Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 203 of 328
Found at i:60993357 original size:27 final size:27
Alignment explanation
Indices: 60993327--60993444 Score: 209
Period size: 27 Copynumber: 4.4 Consensus size: 27
60993317 CCACCAGATC
60993327 AGCCACCAGATCAGATATATGTGGCAG
1 AGCCACCAGATCAGATATATGTGGCAG
60993354 AGCCACCAGATCAGATATATGTGGCAG
1 AGCCACCAGATCAGATATATGTGGCAG
*
60993381 AGCCACCAGATCAGATATTTGTGGCAG
1 AGCCACCAGATCAGATATATGTGGCAG
* *
60993408 AGCCACCAGATCAGATATTTGTGGCAT
1 AGCCACCAGATCAGATATATGTGGCAG
60993435 AGCCACCAGA
1 AGCCACCAGA
60993445 ACGCTTCCTC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (27 bp):
AGCCACCAGATCAGATATATGTGGCAG
Found at i:60993367 original size:66 final size:66
Alignment explanation
Indices: 60993261--60993394 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 66
60993251 ATCGTGGCAG
* *
60993261 AGCCACCAGAATAGATATATGTGGCAGAGCCACGAGATCAGATATTTGTGGCAGAGCCACCAGAT
1 AGCCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGAT
60993326 C
66 C
60993327 AGCCACCAG-ATCAGATATATGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGA
1 AGCCACCAGAAT-AGATATATGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGA
60993391 TC
65 TC
60993393 AG
1 AG
60993395 ATATTTGTGG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 2 0.03
66 63 0.97
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (66 bp):
AGCCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGAT
C
Found at i:60993425 original size:120 final size:120
Alignment explanation
Indices: 60993212--60993444 Score: 364
Period size: 120 Copynumber: 1.9 Consensus size: 120
60993202 AGCATGGCTG
*
60993212 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAATAGAT
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAATAGAT
*
60993277 ATATGTGGCAGAGCCACGAGATCAGATATTTGTGGCAGAGCCACCAGATCAGCCA
66 ATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGCCA
* *
60993332 CCAGATCAGATATATGTGGCAGAGCCACCAGAT-CAGATATAT-GTGGCAGAGCCACCAG-ATCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGAAT-A
* *
60993394 GATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACCAGA
63 GATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAGA
60993445 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
119 2 0.02
120 82 0.79
121 20 0.19
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (120 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAATAGAT
ATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGCCA
Found at i:60995098 original size:26 final size:26
Alignment explanation
Indices: 60995062--60995145 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
60995052 CATGAAATTC
60995062 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
60995088 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
60995114 TTATCACGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
60995140 TTATCA
1 TTATCA
60995146 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:60999128 original size:27 final size:27
Alignment explanation
Indices: 60999091--60999311 Score: 311
Period size: 27 Copynumber: 8.2 Consensus size: 27
60999081 AGCATGGCTG
* * *
60999091 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
60999117 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
60999145 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
60999172 CCAGATTAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
60999199 CCAGATCAGATATATGTGGTAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
60999226 CCAGATCAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
60999253 CCAGATCAGATATTTGTGACAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
60999280 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
60999307 CCAGA
1 CCAGA
60999312 ACGCTTCCTC
Statistics
Matches: 177, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
26 5 0.03
27 155 0.88
28 17 0.10
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:61000966 original size:26 final size:26
Alignment explanation
Indices: 61000930--61001013 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
61000920 CATGAAATTC
61000930 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
61000956 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
61000982 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
61001008 TTATCA
1 TTATCA
61001014 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61005099 original size:297 final size:298
Alignment explanation
Indices: 61004565--61005161 Score: 1045
Period size: 297 Copynumber: 2.0 Consensus size: 298
61004555 GGAAATGAGT
*
61004565 TTGTGATTTATAGTGATGTCTCACTGAATGGATTAGGATGTGTATTGATGCAAGAGGGCAAAGTG
1 TTGTGATTTATAGTGATGTCTCACTGAATGGACTAGGATGTGTATTGATGCAAGAGGGCAAAGTG
* * * * *
61004630 ATAGCTTATGTCCCGAGACAGTTGAAATCGTACGAGAAGAATTATCCGAAGCATGATTTGGAATT
66 ATAGCTTATGCCCCGAGACAGTTGAAATCGCACCAAAAGAATTATCCGAAGCATGATTCGGAATT
* * *
61004695 AGCTGTCATTGTGTTTGCTTTAAAAATTTGGAGACATCATTTGTACGGTGAGAAATGTCATATCT
131 ACCTGCCATTGTGTTTGCTTTAAAAATTTGAAGACATCATTTGTACGGTGAGAAATGTCATATCT
* *
61004760 TTACTGATCATAAGAGTTTAAAATACTTGATGACACAAAAAGATTTAAATTTGTGGCAA-GGAGA
196 TTACCGATCATAAGAGTTTAAAATACTTGATGACACAAAAAGATTTAAATTTGCGGCAACGGAGA
61004824 TGGCTCGAGTTATTGAAGGATTACGAGCTAGTAATTGA
261 TGGCTCGAGTTATTGAAGGATTACGAGCTAGTAATTGA
61004862 TTGTGATTTATAGTGATG-CGTCACTGAATGGACTAGGATGTGTATTGATGCAAGAGGGCAAAGT
1 TTGTGATTTATAGTGATGTC-TCACTGAATGGACTAGGATGTGTATTGATGCAAGAGGGCAAAGT
*
61004926 GATAGCTTATGCCCCGAGACAGTTGAAATCGCACCAAAAGAATTATCCGACGCATGATTCGGAAT
65 GATAGCTTATGCCCCGAGACAGTTGAAATCGCACCAAAAGAATTATCCGAAGCATGATTCGGAAT
61004991 TACCTGCCATTGTGTTTGCTTTAAAAATTTGAAGACATCATTTGTACGGTGAGAAATGTCATATC
130 TACCTGCCATTGTGTTTGCTTTAAAAATTTGAAGACATCATTTGTACGGTGAGAAATGTCATATC
* *
61005056 TTTACCGATCATAAGAGTTTAAAATCCTTGATGACTCAAAAAGATTTAAATTTGCGGCAACGGAG
195 TTTACCGATCATAAGAGTTTAAAATACTTGATGACACAAAAAGATTTAAATTTGCGGCAACGGAG
61005121 ATGGCTCGAGTTATTGAAGGATTACGAGCTAGTAATTGA
260 ATGGCTCGAGTTATTGAAGGATTACGAGCTAGTAATTGA
61005160 TT
1 TT
61005162 ACCACCCGGG
Statistics
Matches: 284, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
296 1 0.00
297 238 0.84
298 45 0.16
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (298 bp):
TTGTGATTTATAGTGATGTCTCACTGAATGGACTAGGATGTGTATTGATGCAAGAGGGCAAAGTG
ATAGCTTATGCCCCGAGACAGTTGAAATCGCACCAAAAGAATTATCCGAAGCATGATTCGGAATT
ACCTGCCATTGTGTTTGCTTTAAAAATTTGAAGACATCATTTGTACGGTGAGAAATGTCATATCT
TTACCGATCATAAGAGTTTAAAATACTTGATGACACAAAAAGATTTAAATTTGCGGCAACGGAGA
TGGCTCGAGTTATTGAAGGATTACGAGCTAGTAATTGA
Found at i:61008768 original size:41 final size:40
Alignment explanation
Indices: 61008715--61008884 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
61008705 AGTTTGACTT
* *
61008715 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
61008754 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
61008794 TTATGACACTGGCTTTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGC--TCAAAAGCCCTTCGAGACCAAGCTCGG--A
61008839 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
61008878 TTTAGAC
1 -TTAGAC
61008885 CCCGATTAGC
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
39 5 0.05
40 16 0.15
41 51 0.49
42 20 0.19
43 8 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:61008821 original size:42 final size:41
Alignment explanation
Indices: 61008773--61008864 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 41
61008763 TGGCTCGAAG
*
61008773 GCCCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTTTAAAAA
1 GCCCTTCGAAACTAAGTCCGGTTATGAGCACTGGC--TAAAAA
* * *
61008815 GCCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAA
1 GCCCTTCGAAACTAAGTCCGGTTATGAGCACTGGCTAAAAA
61008856 GCCCTTCGA
1 GCCCTTCGA
61008865 GACCAAGCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 14 0.31
42 24 0.53
43 7 0.16
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
GCCCTTCGAAACTAAGTCCGGTTATGAGCACTGGCTAAAAA
Found at i:61011049 original size:27 final size:25
Alignment explanation
Indices: 61011009--61011067 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
61010999 CCACATATAT
*
61011009 ATATCTGTTCGGTGGCCTAGCCACA
1 ATATCTGTTCGGTGACCTAGCCACA
* * *
61011034 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TC-GGTGACCTAGCCACA
61011061 ATATCTG
1 ATATCTG
61011068 GCAGTCTCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.29
26 2 0.07
27 18 0.64
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
ATATCTGTTCGGTGACCTAGCCACA
Found at i:61016336 original size:27 final size:26
Alignment explanation
Indices: 61016292--61016343 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61016282 CTCGCTGCAA
*
61016292 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
61016319 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
61016344 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:61020114 original size:40 final size:40
Alignment explanation
Indices: 61020069--61020235 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
61020059 CGGAATACAA
61020069 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61020109 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61020149 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
61020189 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61020228 CCGGATAT
1 CCGGATAT
61020236 CATTCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61028027 original size:40 final size:40
Alignment explanation
Indices: 61027982--61028148 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
61027972 CGGAATACAA
61027982 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61028022 CCGGATAGAA-GACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61028061 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
