Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 300 of 438
Found at i:93904357 original size:139 final size:139
Alignment explanation
Indices: 93904183--93904438 Score: 458
Period size: 139 Copynumber: 1.8 Consensus size: 139
93904173 ACACATTTCG
* *
93904183 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
93904248 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACGCATGTTCA
66 ATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACGCATGTTCA
93904313 CATTCATCA
131 CATTCATCA
* * *
93904322 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
93904387 ATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
66 ATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
93904439 GCATATATAT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 111 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (139 bp):
CATTAGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACGCATGTTCA
CATTCATCA
Found at i:93904392 original size:22 final size:22
Alignment explanation
Indices: 93904273--93904345 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
93904263 GTTCACATTC
93904273 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
93904295 ATCACATACG-CATGTTC-ACATT
1 ATCACATTGGCCA--TTCGGCCTT
93904317 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
93904340 ATCACA
1 ATCACA
93904346 CATACGCATG
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 2 0.05
22 20 0.53
23 14 0.37
24 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:93907934 original size:40 final size:40
Alignment explanation
Indices: 93907885--93908344 Score: 789
Period size: 40 Copynumber: 11.6 Consensus size: 40
93907875 CCAGCATGAT
*** *
93907885 TGCTCTTCGGGACCCAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
93907925 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93907965 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
93908005 TGCTC-TCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93908044 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93908084 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
93908124 TGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93908163 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93908203 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
93908243 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
93908283 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
93908323 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGATTTAGTCCGG
93908345 CTATACAACT
Statistics
Matches: 404, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 76 0.19
40 328 0.81
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
Found at i:93908102 original size:119 final size:120
Alignment explanation
Indices: 93907885--93908344 Score: 798
Period size: 119 Copynumber: 3.9 Consensus size: 120
93907875 CCAGCATGAT
*** *
93907885 TGCTCTTCGGGACCCAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
*
93907950 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
93908005 TGCTC-TCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
93908069 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
93908124 TGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
93908188 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
93908243 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
* * * *
93908308 TATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGG
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGG
93908345 CTATACAACT
Statistics
Matches: 328, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 232 0.71
120 96 0.29
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (120 bp):
TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
Found at i:93908174 original size:159 final size:160
Alignment explanation
Indices: 93907885--93908344 Score: 816
Period size: 159 Copynumber: 2.9 Consensus size: 160
93907875 CCAGCATGAT
*** * *
93907885 TGCTCTTCGGGACCCAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
*
93907950 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTC-TCGG
66 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGG
93908014 GATTTAGCCCGGATACATCACTAGCACGAA
131 GATTTAGCCCGGATACATCACTAGCACGAA
93908044 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
*
93908109 CATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACGAATGCTCTTCGG
66 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGG
*
93908173 GATTTAGTCCGGATACATCACTAGCACGAA
131 GATTTAGCCCGGATACATCACTAGCACGAA
93908203 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
*
93908268 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAATGCTCTTCGG
66 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGG
*
93908333 GACTTAGCCCGG
131 GATTTAGCCCGG
93908345 CTATACAACT
Statistics
Matches: 287, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
158 26 0.09
159 220 0.77
160 41 0.14
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (160 bp):
TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGG
GATTTAGCCCGGATACATCACTAGCACGAA
Found at i:93910693 original size:46 final size:46
Alignment explanation
Indices: 93910620--93910759 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 46
93910610 ATATATATAT
* * *
93910620 ATATATATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAC
1 ATATATATCTCATACACATCTCACATTAGCCATTCGGCCTTACCAC
* * *
93910666 ATATCTATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCAC
1 ATATATATCTCATACACATCTCACATTAGCCATTCGGCCTTACCAC
* * * *
93910712 ATATATA-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ATATATATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCAC
93910759 A
1 A
93910760 CATACGCATG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
45 6 0.08
46 48 0.62
47 24 0.31
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
ATATATATCTCATACACATCTCACATTAGCCATTCGGCCTTACCAC
Found at i:93910751 original size:47 final size:47
Alignment explanation
Indices: 93910689--93910974 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
93910679 ACACATTTCG
* * * *
93910689 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
93910736 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
93910783 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
93910830 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
93910877 CATTGGCCATTCGGCCTTATCACAC-TACACATGTTCACATTC-TCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
* * * *
93910922 CATTGGCCATTCGGCCTTATACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT---CACACATACACATGTTCACATTCATCA
93910972 CAT
1 CAT
93910975 AAAATCCTAA
Statistics
Matches: 224, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
45 23 0.10
46 16 0.07
47 161 0.72
48 3 0.01
49 15 0.07
50 6 0.03
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:93913624 original size:2 final size:2
Alignment explanation
Indices: 93913617--93913645 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93913607 TTTGATTAGC
93913617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93913646 TCGGCTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93914268 original size:45 final size:45
Alignment explanation
Indices: 93914199--93914318 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
93914189 CGCACAGTAT
*
93914199 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
**
93914244 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
93914289 TATTCGGG-CTTTCGAGCCTAGCAGGCTATA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATA
93914319 TGTAACACCC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 4 0.06
45 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:93915608 original size:134 final size:136
Alignment explanation
Indices: 93915353--93915665 Score: 452
Period size: 134 Copynumber: 2.3 Consensus size: 136
93915343 AAAGTACTCC
* ** * * * * **
93915353 CGATTTACAGAATTACCGTTTTACCCTCAGGTTATAGAATTACTATTTTACCCTCGATTTGTAAA
1 CGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCCCGATTTACAAA
*
93915418 ATTACCGTTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTT
66 ATTACCGTTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
93915483 TACCCT
131 TACCCT
* *
93915489 CGATTTACAGAATTACTGTTTTACCC-CAATTTACATAATTACCATTTTACCCCCGATTTACATA
1 CGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCCCGATTTACAAA
* *
93915553 ATTATCG-TTTTACCCTTGATTTACAGAATTACCGTTTTACCCTC-GATTTATAGAATTACCATT
66 ATTACCGTTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATT
93915616 TTACCCT
130 TTACCCT
* *
93915623 CGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 CGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTAC
93915666 TAAAATACCC
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
133 1 0.01
134 84 0.53
135 49 0.31
136 25 0.16
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (136 bp):
CGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCCCGATTTACAAA
ATTACCGTTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
TACCCT
Found at i:93915666 original size:27 final size:27
Alignment explanation
Indices: 93915353--93915665 Score: 371
Period size: 27 Copynumber: 11.6 Consensus size: 27
93915343 AAAGTACTCC
93915353 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
93915380 C-AGGTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
93915407 CGATTTGTAAAATTACCGTTTTTACCCT
1 CGATTTACAGAATTACCG-TTTTACCCT
*
93915435 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
93915462 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
93915489 CGATTTACAGAATTACTGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
93915515 CAATTTACATAATTACCATTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93915542 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93915569 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93915596 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93915623 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93915650 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
93915666 TAAAATACCC
Statistics
Matches: 245, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.10
27 196 0.80
28 25 0.10
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:93915691 original size:54 final size:54
Alignment explanation
Indices: 93915334--93915729 Score: 199
Period size: 54 Copynumber: 7.3 Consensus size: 54
93915324 CTCGACTTGT
* * * * *
93915334 AAAATTACTAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGGTTAT
1 AAAATTACCAAAATAC-CCTCGATTTATAGAATTACCGTTTTACCCTCGA-TTTAC
* * *** * * *
93915388 AGAATTACTATTTTACCCTCGATTTGTAAAATTACCGTTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCG-TTTTACCCTCGATTTAC
* **** * **
93915443 AGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGTTTTACCCTCGATTTAC
* ***** * * * * *
93915497 AGAATTACTGTTTTACCC-CAATTTACATAATTACCATTTTACCCCCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
* * **** * * *
93915550 ATAATTATCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
* *** *
93915604 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
* * * * *** * **
93915658 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGTTTTACCCTCGATTTAC
*
93915712 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
93915730 CTGTATGGTA
Statistics
Matches: 280, Mismatches: 55, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
53 48 0.17
54 191 0.68
55 40 0.14
56 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
Found at i:93916936 original size:25 final size:24
Alignment explanation
Indices: 93916903--93916950 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
93916893 CTATAACATG
* * *
93916903 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
93916927 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
93916951 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:93917119 original size:24 final size:24
Alignment explanation
Indices: 93917062--93917228 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
93917052 GGAGGAAGTG
93917062 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93917086 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
93917109 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93917133 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93917157 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
93917180 AAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
93917204 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
93917229 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:93917131 original size:47 final size:48
Alignment explanation
Indices: 93917062--93917229 Score: 234
Period size: 47 Copynumber: 3.5 Consensus size: 48
93917052 GGAGGAAGTG
*
93917062 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93917109 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93917157 -TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93917204 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAG-GGCTTATGCC-CCAGTTATA
93917230 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 67 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:93917178 original size:71 final size:71
Alignment explanation
Indices: 93917062--93917228 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
93917052 GGAGGAAGTG
* *
93917062 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
93917127 AGTTAT
66 AGTTAT
*
93917133 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
93917198 AGTTAT
66 AGTTAT
* *
93917204 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTACGCC-CCAGTTAT
93917229 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:93920618 original size:27 final size:27
Alignment explanation
Indices: 93920306--93920617 Score: 387
Period size: 27 Copynumber: 11.6 Consensus size: 27
93920296 AAAGTACTCC
93920306 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * **
93920333 -TAGGTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
93920360 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93920387 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
93920414 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
93920441 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
93920468 CAATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93920494 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
93920521 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93920548 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93920575 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93920602 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
93920618 TAAAATACCC
Statistics
Matches: 243, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.10
27 216 0.89
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:93921886 original size:25 final size:24
Alignment explanation
Indices: 93921853--93921900 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
93921843 CTATAACATG
* * *
93921853 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
93921877 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
93921901 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:93922069 original size:24 final size:24
Alignment explanation
Indices: 93922012--93922178 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
93922002 GGAGGAAGTG
93922012 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93922036 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
93922059 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93922083 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
93922107 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
93922130 AAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
93922154 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
93922179 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:93922081 original size:47 final size:48
Alignment explanation
Indices: 93922012--93922179 Score: 234
Period size: 47 Copynumber: 3.5 Consensus size: 48
93922002 GGAGGAAGTG
*
93922012 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93922059 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93922107 -TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
93922154 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAG-GGCTTATGCC-CCAGTTATA
93922180 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 67 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:93922128 original size:71 final size:71
Alignment explanation
Indices: 93922012--93922178 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
93922002 GGAGGAAGTG
* *
93922012 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
93922077 AGTTAT
66 AGTTAT
*
93922083 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
93922148 AGTTAT
66 AGTTAT
* *
93922154 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTACGCC-CCAGTTAT
93922179 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:93923853 original size:20 final size:21
Alignment explanation
Indices: 93923814--93923855 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93923804 ATATGGCATC
**
93923814 TTTTGAATGTTTATATAAAGT
1 TTTTGAATGCATATATAAAGT
93923835 TTTTGAATGCATATA-AAAGT
1 TTTTGAATGCATATATAAAGT
93923855 T
1 T
93923856 AATGTTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTTGAATGCATATATAAAGT
Found at i:93924431 original size:23 final size:25
Alignment explanation
Indices: 93924405--93924451 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93924395 TATCATTCAT
*
93924405 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
93924428 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
93924452 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:93924889 original size:46 final size:46
Alignment explanation
Indices: 93924712--93924893 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
93924702 TTTGACATGA
* * * * * *
93924712 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * ** * * *
93924758 TGCCATGGTATCTTTCAACCATTGTTTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93924804 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93924850 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93924894 AGAGCACACT
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 114 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:93927021 original size:31 final size:32
Alignment explanation
Indices: 93926963--93927035 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
93926953 CTTTATATAC
*
93926963 TAATAAAATTAATAATATATCTTATTAAAGT-AT
1 TAATAAAA-TAATAATATATCTAATTAAA-TAAT
*
93926996 TAATAAAATAAT-ATTTATCTAATTAAATAAT
1 TAATAAAATAATAATATATCTAATTAAATAAT
93927027 T-ATAAAATA
1 TAATAAAATA
93927036 TCAAAATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.24
31 16 0.43
32 4 0.11
33 8 0.22
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (32 bp):
TAATAAAATAATAATATATCTAATTAAATAAT
Found at i:93929644 original size:23 final size:25
Alignment explanation
Indices: 93929618--93929664 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93929608 TATCATTCAT
*
93929618 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
93929641 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
93929665 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:93929985 original size:46 final size:45
Alignment explanation
Indices: 93929925--93930188 Score: 330
