG-GTAG
* *
95407587 AATGACTGAAATACCCCTGTAAGGTAC
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
95407614 AATTACCGAAATACCCCTGTAAGGTAC
1 AATTACTGAAATACCCCTGTAAGGTAG
95407641 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * * * *
95407668 AATTACTAAAACAGCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * * *
95407695 AATTGCTAAAATACCCTTGTAATGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
95407722 AATTACCG-AATACCCTTGT-AGTGTAG
1 AATTACTGAAATACCCCTGTAAG-GTAG
* *
95407748 AATGACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* ** *
95407775 ACTTACCAAAATACCCCTGT-AGGATAA
1 AATTACTGAAATACCCCTGTAAGG-TAG
* * *
95407802 AATGACTAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * *
95407829 AATTACTAAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
95407856 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
95407883 AATTA-TCGAAATATCCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAG
* * *
95407910 AATTA-TCGAAATACCCCTATAGGGTAA
1 AATTACT-GAAATACCCCTGTAAGGTAG
*
95407937 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
95407964 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
95407991 AATTACTGAAATACCCCTGTAAGATAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
95408018 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAG
* * *
95408045 AATTA-TCGAAATTCCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAG
*
95408072 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * *
95408099 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
95408126 CAA-TACTGAAATACCCCTGTACGGTAG
1 -AATTACTGAAATACCCCTGTAAGGTAG
95408153 AATTAC
1 AATTAC
95408159 CGAGAAACCC
Statistics
Matches: 539, Mismatches: 72, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.00
26 30 0.06
27 496 0.92
28 12 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAAGGTAG
Found at i:95408619 original size:6 final size:6
Alignment explanation
Indices: 95408588--95408730 Score: 123
Period size: 6 Copynumber: 23.3 Consensus size: 6
95408578 TTGCATTCAC
* * *
95408588 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
95408636 ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
95408687 ATCCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
95408731 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
5 7 0.06
6 91 0.83
7 8 0.07
8 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:95408626 original size:31 final size:31
Alignment explanation
Indices: 95408588--95408721 Score: 164
Period size: 31 Copynumber: 4.4 Consensus size: 31
95408578 TTGCATTCAC
*
95408588 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
95408619 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * **
95408650 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
95408681 ATTCTGATCCTGATTCTGATT--CTGATTCTG
1 ATTCTGATTCTGATTCTG-TTACCTGATACTG
95408711 ATTCTGATTCT
1 ATTCTGATTCT
95408722 AGTTCTGATA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
30 17 0.19
31 72 0.80
32 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:95409751 original size:30 final size:30
Alignment explanation
Indices: 95409710--95409771 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
95409700 AAGTTCTAGT
*
95409710 TGAAGTGTGATAGTGATAGTAGCATCAGAG
1 TGAAGTATGATAGTGATAGTAGCATCAGAG
*
95409740 TGAAGTATGATAGTGATAGTAGGATCAGAG
1 TGAAGTATGATAGTGATAGTAGCATCAGAG
95409770 TG
1 TG
95409772 CGCAGCGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (30 bp):
TGAAGTATGATAGTGATAGTAGCATCAGAG
Found at i:95411704 original size:43 final size:42
Alignment explanation
Indices: 95411643--95411767 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 42
95411633 ACATATCATT
*
95411643 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCA-TAAGCCTGCTAGGCACGAAGGCCCGAATACACA
95411686 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCAT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
95411729 TCACCGGCACTAAGCCTACTAGGCACAAAGGCCCAAATA
1 TCACCGGCA-TAAGCCTGCTAGGCACGAAGGCCCGAATA
95411768 TAATACTAGC
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.01
43 74 0.97
44 1 0.01
ACGTcount: A:0.31, C:0.34, G:0.22, T:0.13
Consensus pattern (42 bp):
TCACCGGCATAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:95413573 original size:26 final size:26
Alignment explanation
Indices: 95413544--95413962 Score: 129
Period size: 27 Copynumber: 15.7 Consensus size: 26
95413534 TTAGTTTACC
*
95413544 AAATTACTGAAATACCCCAAATTGTA
1 AAATTACTGAAATACCCCAAATGGTA
* *** **
95413570 AAATTAC-CAAAGTACCCTCGGTTTATA
1 AAATTACTGAAA-TACCC-CAAATGGTA
** * * *
95413597 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACTGAAATA-CCCCAAATGGTA
*
95413624 AAATTACCGAAATACCCCTATAA-GGTA
1 AAATTACTGAAATACCCC-A-AATGGTA
* **
95413651 GAATTACTGAAATACCCC-TGTAGAGTA
1 AAATTACTGAAATACCCCAAAT-G-GTA
* *
95413678 GAATTACTGAAATACCCTATAA-GGTA
1 AAATTACTGAAATACCCCA-AATGGTA
* ***
95413704 GAATTACTGAAATACCCTGTATGGTA
1 AAATTACTGAAATACCCCAAATGGTA
* *
95413730 CAATTACTGAAATACCCCTGTAA-GGTA
1 AAATTACTGAAATACCCC--AAATGGTA
* ** *** *
95413757 GAATTACCAAAATACCCTTGTAGGGTA
1 AAATTACTGAAATACCC-CAAATGGTA
* * * **
95413784 GAATTGCTAAAATACCCTTGTAA-GGTA
1 AAATTACTGAAATACCC--CAAATGGTA
* * **
95413811 GAATTACCG-AATACCCCTGCA-GTGTA
1 AAATTACTGAAATACCCC-AAATG-GTA
*
95413837 GAATTACTGAAATACCCCTATAA-GGTA
1 AAATTACTGAAATACCCC-A-AATGGTA
* * ** *
95413864 GAATTACAGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCC-AAATGGTA
* *
95413891 AAATGACTGAAATACCCCTGTAA-GGTA