61028101 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61028141 CCGGATAT
1 CCGGATAT
61028149 CATTCAATTG
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 35 0.33
40 67 0.64
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61028041 original size:39 final size:40
Alignment explanation
Indices: 61027998--61028107 Score: 154
Period size: 39 Copynumber: 2.8 Consensus size: 40
61027988 ATAACCACGT
*
61027998 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-ACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
*
61028037 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
61028077 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
61028108 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 3 0.05
39 32 0.50
40 29 0.45
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:61037569 original size:39 final size:39
Alignment explanation
Indices: 61037494--61037643 Score: 246
Period size: 39 Copynumber: 3.8 Consensus size: 39
61037484 TATGGTAGCC
* * *
61037494 CGCACAAATGCCTTTGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
61037534 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61037573 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61037612 CGCACAATTGCCTTCGGGCTTAGCTCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
61037644 TACCCGAACA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61041287 original size:29 final size:29
Alignment explanation
Indices: 61041196--61041356 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
61041186 TACTCGATTT
** * *
61041196 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
61041225 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
61041254 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61041283 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61041312 CGCATACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61041341 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61041357 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 107 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:61044979 original size:29 final size:29
Alignment explanation
Indices: 61044943--61045105 Score: 193
Period size: 29 Copynumber: 5.6 Consensus size: 29
61044933 AATAAACGAT
***
61044943 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
61044972 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
61045001 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
61045030 TTCGAACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* ** *
61045059 TTCGCACACTTAGTGCCATA-CCTTCCAAG
1 CTCGCACACTTAGTGCCATATAATT-TAAG
*
61045088 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
61045106 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
28 2 0.02
29 116 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:61045097 original size:58 final size:57
Alignment explanation
Indices: 61044944--61045105 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
61044934 ATAAACGATC
* *
61044944 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATAC-ATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* * * *
61045002 TTGCACACTTAGTGCCATATAATTTAAGTTCGAACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATA-CATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* * *
61045060 TCGCACACTTAGTGCCATACCTTCCAAGCCCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATACATT-TAAGCTCGCACACTTAGTGCCA
61045106 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.02
58 87 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (57 bp):
TCGCACACTTAGTGCCATACATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
Found at i:61048918 original size:40 final size:40
Alignment explanation
Indices: 61048810--61048919 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
61048800 ATTGAATGAT
* * * * *
61048810 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
61048850 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
61048890 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
61048920 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:61055762 original size:29 final size:29
Alignment explanation
Indices: 61055720--61055821 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
61055710 AATAAACGAT
* ***
61055720 CTCGCCCACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
61055749 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
61055778 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
61055807 TTCGCACACTTAGTG
1 CTCGCACACTTAGTG
61055822 TGACAGCCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:61056202 original size:24 final size:22
Alignment explanation
Indices: 61056163--61056209 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
61056153 TGCATTATGG
61056163 AAGGAAAATAAAGAAATGAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAA
* *
61056187 AAGGAAAATGATGAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAA
61056209 A
1 A
61056210 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (22 bp):
AAGGAAAATAAAGAAAAAAAAA
Found at i:61056906 original size:2 final size:2
Alignment explanation
Indices: 61056899--61056926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61056889 GTTGACATTG
61056899 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
61056927 CATACATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61057406 original size:28 final size:29
Alignment explanation
Indices: 61057369--61057440 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
61057359 AAAATTGTAC
* *
61057369 AGCACCAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
61057397 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
61057426 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61057441 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:61064000 original size:25 final size:23
Alignment explanation
Indices: 61063960--61064007 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
61063950 TGCATTATGG
61063960 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
61063985 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
61064008 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:61064703 original size:2 final size:2
Alignment explanation
Indices: 61064696--61064723 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61064686 GTTGACATTG
61064696 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
61064724 CATACATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61065165 original size:28 final size:29
Alignment explanation
Indices: 61065125--61065196 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
61065115 AAAATTGTAC
*
61065125 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
61065153 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
61065182 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61065197 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:61069245 original size:2 final size:2
Alignment explanation
Indices: 61069238--61069272 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
61069228 TTGTTCTTAA
*
61069238 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61069273 AATACATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61075341 original size:42 final size:42
Alignment explanation
Indices: 61075234--61075354 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
61075224 TATCATACCA
* **
61075234 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* *
61075276 ATGCCAATAGCCCA-ACTAT-GTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCTAGA-TATGGTCTTACACGAAATCTCATATCG
61075318 ATGCCATATCCTAGATATGGTCTTACAC-ATAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGA-AATCTCA
61075355 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 10 0.15
42 48 0.72
43 9 0.13
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
Found at i:61077629 original size:26 final size:26
Alignment explanation
Indices: 61077580--61077629 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
61077570 ACTTGATTAT
*
61077580 TTTTATACCTAATCCAATCTCTGTAC
1 TTTTATACCTAATCCAATCCCTGTAC
**
61077606 TTTTATACCTAATCTGATCCCTGT
1 TTTTATACCTAATCCAATCCCTGT
61077630 GAAGACGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (26 bp):
TTTTATACCTAATCCAATCCCTGTAC
Found at i:61081165 original size:24 final size:24
Alignment explanation
Indices: 61081115--61081165 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
61081105 GTGATCAGTT
* * *
61081115 GAGGGATTTAAGGAGTGATTTGAG
1 GAGGAATTTAAGGAGAGATTAGAG
* *
61081139 GAGGAATTTTAGGAGAGATTAGGG
1 GAGGAATTTAAGGAGAGATTAGAG
61081163 GAG
1 GAG
61081166 AAAAATGTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.43, T:0.25
Consensus pattern (24 bp):
GAGGAATTTAAGGAGAGATTAGAG
Found at i:61082946 original size:47 final size:47
Alignment explanation
Indices: 61082877--61083138 Score: 214
Period size: 47 Copynumber: 5.6 Consensus size: 47
61082867 TAAGGTGCCC
* * *
61082877 ATGCCATGTTCTAGACACGGTCTTACACTGGCTCACATCTCAAGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGCCG
* *
61082924 ATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCA-CATCTC-AAGCCG
* * * * * * *
61082972 ATG-CATATCCCAGACAT-GTCTTACACTGGCTTACGTCTTGAGGCCA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATC-TCAAGCCG
* * * *
61083018 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAA-GCCG
* * * * ***
61083064 ATGCCATGTCCTAGATATGGTCTTACACTAGCTCTCATAATGTGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-CTCAAGCCG
*
61083112 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCTAGACATGGTCTTACACT
61083139 AGCTAACAAC
Statistics
Matches: 178, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 69 0.39
47 74 0.42
48 32 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGCCG
Found at i:61083022 original size:46 final size:46
Alignment explanation
Indices: 61082922--61083142 Score: 214
Period size: 46 Copynumber: 4.7 Consensus size: 46
61082912 CATCTCAAGT
* * * *
61082922 CGATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTTG-AGGC
* *
61082970 CGATGCATATCCCAGACATGTCTTACACTGGCT-TACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTTGAGGC
* ** *
61083016 CAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTGAGGC
* * * ** *
61083062 CGATGCCATGTCCTAGATATGGTCTTACACTAGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTTGAGGC
61083110 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
61083143 AACAACAACC
Statistics
Matches: 145, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 75 0.52
47 38 0.26
48 30 0.21
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTGAGGC
Found at i:61085179 original size:27 final size:27
Alignment explanation
Indices: 61085149--61085291 Score: 214
Period size: 27 Copynumber: 5.3 Consensus size: 27
61085139 CAATGTGATG
* *
61085149 AAATAACTGTTTTGCCCTTATGTGGTG
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
61085176 AAATGACTGTTTTGCCCTTAAGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
61085203 AAATGACTGTTTTGCCCCTATGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
61085230 AAATGACTGTTTTGCCCTTATGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
61085257 AAATAACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
61085284 AAATGACT
1 AAATGACT
61085292 AAAATGCTCC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:61085311 original size:81 final size:81
Alignment explanation
Indices: 61085149--61085332 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 81
61085139 CAATGTGATG
* * * * ***
61085149 AAATAACTGTTTTGCCCTTATGTGGTGAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTT
1 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTAAA
* *
61085214 TTGCCCCTATGAGGTA
66 ATGCCCCTAAGAGGTA
61085230 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTATA-TGGTAAAATGACTAA
1 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTA-AGTGGTAAAATGACTAA
*
61085294 AATGCTCCTACAG-GGTA
65 AATGCCCCTA-AGAGGTA
* * * *
61085311 AATTGACTATTTTTCCCCTATG
1 AAATGACTGTTTTGCCCTTATG
61085333 TGAGGTATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 85 0.98
82 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (81 bp):
AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTAAA
ATGCCCCTAAGAGGTA
Found at i:61085702 original size:18 final size:18
Alignment explanation
Indices: 61085679--61085724 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
61085669 TTGTTTAAAA
61085679 TGTTACTGCACTATTTAC
1 TGTTACTGCACTATTTAC
* * *
61085697 TGTTACTACTCTGTTTAC
1 TGTTACTGCACTATTTAC
*
61085715 TGTTATTGCA
1 TGTTACTGCA
61085725 ATGGGCCAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (18 bp):
TGTTACTGCACTATTTAC
Found at i:61085769 original size:40 final size:41
Alignment explanation
Indices: 61085708--61085791 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 41
61085698 GTTACTACTC
*
61085708 TGTTTACTGTTATTGCAATGGGCCAAGGCCCAAACACATGAT
1 TGTTTACTGTTATTGCAATGGGCCAAAGCCCAAACACAT-AT
* *
61085750 TGTTT-CTG-TATTG-AGATGGGCTAAAGCCCAAACAGATAT
1 TGTTTACTGTTATTGCA-ATGGGCCAAAGCCCAAACACATAT
61085789 TGT
1 TGT
61085792 CACTATTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 6 0.16
40 24 0.63
41 3 0.08
42 5 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (41 bp):
TGTTTACTGTTATTGCAATGGGCCAAAGCCCAAACACATAT
Found at i:61096941 original size:30 final size:30
Alignment explanation
Indices: 61096905--61096964 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61096895 AGAGAAAGAA
* *
61096905 GAAAGAGGGTATTCGGTAAGTGACAAAAGG
1 GAAAGAGGGTATTCAGCAAGTGACAAAAGG
*
61096935 GAAAGAGGGTATTCAGCCAGTGACAAAAGG
1 GAAAGAGGGTATTCAGCAAGTGACAAAAGG
61096965 AGAAGGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (30 bp):
GAAAGAGGGTATTCAGCAAGTGACAAAAGG
Found at i:61100131 original size:26 final size:26
Alignment explanation
Indices: 61100102--61100153 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
61100092 ATACACAAGC
61100102 ACATAAAATCGAGCCATAAAATTTCA
1 ACATAAAATCGAGCCATAAAATTTCA
*
61100128 ACATAAAATCGGGCCATAAAATTTCA
1 ACATAAAATCGAGCCATAAAATTTCA
61100154 TTCAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (26 bp):
ACATAAAATCGAGCCATAAAATTTCA
Found at i:61101783 original size:28 final size:28
Alignment explanation
Indices: 61101742--61101812 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
61101732 GATGTCTCAT
* *
61101742 ACACTAAGTACCATACTCAATATCTTGC
1 ACACTAAGTGCCATACTCAATATCTTAC
* * * *
61101770 ACACCAAGTGCCATTCTTAATATTTTAC
1 ACACTAAGTGCCATACTCAATATCTTAC
61101798 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
61101813 TACATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCATACTCAATATCTTAC
Found at i:61114021 original size:27 final size:27
Alignment explanation
Indices: 61113968--61114021 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
61113958 ATATATAAAT
* *
61113968 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTTGTAATTAA
*
61113995 ATTATTAACATAATTAATTT-TAATTAA
1 ATTA-TAAAATAATTAATTTGTAATTAA
61114022 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAAAATAATTAATTTGTAATTAA
Found at i:61115758 original size:26 final size:26
Alignment explanation
Indices: 61115718--61115807 Score: 101
Period size: 26 Copynumber: 3.5 Consensus size: 26
61115708 CAATATCGTG
* * * *
61115718 GCAAAGCTACAAGTAATAATATCACA
1 GCAAAGCTGCCAGTAATAGTATCGCA
*
61115744 GCAAAGCTGCCAGT-ATCAGTAACGCA
1 GCAAAGCTGCCAGTAAT-AGTATCGCA
* *
61115770 GCAAAGCTGCCAATAACAGTATCGCA
1 GCAAAGCTGCCAGTAATAGTATCGCA
61115796 GCAAAGCTGCCA
1 GCAAAGCTGCCA
61115808 ATATCAGTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.04
26 51 0.94
27 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.16
Consensus pattern (26 bp):
GCAAAGCTGCCAGTAATAGTATCGCA
Found at i:61115808 original size:26 final size:26
Alignment explanation
Indices: 61115737--61115817 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
61115727 CAAGTAATAA
* *
61115737 TATCACAGCAAAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAATATCAG
* *
61115763 TAACGCAGCAAAGCTGCCAATAACAG
1 TATCGCAGCAAAGCTGCCAATATCAG
61115789 TATCGCAGCAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTGCCAATATCAG
61115815 TAT
1 TAT
61115818 ATGTGGCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATATCAG
Found at i:61120388 original size:31 final size:31
Alignment explanation
Indices: 61120346--61120410 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
61120336 TTTGAGCCTT
* * *
61120346 TAACTCTACAAGCTCTTTCGATGTCATTCCA
1 TAACTCCACAAGCTATTTCGATGCCATTCCA
* *
61120377 TAACTCCACAAGCTATTTCGGTGCCATTCTA
1 TAACTCCACAAGCTATTTCGATGCCATTCCA
61120408 TAA
1 TAA
61120411 GGGGAAATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (31 bp):
TAACTCCACAAGCTATTTCGATGCCATTCCA
Found at i:61122547 original size:14 final size:14
Alignment explanation
Indices: 61122528--61122554 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61122518 TATTTCAAAT
61122528 CATTCCAAAAACAA
1 CATTCCAAAAACAA
61122542 CATTCCAAAAACA
1 CATTCCAAAAACA
61122555 TTTTTTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
CATTCCAAAAACAA
Found at i:61123336 original size:59 final size:59
Alignment explanation
Indices: 61123235--61123376 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
61123225 TAATGCAACC
* * * *
61123235 CAACCCAAACCAGCCAACACACTACTTCGTACCAACCAACACACCATGTGGGGACAAAGT
1 CAACCC-ACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
*
61123295 CGACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
1 CAACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
* *
61123354 TAACCCACCCAGCAAACACACCA
1 CAACCCACCCAGCCAACACACCA
61123377 ATATCGCAGC
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 69 0.93
60 5 0.07
ACGTcount: A:0.38, C:0.41, G:0.12, T:0.09
Consensus pattern (59 bp):
CAACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
Found at i:61123799 original size:27 final size:27
Alignment explanation
Indices: 61123746--61123802 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
61123736 ATTTTGTGGG
* * *
61123746 CCAAGTGGGCCCACACGCCTTTGTGGC
1 CCAAGTGGGCCCACACACCCTTATGGC
61123773 CCAAGTGGGCCCACACACCCTTATGGC
1 CCAAGTGGGCCCACACACCCTTATGGC
61123800 CCA
1 CCA
61123803 TAAATCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.40, G:0.25, T:0.16
Consensus pattern (27 bp):
CCAAGTGGGCCCACACACCCTTATGGC
Found at i:61127308 original size:64 final size:64
Alignment explanation
Indices: 61127227--61127410 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
61127217 AGACATTATG
* * *
61127227 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
61127291 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61127356 AA
63 AA
* * * *
61127358 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61127411 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61131652 original size:25 final size:25
Alignment explanation
Indices: 61131620--61131667 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61131610 CTATAACATG
* * *
61131620 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61131645 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61131668 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:61131751 original size:11 final size:11
Alignment explanation
Indices: 61131715--61131770 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
61131705 CATGGTATGT
61131715 ATGATATGCAC
1 ATGATATGCAC
* *
61131726 ATGACATG--T
1 ATGATATGCAC
61131735 ATGATATGCAC
1 ATGATATGCAC
*
61131746 ATGATATG--T
1 ATGATATGCAC
61131755 ATGATATGCAC
1 ATGATATGCAC
61131766 ATGAT
