Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 73 of 128
Found at i:23729668 original size:100 final size:100
Alignment explanation
Indices: 23729547--23729729 Score: 316
Period size: 100 Copynumber: 1.8 Consensus size: 100
23729537 GTGCCCATGG
23729547 CATGTCCCAGAAATGGTCTTAC-GGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
1 CATGTCCCAGAAATGGTCTTACAGGGGG-CCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
23729611 GGTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
65 GGTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
* *
23729647 CATGTCCCA-AACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAGACAT
1 CATGTCCCAGAA-ATGGTCTTACAGGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
23729711 GGTCTTACATGGGACCTCT
65 GGTCTTACATGGGACCTCT
23729730 TTACCCAAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
99 2 0.03
100 73 0.92
101 4 0.05
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (100 bp):
CATGTCCCAGAAATGGTCTTACAGGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAAACATG
GTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
Found at i:23731302 original size:78 final size:78
Alignment explanation
Indices: 23731156--23731307 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 78
23731146 CATGAGCCGA
* * * * * *
23731156 TGTTTATTTAGCAGGCCTTGAGTAAGTGTTTGTTTAGCAGGCTTTGACCAGTTGATTACTTAGTA
1 TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
23731221 GGCTTTGAGCTGG
66 GGCTTTGAGCTGG
* * * * * *
23731234 TGTTTATTTAGCAGGCTTTGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCA
1 TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
23731299 GGCTTTGAG
66 GGCTTTGAG
23731308 TCGGTGAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (78 bp):
TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
GGCTTTGAGCTGG
Found at i:23731313 original size:26 final size:26
Alignment explanation
Indices: 23731156--23731307 Score: 171
Period size: 26 Copynumber: 5.8 Consensus size: 26
23731146 CATGAGCCGA
* *
23731156 TGTTTATTTAGCAGGCCTTGAG-TAAG
1 TGTTTATTTAGCAGGCTTTGAGCT-GG
* * * *
23731182 TGTTTGTTTAGCAGGCTTTGACCAGT
1 TGTTTATTTAGCAGGCTTTGAGCTGG
* * *
23731208 TGATTACTTAGTAGGCTTTGAGCTGG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
**
23731234 TGTTTATTTAGCAGGCTTTGAGCCAG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
* *
23731260 TGATTATTTAGCAGGCCTTGAGCTGG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
23731286 TGTTTATTTAGCAGGCTTTGAG
1 TGTTTATTTAGCAGGCTTTGAG
23731308 TCGGTGAAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCTTTGAGCTGG
Found at i:23731320 original size:26 final size:25
Alignment explanation
Indices: 23731159--23731326 Score: 147
Period size: 26 Copynumber: 6.5 Consensus size: 25
23731149 GAGCCGATGT
* ** *
23731159 TTATTTAGCAGGCCTTGAGTAAGTGT
1 TTATTTAGCAGGCTTTGAG-CGGTGA
* * *
23731185 TTGTTTAGCAGGCTTTGACCAGTTGA
1 TTATTTAGCAGGCTTTGAGC-GGTGA
* * *
23731211 TTACTTAGTAGGCTTTGAGCTGGTGT
1 TTATTTAGCAGGCTTTGAGC-GGTGA
*
23731237 TTATTTAGCAGGCTTTGAGCCAGTGA
1 TTATTTAGCAGGCTTTGAG-CGGTGA
* *
23731263 TTATTTAGCAGGCCTTGAGCTGGTGT
1 TTATTTAGCAGGCTTTGAGC-GGTGA
23731289 TTATTTAGCAGGCTTTGAGTCGGTGA
1 TTATTTAGCAGGCTTTGAG-CGGTGA
**
23731315 AAATTTAGCAGG
1 TTATTTAGCAGG
23731327 TACTATGTAC
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
25 1 0.01
26 110 0.97
27 2 0.02
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.38
Consensus pattern (25 bp):
TTATTTAGCAGGCTTTGAGCGGTGA
Found at i:23731321 original size:52 final size:52
Alignment explanation
Indices: 23731148--23731326 Score: 218
Period size: 52 Copynumber: 3.4 Consensus size: 52
23731138 TATCAGGCCA
* * * *
23731148 TGAGCCGATGTTTATTTAGCAGGCCTTGAG-TAAGTGTTTGTTTAGCAGGCTT
1 TGAGCCGGTGATTATTTAGCAGGCCTTGAGCT-GGTGTTTATTTAGCAGGCTT
* * * *
23731200 TGA-CCAGTTGATTACTTAGTAGGCTTTGAGCTGGTGTTTATTTAGCAGGCTT
1 TGAGCC-GGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
*
23731252 TGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
1 TGAGCCGGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
* **
23731304 TGAGTCGGTGAAAATTTAGCAGG
1 TGAGCCGGTGATTATTTAGCAGG
23731327 TACTATGTAC
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.02
52 103 0.95
53 3 0.03
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (52 bp):
TGAGCCGGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
Found at i:23731321 original size:78 final size:78
Alignment explanation
Indices: 23731161--23731326 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
23731151 GCCGATGTTT
* * * * * *
23731161 ATTTAGCAGGCCTTGAGTAAGTGTTTGTTTAGCAGGCTTTGACCAGTTGATTACTTAGTAGGCTT
1 ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
***
23731226 TGAGCTGGTGTTT
66 TGAGCTGGTGAAA
* * * * * *
23731239 ATTTAGCAGGCTTTGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
1 ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
23731304 TGAG-TCGGTGAAA
66 TGAGCT-GGTGAAA
23731317 ATTTAGCAGG
1 ATTTAGCAGG
23731327 TACTATGTAC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
77 1 0.01
78 71 0.99
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (78 bp):
ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
TGAGCTGGTGAAA
Found at i:23735215 original size:10 final size:10
Alignment explanation
Indices: 23735200--23735244 Score: 90
Period size: 10 Copynumber: 4.5 Consensus size: 10
23735190 ATAGCGCTGG
23735200 AAAATTACTA
1 AAAATTACTA
23735210 AAAATTACTA
1 AAAATTACTA
23735220 AAAATTACTA
1 AAAATTACTA
23735230 AAAATTACTA
1 AAAATTACTA
23735240 AAAAT
1 AAAAT
23735245 CCTCTGTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTACTA
Found at i:23739009 original size:41 final size:40
Alignment explanation
Indices: 23738951--23739084 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 40
23738941 TAGCGGCACA
* * *
23738951 TATGTGTAATTCAGGGGTACTAAAGTACAAACAGGGACATG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACA-G