1 AAATTACTGAAATACCCC--AAATGGTA
*
95413918 AAATTACTGAAATACCCCTATATGGTA
1 AAATTACTGAAATACCCC-AAATGGTA
*
95413945 GAATTACTGAAATACCCC
1 AAATTACTGAAATACCCC
95413963 TGTAGGGTGG
Statistics
Matches: 309, Mismatches: 60, Indels: 47
0.74 0.14 0.11
Matches are distributed among these distances:
25 6 0.02
26 78 0.25
27 212 0.69
28 13 0.04
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (26 bp):
AAATTACTGAAATACCCCAAATGGTA
Found at i:95413655 original size:27 final size:27
Alignment explanation
Indices: 95413625--95414241 Score: 766
Period size: 27 Copynumber: 23.0 Consensus size: 27
95413615 CAATTTGTAA
* * *
95413625 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95413652 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413679 AATTACTGAAATA-CCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413705 AATTACTGAAATA-CCCTGTATGGTAC
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95413731 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
95413758 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
95413785 AATTGCTAAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
95413812 AATTACCG-AATACCCCTGCAGTGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413838 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413865 AATTACAGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
95413892 AATGACTGAAATACCCCTGTAAGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413919 AATTACTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95413946 AATTACTGAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95413973 AATTA-TCGAAATATCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
95414000 AATTA-TCGAAATATCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
95414027 AATAACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95414054 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95414080 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
95414107 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
95414134 AATTA-TCGAAATACCCCTGTAGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
95414161 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
95414188 AATTACCGAAATACCCTTGTAGGGTAGG
1 AATTACTGAAATACCCCTGTAGGGTA-G
95414216 AA-TACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
95414242 CGTTACGAAG
Statistics
Matches: 518, Mismatches: 64, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
26 94 0.18
27 420 0.81
28 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:95416059 original size:46 final size:46
Alignment explanation
Indices: 95416009--95416184 Score: 234
Period size: 46 Copynumber: 3.8 Consensus size: 46
95415999 TGGTTGAGCA
95416009 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95416055 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
95416100 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
95416148 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95416185 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95416165 original size:93 final size:93
Alignment explanation
Indices: 95416006--95416176 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
95415996 GGATGGTTGA
*
95416006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
95416071 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95416099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
95416164 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95416177 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95417541 original size:6 final size:6
Alignment explanation
Indices: 95417532--95417575 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
95417522 TTGTCACTTA
95417532 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
95417576 AATGTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 34 0.94
7 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:95419078 original size:41 final size:41
Alignment explanation
Indices: 95419033--95419151 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
95419023 CTTGTATAAA
* * *
95419033 ACACCGGCAC-AGGACCTGCTAGGTAATAAACCTGAT-TCAAT
1 ACACCGGCACAAAG-CCTGCTAGGCAATAAGCCTGATGTC-AT
* *
95419074 ACACCGGCATAAAGCCTACTAGGCAATAAGCCTGATGTCAT
1 ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATGTCAT
95419115 ACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGAT
1 ACACCGGCA-CAAAGCCTGCTAGGCAATAAGCCTGAT
95419152 ATATCACTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 39 0.57
42 29 0.43
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (41 bp):
ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATGTCAT
Found at i:95419143 original size:42 final size:41
Alignment explanation
Indices: 95419047--95419151 Score: 158
Period size: 41 Copynumber: 2.5 Consensus size: 41
95419037 CGGCACAGGA
* *
95419047 CCTGCTAGGTAATAAACCTGATTCAATACACCGGCATAAAG
1 CCTGCTAGGCAATAAGCCTGATTCAATACACCGGCATAAAG
*
95419088 CCTACTAGGCAATAAGCCTGATGTC-ATACACCGGCATCAAAG
1 CCTGCTAGGCAATAAGCCTGAT-TCAATACACCGGCAT-AAAG
95419130 CCTGCTAGGCAATAAGCCTGAT
1 CCTGCTAGGCAATAAGCCTGAT
95419152 ATATCACTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 31 0.53
42 27 0.47
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (41 bp):
CCTGCTAGGCAATAAGCCTGATTCAATACACCGGCATAAAG
Found at i:95420076 original size:20 final size:21
Alignment explanation
Indices: 95420037--95420090 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
95420027 TTTGTAATAC
95420037 ATTTATTTAATTATTAAAAGAT
1 ATTTA-TTAATTATTAAAAGAT