1 ATGAT
61131771 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61131770 original size:20 final size:20
Alignment explanation
Indices: 61131704--61131770 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
61131694 ATTTTGATAA
*
61131704 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61131724 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61131744 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61131764 ACATGAT
1 ACATGAT
61131771 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61131875 original size:24 final size:23
Alignment explanation
Indices: 61131819--61131970 Score: 223
Period size: 24 Copynumber: 6.4 Consensus size: 23
61131809 GAGGAAGTGA
61131819 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
61131842 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
61131865 CAAAAGGGCTTATGCCTCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
61131889 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
61131913 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
61131937 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
61131961 AAAAGAGGCT
1 AAAAG-GGCT
61131971 AGGCCTCCAG
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 43 0.36
24 72 0.61
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:61131888 original size:47 final size:46
Alignment explanation
Indices: 61131819--61131970 Score: 223
Period size: 47 Copynumber: 3.2 Consensus size: 46
61131809 GAGGAAGTGA
61131819 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
61131865 CAAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
61131913 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
61131961 AAAAGAGGCT
1 AAAAG-GGCT
61131971 AGGCCTCCAG
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
47 63 0.67
48 27 0.29
49 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:61131935 original size:71 final size:71
Alignment explanation
Indices: 61131819--61131970 Score: 259
Period size: 71 Copynumber: 2.1 Consensus size: 71
61131809 GAGGAAGTGA
*
61131819 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
61131884 GTTATC
66 GTTATC
* *
61131890 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
61131955 GTTATT
66 GTTATC
61131961 AAAAGAGGCT
1 AAAAG-GGCT
61131971 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:61132212 original size:31 final size:31
Alignment explanation
Indices: 61132177--61132237 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
61132167 CGTTTACAGT
61132177 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
61132208 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
61132238 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:61133889 original size:376 final size:378
Alignment explanation
Indices: 61133296--61134016 Score: 1347
Period size: 376 Copynumber: 1.9 Consensus size: 378
61133286 CGAATATAGA
* *
61133296 GAAAAGAAATAAGGTTTGAAGCTTGGTGAATTTCGGCACCTTTAAATCTTGATTTAGGTATGTTC
1 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
*
61133361 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCGTTACTTCGTATTCTAGCTAGCCCAT
66 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
* * *
61133426 GCCCTAATTTTTAGAATTTATGATAAATTTGTGATTTTCCATTGATGATAGCTTGATGTTTTTGT
131 ACCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTCCATTGATGATAGCGTGATGTTTTTGT
61133491 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
196 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
61133556 AAAATGCTTATTAAGGATT-AATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
261 AAAATGCTTATTAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
61133620 AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
326 AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
61133673 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
1 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
*
61133738 TTTGCTCGACTTTTGATAATTTTTATG-TTTTTGAGATCATTGCTTCGTATTCTAGCTAGCCCAT
66 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
* *
61133802 ACCCTAATTTTTAGAATTTATGATGAATTTGTAATTTTTCATTGATGATAGCGTGATGTTTTTGT
131 ACCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTCCATTGATGATAGCGTGATGTTTTTGT
61133867 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
196 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
61133932 AAAATGCTTATTAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
261 AAAATGCTTATTAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
61133997 AAATTAATGGGATGTTAGGG
326 AAATTAATGGGATGTTAGGG
61134017 ACTTAAGGAA
Statistics
Matches: 334, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
376 179 0.54
377 155 0.46
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (378 bp):
GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
ACCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTCCATTGATGATAGCGTGATGTTTTTGT
TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
AAAATGCTTATTAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
Found at i:61134814 original size:86 final size:86
Alignment explanation
Indices: 61134662--61134883 Score: 263
Period size: 86 Copynumber: 2.6 Consensus size: 86
61134652 TGTATATAGA
* * * * * * **
61134662 CATCGATATGTGATTACGTGTAAGACCATGCCT-GGGACATTGGTATCGATATGTGATTACGTGT
1 CATCGATATGTGATTACATGTAAGACCACG-TTAGGGACGTTGGCATCTATATGTGATTACAAGT
61134726 AAGACCAC-ATCTGGGAC-GTTGG
65 AAGACC-CTATCTGGGACAG-TGG
*
61134748 CATCGATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATCTATATGTGTTTACAAGTA
1 CATCGATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATCTATATGTGATTACAAGTA
61134813 AGACCCTATCTGGGACAGTGG
66 AGACCCTATCTGGGACAGTGG
* ** * *
61134834 CATTGATATAAGATTACATGTAAGTCCACGTTAGGAACGTTGGCAT-TATA
1 CATCGATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATCTATA
61134884 CCATATATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
85 6 0.05
86 112 0.94
87 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (86 bp):
CATCGATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATCTATATGTGATTACAAGTA
AGACCCTATCTGGGACAGTGG
Found at i:61134878 original size:43 final size:43
Alignment explanation
Indices: 61134666--61134880 Score: 190
Period size: 43 Copynumber: 5.0 Consensus size: 43
61134656 TATAGACATC
* * * * * *
61134666 GATATGTGATTACGTGTAAGACCATGCCT-GGGACATTGGTATC
1 GATATGTGATTACATGTAAGACCACG-TTAGGGACGTTGGCATT
* * *
61134709 GATATGTGATTACGTGTAAGACCACATCT-GGGACGTTGGCATC
1 GATATGTGATTACATGTAAGACCACGT-TAGGGACGTTGGCATT
61134752 GATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATCT
1 GATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCAT-T
* * *
61134796 -ATATGTGTTTACAAGTAAGACC-C-TATCTGGGACAG-TGGCATT
1 GATATGTGATTACATGTAAGACCACGT-T-AGGGAC-GTTGGCATT
** * *
61134838 GATATAAGATTACATGTAAGTCCACGTTAGGAACGTTGGCATT
1 GATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATT
61134881 ATACCATATA
Statistics
Matches: 144, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 134 0.93
44 3 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCACGTTAGGGACGTTGGCATT
Found at i:61137897 original size:28 final size:28
Alignment explanation
Indices: 61137864--61137932 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
61137854 GCGTAGATCA
61137864 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
61137892 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
61137920 CGATA-TACCCCTA
1 CGAAATTACCCCTA
61137933 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:61142307 original size:16 final size:16
Alignment explanation
Indices: 61142288--61142319 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61142278 AATTGTTTTA
61142288 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
61142304 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
61142320 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:61142605 original size:50 final size:50
Alignment explanation
Indices: 61142530--61142743 Score: 302
Period size: 50 Copynumber: 4.3 Consensus size: 50
61142520 CCGGTAGGCA
* *
61142530 TAGTAGCCTGAACTTAATACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * * * * *
61142580 TAGTAGCCTGCAGTTATTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
** *
61142630 TAGTAGCCTGCACTTAGTACTACACATGTAACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
*
61142680 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
61142730 TAGTAGCCTGCACT
1 TAGTAGCCTGCACT
61142744 AAGTGTAAGA
Statistics
Matches: 141, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 141 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
Found at i:61144712 original size:18 final size:20
Alignment explanation
Indices: 61144681--61144727 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61144671 AAAAACATGT
*
61144681 TATATCATCAAAATAATCACA
1 TATAT-ATCAAATTAATCACA
*
61144702 TA-ATATCAAATTATTCACA
1 TATATATCAAATTAATCACA
61144721 TATATAT
1 TATATAT
61144728 ACTTATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAATTAATCACA
Found at i:61147888 original size:40 final size:40
Alignment explanation
Indices: 61147782--61147965 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
61147772 TGCTGGAAAT
* * * * * **
61147782 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* *
61147822 TATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
61147862 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
61147900 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
61147941 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
61147966 GTTTGAACGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.26
40 83 0.73
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:61155335 original size:40 final size:39
Alignment explanation