Period size: 46 Copynumber: 6.0 Consensus size: 45
93929915 TTTGACGTGA
* * * * *
93929925 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA-GT
** * *
93929971 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GT
*
93930017 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GT
93930063 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGT
*
93930108 T-CCATGGTATCTTTCAACCATGGTCTTACACA---C--A--GGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGT
93930145 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93930189 AGAGCACACT
Statistics
Matches: 194, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.02
38 31 0.16
39 1 0.01
41 2 0.01
43 1 0.01
44 31 0.16
45 8 0.04
46 117 0.60
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGT
Found at i:93930160 original size:38 final size:39
Alignment explanation
Indices: 93930102--93930178 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 39
93930092 CACATTTCAT
93930102 ATCA-GTT-CCATGGTATCTTTCAACCATGGTCTTACAC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
93930139 A-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
93930177 AT
1 AT
93930179 TTCATATCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 2 0.05
37 4 0.11
38 31 0.84
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (39 bp):
ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:93932309 original size:31 final size:29
Alignment explanation
Indices: 93932255--93932323 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
93932245 ATACTAATAA
*
93932255 AATAATAATAATATATCTTATTAAAGT-ATT
1 AATAA-AATAATATATCTAATTAAA-TAATT
93932285 AATAAAATAATATTTATCTAATTAAATAATT
1 AATAAAATAATA--TATCTAATTAAATAATT
93932316 -ATAAAATA
1 AATAAAATA
93932324 TCAAAATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 14 0.40
31 14 0.40
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
AATAAAATAATATATCTAATTAAATAATT
Found at i:93936055 original size:16 final size:17
Alignment explanation
Indices: 93936021--93936062 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
93936011 AAATTAGAAT
93936021 ATAAAAATTAAACTAAAA
1 ATAAAAA-TAAACTAAAA
93936039 ATAAAAATAAA-TAAAA
1 ATAAAAATAAACTAAAA
93936055 ATAAAAAT
1 ATAAAAAT
93936063 GCCTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.54
17 4 0.17
18 7 0.29
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAACTAAAA
Found at i:93936069 original size:16 final size:16
Alignment explanation
Indices: 93936021--93936082 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
93936011 AAATTAGAAT
93936021 ATAAAAATTAAACTAAAA
1 ATAAAAA-T-AACTAAAA
*
93936039 ATAAAAATAAATAAAA
1 ATAAAAATAACTAAAA
**
93936055 ATAAAAATGCCTAAATTA
1 ATAAAAATAACTAAA--A
93936073 ATAAAAATAA
1 ATAAAAATAA
93936083 AGTGTTCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 19 0.53
17 1 0.03
18 16 0.44
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (16 bp):
ATAAAAATAACTAAAA
Found at i:93936081 original size:6 final size:6
Alignment explanation
Indices: 93936021--93936062 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
93936011 AAATTAGAAT
* *
93936021 ATAAAA ATTAAA CTAAAA ATAAAA AT--AA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
93936063 GCCTAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.13
6 26 0.87
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:93938575 original size:19 final size:20
Alignment explanation
Indices: 93938551--93938588 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93938541 GGTACCACCA
93938551 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
93938570 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
93938589 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:93938935 original size:47 final size:47
Alignment explanation
Indices: 93938864--93938983 Score: 222
Period size: 47 Copynumber: 2.6 Consensus size: 47
93938854 ATCTATAAAT
93938864 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
93938911 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
93938958 AAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
93938984 AGACATTCGC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:93941025 original size:26 final size:25
Alignment explanation
Indices: 93940996--93941044 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
93940986 CAAGTTATTG
93940996 TACAATATTAAAAAAAAGTATATTTA
1 TACAATATT-AAAAAAAGTATATTTA
* *
93941022 TACAATGTTTAAAAAAGTATATT
1 TACAATATTAAAAAAAGTATATT
93941045 ATAATGACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
TACAATATTAAAAAAAGTATATTTA
Found at i:93941075 original size:12 final size:12
Alignment explanation
Indices: 93941058--93941083 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
93941048 ATGACCTCTG
93941058 ATATAATTAATT
1 ATATAATTAATT
93941070 ATATAATTAATT
1 ATATAATTAATT
93941082 AT
1 AT
93941084 TTTGAAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATAATTAATT
Found at i:93941397 original size:28 final size:28
Alignment explanation
Indices: 93941357--93941417 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
93941347 TCATAATTTT
*
93941357 ATCTCATCATCAATTAAGATGATCTTTC
1 ATCTAATCATCAATTAAGATGATCTTTC
93941385 ATCTAATCATCAATTAAGATGATCTTTC
1 ATCTAATCATCAATTAAGATGATCTTTC
93941413 ATCTA
1 ATCTA
93941418 TCTTTGATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (28 bp):
ATCTAATCATCAATTAAGATGATCTTTC
Found at i:93942854 original size:23 final size:23
Alignment explanation
Indices: 93942824--93942906 Score: 148
Period size: 23 Copynumber: 3.6 Consensus size: 23
93942814 GGTTAAGCCT
93942824 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
93942847 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
93942870 CACATGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
93942893 CACACGTCCGTGTG
1 CACACGCCCGTGTG
93942907 CTTTGGAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.20, C:0.30, G:0.34, T:0.16
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:93945345 original size:37 final size:39
Alignment explanation
Indices: 93945294--93945435 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
93945284 GAATGTTCGA
93945294 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
93945332 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93945370 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93945409 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
93945436 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 27 0.28
38 14 0.15
39 45 0.47
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:93945381 original size:76 final size:79
Alignment explanation
Indices: 93945295--93945475 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 79
93945285 AATGTTCGAG
93945295 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
93945357 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
93945371 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
93945436 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
93945450 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
93945476 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 33 0.35
77 10 0.11
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:93953364 original size:38 final size:39
Alignment explanation
Indices: 93953312--93953454 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
93953302 GAATGTTCGA
93953312 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
93953351 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93953389 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93953428 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
93953455 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:93953400 original size:77 final size:79
Alignment explanation
Indices: 93953313--93953494 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
93953303 AATGTTCGAG
93953313 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
93953376 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
93953390 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
93953455 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
93953469 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
93953495 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:93959515 original size:48 final size:48
Alignment explanation
Indices: 93959390--93959662 Score: 280
Period size: 48 Copynumber: 5.6 Consensus size: 48
93959380 AGGGTAAGAT
* * * * *
93959390 GCCGATGCCATG-TCCTAGACATAGTCTTACACTGGCTCTCAGATACCG-G
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATA--GAG
* * * *
93959439 TGCCGATGCCATGTTCTAAACATTGTCTTACTCTAGCTCACATATTGAG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAGAG
* * * * * *
93959488 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAGAG
** * *
93959536 GCCGATGCCATGTTCCAAACATGGTCTTGTACTGGCTCACATATCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAGAG
* * * *
93959584 GCCGATTCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAGAG
*
93959632 GTCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
93959663 TTGGCTTACA
Statistics
Matches: 184, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 147 0.80
49 1 0.01
50 34 0.18
51 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAGAG
Found at i:93959585 original size:96 final size:96
Alignment explanation
Indices: 93959390--93959661 Score: 375
Period size: 96 Copynumber: 2.8 Consensus size: 96
93959380 AGGGTAAGAT
* * * **
93959390 GCCGATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCAGATACCGGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
* * *
93959455 TAAACATTGTCTTACTCTAGCTCACATATTGAG
64 CAAACATGGTCTTACTCTAGCTCACATATCGAG