*
95420059 ATTTATTATTTA-TAAAAGAT
1 ATTTATTAATTATTAAAAGAT
95420079 ATTTATTAATTA
1 ATTTATTAATTA
95420091 AATAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.63
21 6 0.20
22 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTATTAATTATTAAAAGAT
Found at i:95420188 original size:19 final size:19
Alignment explanation
Indices: 95420160--95420198 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95420150 TGATCTATGG
*
95420160 ATACATATGTA-ATAATAAT
1 ATACACATGTATA-AATAAT
95420179 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
95420198 A
1 A
95420199 AATAAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:95420234 original size:2 final size:2
Alignment explanation
Indices: 95420222--95420264 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
95420212 ACAATGTTAT
95420222 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95420263 TA
1 TA
95420265 AAACAAGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95420351 original size:13 final size:14
Alignment explanation
Indices: 95420319--95420360 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
95420309 TGAAACAGGG
95420319 GAAGAAAG-AAGGA
1 GAAGAAAGAAAGGA
95420332 GAA-AAAGAAAGGA
1 GAAGAAAGAAAGGA
*
95420345 -AAGAAAGAAAAGA
1 GAAGAAAGAAAGGA
95420358 GAA
1 GAA
95420361 ATTTAAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.24
13 17 0.68
14 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAGAAAGAAAGGA
Found at i:95421228 original size:15 final size:14
Alignment explanation
Indices: 95421208--95421249 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
95421198 CGATGAATTT
95421208 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
95421223 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
95421238 ATTGAATTATAT
1 ATTGAATTATAT
95421250 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:95421689 original size:21 final size:22
Alignment explanation
Indices: 95421631--95421691 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
95421621 AGGCATTTTA
95421631 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCG-ATTTCAGGCACCTCG
*
95421654 TGTGTCGA-ATCAGGCACCTCG
1 TGTGTCGATTTCAGGCACCTCG
*
95421675 TGTGTC-ATTTTAGGCAC
1 TGTGTCGATTTCAGGCAC
95421692 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 1 0.03
23 7 0.21
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (22 bp):
TGTGTCGATTTCAGGCACCTCG
Found at i:95426435 original size:23 final size:24
Alignment explanation
Indices: 95426391--95426442 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
95426381 ATTTATATTT
* * *
95426391 ATTAATGTTATTATTATTAAATGA
1 ATTAATATTATTATTATGAAATAA
95426415 ATTAATATTA-TATTATGAAATAA
1 ATTAATATTATTATTATGAAATAA
95426438 ATTAA
1 ATTAA
95426443 ATAAAGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTAATATTATTATTATGAAATAA
Found at i:95426661 original size:19 final size:19
Alignment explanation
Indices: 95426633--95426671 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95426623 TGATCTATGG
*
95426633 ATACATATGTA-ATAATAAT
1 ATACACATGTATA-AATAAT
95426652 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
95426671 A
1 A
95426672 AATAAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:95426791 original size:13 final size:13
Alignment explanation
Indices: 95426762--95426796 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
95426752 GAAACAGGGG
95426762 AAGAAAG-AAGGA
1 AAGAAAGAAAGGA
*
95426774 GAGAAAGAAAGGA
1 AAGAAAGAAAGGA
95426787 AAGAAAGAAA
1 AAGAAAGAAA
95426797 AGAGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAGGA
Found at i:95427665 original size:15 final size:14
Alignment explanation
Indices: 95427645--95427686 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
95427635 CGATGAATTT
95427645 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
95427660 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
95427675 ATTGAATTATAT
1 ATTGAATTATAT
95427687 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:95428093 original size:23 final size:22
Alignment explanation
Indices: 95428067--95428138 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
95428057 AGGCATTTTA
*
95428067 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCG-ATTTTAGGCACCTTG
* *
95428090 TGTGTCGA-ATCAGGCACCTTG
1 TGTGTCGATTTTAGGCACCTTG
* *
95428111 TGTGTCG-TTTTAGGCACTTTA
1 TGTGTCGATTTTAGGCACCTTG
95428132 TGTGTCG
1 TGTGTCG
95428139 TATACTGATC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 33 0.80
22 1 0.02
23 7 0.17
ACGTcount: A:0.14, C:0.19, G:0.28, T:0.39
Consensus pattern (22 bp):
TGTGTCGATTTTAGGCACCTTG
Found at i:95428136 original size:42 final size:43
Alignment explanation
Indices: 95428053--95428138 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
95428043 TTGCTTTACC
** *
95428053 AATCAGGCATTTTATGTGTCGTATTTTAGGCACCTCGTGTGTCG
1 AATCAGGCACCTTATGTGTCG-ATTTTAGGCACCTCATGTGTCG
* * *
95428097 AATCAGGCACCTTGTGTGTCG-TTTTAGGCACTTTATGTGTCG
1 AATCAGGCACCTTATGTGTCGATTTTAGGCACCTCATGTGTCG
95428139 TATACTGATC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 18 0.50
44 18 0.50
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (43 bp):
AATCAGGCACCTTATGTGTCGATTTTAGGCACCTCATGTGTCG
Found at i:95428401 original size:20 final size:20
Alignment explanation
Indices: 95428378--95428432 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
95428368 AATTGATGAT
95428378 ATTTGATGATATATGATGTC
1 ATTTGATGATATATGATGTC
*
95428398 ATTTGATGA-AT-TGAAATGTG
1 ATTTGATGATATATG--ATGTC