Indices: 61155240--61155422 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
61155230 TGCTGGAAAT
* * * * **
61155240 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
61155279 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
61155319 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
61155357 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
61155398 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
61155423 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
38 3 0.03
39 52 0.45
40 58 0.50
41 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:61155363 original size:79 final size:80
Alignment explanation
Indices: 61155245--61155427 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
61155235 GAAATTATAA
* * * *
61155245 CCGGGTTAAGACCCGAAGGCA-ATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
*
61155309 TGCGAGTCATTC-TAT
66 TGCGAGTCA-CCATAT
* * * * *
61155324 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
* *
61155387 GTGCGGGTTACCATAT
65 GTGCGAGTCACCATAT
* * *
61155403 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGACCCGAAGGCATTTG
61155428 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.02
79 79 0.92
80 5 0.06
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCACCATAT
Found at i:61158030 original size:15 final size:16
Alignment explanation
Indices: 61157994--61158031 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
61157984 ACCAAAGATC
61157994 TCCAAGAT-AGAGAAA
1 TCCAAGATAAGAGAAA
61158009 TCC-AGATAAG-GAAA
1 TCCAAGATAAGAGAAA
61158023 TCCAAGATA
1 TCCAAGATA
61158032 GAATATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (16 bp):
TCCAAGATAAGAGAAA
Found at i:61163262 original size:40 final size:40
Alignment explanation
Indices: 61163178--61163326 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
61163168 AATTGAATGA
* * **
61163178 TATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
61163217 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
61163258 -ATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
61163296 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
61163327 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
37 1 0.01
38 5 0.06
39 40 0.44
40 42 0.47
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:61163340 original size:40 final size:40
Alignment explanation
Indices: 61163214--61163342 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
61163204 ATGCTGGAAA
* * *
61163214 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
61163254 CTACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
61163293 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
61163333 TTATATCCGG
1 TTATATCCGG
61163343 TTATATTCCG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 32 0.44
40 40 0.56
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:61171261 original size:40 final size:40
Alignment explanation
Indices: 61171176--61171326 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
61171166 AATTGAATGA
* * * *
61171176 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
61171216 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
61171257 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
61171296 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
61171327 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:61171340 original size:40 final size:40
Alignment explanation
Indices: 61171213--61171342 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
61171203 ATGCTGGAAA
* * *
61171213 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
61171253 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
61171293 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
61171333 TTATATCCGG
1 TTATATCCGG
61171343 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:61171341 original size:80 final size:80
Alignment explanation
Indices: 61171175--61171342 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
61171165 AAATTGAATG
* *
61171175 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
61171240 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
61171255 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
61171318 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
61171335 ATATCCGG
1 ATATCCGG
61171343 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:61176694 original size:38 final size:38
Alignment explanation
Indices: 61176545--61176674 Score: 161
Period size: 38 Copynumber: 3.4 Consensus size: 38
61176535 CGAGGTATAA
* * * *
61176545 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT
*** * *
61176584 AAACTTAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
61176623 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
61176661 AACCCGGATATAAT
1 AACCCGGATATAAT
61176675 TCTAGCATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 47 0.62
39 3 0.04
40 26 0.34
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:61180386 original size:58 final size:58
Alignment explanation
Indices: 61180259--61180427 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
61180249 GTGCCCACTG
* *
61180259 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
61180316 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
61180374 ACCGATCGCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
61180428 TAATCATTCG
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 29 0.28
58 76 0.72
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:61180415 original size:29 final size:29
Alignment explanation
Indices: 61180266--61180424 Score: 112
Period size: 29 Copynumber: 5.5 Consensus size: 29
61180256 CTGACCGATC
* * *
61180266 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
61180294 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
61180322 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
61180352 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
* *
61180380 CGCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
61180410 TTGCACACACAGTGC
1 TCGCACACACAGTGC
61180425 CTCTAATCAT
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
28 27 0.28
29 62 0.63
30 9 0.09
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:61180676 original size:42 final size:43
Alignment explanation
Indices: 61180581--61180757 Score: 304
Period size: 42 Copynumber: 4.2 Consensus size: 43
61180571 CCTTGCTCGA
** *
61180581 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
61180624 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCC-AATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
61180666 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCC-AATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
61180708 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
61180751 ATCACCG
1 ATCACCG
61180758 AGTTTCATGC
Statistics
Matches: 129, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 83 0.64
43 46 0.36
ACGTcount: A:0.32, C:0.35, G:0.23, T:0.11
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:61180748 original size:85 final size:85
Alignment explanation
Indices: 61180581--61180757 Score: 302
Period size: 85 Copynumber: 2.1 Consensus size: 85
61180571 CCTTGCTCGA
**
61180581 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
*
61180646 GGCACGAAGGCCCAATACAC
66 GGCACAAAGGCCCAATACAC
*
61180666 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCC-AATACACATCACCGGCACGAAGCCTGCTA
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
61180730 GGCACAAAGGCCCGAATACAC
66 GGCACAAAGGCCC-AATACAC
61180751 ATCACCG
1 ATCACCG
61180758 AGTTTCATGC
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 41 0.47
85 46 0.53
ACGTcount: A:0.32, C:0.35, G:0.23, T:0.11
Consensus pattern (85 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
GGCACAAAGGCCCAATACAC
Found at i:61182366 original size:40 final size:39
Alignment explanation
Indices: 61182301--61182457 Score: 149
Period size: 38 Copynumber: 4.0 Consensus size: 39
61182291 AAACCCGAAC
* * **
61182301 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTTAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTTAAACCCAGAT
* * *
61182341 ATAATACCAGCACTAGGCCTGCGGGATTT-AACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCAGAT
*
61182379 ATAATACCAGCACGAAGCCTGCGGGATTT-AACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCAGAT
* * * * *
61182417 ATAATTCTAGCA-TATAGCCTGCGGGTCTTTAAGCCCAGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAAACCCAGAT
61182457 A
1 A
61182458 CACATCAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 62 0.63
39 6 0.06
40 30 0.30
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (39 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCAGAT
Found at i:61182441 original size:38 final size:38
Alignment explanation
Indices: 61182292--61182421 Score: 161
Period size: 38 Copynumber: 3.4 Consensus size: 38
61182282 GCAGGTATAA
* * * *
61182292 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT
*** * *
61182331 AAACTTAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
61182370 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
61182408 AACCCGGATATAAT
1 AACCCGGATATAAT
61182422 TCTAGCATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 47 0.62
39 3 0.04
40 26 0.34
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:61186342 original size:22 final size:22
Alignment explanation
Indices: 61186314--61186358 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
61186304 CAAGGTTAGA
*
61186314 GTATTTTTGTTTTCACCCCGAT
1 GTATTTTTGTTTACACCCCGAT
61186336 GTATTTTTGTTTACACCCCGAT
1 GTATTTTTGTTTACACCCCGAT
61186358 G
1 G
61186359 ACATTTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (22 bp):
GTATTTTTGTTTACACCCCGAT