93959488 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* *
93959553 AACATGGTCTT-GTACTGGCTCACATATCGAG
66 AACATGGTCTTACT-CTAGCTCACATATCGAG
* * * * *
93959584 GCCGATTCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
93959649 AACATGGTCTTAC
66 AACATGGTCTTAC
93959662 ATTGGCTTAC
Statistics
Matches: 156, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
95 1 0.01
96 113 0.72
98 42 0.27
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACTCTAGCTCACATATCGAG
Found at i:93959659 original size:144 final size:145
Alignment explanation
Indices: 93959388--93959662 Score: 340
Period size: 144 Copynumber: 1.9 Consensus size: 145
93959378 AAAGGGTAAG
* *
93959388 ATGCCGATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCAGATACCGGTGCCGATGCCATGT
1 ATGCCGATGCCATGTCCTAAACATAGTCTTACACTGGC-CTCACATACCGGTGCCGATGCCATGT
* * * ** *
93959453 TCTAAACATTGTCTTACTCTAGCTCACATATTGAGGCCGATGCCATGTCCCAGACATAGTCTTAC
65 TCCAAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATAGTCTTAC
93959518 ACTAGCTCTCATATAA
130 ACTAGCTCTCATATAA
* ** * *
93959534 ATGCCGATGCCATGTTCC-AAACATGGTCTTGTACTGG-CTCACATATCGAG-GCCGATTCCATG
1 ATGCCGATGCCATG-TCCTAAACATAGTCTTACACTGGCCTCACATACCG-GTGCCGATGCCATG
* * * * *
93959596 TTCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACATGGTCTTA
64 TTCCAAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATAGTCTTA
93959661 CA
129 CA
93959663 TTGGCTTACA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
144 76 0.70
145 1 0.01
146 29 0.27
147 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (145 bp):
ATGCCGATGCCATGTCCTAAACATAGTCTTACACTGGCCTCACATACCGGTGCCGATGCCATGTT
CCAAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATAGTCTTACA
CTAGCTCTCATATAA
Found at i:93967170 original size:48 final size:48
Alignment explanation
Indices: 93967053--93967285 Score: 236
Period size: 48 Copynumber: 4.8 Consensus size: 48
93967043 TAAGATGTCT
* * * * *
93967053 ATGCCATGTCCTAGACATGGTCTTACACAAGCTCTCATATATTGATGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGATGCTG
* ** *
93967103 ATGCCATGTTCCAAACATGGTCTTACTTTAGCTCACATATCGAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGATGCTG
* * * *
93967151 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-CAAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-GATGCTG
* * **
93967199 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATG-TCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGATGCT-G
* * *
93967247 GTGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
93967286 ACCCTAGTAT
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 130 0.83
50 25 0.16
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGATGCTG
Found at i:93967238 original size:96 final size:97
Alignment explanation
Indices: 93967053--93967285 Score: 290
Period size: 96 Copynumber: 2.4 Consensus size: 97
93967043 TAAGATGTCT
* * * * *
93967053 ATGCCATGTCCTAGACATGGTCTTACACAAGCTCTCATATATTGATGCTGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACA-TAATGCCGATGCCATGTTCCAAA
** **
93967118 CATGGTCTTACTTTAGCTCACATATCGAGG-CTG
65 CATGGTCTTACACTAGCTCACATATAAAGGTC-G
93967151 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACA-AATGCCGATGCCATGTTCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACATAATGCCGATGCCATGTTCCAAAC
* *
93967215 ATGGTCTTACACTAGCTCTCATATAAATGTCG
66 ATGGTCTTACACTAGCTCACATATAAAGGTCG
* * * * *
93967247 GTGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
93967286 ACCCTAGTAT
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
96 79 0.67
97 1 0.01
98 38 0.32
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACATAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATAAAGGTCG
Found at i:93969077 original size:9 final size:9
Alignment explanation
Indices: 93969063--93969091 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
93969053 TTTATTAACA
93969063 AAAATAATT
1 AAAATAATT
93969072 AAAATAATT
1 AAAATAATT
93969081 AAAATAATT
1 AAAATAATT
93969090 AA
1 AA
93969092 TGTCATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATAATT
Found at i:93973377 original size:11 final size:11
Alignment explanation
Indices: 93973348--93973385 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
93973338 CATGTTGTAA
*
93973348 TATATTTTTAT
1 TATAATTTTAT
93973359 T-T-ATTTTAT
1 TATAATTTTAT
93973368 TATAATTTTAT
1 TATAATTTTAT
93973379 TATAATT
1 TATAATT
93973386 ATTTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
11 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATAATTTTAT
Found at i:93975385 original size:26 final size:26
Alignment explanation
Indices: 93975356--93975411 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
93975346 ATTATGAATG
93975356 TTTGATTAATAAATAAATGATGAGTA
1 TTTGATTAATAAATAAATGATGAGTA
*
93975382 TTTGATTAATAAATAAATGGTGAGTA
1 TTTGATTAATAAATAAATGATGAGTA
93975408 TTTG
1 TTTG
93975412 GCACTCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTGATTAATAAATAAATGATGAGTA
Found at i:93975806 original size:15 final size:15
Alignment explanation
Indices: 93975776--93975804 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93975766 ACTATTAGTA
93975776 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
93975791 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
93975805 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:93977285 original size:9 final size:9
Alignment explanation
Indices: 93977267--93977556 Score: 118
Period size: 9 Copynumber: 31.6 Consensus size: 9
93977257 AAAATCATAA
*
93977267 AAAAAATAT
1 AAAAATTAT
*
93977276 AGAAATTAT
1 AAAAATTAT
*
93977285 AAAAAATATAA
1 -AAAAAT-TAT
93977296 AAAAATTAT
1 AAAAATTAT
93977305 -AAAA-TAT
1 AAAAATTAT
*
93977312 AGAAAATTGT
1 A-AAAATTAT
*
93977322 AAAATTTAT
1 AAAAATTAT
*
93977331 TAAAATTGA-
1 AAAAATT-AT
93977340 AAAAATTAT
1 AAAAATTAT
*
93977349 ATAAATTAT
1 AAAAATTAT
**
93977358 AAATTTTAT
1 AAAAATTAT
* *
93977367 TAAAATTAC
1 AAAAATTAT
*
93977376 AAAAAATAT
1 AAAAATTAT
93977385 AAATAA--AT
1 AAA-AATTAT
*
93977393 ATAAATTAT
1 AAAAATTAT
93977402 AAAAA--AT
1 AAAAATTAT
*
93977409 ATAAATTAT
1 AAAAATTAT
93977418 GAAAAA-TAT
1 -AAAAATTAT
*
93977427 AAAAAATTGT
1 -AAAAATTAT
*
93977437 AAAAAAGTAT
1 -AAAAATTAT
93977447 AAAAA--AT
1 AAAAATTAT
*
93977454 TAAAATTATT
1 AAAAATTA-T
*
93977464 AAAAATTTT
1 AAAAATTAT
*
93977473 AATAAAATTAAC
1 -A-AAAATT-AT
93977485 AAAATATTAT
1 AAAA-ATTAT
**
93977495 AAAAAAACAT
1 -AAAAATTAT
**
93977505 AAAAAGCAT
1 AAAAATTAT
*
93977514 AAAAATTTT
1 AAAAATTAT
93977523 AAAAAATTA-
1 -AAAAATTAT
93977532 AAAATATT-T
1 AAAA-ATTAT
93977541 GAAAAAGTTAT
1 -AAAAA-TTAT
93977552 AAAAA
1 AAAAA
93977557 AAACTATTTT
Statistics
Matches: 210, Mismatches: 43, Indels: 55
0.68 0.14 0.18
Matches are distributed among these distances:
7 17 0.08
8 13 0.06
9 99 0.47
10 64 0.30
11 17 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:93977286 original size:20 final size:20
Alignment explanation
Indices: 93977257--93977308 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
93977247 ATTTTAAAGT
* *
93977257 AAAATCATAAAAAAAATATA
1 AAAATTATAAAAAAAATAAA
* *
93977277 GAAATTATAAAAAATATAAA
1 AAAATTATAAAAAAAATAAA
93977297 AAAATTATAAAA
1 AAAATTATAAAA
93977309 TATAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAATTATAAAAAAAATAAA
Found at i:93977317 original size:20 final size:20
Alignment explanation
Indices: 93977278--93977317 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
93977268 AAAAATATAG
*
93977278 AAATTATAAAAAATATAAAA
1 AAATTATAAAAAATAGAAAA
*
93977298 AAATTATAAAATATAGAAAA
1 AAATTATAAAAAATAGAAAA
93977318 TTGTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATTATAAAAAATAGAAAA
Found at i:93977398 original size:16 final size:16
Alignment explanation
Indices: 93977382--93977429 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
93977372 TTACAAAAAA
93977382 TATAAATAAATATAAAT
1 TATAAA-AAATATAAAT
93977399 TATAAAAAATATAAAT
1 TATAAAAAATATAAAT
*
93977415 TATGAAAAATATAAA
1 TATAAAAAATATAAA
93977430 AAATTGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
TATAAAAAATATAAAT
Found at i:93977829 original size:20 final size:21
Alignment explanation
Indices: 93977796--93977834 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
93977786 AATTATAGAC
*
93977796 ATTTTTTTATATTTTATATAT
1 ATTTTTGTATATTTTATATAT
93977817 ATTTTTGTA-ATTTTATAT
1 ATTTTTGTATATTTTATAT
93977835 TTTTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
ATTTTTGTATATTTTATATAT
Found at i:93977958 original size:16 final size:17
Alignment explanation
Indices: 93977934--93977980 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
93977924 TTTCTAAATT
*
93977934 TTTAAATATTTTCATAA
1 TTTATATATTTTCATAA
*
93977951 TTT-TATATTTTTCATAG
1 TTTATATA-TTTTCATAA
93977968 TTTATATCATTTT
1 TTTATAT-ATTTT
93977981 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 14 0.56
18 7 0.28
19 1 0.04
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTATATATTTTCATAA
Found at i:93978017 original size:23 final size:23
Alignment explanation
Indices: 93977991--93978047 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
93977981 TAAAAATTTT
93977991 TATTATTTTA-TT-TTATTAATATA
1 TATT-TTTTATTTCTTA-TAATATA
*
93978014 TATTTTTTCATTTCTTATAATTTA
1 TATTTTTT-ATTTCTTATAATATA
93978038 TATTTTTTAT
1 TATTTTTTAT
93978048 CATTTATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.13
23 7 0.23
24 16 0.53
25 3 0.10
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTTTTTATTTCTTATAATATA
Found at i:93978061 original size:26 final size:26
Alignment explanation
Indices: 93978010--93978066 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
93978000 ATTTTATTAA
* * *
93978010 TATATATTTTTTCATTTCTTATAATT