*
23738992 TATATGCAATTTAGGGGTA-TCGAAGTACAAACAAGGGTAC-G
1 TATGTGCAATTTAGGGGTACT-GAAGTACAAAC-AGGG-ACAG
* * *
23739033 TATGTGCAATTTAGGGGTACTGGAGTACAAATAGGGGCACG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACA-G
23739074 TATGTGCAATT
1 TATGTGCAATT
23739085 CATAGAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 66 0.84
42 5 0.06
43 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (40 bp):
TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACAG
Found at i:23739050 original size:21 final size:21
Alignment explanation
Indices: 23739026--23739084 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
23739016 GTACAAACAA
23739026 GGGTACGTATGTGCAATTTAG
1 GGGTACGTATGTGCAATTTAG
* * *
23739047 GGGTACTGGA-GTACAA-ATAG
1 GGGTAC-GTATGTGCAATTTAG
*
23739067 GGGCACGTATGTGCAATT
1 GGGTACGTATGTGCAATT
23739085 CATAGAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 11 0.39
22 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.34, T:0.27
Consensus pattern (21 bp):
GGGTACGTATGTGCAATTTAG
Found at i:23742479 original size:19 final size:19
Alignment explanation
Indices: 23742455--23742546 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
23742445 AATCATATCT
*
23742455 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
23742474 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
23742493 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
23742512 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
23742531 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23742547 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23742508 original size:38 final size:38
Alignment explanation
Indices: 23742432--23742546 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
23742422 AAATTAAATC
* *
23742432 TCTAAGATTACAAAATCATATCTTCTAAGATTGTATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
23742474 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
23742512 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
23742547 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 53 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:23743243 original size:44 final size:42
Alignment explanation
Indices: 23743192--23743302 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 42
23743182 GATCTGCTCT
*
23743192 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAG-GAGATAAGATAT-TGACTTTAATCCACTCCA
* * * * *
23743236 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAGTCTACTTCA
1 CTGCAACTTCA-GGAGATAAGA-TATTGACTTTAATCCACTCCA
23743280 CTGCAACTTCAGGTAGATAAGAT
1 CTGCAACTTCAGG-AGATAAGAT
23743303 TCGCCATCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.05
44 50 0.88
45 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
CTGCAACTTCAGGAGATAAGATATTGACTTTAATCCACTCCA
Found at i:23743377 original size:44 final size:45
Alignment explanation
Indices: 23743230--23743389 Score: 115
Period size: 44 Copynumber: 3.6 Consensus size: 45
23743220 ATTTTAATCC
* *
23743230 ACTCCACTGCAACTTCAGG-GAGAT-AGGATTATTGGC-T-TTAGTCT
1 ACTCCACTGCAACTTCAGGAG-GATAAGGA-T-TCGCCATCTTAGTCT
*
23743274 ACTTCACTGCAACTTCAGGTA-GATAA-GATTCGCCATCTTCAGTCT
1 ACTCCACTGCAACTTCAGG-AGGATAAGGATTCGCCATCTT-AGTCT
* * * *
23743319 AC-CTCACTACAACTTCAGGAGGATAAGGCTT--TCTTACTTAGTCT
1 ACTC-CACTGCAACTTCAGGAGGATAAGGATTCGCCAT-CTTAGTCT
23743363 ACTCCACTGCAACTTCAGG-GAGATAAG
1 ACTCCACTGCAACTTCAGGAG-GATAAG
23743390 ACTAGATGCG
Statistics
Matches: 95, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 55 0.58
45 31 0.33
46 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
ACTCCACTGCAACTTCAGGAGGATAAGGATTCGCCATCTTAGTCT
Found at i:23743522 original size:217 final size:217
Alignment explanation
Indices: 23743141--23743535 Score: 630
Period size: 217 Copynumber: 1.8 Consensus size: 217
23743131 TGATTTCTTG
* *
23743141 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCCCAATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCAATGCGATCTGCTCTCTGCAACTTCAGAG
* *
23743206 AGATAAGATATGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAG
66 AGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
* * * *
23743271 TCTACTTCACTGCAACTTCAGGTAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
131 TATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
23743336 GGAGGATAAGGCTTTCTTACTT
196 GGAGGATAAGGCTTTCTTACTT
* * *
23743358 AGTCTACTCCACTGCAACTTCAGGGAGATAA-GACTAGATGCGATCTGCTCTTTGCAACTTTAGA
1 AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCA-ATGCGATCTGCTCTCTGCAACTTCAGA
* * *
23743422 GAGATAAGATCTGTGATTTTAATCCGCTCCACTACGACTTCAGGGAGATAGGATTATTGGCTTTA
65 GAGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTA
* *
23743487 ATATGCTCCACTGTAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCT
130 ATATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCT
23743536 TTTAAATTGC
Statistics
Matches: 161, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
216 3 0.02
217 158 0.98
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCAATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
TATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
GGAGGATAAGGCTTTCTTACTT
Found at i:23743933 original size:44 final size:44
Alignment explanation
Indices: 23743883--23744004 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
23743873 ATCTGCTATG
* *
23743883 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATA
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATA
*
23743927 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATA
* *
23743971 TTTAACCTATTCCACTACTG-TCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCTC-AGGGAGATAGG
23744005 GCTGGGGTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.01
44 65 0.94
45 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATA
Found at i:23744063 original size:88 final size:88
Alignment explanation