Found at i:61186364 original size:23 final size:22
Alignment explanation
Indices: 61186316--61186365 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
61186306 AGGTTAGAGT
* *
61186316 ATTTTTGTTTTCACCCCGATGT
1 ATTTTTGTTTACACCCCGATGC
61186338 ATTTTTGTTTACACCCCGATGAC
1 ATTTTTGTTTACACCCCGATG-C
61186361 ATTTT
1 ATTTT
61186366 AGGGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.48
Consensus pattern (22 bp):
ATTTTTGTTTACACCCCGATGC
Found at i:61188985 original size:55 final size:53
Alignment explanation
Indices: 61188840--61189036 Score: 173
Period size: 54 Copynumber: 3.7 Consensus size: 53
61188830 AATTTTCCAT
* * *
61188840 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
* * ** * *
61188893 TGCCATGCCTTGGCATGGTCTTACATTGGATAT--TTGCCTTATCGTAGTTTATCAA
1 TGCCATGTCTTGACATGGTCTTACA-T-GATATCCTTGCCTTAT-G-AACTCACCAA
* * * * *
61188948 TGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAA
* * * *
61189002 TGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTT
61189037 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
53 35 0.31
54 39 0.35
55 39 0.35
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
Found at i:61193375 original size:40 final size:40
Alignment explanation
Indices: 61193287--61193376 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
61193277 ATGCTGGAAA
*
61193287 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
* *
61193327 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGG
61193367 TTATATCCGG
1 TTATATCCGG
61193377 TTGTATTCCG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
Found at i:61195836 original size:47 final size:47
Alignment explanation
Indices: 61195781--61196627 Score: 1401
Period size: 47 Copynumber: 18.1 Consensus size: 47
61195771 TTAGGATTTT
*
61195781 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61195828 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61195875 ATGTGATGAATGTGAATATGCATATATGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61195922 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61195969 ATGTGATGAATGTGAAGATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61196016 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCAAATGGCGA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61196063 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61196110 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61196157 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGACTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61196204 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61196251 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61196298 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61196345 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61196392 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61196439 ATGTGATGAATGTGAACATGC--ATGTGTGATAAGGTCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61196484 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61196531 ATGTGATGAATGTGAACATACATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** * * * *
61196578 ATGTGATGAACGTGGATGTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61196625 ATG
1 ATG
61196628 CGAAATGTGT
Statistics
Matches: 749, Mismatches: 49, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
45 41 0.05
47 708 0.95
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61196668 original size:46 final size:46
Alignment explanation
Indices: 61196601--61196704 Score: 190
Period size: 46 Copynumber: 2.3 Consensus size: 46
61196591 GGATGTGTAT
* *
61196601 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
61196647 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
61196693 ATATGAGGTAAA
1 ATATGAGGTAAA
61196705 TGAATTACAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.36, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:61203885 original size:53 final size:53
Alignment explanation
Indices: 61203822--61203966 Score: 146
Period size: 53 Copynumber: 2.7 Consensus size: 53
61203812 TTCCTTTTTA
* * * *
61203822 AACTTACCATTTCCTTGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATC
* * * * * * *
61203875 AACTTACCATTGCCGTGCCTTGGCATGGTTTTACATGGGATCTTTGCTTTGTC
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATC
* * *
61203928 ATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 A-A-CTTACCATTGCCATGTCTTGACATGGTCTTACATG
61203967 ATTTTCTTGC
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
53 44 0.60
54 1 0.01
55 28 0.38
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (53 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATC
Found at i:61208599 original size:13 final size:13
Alignment explanation
Indices: 61208581--61208605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61208571 AACAAAGAAA
61208581 GACACGACCGTGC
1 GACACGACCGTGC
61208594 GACACGACCGTG
1 GACACGACCGTG
61208606 TGCACCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGACCGTGC
Found at i:61211213 original size:39 final size:39
Alignment explanation
Indices: 61211138--61211248 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
61211128 TATGGTAGCC
* * *
61211138 CGCACAAATGCCTTTGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
61211178 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61211217 TGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
61211249 TACCCGAACA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 51 0.76
40 16 0.24
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61219150 original size:39 final size:39
Alignment explanation
Indices: 61219107--61219254 Score: 228
Period size: 39 Copynumber: 3.8 Consensus size: 39
61219097 TATGGTAGCC
*
61219107 CGCACAAATGCCTT-GGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAACCCGGATATCACAACT
*
61219146 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
* *
61219185 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
*
61219224 CGCACAATTGCCTTCGGGCTT-AGCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATAT
61219255 TACCCGAACA
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.08
39 92 0.89
40 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
Found at i:61222892 original size:29 final size:29
Alignment explanation
Indices: 61222801--61222961 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
61222791 TACTCGATTT
** * *
61222801 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
61222830 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
61222859 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61222888 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61222917 CGCATACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61222946 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61222962 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 107 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:61230208 original size:2 final size:2
Alignment explanation
Indices: 61230201--61230231 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61230191 AAGTATATTC
61230201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61230232 GATGAATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61233031 original size:40 final size:40
Alignment explanation
Indices: 61232935--61233087 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
61232925 CGAATGGTAT
* * * *
61232935 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
61232976 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
61233016 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
61233056 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61233088 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:61240125 original size:40 final size:40
Alignment explanation
Indices: 61240017--61240226 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
61240007 CGGGATTTAA
* * * * *
61240017 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
61240057 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61240097 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61240137 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61240177 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61240217 CCGGATATAT
1 CCGGATATAT
61240227 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:61248260 original size:40 final size:40
Alignment explanation
Indices: 61248152--61248361 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
61248142 CGGGATTTAA
* * * * *
61248152 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
61248192 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61248232 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61248272 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61248312 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
61248352 CCGGATATAT
1 CCGGATATAT
61248362 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:61253304 original size:40 final size:40
Alignment explanation
Indices: 61253208--61253361 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 40
61253198 CGAATGGTAT
* * * *
61253208 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAA
* *
61253249 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTCACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTCACTAAAA
* * *
61253289 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-CTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC-ACTAAAA
* * *
61253329 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC
61253362 GCTATATCCG
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 68 0.72
41 26 0.27
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAA
Found at i:61256651 original size:29 final size:29
Alignment explanation