1 TATATATTTTTTCATTTATAAGAATT
93978036 TATAT-TTTTTATCATTTATAAGAATT
1 TATATATTTTT-TCATTTATAAGAATT
93978062 T-TATA
1 TATATA
93978067 ATTTCCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (26 bp):
TATATATTTTTTCATTTATAAGAATT
Found at i:93978108 original size:9 final size:9
Alignment explanation
Indices: 93978096--93978154 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
93978086 TTTTAAAAAT
93978096 ATTTTTATA
1 ATTTTTATA
*
93978105 ATTTTTATG
1 ATTTTTATA
*
93978114 ATATTCTATA
1 AT-TTTTATA
* *
93978124 AATTTTATG
1 ATTTTTATA
93978133 ATTTTTATA
1 ATTTTTATA
*
93978142 TTTTTTAT-
1 ATTTTTATA
93978150 ATTTT
1 ATTTT
93978155 AATTAAAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
8 4 0.10
9 29 0.74
10 6 0.15
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:93979731 original size:48 final size:48
Alignment explanation
Indices: 93979514--93979747 Score: 203
Period size: 48 Copynumber: 5.0 Consensus size: 48
93979504 ATTTGGGTTG
* * * **
93979514 ATGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGGT
1 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAAT
* * ** *
93979562 ATGTGTTATCATGTAAGACCATATCTGGGATATGGCGTT-G-----AT
1 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAAT
* * *
93979604 ATGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACAT
1 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC-A-AT
* * * *
93979654 ATGAGATCCCATGTAAGATCATGTTTGGGACATGGCATTGGCATCAAGT
1 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAA-T
* * * *
93979703 -GGTGATCCCATATAAGACCATATCTGGGATATGGCGTTGGCATCA
1 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCA
93979748 TATTATGTGA
Statistics
Matches: 151, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
42 34 0.23
43 1 0.01
47 1 0.01
48 69 0.46
49 2 0.01
50 44 0.29
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAAT
Found at i:93979965 original size:38 final size:38
Alignment explanation
Indices: 93979922--93980001 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
93979912 AAGAGGAGAA
93979922 TAAAGAAATTATGATATTGAGTTCTATTGAATATTATG
1 TAAAGAAATTATGATATTGAGTTCTATTGAATATTATG
93979960 TAAAGAAATTATGATATTGAGTTCTATTGAATATTATG
1 TAAAGAAATTATGATATTGAGTTCTATTGAATATTATG
93979998 TAAA
1 TAAA
93980002 TTGAATGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (38 bp):
TAAAGAAATTATGATATTGAGTTCTATTGAATATTATG
Found at i:93982685 original size:44 final size:44
Alignment explanation
Indices: 93982618--93982744 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 44
93982608 CATAGGATTC
* *
93982618 CGATATGTGATTT-CCTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * *
93982661 TGA-ATTGTGATTTACGTGTAAGACC-CTGTCTGGGACAG-TAGCAT
1 CGATA-TGTGATTTACATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
93982705 CGATATGTGA-TTACATGTAAGACCACGTCTGGGATGTTGG
1 CGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGG
93982745 TGTTGTACGA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.03
43 34 0.49
44 31 0.45
45 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
CGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:93982736 original size:43 final size:43
Alignment explanation
Indices: 93982618--93982738 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
93982608 CATAGGATTC
* * * *
93982618 CGATATGTGATTTCCTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTAGCAT
* *
93982661 TGA-ATTGTGATTTACGTGTAAGACC-CTGTCTGGGACAG-TAGCAT
1 CGATA-TGTGA-TTACATGTAAGACCAC-GTCTGGGAC-GTTAGCAT
93982705 CGATATGTGATTACATGTAAGACCACGTCTGGGA
1 CGATATGTGATTACATGTAAGACCACGTCTGGGA
93982739 TGTTGGTGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
42 1 0.02
43 29 0.45
44 33 0.51
45 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTAGCAT
Found at i:93985177 original size:32 final size:30
Alignment explanation
Indices: 93985103--93985184 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
93985093 GTATACAATT
* *
93985103 GTAACATAAATATTTATTTACTTTTTATTTAA
1 GTAA-ATAGATATTTA-TTACTTATTATTTAA
93985135 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
93985167 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
93985185 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 9 0.20
31 11 0.24
32 21 0.47
33 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:93986269 original size:70 final size:75
Alignment explanation
Indices: 93986182--93986357 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 75
93986172 ATGTGAACAA
* *
93986182 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
93986242 AA-GTATATTG
65 AATGTATATTG
* * *
93986252 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATCTGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
93986317 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
93986331 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
93986358 TGATTGGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
70 25 0.29
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 17 0.20
79 18 0.21
80 13 0.15
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:93986640 original size:21 final size:21
Alignment explanation
Indices: 93986616--93986668 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
93986606 TAGGCAGCTC
93986616 GTGTGTCGTATCA-AGCACCTT
1 GTGTGTCGTATCAGA-CACCTT
* *
93986637 GTGTGTCGTTTCAGACACTTT
1 GTGTGTCGTATCAGACACCTT
*
93986658 ATGTGTCGTAT
1 GTGTGTCGTAT
93986669 ACTACTTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.40
Consensus pattern (21 bp):
GTGTGTCGTATCAGACACCTT
Found at i:93989405 original size:46 final size:46
Alignment explanation
Indices: 93989355--93989530 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
93989345 TATTTGGGCA
93989355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
93989401 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
93989448 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
93989494 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93989531 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:93989510 original size:93 final size:93
Alignment explanation
Indices: 93989351--93989522 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93989341 TGGATATTTG
* *
93989351 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93989416 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
93989444 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93989509 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93989523 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:93991102 original size:24 final size:24
Alignment explanation
Indices: 93991001--93991162 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 24
93990991 GCTTTATCAT
*
93991001 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
93991026 ATAACTGGGGCAAAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
93991048 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
93991070 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
93991094 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
93991118 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93991141 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93991163 CACTTCCTCC
Statistics
Matches: 125, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
21 14 0.11
22 24 0.19
23 26 0.21
24 49 0.39
25 12 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93991145 original size:47 final size:45
Alignment explanation
Indices: 93991015--93991162 Score: 217
Period size: 46 Copynumber: 3.2 Consensus size: 45
93991005 CTGGAGGCCT
*
93991015 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTATAACTGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTATAACTGGGCATA
*
93991061 AGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCC-TTT-ATAACT-GGGCATA
*
93991108 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT-ATAACTGGGCATA
93991154 AGCCCTTTT
1 AGCCCTTTT
93991163 CACTTCCTCC
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
44 21 0.23
45 4 0.04
46 26 0.28
47 21 0.23
48 21 0.23
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTATAACTGGGCATA
Found at i:93991303 original size:25 final size:25
Alignment explanation
Indices: 93991275--93991322 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93991265 ATATATAAAC
* * *
93991275 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
93991300 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93991323 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:93992565 original size:27 final size:27
Alignment explanation
Indices: 93992545--93992847 Score: 335
Period size: 27 Copynumber: 11.6 Consensus size: 27
93992535 AGGGTATTTT
*
93992545 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
93992572 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
93992599 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93992626 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93992653 -GATAA--ATGTAAATCG-GGGTAAAA-
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
93992676 TGTAA-TATGTAAATTG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
93992701 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
93992728 AGTAATTCTGTAAA-CGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
93992754 -GTAATTCTGTAAATC-AGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
93992779 GGTAATTTTACAAATCGAGGGT-AAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93992804 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
93992831 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
93992848 GGAGTACTTT
Statistics
Matches: 239, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
23 3 0.01
24 27 0.11
25 53 0.22
26 40 0.17