Indices: 23743971--23744329 Score: 378
Period size: 88 Copynumber: 4.1 Consensus size: 88
23743961 ACTTACAATC
* *** * * *
23743971 TTTAACCTATTCCACTACTGTCTAGGGAGATAGGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
* *
23744036 GCAGGAAGGTAAGATCTATTATT
66 GCAGGAAGGCAAGATCTACTATT
* * * * *
23744059 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
*
23744124 GCAGGAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTACTATT
* * * * * * * * *
23744147 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCGGTTTCGCTGTCGGC
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
* * *
23744212 GCAAGAAGGCAAGATCTGCTCTT
66 GCAGGAAGGCAAGATCTACTATT
* * * * *
23744235 TTTAACCTGCT-CAGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGA
1 TTTAACCTACTCCA-CTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCTGCTTCGCTGTCGG
* * * *
23744299 CGCAAGAATGCAAGATCTGCTATT
65 TGCAGGAAGGCAAGATCTACTATT
23744323 TTTAACC
1 TTTAACC
23744330 AATCTGCTCT
Statistics
Matches: 242, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 241 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.28
Consensus pattern (88 bp):
TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
GCAGGAAGGCAAGATCTACTATT
Found at i:23744136 original size:44 final size:44
Alignment explanation
Indices: 23744081--23744312 Score: 128
Period size: 44 Copynumber: 5.3 Consensus size: 44
23744071 CACTGCAACC
* *
23744081 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
* * * * ** * * ** *
23744125 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
* * *
23744169 CAGGGAGGCAAGGCTGGTGTCTTCGATCGGTTTCGCTGTCGGCG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
* * * * * ** * * ** *
23744213 CAAGAAGGCAAGATCTGCTCTTTTTAACCTGC-TCAGCT-ACAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTC-GCTGTCGGCG
* *
23744257 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGACG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
* *
23744301 CAAGAATGCAAG
1 CAGGAAGGCAAG
23744313 ATCTGCTATT
Statistics
Matches: 125, Mismatches: 57, Indels: 12
0.64 0.29 0.06
Matches are distributed among these distances:
43 31 0.25
44 63 0.50
45 31 0.25
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
Found at i:23744153 original size:176 final size:176
Alignment explanation
Indices: 23743971--23744329 Score: 468
Period size: 176 Copynumber: 2.0 Consensus size: 176
23743961 ACTTACAATC
* *** * * * * *
23743971 TTTAACCTATTCCACTACTGTCTAGGGAGATAGGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCGGCTTCGCTGTCGGC
* * * *
23744036 GCAGGAAGGTAAGATCTATTATTTTTAACCTGCTCCA-CTGCAACCCAGGGAGGCAAGGCTGGTG
66 GCAAGAAGGCAAGATCTACTATTTTTAACCTGCT-CAGCTACAACCCAGGGAGGCAAGGCTGGTG
** *
23744100 TCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
130 TCTTCGATCTGCTTCGCTGTCGACGCAAGAAGGCAAGATCTGCTATT
* * * * * * *
23744147 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCGGTTTCGCTGTCGGC
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCGGCTTCGCTGTCGGC
* *
23744212 GCAAGAAGGCAAGATCTGCTCTTTTTAACCTGCTCAGCTACAACCCAGGGAGGCAAGGCTGGTGT
66 GCAAGAAGGCAAGATCTACTATTTTTAACCTGCTCAGCTACAACCCAGGGAGGCAAGGCTGGTGT
*
23744277 CTTCGATCTGCTTCGCTGTCGACGCAAGAATGCAAGATCTGCTATT
131 CTTCGATCTGCTTCGCTGTCGACGCAAGAAGGCAAGATCTGCTATT
23744323 TTTAACC
1 TTTAACC
23744330 AATCTGCTCT
Statistics
Matches: 156, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
175 2 0.01
176 154 0.99
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.28
Consensus pattern (176 bp):
TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCGATCGGCTTCGCTGTCGGC
GCAAGAAGGCAAGATCTACTATTTTTAACCTGCTCAGCTACAACCCAGGGAGGCAAGGCTGGTGT
CTTCGATCTGCTTCGCTGTCGACGCAAGAAGGCAAGATCTGCTATT
Found at i:23744163 original size:45 final size:45
Alignment explanation
Indices: 23744020--23744163 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 45
23744010 GGTCATCGAT
* * **
23744020 CTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTATTATTTTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
* **** * * * * * ** *
23744065 CTGCTCCACTG-CAACCCAGGGAGGCAAG-GCTGGTGTCTTCGAT
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
*
23744108 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
23744153 CTGCTCCGCTG
1 CTGCTCCGCTG
23744164 CAACCCAGGG
Statistics
Matches: 66, Mismatches: 31, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 16 0.24
44 23 0.35
45 27 0.41
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (45 bp):
CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
Found at i:23750054 original size:14 final size:14
Alignment explanation
Indices: 23750000--23750057 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
23749990 AATGAAGGAA
*
23750000 ATAAACAAAAAAAAA
1 ATAAAC-AAAAAAAT
* *
23750015 ATCAACAAACAAATAA
1 ATAAACAAA-AAA-AT
23750031 ATAAACAAAAAAAT
1 ATAAACAAAAAAAT
*
23750045 ATAAAGAAAAAAA
1 ATAAACAAAAAAA
23750058 AGTGCATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 16 0.43
15 11 0.30
16 10 0.27
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.10
Consensus pattern (14 bp):
ATAAACAAAAAAAT
Found at i:23750234 original size:16 final size:17
Alignment explanation
Indices: 23750192--23750238 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
23750182 GATAGAAAGT
23750192 ATAACATATATATACGTAC
1 ATAA-ATATATA-ACGTAC
* *
23750211 ATATATATATAAGGTA-
1 ATAAATATATAACGTAC
23750227 ATAAATATATAA
1 ATAAATATATAA
23750239 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATATATAACGTAC
Found at i:23750854 original size:19 final size:19
Alignment explanation
Indices: 23750807--23750902 Score: 129
Period size: 19 Copynumber: 4.8 Consensus size: 19
23750797 AAATTAAATC
*
23750807 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
23750827 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
23750849 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