95428418 ATTTGA-GATATATGA
1 ATTTGATGATATATGA
95428433 ATCGTATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 21 0.70
21 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTGATGATATATGATGTC
Found at i:95430072 original size:27 final size:28
Alignment explanation
Indices: 95430042--95430111 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
95430032 ATAGTGAATC
*
95430042 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
95430069 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
95430097 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95430112 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:95430183 original size:42 final size:42
Alignment explanation
Indices: 95430119--95430225 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
95430109 GCTGTACAAT
* * *
95430119 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGCCACCGTGTCCA
*
95430161 TTTATACCCGTACACTTAGTGCCAATCTTGCCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGCCACCGTGTCCA
95430203 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
95430226 GAGACCAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGCCACCGTGTCCA
Found at i:95432273 original size:5 final size:5
Alignment explanation
Indices: 95432263--95432290 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
95432253 ATATAGAGGT
95432263 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
95432291 TGGGTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:95443758 original size:25 final size:25
Alignment explanation
Indices: 95443730--95443777 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95443720 TTATACCATG
* * *
95443730 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
95443755 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
95443778 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:95443846 original size:20 final size:20
Alignment explanation
Indices: 95443821--95443879 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
95443811 TAAATATGGT
95443821 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
95443841 ATGTATGATATACACATGAT
1 ATGTATGATATGCACATGAA
95443861 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
95443880 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:95443957 original size:24 final size:24
Alignment explanation
Indices: 95443930--95444048 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
95443920 GAGGAAGTGA
*
95443930 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
95443954 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
95443977 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
95444001 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
95444025 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95444049 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:95443999 original size:47 final size:48
Alignment explanation
Indices: 95443930--95444048 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
95443920 GAGGAAGTGA
95443930 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
95443977 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
95444025 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95444049 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:95444275 original size:31 final size:31
Alignment explanation
Indices: 95444240--95444303 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95444230 CGTTTACAGT
95444240 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
95444271 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
95444302 AA
1 AA
95444304 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:95458361 original size:40 final size:39
Alignment explanation
Indices: 95458197--95458379 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
95458187 AAATTGAATG
* *
95458197 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95458236 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
95458276 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95458316 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95458355 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95458380 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 27, Indels: 11
0.74 0.18 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 90 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95458388 original size:80 final size:80
Alignment explanation
Indices: 95458240--95458388 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
95458230 GAAATTATAA
* * * * *
95458240 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCTGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
95458305 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
95458320 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
95458384 GTGCG
65 GTGCG
95458389 GGTTACCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:95465664 original size:40 final size:39
Alignment explanation
Indices: 95465500--95465682 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
95465490 AAATTGAATG
* * *
95465500 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95465540 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
95465580 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95465619 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95465658 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95465683 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95475171 original size:43 final size:43
Alignment explanation