27 115 0.48
28 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:93992764 original size:52 final size:53
Alignment explanation
Indices: 93992546--93992847 Score: 363
Period size: 52 Copynumber: 5.8 Consensus size: 53
93992536 GGGTATTTTA
* * * *
93992546 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-C
*
93992600 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
93992653 GATAA--ATGTAAATCG-GGGTAAAA-TGTAA-TATGTAAATTG-GGGTAAAAC
1 G-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
**
93992701 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CGAGGGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* **
93992754 GTAATTCTGTAAATC-AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
93992805 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
93992848 GGAGTACTTT
Statistics
Matches: 214, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
48 12 0.06
49 10 0.05
50 14 0.07
51 47 0.22
52 63 0.29
53 17 0.08
54 51 0.24
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (53 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:93992801 original size:78 final size:78
Alignment explanation
Indices: 93992546--93992846 Score: 364
Period size: 78 Copynumber: 3.9 Consensus size: 78
93992536 GGGTATTTTA
* * *
93992546 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATCGAGGGTAAAA-CGTAATTCTGTA
93992611 AATCGAGGGTAAAACG
64 AATC-AGGGTAAAACG
* * * * *
93992627 GTAATTCTGTAAATCGAGGGTAAAACGATAA--ATGTAAATCG-GGGTAAAATGTAA-TATGTAA
1 GTAATTTTGTAAATCGAGGGTAAAAAG-TAATTCTGTAAATCGAGGGTAAAACGTAATTCTGTAA
**
93992688 ATTGGGGTAAAACG
65 ATCAGGGTAAAACG
*
93992702 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CGAGGGTAAAACGTAATTCTGTAA
1 GTAATTTTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATCGAGGGTAAAACGTAATTCTGTAA
93992766 ATCAGGGTAAAACG
65 ATCAGGGTAAAACG
** *
93992780 GTAATTTTACAAATCGAGGGT-AAAAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTGTAAATCGAGGGTAAAAAGTAATTCTGTAAATC-GAGGGTAAAAC-GTAATTCTGTA
93992843 AATC
64 AATC
93992847 GGGAGTACTT
Statistics
Matches: 193, Mismatches: 19, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
75 38 0.20
76 24 0.12
77 36 0.19
78 59 0.31
79 8 0.04
80 1 0.01
81 27 0.14
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (78 bp):
GTAATTTTGTAAATCGAGGGTAAAAAGTAATTCTGTAAATCGAGGGTAAAACGTAATTCTGTAAA
TCAGGGTAAAACG
Found at i:93995995 original size:47 final size:48
Alignment explanation
Indices: 93995918--93996083 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
93995908 TGCTTTATCA
* *
93995918 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
93995967 TATAACTGGGGCATAAGCCC-TTTAATAACT-GGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
93996013 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
93996060 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
93996084 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
46 33 0.31
47 45 0.42
48 16 0.15
49 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:93995998 original size:23 final size:24
Alignment explanation
Indices: 93995919--93996083 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
93995909 GCTTTATCAT
*
93995919 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
93995944 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
93995968 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
93995991 ATAACT-GGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
93996014 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
93996038 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93996061 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93996084 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
22 11 0.09
23 40 0.31
24 64 0.50
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93996034 original size:70 final size:71
Alignment explanation
Indices: 93995919--93996084 Score: 255
Period size: 70 Copynumber: 2.3 Consensus size: 71
93995909 GCTTTATCAT
* * *
93995919 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
93995983 GCCCTTTA
64 GCCCTTTA
* *
93995991 ATAACT-GGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
93996055 CCTTTA
66 CCTTTA
93996061 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
93996085 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 60 0.69
71 21 0.24
72 6 0.07
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:93996237 original size:24 final size:24
Alignment explanation
Indices: 93996196--93996242 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
93996186 ATATATAAAC
* * *
93996196 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
93996220 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93996243 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:93997496 original size:27 final size:27
Alignment explanation
Indices: 93997475--93997788 Score: 294
Period size: 27 Copynumber: 11.7 Consensus size: 27
93997465 AAGGGTATTT
* *
93997475 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
93997502 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
93997529 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
** * *
93997556 CGGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* * * *
93997583 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTATAAATCGAGGGTAAAA
* * * *
93997610 TGGTAATTATGTAAATTG-GGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
93997636 CAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
93997663 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTATAAATC-GAGGGTAAAA
** * *
93997690 CGGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
** * *
93997717 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
93997744 TAGTAATTCTAT-AACCTGAGGGTAAAA
1 TAGTAATTCTATAAATC-GAGGGTAAAA
** *
93997771 CGGTAATTCTGTAAATCG
1 TAGTAATTCTATAAATCG
93997789 GGAGTACTTT
Statistics
Matches: 245, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.11
27 213 0.87
28 5 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:93997787 original size:54 final size:54
Alignment explanation
Indices: 93997476--93997788 Score: 373
Period size: 54 Copynumber: 5.8 Consensus size: 54
93997466 AGGGTATTTT
* * * *
93997476 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * *
93997530 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * * *
93997584 -GATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATTG-GGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
**
93997637 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* * * ** *
93997691 GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
93997745 AGTAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
93997789 GGAGTACTTT
Statistics
Matches: 219, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
53 49 0.22
54 169 0.77
55 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:93997811 original size:81 final size:80
Alignment explanation
Indices: 93997476--93997790 Score: 384
Period size: 81 Copynumber: 3.9 Consensus size: 80
93997466 AGGGTATTTT
* * *
93997476 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
1 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
93997541 AAATCGAGGGTAAAAC
66 AAATCG-GGGTAAAAC
* * * * * * * * *
93997557 GGTAATTCTGTAAATCAAGGGTAAAA-CGATAATTATGTAAATCGGGGGTAAAATGGTAATTATG
1 AGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGAGGGTAAAACGGTAATTCTG
*
93997621 TAAATTGGGGTAAAAC
65 TAAATCGGGGTAAAAC
* *
93997637 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTG
1 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTG
*
93997701 TAAATCAAGGGTAAAAC
65 TAAATC-GGGGTAAAAC
* ** *
93997718 GGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTG
1 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTG
93997782 TAAATCGGG
65 TAAATCGGG
93997791 AGTACTTTAG
Statistics
Matches: 204, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.00
80 72 0.35
81 131 0.64
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (80 bp):
AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
AAATCGGGGTAAAAC
Found at i:93998893 original size:45 final size:45
Alignment explanation
Indices: 93998823--93998942 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
93998813 GGGTGTTACA
93998823 TATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCAGCAT
1 TATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCAGCAT
**
93998868 TATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCAT
1 TATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCAT
*
93998913 TATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TATAGCCTGCTAGGCTCAAAGGCCCGAATA
93998943 ATACTGTGCG
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
TATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCAT
Found at i:93999503 original size:2 final size:2
Alignment explanation
Indices: 93999496--93999524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93999486 ATATAGCCGA
93999496 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 A
93999525 GCTAATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94002323 original size:47 final size:47
Alignment explanation
Indices: 94002269--94002393 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 47
94002259 TATCTGCTCG
* * *
94002269 ACCAGTGGTTTATCCACAATGTATTTTAGTCGGCAGTCACCTGCTTA
1 ACCAGTGGTTTATCCACAATGTATTTTAGTCGACAATCACCTCCTTA
* * * * *
94002316 ACTAGTGGTTTATCCATAATGTATCTTAGTCGACAATCATCTCCTTG
1 ACCAGTGGTTTATCCACAATGTATTTTAGTCGACAATCACCTCCTTA
* *
94002363 ACCAATGGTTTATCCACAACGTATTTTAGTC
1 ACCAGTGGTTTATCCACAATGTATTTTAGTC
94002394 AGTGGTCACT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (47 bp):
ACCAGTGGTTTATCCACAATGTATTTTAGTCGACAATCACCTCCTTA