23750868 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
23750887 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
23750903 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 52 0.75
22 7 0.10
23 10 0.14
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:23761791 original size:27 final size:27
Alignment explanation
Indices: 23761745--23761821 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
23761735 GTGAGAATGA
23761745 CACTTCGGTGCAAATCAGTGATAGTGG
1 CACTTCGGTGCAAATCAGTGATAGTGG
* * *
23761772 CACTTTGGTGCAACTTAGTGATAGTGG
1 CACTTCGGTGCAAATCAGTGATAGTGG
* * * *
23761799 CACCTCGATGCAATTCAATGATA
1 CACTTCGGTGCAAATCAGTGATA
23761822 ATGTCTTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (27 bp):
CACTTCGGTGCAAATCAGTGATAGTGG
Found at i:23769272 original size:16 final size:18
Alignment explanation
Indices: 23769239--23769272 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
23769229 TAATATACAC
23769239 AAAAATTATCATAGTTTT
1 AAAAATTATCATAGTTTT
23769257 AAAAA-TATCA-AGTTTT
1 AAAAATTATCATAGTTTT
23769273 GTTGTCTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
AAAAATTATCATAGTTTT
Found at i:23774591 original size:27 final size:27
Alignment explanation
Indices: 23774513--23774591 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
23774503 AAGCAGTCCA
* * *
23774513 TTTAAAGTTCGCCTCAAAGGTTATTCT
1 TTTAGAGTTCACCACAAAGGTTATTCT
* * * *
23774540 TTCAGAATTCACCACAATGGCTATTCT
1 TTTAGAGTTCACCACAAAGGTTATTCT
23774567 TTTAGAGTTCACCACAAAGGTTATT
1 TTTAGAGTTCACCACAAAGGTTATT
23774592 GATCTATCGT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (27 bp):
TTTAGAGTTCACCACAAAGGTTATTCT
Found at i:23778616 original size:17 final size:18
Alignment explanation
Indices: 23778575--23778617 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23778565 CAAGATAAAA
*
23778575 ATAATTAAACAAAAATTGT
1 ATAA-TAAACAAAAATAGT
23778594 AT-ATAAAC-AAAATAGT
1 ATAATAAACAAAAATAGT
23778610 ATAATAAA
1 ATAATAAA
23778618 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 1 0.05
19 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAAACAAAAATAGT
Found at i:23780367 original size:45 final size:44
Alignment explanation
Indices: 23780254--23780759 Score: 183
Period size: 45 Copynumber: 11.7 Consensus size: 44
23780244 GGAATTGGTG
* * * *
23780254 CTTCAATCTACTCCACTGCCA-TGCCAGGGAAATAAGATTTGCTGT
1 CTTCAATCTACTCCACTGCAACT-TCAGGG-AATAAGACTTGCTAT
* *
23780299 CTTCAGTCTACTCCACCGCAACTTCATGGGAATAAGACTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCA-GGGAATAAGACTTGCTAT
* ** ** **
23780344 CTTCAATCCACTCCACTGCAACTTCAGGGAGAT-AGGGTTATTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * ** *
23780388 CTTTAATCTGCTCCACTGTAACTTCAAAGAGATAAGAC---CT-G
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * ** **
23780429 C--C-ATCTACCCCACT-CTAACTTCAGGGGGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGC-AACTTCA-GGGAATAAGACTTGCTAT
* * *
23780470 CTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGA-TTCGCCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTT-GCTAT
* * * *
23780515 ATTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAG-GGAATAAGACTTGCTAT
* * * ** **
23780560 CTTCAATCCACTCTACTGCAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * *
23780604 CTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAAGA--T-CT-T
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * * ** **
23780645 C--C-ATCTACCCCACTGTAACTTCAGGGGGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGCAACTTCA-GGGAATAAGACTTGCTAT
* * * * *
23780686 CTTTAATCTACTCCACTGCAACTTTAGGGAGTTAAGA-TTCACCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTT-GCTAT
* * *
23780731 CTTCAGTCTGCCCCACTGCAACTTCAGGG
1 CTTCAATCTACTCCACTGCAACTTCAGGG
23780760 GGATAAGATC
Statistics
Matches: 339, Mismatches: 94, Indels: 56
0.69 0.19 0.11
Matches are distributed among these distances:
38 43 0.13
39 5 0.01
40 2 0.01
41 6 0.02
42 2 0.01
43 6 0.02
44 123 0.36
45 143 0.42
46 9 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAATAAGACTTGCTAT
Found at i:23780411 original size:44 final size:44
Alignment explanation
Indices: 23780348--23780716 Score: 204
Period size: 44 Copynumber: 8.6 Consensus size: 44
23780338 TGCTATCTTC
* *
23780348 AATCCACTCCACTGCAACTTCAGGGAGATAGGGTTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
* * ** *
23780392 AATCTGCTCCACTGTAACTTCAAAGAGATA-AG--ACCT-GC---
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTA-TTGGCTTT
* * *
23780430 CATCTACCCCACT-CTAACTTCAGGGGGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGC-AACTTCAGGGAGATAGAG-TTATTGGCTTT
* *
23780474 AATCTACTCCACTGCAACTTCAAGGAGATA-AG--ATTCGCCATATT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATT-GGC-T-TT
* * * * ** ** *
23780518 CAGTCTGCCCCACTGCAACTTCAGTGGA-ATAAGACTTGCTATCTTC
1 -AATCTACTCCACTGCAACTTCAG-GGAGAT-AGAGTTATTGGCTTT
* *
23780564 AATCCACTCTACTGCAACTTCAGGGAGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAG-TTATTGGCTTT
* * * *
23780608 AAGCTGCTCTACTGCAACTTCAGGGAGATA-AG--A-T--CTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
* * * *
23780646 CATCTACCCCACTGTAACTTCAGGGGGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAG-TTATTGGCTTT
*
23780690 AATCTACTCCACTGCAACTTTAGGGAG
1 AATCTACTCCACTGCAACTTCAGGGAG
23780717 TTAAGATTCA
Statistics
Matches: 236, Mismatches: 58, Indels: 62
0.66 0.16 0.17
Matches are distributed among these distances:
38 50 0.21
40 2 0.01
41 11 0.05
42 4 0.02
43 2 0.01
44 116 0.49
45 42 0.18
46 5 0.02
47 2 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
Found at i:23780638 original size:216 final size:216
Alignment explanation
Indices: 23780300--23780767 Score: 740
Period size: 216 Copynumber: 2.2 Consensus size: 216
23780290 ATTTGCTGTC
* * *
23780300 TTCAGTCTACTCCACCGCAACTTCA-TGGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCA
1 TTCAGTCTGCCCCACTGCAACTTCAGT-GGAATAAGACTTGCTATCTTCAATCCACTCCACTGCA
* * *
23780364 ACTTCAGGGAGATAGGGTTATTGGCTTTAATCTGCTCCACTGTAACTTCAAAGAGATAAGACCTG
65 ACTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTG
23780429 CCATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTT
130 CCATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTT
*
23780494 CAAGGAGATAAGATTCGCCATA
195 CAAGGAGATAAGATTCACCATA
*
23780516 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCTACTGCAA
1 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCAA
* ** * *
23780581 CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAAGATCTTC
66 CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTGC
* *
23780646 CATCTACCCCACTGTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTT
131 CATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
* * *
23780711 AGGGAGTTAAGATTCACCATC
196 AAGGAGATAAGATTCACCATA
* *
23780732 TTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGA
1 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGA
23780768 TCTGTAGTTT
Statistics
Matches: 231, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 230 1.00
217 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (216 bp):
TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCAA
CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTGC
CATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
AAGGAGATAAGATTCACCATA
Found at i:23780731 original size:82 final size:82
Alignment explanation
Indices: 23780574--23780732 Score: 230
Period size: 82 Copynumber: 1.9 Consensus size: 82
23780564 AATCCACTCT
* *
23780574 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
*
23780639 GATCTTCCATCTACCCC
66 GATCTACCATCTACCCC
* * * * *
23780656 ACTGTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAGGGAGTTAA
1 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
23780721 GAT-TCACCATCT
66 GATCT-ACCATCT
23780733 TCAGTCTGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 67 0.99
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (82 bp):
ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
GATCTACCATCTACCCC
Found at i:23793260 original size:17 final size:18
Alignment explanation
Indices: 23793219--23793261 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23793209 CAAGATAAAA
*
23793219 ATAATTAAACAAAAATTGT
1 ATAA-TAAACAAAAATAGT
23793238 AT-ATAAAC-AAAATAGT
1 ATAATAAACAAAAATAGT
23793254 ATAATAAA
1 ATAATAAA
23793262 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 1 0.05
19 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAAACAAAAATAGT
Found at i:23794602 original size:6 final size:6
Alignment explanation
Indices: 23794591--23794626 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
23794581 GGCTAGACTA
23794591 GATTTG GATTTG GATTTGG GTATTTG GATTTG GATT
1 GATTTG GATTTG GATTT-G G-ATTTG GATTTG GATT
23794627 AATGTAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 20 0.71
7 4 0.14
8 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GATTTG
Found at i:23794637 original size:20 final size:20
Alignment explanation
Indices: 23794594--23794637 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
23794584 TAGACTAGAT
** *
23794594 TTGGATTTGGATTTGGGTAT
1 TTGGATTTGGATTAAGGTAA
*
23794614 TTGGATTTGGATTAATGTAA
1 TTGGATTTGGATTAAGGTAA
23794634 TTGG
1 TTGG
23794638 GCCACATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (20 bp):
TTGGATTTGGATTAAGGTAA
Found at i:23803638 original size:2 final size:2
Alignment explanation
Indices: 23803631--23803657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23803621 CACATTGCTT
23803631 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
23803658 TTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23805447 original size:244 final size:245
Alignment explanation
Indices: 23805007--23805495 Score: 971
Period size: 244 Copynumber: 2.0 Consensus size: 245
23804997 AAAATATAAA
23805007 AAAATATAAATATAAATATTTTTTATTTTGTAAAAAAAATAGGATTTTAATTTTTTTCCTATTTC
1 AAAATATAAATATAAATATTTTTTATTTTGTAAAAAAAATAGGATTTTAATTTTTTTCCTATTTC
23805072 AGTTAGTGTATGGTTGACTTCTAATATCAACTTAATCAAAAAATTAAATAATAGTGTCACAACTA
66 AGTTAGTGTATGGTTGACTTCTAATATCAACTTAATCAAAAAATTAAATAATAGTGTCACAACTA
23805137 ATATTAAGTCCTTTACTAAATTTGGTGTCACGAGTCCTAACACCAACTCAATTGGTTAAATTACT
131 ATATTAAGTCCTTTACTAAATTTGGTGTCACGAGTCCTAACACCAACTCAATTGGTTAAATTACT
23805202 AATTAACCTTTCATATTTAAAAAATATTATATTATTTTACGAAGATATTT
196 AATTAACCTTTCATATTTAAAAAATATTATATTATTTTACGAAGATATTT
23805252 AAAATATAAA-ATAAATATTTTTTATTTTGTAAAAAAAATAGGATTTTAATTTTTTTCCTATTTC
1 AAAATATAAATATAAATATTTTTTATTTTGTAAAAAAAATAGGATTTTAATTTTTTTCCTATTTC
23805316 AGTTAGTGTATGGTTGACTTCTAATATCAACTTAATCAAAAAATTAAATAATAGTGTCACAACTA
66 AGTTAGTGTATGGTTGACTTCTAATATCAACTTAATCAAAAAATTAAATAATAGTGTCACAACTA
23805381 ATATTAAGTCCTTTACTAAATTTGGTGTCACGAGTCCTAACACCAACTCAATTGGTTAAATTACT
131 ATATTAAGTCCTTTACTAAATTTGGTGTCACGAGTCCTAACACCAACTCAATTGGTTAAATTACT
23805446 AATTAACCTTTCATATTTAAAAAATATTATATTATTTTACGAAGATATTT
196 AATTAACCTTTCATATTTAAAAAATATTATATTATTTTACGAAGATATTT
23805496 TTATCTTTTC
Statistics
Matches: 244, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
244 234 0.96
245 10 0.04
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (245 bp):
AAAATATAAATATAAATATTTTTTATTTTGTAAAAAAAATAGGATTTTAATTTTTTTCCTATTTC
AGTTAGTGTATGGTTGACTTCTAATATCAACTTAATCAAAAAATTAAATAATAGTGTCACAACTA
ATATTAAGTCCTTTACTAAATTTGGTGTCACGAGTCCTAACACCAACTCAATTGGTTAAATTACT
AATTAACCTTTCATATTTAAAAAATATTATATTATTTTACGAAGATATTT
Found at i:23806509 original size:114 final size:113
Alignment explanation
Indices: 23806341--23806610 Score: 271
Period size: 114 Copynumber: 2.4 Consensus size: 113
23806331 TTCTATGCTT
* *
23806341 CTTTCATTTCTTTAGTGGCGCTTTTAAAAAAAT-GCCGCAATAGAACATGATTTAGCGGCGC-AA
1 CTTTCATTTCTTTAGTGGCGC-TTTAATAAAATCGCCGCAATAGAACAGGATTTAGCGGCGCTAA
* * *