Indices: 61256627--61256720 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
61256617 TCGCACACCC
*
61256627 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61256656 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
61256685 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61256714 AGTGCCA
1 AGTGCCA
61256721 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:61256652 original size:58 final size:58
Alignment explanation
Indices: 61256589--61256720 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
61256579 GATTTAAGCC
* * * *
61256589 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
61256647 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
61256705 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61256721 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:61264560 original size:2 final size:2
Alignment explanation
Indices: 61264553--61264577 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61264543 TCGATTGGAG
61264553 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
61264578 GAGTACGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61264702 original size:29 final size:29
Alignment explanation
Indices: 61264678--61264771 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
61264668 TCGCACACCC
*
61264678 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61264707 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
61264736 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61264765 AGTGCCA
1 AGTGCCA
61264772 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:61264703 original size:58 final size:58
Alignment explanation
Indices: 61264640--61264771 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
61264630 GATTTAAGCC
* * * *
61264640 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
61264698 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
61264756 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61264772 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:61273054 original size:265 final size:265
Alignment explanation
Indices: 61272581--61273114 Score: 854
Period size: 265 Copynumber: 2.0 Consensus size: 265
61272571 GTTTCGGGCA
* * * *
61272581 ATGGTCTTGTGTGTCCTACTGGTTGCTAGGTAATCCTTGAGTTGTCGGATACCTGATAGCTTTTG
1 ATGGTCTTATGTGTCCTACCGGTGGCTAGGTAATCCTTGAGTGGTCGGATACCTGATAGCTTTTG
* * *
61272646 TGAGTAGTCCGTGTAGTTACACCTTGATCGTTAGCTTATACGAGCAAGCCCGTGAGTAGCTCTAT
66 TGAGCAGCCCGTGTAGTTACACCTTGATCGATAGCTTATACGAGCAAGCCCGTGAGTAGCTCTAT
* *
61272711 TGTGAGCATTGCATGATATGAGGTAGCTTCGACTACGTATTTTTATGTGGCACTCATGTACAAGT
131 TGTAAGCATTGCATGATATGAGGTAGCTTCGACTACGTATGTTTATGTGGCACTCATGTACAAGT
* * *
61272776 TTCCATGTATCCAATAGTATTCTGA-GTGTTCAACGGGTATTATAATGAATGATGCGATGAAATT
196 TTCCATGTATCCAATAGTATTC-CATGTGTTCAACGGGTATTATAATGAATAATGCGATGAAAGT
61272840 CCCAAG
260 CCCAAG
*
61272846 ATGGTCTTATGTGTCCTACCGGTGGCTAGGTAATCCTTGAGTGGTTGGATACCTGATAGCTTTTG
1 ATGGTCTTATGTGTCCTACCGGTGGCTAGGTAATCCTTGAGTGGTCGGATACCTGATAGCTTTTG
*
61272911 TGAGCAGCCCGTGTAGTTACACCTTGATCGATAGCTTGTACGAGCAAGCCCGTGAGTAGCTCTAT
66 TGAGCAGCCCGTGTAGTTACACCTTGATCGATAGCTTATACGAGCAAGCCCGTGAGTAGCTCTAT
* * * * * *
61272976 TGTAAGCGTTGCATGATTTGAGGTTGCTTCGGCTATGTATGTTTATGTGGCACTCATGTGCAAGT
131 TGTAAGCATTGCATGATATGAGGTAGCTTCGACTACGTATGTTTATGTGGCACTCATGTACAAGT
* *
61273041 TTCCCTGTATCCAATAGTATTCCATGTGTTCAACGGGTATTGTAATGAATAATGCGATGAAAGTC
196 TTCCATGTATCCAATAGTATTCCATGTGTTCAACGGGTATTATAATGAATAATGCGATGAAAGTC
61273106 CCAAG
261 CCAAG
61273111 ATGG
1 ATGG
61273115 GCATGGTAAT
Statistics
Matches: 246, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
264 1 0.00
265 245 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (265 bp):
ATGGTCTTATGTGTCCTACCGGTGGCTAGGTAATCCTTGAGTGGTCGGATACCTGATAGCTTTTG
TGAGCAGCCCGTGTAGTTACACCTTGATCGATAGCTTATACGAGCAAGCCCGTGAGTAGCTCTAT
TGTAAGCATTGCATGATATGAGGTAGCTTCGACTACGTATGTTTATGTGGCACTCATGTACAAGT
TTCCATGTATCCAATAGTATTCCATGTGTTCAACGGGTATTATAATGAATAATGCGATGAAAGTC
CCAAG
Found at i:61275667 original size:52 final size:50
Alignment explanation
Indices: 61275562--61275730 Score: 209
Period size: 52 Copynumber: 3.3 Consensus size: 50
61275552 GGTGGCTTGA
* ** *
61275562 ACATAGTACCACCCTTGT-AGTGAAAGCTACCTTCTTCACAAAGTGGCCTTC
1 ACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAGTGGCC-TC
* *
61275613 ACATGGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGTCGTC
1 ACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGTGG-CCTC
*
61275665 ACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAAGTGGCCTCC
1 ACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCT-C
61275714 ACATAGTACCACACTTG
1 ACATAGTACCACACTTG
61275731 AGCCTCTAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
48 2 0.02
49 31 0.30
51 32 0.30
52 39 0.37
53 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (50 bp):
ACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTC
Found at i:61279866 original size:47 final size:47
Alignment explanation
Indices: 61279812--61279962 Score: 194
Period size: 47 Copynumber: 3.2 Consensus size: 47
61279802 TTAGGATTTT
* ** * * * *
61279812 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61279859 ATGTGATGAATATGAACATGCACATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61279906 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61279953 ATGTGATGAA
1 ATGTGATGAA
61279963 CGTGGAAGTG
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61279995 original size:47 final size:47
Alignment explanation
Indices: 61279847--61279996 Score: 140
Period size: 47 Copynumber: 3.2 Consensus size: 47
61279837 ATGAGCTAAG
* * ** * * *
61279847 GCCGAATGGCAAATGTGATGAATATGAACATGCACATATGTGATAAG
1 GCCGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAA
* * * *
61279894 GTCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
1 GCCGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAA
* * * * *
61279941 GCAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGGAAA
1 GCCGAATGGCCAATGTGATAAACGT-GAACATGCATATATGTGAGAAA
61279988 GCCGAATGG
1 GCCGAATGG
61279997 TTAATGCGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 84 0.97
48 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAA
Found at i:61280042 original size:46 final size:48
Alignment explanation
Indices: 61279970--61280075 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 48
61279960 GAACGTGGAA
* * *
61279970 GTGTATATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGAT
1 GTGTATATA--TGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
* * *
61280020 G-G-ATATATGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 GTGTATATATGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
61280066 GTGTATATAT
1 GTGTATATAT
61280076 ATATATATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
46 34 0.71
47 1 0.02
48 11 0.23
49 1 0.02
50 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
GTGTATATATGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
Found at i:61286452 original size:29 final size:28
Alignment explanation
Indices: 61286410--61286468 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
61286400 GTGAGCATGA
*
61286410 ATATAATATGATTTGGGCCTAATGGCCC
1 ATATAATATGATTTCGGCCTAATGGCCC
* *
61286438 ATATAAATGTGATTTCGGCCTAATGGGCC
1 ATAT-AATATGATTTCGGCCTAATGGCCC
61286467 AT
1 AT
61286469 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (28 bp):
ATATAATATGATTTCGGCCTAATGGCCC
Found at i:61289372 original size:7 final size:7
Alignment explanation
Indices: 61289360--61289392 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
61289350 CCTAGATGAA
61289360 TTGGGCT
1 TTGGGCT
61289367 TTGGGCT
1 TTGGGCT
61289374 TTGGGCT
1 TTGGGCT
61289381 TTGGGCT
1 TTGGGCT
61289388 TTGGG
1 TTGGG
61289393 TTTCATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.45, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:61290904 original size:29 final size:28
Alignment explanation
Indices: 61290863--61290946 Score: 132
Period size: 29 Copynumber: 3.0 Consensus size: 28
61290853 GAGCATGAAT
61290863 ATAATGTGATTTGGGCCTAATGGGCCAC
1 ATAATGTGATTTGGGCCTAATGGGCCAC
* *
61290891 ATAACTGTGATTTGGGCCTAAAGGGCCAT
1 ATAA-TGTGATTTGGGCCTAATGGGCCAC
*
61290920 ATAATGTGATTTCGGCCTAATGGGCCA
1 ATAATGTGATTTGGGCCTAATGGGCCA
61290947 TGTGAATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.49
29 26 0.51
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (28 bp):
ATAATGTGATTTGGGCCTAATGGGCCAC
Found at i:61290936 original size:28 final size:28
Alignment explanation
Indices: 61290861--61291034 Score: 147
Period size: 28 Copynumber: 6.1 Consensus size: 28
61290851 GTGAGCATGA
61290861 ATATAATGTGATTTGGGCCTAATGGGCC
1 ATATAATGTGATTTGGGCCTAATGGGCC
* *
61290889 ACATAACTGTGATTTGGGCCTAAAGGGCC
1 ATATAA-TGTGATTTGGGCCTAATGGGCC
*
61290918 ATATAATGTGATTTCGGCCTAATGGGCC
1 ATATAATGTGATTTGGGCCTAATGGGCC
* * * * * *
61290946 ATGTGAATAT-AATTGGGTCTAGTTGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
* *
61290974 ATATGAACGTGAGTTGGGCC-AGATGGGCC
1 ATAT-AATGTGATTTGGGCCTA-ATGGGCC
* * * *
61291003 ATTTAAATGAGA-TTGGGCTTAGTGGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
61291031 ATAT
1 ATAT
61291035 GCATGTATGT
Statistics
Matches: 115, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
28 64 0.56
29 51 0.44
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAATGGGCC
Found at i:61295213 original size:43 final size:44
Alignment explanation
Indices: 61295124--61295268 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 44
61295114 ATATCGTACA
* * * * *
61295124 ATGCCAAC-GTCTCAGAC-GTGGTCTTACATGTAGTCACATGTCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCACATATCG
61295167 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AATCACAATTAT-G
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAC-A-TATCG