Indices: 95475123--95475230 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
95475113 GATTGACGAG
* *
95475123 ATGTGATTATGTGTAAGACCATGTCTTAGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
** * * *
95475166 ATGTGATTACAT-TCAAGACCATTTCTGGGACATTGGCATTATT
1 ATGTGATTATGTGT-AAGACCATGTCTGAGACATTGGCATCATT
*
95475209 ATTTGATT-TCGTGTAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
95475231 AGCTAGGCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.02
43 50 0.96
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
Found at i:95480610 original size:43 final size:42
Alignment explanation
Indices: 95480476--95480633 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
95480466 TAGGATTCCG
* ** *
95480476 ATATGTGATTTCGCATAACACCATGTCTGGGAC-GTTGGCATC
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCATC
* * *
95480518 A-ATTTGAGATTTACGTGCAAGACCATGTCTAGGACA-TCAGCATC
1 ATATTT--GATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCATC
*
95480562 ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATC
* *
95480604 GATATTTGATTACATGTAAGACCATGTCTG
1 -ATATTTGATTTCGTGTAAGACCATGTCTG
95480634 AGACGTTGGC
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
41 3 0.03
42 26 0.28
43 38 0.40
44 23 0.24
45 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATC
Found at i:95487207 original size:40 final size:40
Alignment explanation
Indices: 95487148--95487355 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
95487138 CAATTGAATG
* * * *
95487148 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
95487188 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
95487228 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
95487268 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
95487308 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
95487348 ATATCCGG
1 ATATCCGG
95487356 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:95487286 original size:80 final size:80
Alignment explanation
Indices: 95487149--95487355 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
95487139 AATTGAATGA
* * ** * * *
95487149 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
95487214 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
95487227 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
95487292 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
95487309 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
95487356 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:95496924 original size:28 final size:28
Alignment explanation
Indices: 95496859--95496959 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
95496849 ATAGTGAATC
*
95496859 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
95496888 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
95496916 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
95496946 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95496960 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:95504882 original size:28 final size:28
Alignment explanation
Indices: 95504817--95504917 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
95504807 ATAGTGAATC
*
95504817 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
95504846 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
95504874 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
95504904 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95504918 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:95509471 original size:29 final size:29
Alignment explanation
Indices: 95509381--95509540 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
95509371 ACTCGATTTC
* * **
95509381 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
95509410 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
95509438 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
95509468 GCACATTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
95509497 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
95509526 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
95509541 ATCTCATCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:95513682 original size:43 final size:43
Alignment explanation
Indices: 95513626--95513775 Score: 237
Period size: 43 Copynumber: 3.5 Consensus size: 43
95513616 TTATAGCATT
* *
95513626 CTAGGCTCAAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
* *
95513669 CTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
* * *
95513712 CTAGGCACGAATGCCCGAATACACATCACCGGCACAAAGCATG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
95513755 CTAGGCACGAAGGCCCGAATA
1 CTAGGCACGAAGGCCCGAATA
95513776 TAATACCAGC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.11
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
Found at i:95517504 original size:12 final size:12
Alignment explanation
Indices: 95517487--95517514 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
95517477 TTGATCTAGT
95517487 CATCGATAATGG
1 CATCGATAATGG
95517499 CATCGATAATGG
1 CATCGATAATGG
95517511 CATC
1 CATC
95517515 AGTGTGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (12 bp):
CATCGATAATGG
Found at i:95518471 original size:20 final size:20
Alignment explanation
Indices: 95518435--95518472 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95518425 ACCGATAACT
**
95518435 TAGAAAATTTTTGAAAAACA
1 TAGAAAATTTTACAAAAACA
95518455 TAGAAAATTTTACAAAAA
1 TAGAAAATTTTACAAAAA
95518473 TACACGGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (20 bp):