23806404 TATAGAAAACGCCGCAAAAGAATTTGAGCTAA-ACGGCTTCGTTTTTTTTTC
65 TATAG-AAACGCCGCAAAAGAATTTCAG-TAATACGACTTCG-TTTTATTTC
* ** * * *
23806455 CTTTTATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAG-ATGGGCCTTTAGCTGCGCTTA
1 CTTTCATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAGAACAGG-ATTTAGCGGCGCTAA
* * *
23806519 TGTAGAAATGCCGCAAAATAATTTCAGTAATACGACTTCGTTTTATTTC
65 TATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
* * * * *
23806568 CATTTGATTTTTTTTGTGGCGC-TTACTAACAAACGCCGCAATA
1 C-TTTCATTTCTTTAGTGGCGCTTTAATAA-AATCGCCGCAATA
23806611 TAACGCTCTT
Statistics
Matches: 131, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
113 30 0.23
114 96 0.73
115 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (113 bp):
CTTTCATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAGAACAGGATTTAGCGGCGCTAAT
ATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
Found at i:23807068 original size:27 final size:27
Alignment explanation
Indices: 23807030--23807083 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
23807020 TATTATTTTG
*
23807030 TGATTAGAGTTTTGAGTTTAGGGTTTA
1 TGATTAGAGTTTAGAGTTTAGGGTTTA
* *
23807057 TGATGTAG-GTTTAGTGTTTTGGGTTTA
1 TGAT-TAGAGTTTAGAGTTTAGGGTTTA
23807084 GGGTTTGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
TGATTAGAGTTTAGAGTTTAGGGTTTA
Found at i:23807098 original size:21 final size:20
Alignment explanation
Indices: 23807074--23807128 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
23807064 GGTTTAGTGT
*
23807074 TTTGGGTTTAGGGTTTGGGAG
1 TTTGGGTTTAGGATTTGGG-G
*
23807095 TTTGAGGTTTAAGATTTGGGG
1 TTTG-GGTTTAGGATTTGGGG
23807116 TTTGGGGTTTAGG
1 TTT-GGGTTTAGG
23807129 CCACTTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (20 bp):
TTTGGGTTTAGGATTTGGGG
Found at i:23809527 original size:70 final size:70
Alignment explanation
Indices: 23809427--23809568 Score: 277
Period size: 69 Copynumber: 2.0 Consensus size: 70
23809417 GTCGTGCTTT
23809427 ATTTTATTTTCATTTTTTTGAATTGGTTTTTTTGTATACTGCGTTGGTCTGCATGTAAGAGGGTT
1 ATTTTATTTTCATTTTTTTGAATTGGTTTTTTTGTATACTGCGTTGGTCTGCATGTAAGAGGGTT
23809492 GGACA
66 GGACA
23809497 ATTTTATTTTCA-TTTTTTGAATTGGTTTTTTTGTATACTGCGTTGGTCTGCATGTAAGAGGGTT
1 ATTTTATTTTCATTTTTTTGAATTGGTTTTTTTGTATACTGCGTTGGTCTGCATGTAAGAGGGTT
23809561 GGACA
66 GGACA
23809566 ATT
1 ATT
23809569 CTGTTTTGGG
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 60 0.83
70 12 0.17
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (70 bp):
ATTTTATTTTCATTTTTTTGAATTGGTTTTTTTGTATACTGCGTTGGTCTGCATGTAAGAGGGTT
GGACA
Found at i:23809691 original size:21 final size:21
Alignment explanation
Indices: 23809667--23809739 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
23809657 GTTTTGGGAC
23809667 TATTTATTTATATTTTCAGTG
1 TATTTATTTATATTTTCAGTG
23809688 TATTTAATATTATTGATATTAT-A-T-
1 TATTT-AT-TTA-T-AT-TT-TCAGTG
*
23809712 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTTCAGTG
23809733 TATTTAT
1 TATTTAT
23809740 ATAAACATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 18
0.69 0.02 0.30
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 2 0.05
21 13 0.31
22 5 0.12
23 5 0.12
24 6 0.14
25 3 0.07
26 3 0.07
27 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (21 bp):
TATTTATTTATATTTTCAGTG
Found at i:23816523 original size:21 final size:20
Alignment explanation
Indices: 23816494--23816545 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
23816484 GCTACAACTT
*
23816494 AAAGAAGAGGCGGCAGCGAGG
1 AAAGCAGAGGCGGCAGCGA-G
*
23816515 AAAGCAGAGGCTGCAGCGAG
1 AAAGCAGAGGCGGCAGCGAG
23816535 AGAAGCAGAGG
1 A-AAGCAGAGG
23816546 TTCAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.38, C:0.15, G:0.44, T:0.02
Consensus pattern (20 bp):
AAAGCAGAGGCGGCAGCGAG
Found at i:23817069 original size:43 final size:43
Alignment explanation
Indices: 23816940--23817122 Score: 156
Period size: 43 Copynumber: 4.3 Consensus size: 43
23816930 TCATGTTCTA
* * * * **
23816940 TAGCGGCGTTTGTGGAAAAAATCGCCGCTAAAGAACATTATTTT
1 TAGCGGCGTTTGTTG-TAAAAGCGCCGCTAAAGAACATGACCTT
* * * * *
23816984 TAGCTGCATTTG-TGGAGAAAGGGCCGCTAAATG-TCATGACCTT
1 TAGCGGCGTTTGTTGTA-AAAGCGCCGCTAAA-GAACATGACCTT
* * *
23817027 TAGCAGCGTTTGTTGTAAAAGCGCCGCTAAAGAATATTACCTT
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
* * **
23817070 TAGTGGCGTTT-TTTTTGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
23817112 TAGCGGCGTTT
1 TAGCGGCGTTT
23817123 ATTTCTGTAA
Statistics
Matches: 110, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
42 38 0.35
43 58 0.53
44 14 0.13
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:23819448 original size:16 final size:15
Alignment explanation
Indices: 23819410--23819455 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
23819400 ATCATTAAGG
23819410 TTTAAT-TTTATATAT
1 TTTAATATTTAT-TAT
23819425 TTTAATATTTATTAT
1 TTTAATATTTATTAT
23819440 TTTACATATTTATTAT
1 TTTA-ATATTTATTAT
23819456 ACATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATATTTATTAT
Found at i:23819600 original size:47 final size:47
Alignment explanation
Indices: 23819542--23819634 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
23819532 ACATACAAAA
*
23819542 ATTATTATTTACTTTTCCTGTTAATAAAATTTTAATATAAATATGCT
1 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
23819589 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
1 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
23819635 AAGACTAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (47 bp):
ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
Found at i:23821716 original size:6 final size:6
Alignment explanation
Indices: 23821701--23821730 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
23821691 TGGAGTTAGG
*
23821701 ATCTGA ATCTGT ATCTGT ATCTGT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
23821731 TTTGCATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
ATCTGT