* * * **
61295210 ATGCCGA-TGTCCTAGACATGGTCTTAGTCGAAATCACATATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCACATATCG
61295253 ATGCCAAC-GTCCCAGA
1 ATGCCAACTGTCCCAGA
61295269 TTTGGTCTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
42 10 0.12
43 64 0.76
44 10 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCACATATCG
Found at i:61303763 original size:36 final size:36
Alignment explanation
Indices: 61303723--61303792 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
61303713 GCATTGAAAC
61303723 AGAGCTTTAGTGGTATTGTACCTCTATTGACATGAT
1 AGAGCTTTAGTGGTATTGTACCTCTATTGACATGAT
*
61303759 AGAGCTTTAGTGGTATTGTACCTCTGTTGACATG
1 AGAGCTTTAGTGGTATTGTACCTCTATTGACATG
61303793 CTTACCCCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (36 bp):
AGAGCTTTAGTGGTATTGTACCTCTATTGACATGAT
Found at i:61305253 original size:17 final size:17
Alignment explanation
Indices: 61305231--61305268 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
61305221 AAATTTTTTA
61305231 TCAAAAAT-AGAATATTT
1 TCAAAAATCA-AATATTT
61305248 TC-AAAATCAAATATTT
1 TCAAAAATCAAATATTT
61305264 TCAAA
1 TCAAA
61305269 CTTTTTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (17 bp):
TCAAAAATCAAATATTT
Found at i:61310471 original size:15 final size:14
Alignment explanation
Indices: 61310451--61310485 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
61310441 TTAGGAAACG
61310451 TAATAAAAAATATA
1 TAATAAAAAATATA
*
61310465 TACATAAAAAATTTA
1 TA-ATAAAAAATATA
61310480 TAATAA
1 TAATAA
61310486 TATAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
TAATAAAAAATATA
Found at i:61310670 original size:2 final size:2
Alignment explanation
Indices: 61310621--61310651 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
61310611 ATGGTATTTA
*
61310621 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61310652 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61311274 original size:16 final size:16
Alignment explanation
Indices: 61311255--61311289 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61311245 TTGGGGTAAG
61311255 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
61311271 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
61311287 TTT
1 TTT
61311290 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:61312137 original size:30 final size:30
Alignment explanation
Indices: 61312101--61312162 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
61312091 TTTTGAAAAA
61312101 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
61312131 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
61312161 CA
1 CA
61312163 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:61312482 original size:77 final size:75
Alignment explanation
Indices: 61312312--61312651 Score: 361
Period size: 72 Copynumber: 4.5 Consensus size: 75
61312302 ATGTAACCCG
* * * *
61312312 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
61312377 CAGTGTGTGATCTGA
63 CA--GCGTGATCTCA
* *
61312392 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
61312456 GCGCATGAGC-CA
65 GCG--TGATCTCA
* * * *
61312468 AGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTAAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
**
61312532 CGTG-TCTTG
66 CGTGATCTCA
* ** * *
61312541 AGGCTCAACTTATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
61312604 CGTG-TCCCG
66 CGTGATCTCA
61312613 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
61312652 TTTTAAAGGC
Statistics
Matches: 222, Mismatches: 31, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
72 64 0.29
73 29 0.13
74 4 0.02
75 22 0.10
76 12 0.05
77 42 0.19
78 3 0.01
79 45 0.20
80 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGATCTCA
Found at i:61312800 original size:74 final size:75
Alignment explanation
Indices: 61312677--61312838 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
61312667 TTGAAAAATG
*
61312677 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
61312742 TTTTGACAACA
65 TTTTGACAACA
* * *
61312753 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
61312816 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
61312828 AAAATTGAAAA
1 GAAATTGAAAA
61312839 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:61312893 original size:165 final size:165
Alignment explanation
Indices: 61312507--61313164 Score: 906
Period size: 165 Copynumber: 4.0 Consensus size: 165
61312497 TGATTTTTTG
* * ** * **** *
61312507 AAAACAGAAATTAAAAATACCTCAACGTGT--CTTGAGGCTCAACTTATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
*
61312570 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
61312634 ATATGAGTTGATTTTTTTTTTTAAAGGCAGAAATTGA
131 ATATGAGTTGA--TTTTTTTTGAAAGGCAGAAATTGA
* * * *
61312671 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *
61312736 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
61312801 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
*
61312836 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *
61312901 TGATTTTTTTGACAACAGAAATTGAAATTACC-CAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
61312965 AATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGA-TTTTTTTTGAAAGGCAGAAATTGA
61313002 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *** * * *
61313067 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGC
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
61313130 AATAT-AGTTGA-TTTTTTTGACAA--CAGAAATTGA
130 AATATGAGTTGATTTTTTTTGA-AAGGCAGAAATTGA
61313163 AA
1 AA
61313165 TTACCTCAGC
Statistics
Matches: 452, Mismatches: 33, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
161 12 0.03
162 9 0.02
163 2 0.00
164 89 0.20
165 152 0.34
166 119 0.26
168 69 0.15
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:61312964 original size:73 final size:77
Alignment explanation
Indices: 61312832--61313004 Score: 228
Period size: 73 Copynumber: 2.3 Consensus size: 77
61312822 AAGGCAAAAA
* * * *
61312832 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
61312897 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
61312909 TTGACA-ACAGAAATTGAAATTACC-CAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
61312971 AGTTGATTTTTTT
66 AGTTGA-TTTTTT
61312984 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
61313005 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
73 33 0.39
75 17 0.20
76 29 0.35
77 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:61312968 original size:404 final size:389
Alignment explanation
Indices: 61312144--61313004 Score: 926
Period size: 404 Copynumber: 2.1 Consensus size: 389
61312134 AAATTAAAAA
*
61312144 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAACAGAAATTGAAAATAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTG----AAAAACAGAAATTGAAAATACC
* * *
61312209 TCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTT
59 TCAG-ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
** **
61312274 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGA
123 GAAAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGA
* * * * *
61312339 GTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCAC
188 GTTGACTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAGCGTGT-ACCTGAAGCTCAACTCAC
*
61312404 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAA
251 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAA
* * *
61312469 GGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCAACG
316 GGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCAACG
*
61312534 TGTCTTGAG
381 TGTCCTGAG
* ** *
61312543 GCTCAACTTATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAG-CG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATACCTCAGACG
* * * *
61312606 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTAAAGGCAGAAATTGA
66 TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAA-ACAGAAATTGA
* * * * * *
61312671 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
125 AAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGT
* * *
61312736 TGACTTTTTTG-ACAACAGAAATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCT
190 TGACTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCT
*
61312798 CGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCG
255 CGCAATATGAGTTGATTTTTTTGAAA-G-----A-T-----A--GAAATTGAAAATACCTCAGCG
** * * * * *
61312863 TGTGA-CCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAA
306 CATGAGCC-AAGGCTCAACTCACCACTCGCAATACAAGTTGA-TTTTTTGAAAACAGAAATTAAA
* *
61312927 ATTACC-CAGCGTGTCCTGAG
369 AATACCTCAACGTGTCCTGAG
* *
61312947 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----ATTTTGAAAAACAGAAATTGAAAA
61313005 ACGGAAATTG
Statistics
Matches: 384, Mismatches: 51, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
389 37 0.10
390 45 0.12
391 24 0.06
392 15 0.04
394 18 0.05
395 74 0.19
396 6 0.02
397 1 0.00
399 28 0.07
402 1 0.00
403 2 0.01
404 88 0.23
405 25 0.07
408 5 0.01
409 15 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (389 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATACCTCAGACG
TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAATA
GAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGACTT
TTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAAGGCTCAACTC
ACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCAACGTGTCCTGAG
Found at i:61313003 original size:14 final size:14
Alignment explanation
Indices: 61312984--61313018 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
61312974 TGATTTTTTT
*
61312984 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
61312998 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
61313012 TTGAAAA
1 TTGAAAA
61313019 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Done.