TAGAAAATTTTACAAAAACA
Found at i:95520599 original size:2 final size:2
Alignment explanation
Indices: 95520592--95520625 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95520582 GCTTCGCCAC
95520592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95520626 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95525421 original size:46 final size:45
Alignment explanation
Indices: 95525290--95525422 Score: 158
Period size: 46 Copynumber: 2.9 Consensus size: 45
95525280 TGATATGTGT
* ** * *
95525290 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATTATAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGCCTTGA-GACAAGA
* *
95525336 GCCAGTGTAAGACATGTTTGGGACATGCATCGACATTGAGACAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCG-CCTTGAGACAAGA
* *
95525382 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTTGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GCCTTGAGA
95525423 TATACTGTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
46 71 0.96
47 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGCCTTGAGACAAGA
Found at i:95527041 original size:40 final size:40
Alignment explanation
Indices: 95526813--95527060 Score: 284
Period size: 40 Copynumber: 6.2 Consensus size: 40
95526803 TCTTCGGAAT
* ** *
95526813 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
95526852 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
95526892 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* **
95526932 TTAGCCCGGATATAACAACTTGCATGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
** * *
95526972 TTAGATCGAATATAACAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * * *
95527012 TTAGCCTGGATATAATC-ACTAGCATAAATGCCTTCAGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
95527052 TTAGCCCGG
1 TTAGCCCGG
95527061 GTATCATTCA
Statistics
Matches: 175, Mismatches: 32, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
39 3 0.02
40 171 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:95534352 original size:40 final size:40
Alignment explanation
Indices: 95534287--95534494 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
95534277 TCTTCGGAAT
* ** *
95534287 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
95534326 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
95534366 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
95534406 TTAGCCCAGATATAACAACTCACACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
95534446 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
95534486 TTAGCCCGG
1 TTAGCCCGG
95534495 GTACCATTCA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 144 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:95538591 original size:125 final size:123
Alignment explanation
Indices: 95538356--95538591 Score: 316
Period size: 125 Copynumber: 1.9 Consensus size: 123
95538346 GAATTATGTG
* * * *
95538356 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCTGG
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTATGAGCAATTGAATGATACCTGG
* * * ** *
95538421 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGTAATATATCCGTGGTTGAGCCTTAGTAACGA
95538479 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGT--ATGAGCAATTGAATGATA-CC
95538544 -GGGCTAAGTCCCGAAGAC-ATTTATGCTAGTAATTATATCCG-GGTTGAG
63 TGGGCTAAGTCCCGAAGACGA-TTATGCTAGTAA-TATATCCGTGGTTGAG
95538592 ACCCGAAGGC
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
123 40 0.41
124 1 0.01
125 50 0.51
126 7 0.07
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTATGAGCAATTGAATGATACCTGG
GCTAAGTCCCGAAGACGATTATGCTAGTAATATATCCGTGGTTGAGCCTTAGTAACGA
Found at i:95538676 original size:80 final size:80
Alignment explanation
Indices: 95538539--95538745 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
95538529 AATTGAATGA
* * ** * * * *
95538539 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTGAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
95538604 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
95538617 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
95538682 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
95538699 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
95538746 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:95538730 original size:40 final size:39
Alignment explanation
Indices: 95538538--95538745 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
95538528 CAATTGAATG
* * ** * *
95538538 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * *
95538578 ATATCCGGGTTGAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
95538618 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
95538658 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
95538698 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
95538738 ATATCCGG
1 ATATCCGG
95538746 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 132 0.94
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:95551278 original size:30 final size:30
Alignment explanation
Indices: 95551244--95551301 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95551234 TCCTTAACTC
95551244 AAACTTTGGCAAAATTACAATTTTGCCCTT
1 AAACTTTGGCAAAATTACAATTTTGCCCTT
* * * *
95551274 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
95551302 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCTT
Found at i:95552274 original size:31 final size:31
Alignment explanation
Indices: 95552236--95552314 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