Found at i:94004357 original size:58 final size:57
Alignment explanation
Indices: 94004267--94004383 Score: 155
Period size: 58 Copynumber: 2.0 Consensus size: 57
94004257 ATTGACCTCA
** * *
94004267 TTATAGAAAGGATTTAGTCTGGACTGGTAATCCTAATATAAGCCCTCT-TGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAAT-TAAGCCCT-TATGAGCATATG
* *
94004325 TTATAGATAGGATTTAACCCGGACGGGTAATCCTAATTAAGCTCTTATGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
94004382 TT
1 TT
94004384 GGAAACAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 19 0.37
58 32 0.62
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (57 bp):
TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
Found at i:94004394 original size:57 final size:58
Alignment explanation
Indices: 94004287--94004397 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 58
94004277 GATTTAGTCT
* * * *
94004287 GGACTGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTATAGATAGGATTTAACCC
1 GGACGGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
* *
94004345 GGACGGGTAATCCTAAT-TAAGCTCT-TATGAGCATATGTTGGAAACAGGATTTA
1 GGACGGGTAATCCTAATATAAGCCCTCT-TGAGCATATGTTAGAAACAGGATTTA
94004398 GCTTGGACAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.02
57 29 0.63
58 16 0.35
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (58 bp):
GGACGGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
Found at i:94004412 original size:57 final size:58
Alignment explanation
Indices: 94004275--94004413 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 58
94004265 CATTATAGAA
* * * *
94004275 AGGATTTAG-TCTGGACTGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCT-TGGACAGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGAAAC
* ** * * *
94004333 AGGATTTAACCCGGACGGGTAATCCTAAT-TAAGCTCT-TATGAGCATATGTTGGAAAC
1 AGGATTTAGCTTGGACAGGTAATCCTAATATAAGCCCTCT-TGAGCATATGTTAGAAAC
*
94004390 AGGATTTAGCTTGGACAAGTAATC
1 AGGATTTAGCTTGGACAGGTAATC
94004414 TTGTTATATG
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
56 1 0.02
57 40 0.62
58 24 0.37
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (58 bp):
AGGATTTAGCTTGGACAGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGAAAC
Found at i:94005465 original size:21 final size:21
Alignment explanation
Indices: 94005440--94005494 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
94005430 CGCTGCCTAC
*
94005440 TCACACGGGCGTGCCTTTGGT
1 TCACACGGGCGTGCCTTTGGG
94005461 TCACACGGGCGTGCCTTTGGG
1 TCACACGGGCGTGCCTTTGGG
94005482 TCACACGGGCGTG
1 TCACACGGGCGTG
94005495 TCCCTAGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.11, C:0.29, G:0.36, T:0.24
Consensus pattern (21 bp):
TCACACGGGCGTGCCTTTGGG
Found at i:94006580 original size:21 final size:21
Alignment explanation
Indices: 94006545--94006586 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
94006535 ATCTATCTTC
*
94006545 TTTATTTTCTTTTTTA-TTGT
1 TTTATTTTCTATTTTACTTGT
94006565 TTTATTGTTCTATTTTACTTGT
1 TTTATT-TTCTATTTTACTTGT
94006587 CTTAGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTATTTTCTATTTTACTTGT
Found at i:94006676 original size:14 final size:14
Alignment explanation
Indices: 94006657--94006690 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94006647 TCTTTCATAT
94006657 TATTTCAAAATCCA
1 TATTTCAAAATCCA
94006671 TATTTCAAAATCCA
1 TATTTCAAAATCCA
*
94006685 AATTTC
1 TATTTC
94006691 TTTCCGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTCAAAATCCA
Found at i:94009091 original size:37 final size:37
Alignment explanation
Indices: 94009038--94009140 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
94009028 TCGAATAGTC
*
94009038 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
94009075 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
94009112 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
94009141 ATACATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:94009256 original size:48 final size:48
Alignment explanation
Indices: 94009185--94009413 Score: 377
Period size: 48 Copynumber: 4.8 Consensus size: 48
94009175 TGTTACAACA
94009185 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
94009233 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
94009281 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
94009329 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * *
94009377 TTCACATTAGCCATTCGTCTTTACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
94009414 ATTTATCTTG
Statistics
Matches: 169, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 169 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:94015547 original size:9 final size:9
Alignment explanation
Indices: 94015533--94015558 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
94015523 GTCCTTAATT
94015533 CACAAAATA
1 CACAAAATA
94015542 CACAAAATA
1 CACAAAATA
94015551 CACAAAAT
1 CACAAAAT
94015559 CTACTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:94025653 original size:11 final size:11
Alignment explanation
Indices: 94025617--94025672 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
94025607 CATGGTATGT
94025617 ATGATATGCAC
1 ATGATATGCAC
* *
94025628 ATGACATG--T
1 ATGATATGCAC
94025637 ATGATATGCAC
1 ATGATATGCAC
*
94025648 ATGATATG--T
1 ATGATATGCAC
94025657 ATGATATGCAC
1 ATGATATGCAC
94025668 ATGAT
1 ATGAT
94025673 GTATTCATAA
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:94025672 original size:20 final size:20
Alignment explanation
Indices: 94025606--94025672 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
94025596 ATTTTGATAA
*
94025606 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
94025626 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
94025646 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94025666 ACATGAT
1 ACATGAT
94025673 GTATTCATAA
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:94025813 original size:25 final size:24
Alignment explanation
Indices: 94025721--94025818 Score: 135
Period size: 24 Copynumber: 4.0 Consensus size: 24
94025711 GGAGGAAGTG
94025721 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
94025745 CAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
94025769 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
94025793 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
94025818 A
1 A
94025819 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
24 54 0.83
25 11 0.17
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:94026065 original size:31 final size:31
Alignment explanation
Indices: 94026011--94026074 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
94026001 CGTTTACAGT
*
94026011 AAAGGCTTCGGCCTAATAATATGAAATT-TGA
1 AAAGGCTTCGGCCCAATAATATG-AATTATGA
* **
94026042 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAATAATATGAATTATGA
94026073 AA
1 AA
94026075 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAATTATGA
Found at i:94030919 original size:30 final size:30
Alignment explanation
Indices: 94030863--94030919 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
94030853 ATCCCGAGCC
*
94030863 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
94030893 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
94030920 TTGAGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:94031412 original size:46 final size:46
Alignment explanation
Indices: 94031339--94031514 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
94031329 TGGTTGAGCA
* **
94031339 TCCGAACTCGTTGAGTTGATTTTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
94031385 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
94031430 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
94031478 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94031515 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94031495 original size:93 final size:93
Alignment explanation
Indices: 94031336--94031507 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
94031326 GGATGGTTGA
* ** * * *
94031336 GCATCCGAACTCGTTGAGTTGATTTTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
94031401 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
94031429 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
94031494 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
94031508 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:94032610 original size:11 final size:10
Alignment explanation
Indices: 94032573--94032612 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
94032563 GAATTGGTAT
94032573 ATTCTATAAAA
1 ATTCTA-AAAA
94032584 ATTCT-AAAA
1 ATTCTAAAAA
94032593 ATTCTAATAAA
1 ATTCTAA-AAA
94032604 ATTCTAAAA
1 ATTCTAAAA
94032613 CAAAATTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
10 3 0.11
11 15 0.56
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (10 bp):
ATTCTAAAAA
Found at i:94032611 original size:8 final size:9
Alignment explanation
Indices: 94032579--94032612 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
94032569 GTATATTCTA
94032579 TAAAAATTC
1 TAAAAATTC
94032588 TAAAAATTC
1 TAAAAATTC
94032597 TAATAAAATTC
1 T-A-AAAATTC
94032608 TAAAA
1 TAAAA
94032613 CAAAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 13 0.57
10 2 0.09
11 8 0.35
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTC
Found at i:94039066 original size:93 final size:92
Alignment explanation
Indices: 94038908--94039078 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
94038898 GGATGGTTGA
* *
94038908 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
94038973 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
94039000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94039065 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