Found at i:23823778 original size:9 final size:9
Alignment explanation
Indices: 23823766--23823804 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
23823756 TCAATTCAGT
*
23823766 TAATTAGGG
1 TAATTCGGG
23823775 TAATTCGGG
1 TAATTCGGG
*
23823784 TAATTCGGT
1 TAATTCGGG
23823793 TAATTCGGG
1 TAATTCGGG
23823802 TAA
1 TAA
23823805 GTCAGCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:23823814 original size:18 final size:18
Alignment explanation
Indices: 23823775--23823815 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23823765 TTAATTAGGG
* * *
23823775 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAAGTCAGC
23823793 TAATTCGGGTAAGTCAGC
1 TAATTCGGGTAAGTCAGC
23823811 TAATT
1 TAATT
23823816 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (18 bp):
TAATTCGGGTAAGTCAGC
Found at i:23823814 original size:27 final size:27
Alignment explanation
Indices: 23823758--23823815 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23823748 GTAGTGATTC
* * *
23823758 AATTCAGTTAATTAGGGTAATTCGGGT
1 AATTCAGTTAATTAGGGTAAGTCAGCT
* *
23823785 AATTCGGTTAATTCGGGTAAGTCAGCT
1 AATTCAGTTAATTAGGGTAAGTCAGCT
23823812 AATT
1 AATT
23823816 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (27 bp):
AATTCAGTTAATTAGGGTAAGTCAGCT
Found at i:23823915 original size:73 final size:74
Alignment explanation
Indices: 23823813--23823960 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 74
23823803 AAGTCAGCTA
23823813 ATTTTTAACCAAAAATAAAAAAACATATAATTTTCGGTTAATTTGGTTAACCGACCGAATTAACC
1 ATTTTTAACC-AAAATAAAAAAACATATAATTTTCGGTTAATTTGGTTAACCGACCGAATTAACC
23823878 GAAAAAATTT
65 GAAAAAATTT
23823888 ATTTTTAACC-AAATAAAAAAACATATAATTTTCGGTTAATTTGGTTAACCGACCGAATTAACCG
1 ATTTTTAACCAAAATAAAAAAACATATAATTTTCGGTTAATTTGGTTAACCGACCGAATTAACCG
23823952 AAAAAATTT
66 AAAAAATTT
23823961 CGATTCGGTT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 63 0.86
75 10 0.14
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (74 bp):
ATTTTTAACCAAAATAAAAAAACATATAATTTTCGGTTAATTTGGTTAACCGACCGAATTAACCG
AAAAAATTT
Found at i:23826698 original size:62 final size:58
Alignment explanation
Indices: 23826594--23826720 Score: 182
Period size: 62 Copynumber: 2.1 Consensus size: 58
23826584 ATCACTTTAA
* * *
23826594 TATTAAATTAGTATAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAATTAAATTTAATATTAAATC
*
23826652 TTATTAAATTAGTAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAATC
1 -TATTAAATTAGTAGAATACTTA--TA-AAGATAAACATTAAATTAAATTTAATATTAAATC
23826714 TATTAAA
1 TATTAAA
23826721 ATAATATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 20 0.33
61 9 0.15
62 32 0.52
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (58 bp):
TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAATTAAATTTAATATTAAATC
Found at i:23830849 original size:3 final size:3
Alignment explanation
Indices: 23830841--23831030 Score: 380
Period size: 3 Copynumber: 63.3 Consensus size: 3
23830831 GTAGACAGGG
23830841 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23830889 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23830937 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23830985 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23831031 GTAGGGGACA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 187 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23831579 original size:53 final size:53
Alignment explanation
Indices: 23831503--23831776 Score: 246
Period size: 53 Copynumber: 5.7 Consensus size: 53
23831493 TTAGATTTTG
23831503 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * *
23831555 TTACTAACAATTAATACAATTAACAATTAATAATTT--TACTAA---CAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
23831604 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * *
23831648 TTACTAACAATTAATACAATTAACAATTAATAATTT--TACTAA---CAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
23831697 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
*
23831741 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
23831777 TACTAACAAA
Statistics
Matches: 176, Mismatches: 15, Indels: 61
0.70 0.06 0.24
Matches are distributed among these distances:
40 24 0.14
41 6 0.03
42 4 0.02
43 2 0.01
44 31 0.18
45 2 0.01
46 2 0.01
47 2 0.01
48 2 0.01
49 30 0.17
50 2 0.01
51 4 0.02
52 10 0.06
53 55 0.31
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (53 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
Found at i:23831616 original size:40 final size:40
Alignment explanation
Indices: 23831570--23831723 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 40
23831560 AACAATTAAT
23831570 ACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
1 ACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
* * * * *
23831610 ACAATTAATAATTAATAATTTGATA-TAATTTGATAATTTTACTAACAATTAA
1 ACAATTAACAATTAATAATTT--TACTAA---CA-AAATGT--T----AGT-A
23831662 TACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
1 -ACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
*
23831703 ACAATTAATAATTAATAATTT
1 ACAATTAACAATTAATAATTT
23831724 GATATAATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
40 40 0.45
41 4 0.05
42 4 0.05
44 1 0.01
45 4 0.05
46 1 0.01
47 1 0.01
48 4 0.05
49 1 0.01
51 4 0.05
52 4 0.05
53 20 0.23
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (40 bp):
ACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
Found at i:23831617 original size:33 final size:33
Alignment explanation
Indices: 23831575--23831715 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
23831565 TTAATACAAT
23831575 TAACAATTAATAATTTTACTAACAAAATGTTAG
1 TAACAATTAATAATTTTACTAACAAAATGTTAG
* ** *
23831608 TAACAATTAATAA---T--TAATAATTTGATA-
1 TAACAATTAATAATTTTACTAACAAAATGTTAG
* * *** *
23831635 T-A-ATTTGATAATTTTACTAACAATTAATACAAT
1 TAACAATTAATAATTTTACTAACAA--AATGTTAG
23831668 TAACAATTAATAATTTTACTAACAAAATGTTAG
1 TAACAATTAATAATTTTACTAACAAAATGTTAG