95552226 TTTAACGATT
95552236 ACTGGGCCGAAGCCTTTTAATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTAATAAATCAAATC
* * *
95552267 ACTGGGCCGAATCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTAATAAATCAAATC
**
95552298 ACTGGGTTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
95552315 ATTGTAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTAATAAATCAAATC
Found at i:95552398 original size:42 final size:42
Alignment explanation
Indices: 95552338--95552429 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
95552328 TGGCCCATAG
*
95552338 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
95552380 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
95552422 GCCCATTT
1 GCCCATTT
95552430 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:95552605 original size:25 final size:25
Alignment explanation
Indices: 95552577--95552646 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
95552567 CTCTTTTAAT
*
95552577 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
95552602 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
95552627 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
95552647 AGCACTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:95553828 original size:54 final size:52
Alignment explanation
Indices: 95553662--95553845 Score: 208
Period size: 54 Copynumber: 3.4 Consensus size: 52
95553652 TGTAAATTAG
* * * *
95553662 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTT-ACAAACAA
* *
95553715 GTGGTATTTCGGTAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAACTAG
1 G-GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTTACAAAC-AA
* **
95553770 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAA
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATT-TA-CAAACAA
*
95553824 GGGTATTTCGGTAATTTCACAA
1 GGGTATTTCGGTAATTTTACAA
95553846 TCAAGGGTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 101 0.90
55 8 0.07
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (52 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTACAAACAA
Found at i:95553828 original size:81 final size:81
Alignment explanation
Indices: 95553662--95553845 Score: 228
Period size: 81 Copynumber: 2.3 Consensus size: 81
95553652 TGTAAATTAG
* *
95553662 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGG
* *
95553727 TAATTTTACAAACTAT
66 TAATTCTACAAACTAA
* * * *
95553743 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCG
**
95553807 GTAATTCTATCCTAC-AA
65 GTAATTCTA-CAAACTAA
* *
95553824 GGGTATTTCGGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
95553846 TCAAGGGTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 84 0.94
82 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGG
TAATTCTACAAACTAA
Found at i:95553831 original size:27 final size:27
Alignment explanation
Indices: 95553635--95553812 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
95553625 AAAAAGTCAA
* ** *
95553635 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
95553662 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
95553688 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
95553716 TGGTATTTCGGTAATTTTACAAACTAT
1 GGGTATTTTGGTAATTTTACAAACTAG
95553743 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
95553770 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
95553797 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
95553813 CTATCCTACA
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 131 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:95553899 original size:27 final size:27
Alignment explanation
Indices: 95553844--95553908 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
95553834 GTAATTTCAC
* * * *
95553844 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
95553871 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGATAATTCTATA
95553898 AATCGAGGGTA
1 AATCGAGGGTA
95553909 CTTTGGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 30 0.94
28 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:95556415 original size:14 final size:13
Alignment explanation
Indices: 95556392--95556423 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
95556382 GGAATATCAA
95556392 AACAATAATTAAG
1 AACAATAATTAAG
95556405 AACACATAATTAAG
1 AACA-ATAATTAAG
95556419 AACAA
1 AACAA
95556424 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:95558138 original size:15 final size:15
Alignment explanation
Indices: 95558114--95558161 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
95558104 GGGAAACCGA
95558114 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
95558129 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
95558143 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
95558159 ATA
1 ATA
95558162 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:95561224 original size:46 final size:46
Alignment explanation
Indices: 95561060--95561232 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
95561050 TGTAACCCGC
* * *
95561060 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
95561106 CCATAAGTGAACTCGGACTCAACTCAAC--GCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
95561150 ACATCTCTCGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
95561196 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
95561233 TGCCCAAATG
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
44 24 0.23
45 12 0.11
46 60 0.57
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:95565345 original size:20 final size:20