94039079 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 51 0.68
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:94039076 original size:46 final size:46
Alignment explanation
Indices: 94038912--94039085 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
94038902 GGTTGAGCAT
* *
94038912 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
94038957 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
94039002 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
94039050 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94039086 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 41 0.38
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:94042404 original size:25 final size:25
Alignment explanation
Indices: 94042375--94042422 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94042365 TTATAACATG
* * *
94042375 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94042400 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94042423 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:94042489 original size:20 final size:20
Alignment explanation
Indices: 94042466--94042504 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
94042456 TAAACATGGT
94042466 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
94042486 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
94042505 TGCATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:94042634 original size:24 final size:24
Alignment explanation
Indices: 94042555--94042730 Score: 239
Period size: 24 Copynumber: 7.4 Consensus size: 24
94042545 GAGGAAGTGA
* *
94042555 AAAAAGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
94042578 TAAAGGTCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94042601 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94042625 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
94042649 GAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
94042673 GAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
94042697 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
94042721 AAAAGAGGCT
1 AAAAG-GGCT
94042731 GGGCCTCCAG
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
23 41 0.29
24 95 0.68
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94043001 original size:31 final size:31
Alignment explanation
Indices: 94042938--94043001 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
94042928 CGTTCACAGT
* *
94042938 AAAGGCTTCGGCCCAGTAATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
94042969 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94043000 AA
1 AA
94043002 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94044763 original size:40 final size:40
Alignment explanation
Indices: 94044726--94044858 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
94044716 GCTACTCGTT
* **
94044726 CAAATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
94044766 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
94044806 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
94044846 CAAATGCCTTCGG
1 CAAATGCCTTCGG
94044859 ATCTTAGTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:94044895 original size:80 final size:80
Alignment explanation
Indices: 94044726--94044896 Score: 213
Period size: 80 Copynumber: 2.1 Consensus size: 80
94044716 GCTACTCGTT
**
94044726 CAAATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
94044791 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* ** *
94044806 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCT
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
94044869 GGATATAGTCACTTAGCA
64 GGATATAGTAAC-TAGCA
94044887 CAAA-GCCTTC
1 CAAATGCCTTC
94044897 AATATGCTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 3 0.04
80 66 0.84
81 10 0.13
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:94052352 original size:40 final size:39
Alignment explanation
Indices: 94052315--94052447 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 39
94052305 GCTACTCGTT
**
94052315 CAAATGCCTTCGGGACATGGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAACCCGGATT-TAGTAACTCGCA
94052355 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAACCCGGATTTAGTAACTCGCA
94052395 CAAATGCCTTCGGGACTAAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACT-AACCCGGATTTAGTAACTCGCA
94052435 CAAATGCCTTCGG
1 CAAATGCCTTCGG
94052448 ATCTTAGTCT
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 83 0.94
41 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCGCA
Found at i:94054690 original size:39 final size:38
Alignment explanation
Indices: 94054618--94054720 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 38
94054608 TAACTGAAGT
94054618 TATCTCAGTATCGCACACTTAGTGCCTCATATAGCCAAAGC
1 TATCTCA--ATCGCACACTTAGTG-CTCATATAGCCAAAGC
*
94054659 TAT-TCAACTCGCACACTTAGTGCT-ATTTATAGCCGAAGC
1 TATCTCAA-TCGCACACTTAGTGCTCA--TATAGCCAAAGC
*
94054698 TATCTGAATCGCACACTTAGTGC
1 TATCTCAATCGCACACTTAGTGC
94054721 CAAACATAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
37 1 0.02
38 3 0.05
39 43 0.77
40 6 0.11
41 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (38 bp):
TATCTCAATCGCACACTTAGTGCTCATATAGCCAAAGC
Found at i:94066244 original size:48 final size:48
Alignment explanation
Indices: 94066200--94066472 Score: 318
Period size: 48 Copynumber: 5.7 Consensus size: 48
94066190 CTCATATTGG
* * *
94066200 TGTCGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATC-A
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* * * *
94066247 TCG-CTAATGCCATGTTCCAGACATGGTCTTACACTAGTACACATATCAA
1 T-GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* *
94066296 TG-CTGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCAA
1 TGTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* *
94066344 TGCCGATGCCATGTCCCAGACATGATCTTACACTGGCACACATATCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
** * * * * *
94066392 CATCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATCTCGGA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AA
*
94066441 TGTTGATGCCATGTCCCAGACATGGTCTTACA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACA
94066473 TGGGATCTCA
Statistics
Matches: 194, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
47 2 0.01
48 160 0.82
49 32 0.16
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
Found at i:94066375 original size:144 final size:145
Alignment explanation
Indices: 94066203--94066472 Score: 384
Period size: 144 Copynumber: 1.9 Consensus size: 145
94066193 ATATTGGTGT
* * * *
94066203 CGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATCATC-GCTAATGCCATGTTCCAG
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACATC-AATGCCATGTTCCAG
94066267 ACATGGTCTTACACTAG-TACACATATC-AATGCTGATGCCATGTCCCAAACATGGTCTTACACT
65 ACATGGTCTTACACTAGCT-CACATATCGAATGCTGATGCCATGTCCCAAACATGGTCTTACACT
94066330 GGCACATATATCAATGC
129 GGCACATATATCAATGC
* * *
94066347 CGATGCCATGTCCCAGACATGATCTTACACTGGCACACATATCAACATCGATGCCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACATCAATGCCATGTTCCAGA
* * * * * *
94066412 CATGGTCTTACACTGGCTCTCATCTCGGATGTTGATGCCATGTCCCAGACATGGTCTTACA
66 CATGGTCTTACACTAGCTCACATATCGAATGCTGATGCCATGTCCCAAACATGGTCTTACA
94066473 TGGGATCTCA
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
144 77 0.70
145 33 0.30
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACATCAATGCCATGTTCCAGA
CATGGTCTTACACTAGCTCACATATCGAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGG
CACATATATCAATGC
Found at i:94071092 original size:80 final size:80
Alignment explanation
Indices: 94071008--94071156 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
94070998 TATGGTAACC
* * * *
94071008 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
94071072 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
94071088 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
94071153 CCGG
66 CCGG
94071157 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:94071098 original size:40 final size:38
Alignment explanation
Indices: 94071049--94071156 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
94071039 ATCACGATTT
*
94071049 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
94071089 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
94071129 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
94071157 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:94082866 original size:80 final size:80
Alignment explanation
Indices: 94082782--94082930 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
94082772 TATGGTAACC
* * * *
94082782 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
94082846 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
94082862 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
94082927 CCGG
66 CCGG
94082931 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:94082872 original size:40 final size:38
Alignment explanation
Indices: 94082823--94082930 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
94082813 ATCACGATTT
*
94082823 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
94082863 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
94082903 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
94082931 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:94088020 original size:8 final size:8
Alignment explanation
Indices: 94088007--94088031 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
94087997 TTATCAGCTC
94088007 TTATTATT
1 TTATTATT
94088015 TTATTATT
1 TTATTATT
94088023 TTATTATT
1 TTATTATT
94088031 T
1 T
94088032 CAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Done.