Alignment explanation
Indices: 95565317--95565354 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95565307 CTAGGAACTA
95565317 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
95565337 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
95565355 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:95567229 original size:93 final size:93
Alignment explanation
Indices: 95567117--95567288 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
95567107 CGCCCATAAG
* *
95567117 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
95567182 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
95567210 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
95567275 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
95567289 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:95567285 original size:46 final size:46
Alignment explanation
Indices: 95567110--95567285 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
95567100 TGTAACCCGC
* * *
95567110 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
95567156 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
95567206 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
95567249 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
95567286 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
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):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:95575615 original size:29 final size:28
Alignment explanation
Indices: 95575583--95575656 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
95575573 GATTCAAGCC
* *
95575583 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTACAAACT
* *
95575612 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACAC-TAGTGCCATACAGTACAAACT
95575641 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
95575657 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTACAAACT
Found at i:95577954 original size:93 final size:93
Alignment explanation
Indices: 95577827--95577996 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
95577817 CCCATAAGCA
* * * * *
95577827 AACTTGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
95577892 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
95577920 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
95577985 GAGTTCGGATGC
66 GAGTTCGGATGC
95577997 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:95577993 original size:46 final size:46
Alignment explanation
Indices: 95577818--95577993 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
95577808 TGTAACCCGC
** * * * * *
95577818 CCATAAGCAAACTTGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
95577864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
95577914 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
95577957 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
95577994 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 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 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:95579321 original size:27 final size:27
Alignment explanation
Indices: 95579290--95579377 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 27
95579280 TACACTTTAT
95579290 CTTATGTTAATTGTATGATTTATGTTG
1 CTTATGTTAATTGTATGATTTATGTTG
* * *
95579317 CTTA--TTAATTACATGTGAACTTACT-TTG
1 CTTATGTTAATT--GTATG-ATTTA-TGTTG
*
95579345 CCTTATGTTAATTGCATGATTTATGTTG
1 -CTTATGTTAATTGTATGATTTATGTTG
95579373 CTTAT
1 CTTAT
95579378 TAATTACATG
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
25 6 0.13
27 13 0.28
28 14 0.30
29 7 0.15
31 6 0.13
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (27 bp):
CTTATGTTAATTGTATGATTTATGTTG
Found at i:95579350 original size:56 final size:56
Alignment explanation
Indices: 95579290--95579397 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
95579280 TACACTTTAT
*
95579290 CTTATGTTAATTGTATGATTTATGTTGCTTATTAATTACATGTGAACTTACTTTGC
1 CTTATGTTAATTGCATGATTTATGTTGCTTATTAATTACATGTGAACTTACTTTGC
95579346 CTTATGTTAATTGCATGATTTATGTTGCTTATTAATTACATGTGAACTTACT
1 CTTATGTTAATTGCATGATTTATGTTGCTTATTAATTACATGTGAACTTACT
95579398 AAGCTTTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (56 bp):
CTTATGTTAATTGCATGATTTATGTTGCTTATTAATTACATGTGAACTTACTTTGC
Found at i:95579387 original size:25 final size:25
Alignment explanation
Indices: 95579304--95579387 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 25
95579294 TGTTAATTGT
95579304 ATGATTTATGTTGCTTATTAATTAC
1 ATGATTTATGTTGCTTATTAATTAC
* *
95579329 ATGTGAACTTACT-TTGCCTTATGTTAATTGC
1 A--TG-ATTTA-TGTTG-CTTA--TTAATTAC
95579360 ATGATTTATGTTGCTTATTAATTAC
1 ATGATTTATGTTGCTTATTAATTAC
95579385 ATG
1 ATG
95579388 TGAACTTACT
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
25 11 0.23
27 7 0.15
28 14 0.30
29 7 0.15
31 8 0.17
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (25 bp):
ATGATTTATGTTGCTTATTAATTAC
Found at i:95580958 original size:29 final size:28
Alignment explanation
Indices: 95580926--95581028 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
95580916 GTGACGAGAT
* *
95580926 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
95580955 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
95580984 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
95581013 TGGCACTATGTGTGCG
1 TGGCACTA-GTGTGCG
95581029 TGATTGAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 4 0.06
29 59 0.94
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Done.