23831701 TAACAATTAATAATT
1 TAACAATTAATAATT
23831716 AATAATTTGA
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
25 7 0.09
26 1 0.01
27 1 0.01
28 10 0.12
30 6 0.08
32 2 0.03
33 33 0.41
34 1 0.01
35 19 0.24
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (33 bp):
TAACAATTAATAATTTTACTAACAAAATGTTAG
Found at i:23831625 original size:93 final size:93
Alignment explanation
Indices: 23831517--23831793 Score: 527
Period size: 93 Copynumber: 3.0 Consensus size: 93
23831507 AACAATTAAT
*
23831517 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
23831582 TAATAATTTTACTAACAAAATGTTAGTA
66 TAATAATTTTACTAACAAAATGTTAGTA
23831610 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
23831675 TAATAATTTTACTAACAAAATGTTAGTA
66 TAATAATTTTACTAACAAAATGTTAGTA
*
23831703 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
23831768 TAATAATTTTACTAACAAAATATTAG
66 TAATAATTTTACTAACAAAATGTTAG
23831794 ATTTTACAAA
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 181 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (93 bp):
ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAACAAAATGTTAGTA
Found at i:23831663 original size:44 final size:44
Alignment explanation
Indices: 23831604--23831756 Score: 177
Period size: 44 Copynumber: 3.4 Consensus size: 44
23831594 TAACAAAATG
23831604 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
* * * *
23831648 TTACTAACAATTAATACAATTAACAA-TT-A-ATAATTTTACTAACAAAATG
1 TTAGTAACAATTAAT--AATTAATAATTTGATATAATTTGA-T-----AATT
23831697 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
23831741 TTAGTAACAATTAATA
1 TTAGTAACAATTAATA
23831757 CAATTAACAA
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
43 8 0.09
44 35 0.39
45 2 0.02
46 8 0.09
47 8 0.09
48 2 0.02
49 19 0.21
50 8 0.09
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (44 bp):
TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
Found at i:23831690 original size:19 final size:19
Alignment explanation
Indices: 23831642--23831692 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
23831632 ATATAATTTG
23831642 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
23831661 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
23831677 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
23831693 AATGTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
19 10 0.40
20 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:23831863 original size:22 final size:23
Alignment explanation
Indices: 23831838--23831897 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
23831828 AATTTGATAC
* *
23831838 AATTTTAATAACAAT-TAATTTT
1 AATTTTAATAAAAATAGAATTTT
23831860 AATTTTAATAAAAATAGAATTTT
1 AATTTTAATAAAAATAGAATTTT
*
23831883 AGTTTTAATTAAAAA
1 AATTTTAA-TAAAAA
23831898 ACGGCCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 14 0.42
23 13 0.39
24 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTTTAATAAAAATAGAATTTT
Found at i:23837388 original size:19 final size:20
Alignment explanation
Indices: 23837366--23837403 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23837356 GGGCAAACTT
*
23837366 TTAATTAAAT-AAATAAAAC
1 TTAAATAAATAAAATAAAAC
23837385 TTAAATAAATAAAATAAAA
1 TTAAATAAATAAAATAAAA
23837404 ATAATGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAATAAATAAAATAAAAC
Found at i:23837390 original size:15 final size:15
Alignment explanation
Indices: 23837370--23837398 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23837360 AAACTTTTAA
23837370 TTAAATAAATAAAAC
1 TTAAATAAATAAAAC
23837385 TTAAATAAATAAAA
1 TTAAATAAATAAAA
23837399 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAATAAATAAAAC
Found at i:23838381 original size:40 final size:40
Alignment explanation
Indices: 23838324--23838548 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
23838314 GAAAATTTCT
* *
23838324 CTGAATGCATATACGTGCCCTTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * **
23838364 CTGAATGCAAATGCGTGCCCCTGTTTGTACTTCGGTATTC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
23838404 CTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
23838444 CTAAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
23838484 CTGAATGCACATATGTGCCCCTATTTGTACTTCGGTATCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
23838524 TTAAATGCACATGCATGCCCCTGTT
1 CTGAATGCACATACGTGCCCCTGTT
23838549 CTGCATCTAT
Statistics
Matches: 157, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:23838540 original size:120 final size:120
Alignment explanation
Indices: 23838327--23838548 Score: 374
Period size: 120 Copynumber: 1.9 Consensus size: 120
23838317 AATTTCTCTG
* * *
23838327 AATGCATATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATGCGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
*
23838392 ACTTCGGTATTCCTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
66 ACTTCGGTATTCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
* *
23838447 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTGT
1 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
23838512 ACTTCGGTA-TCCTTAAATGCACATGCATGCCCCTGTT
66 ACTTCGGTATTCC-TAAATGCACATGCATGCCCCTGTT
23838549 CTGCATCTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.03
120 92 0.97
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (120 bp):
AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
ACTTCGGTATTCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
Found at i:23842453 original size:20 final size:20
Alignment explanation
Indices: 23842400--23842455 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
23842390 CTAGTATTTC
*
23842400 AGACAAGATGCCAGTATTGT
1 AGACAAGCTGCCAGTATTGT
* **
23842420 GGACAAGCCACCAG-AGTTGT
1 AGACAAGCTGCCAGTA-TTGT
23842440 AGACAAGCTGCCAGTA
1 AGACAAGCTGCCAGTA
23842456 CTTCCTCCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (20 bp):
AGACAAGCTGCCAGTATTGT
Found at i:23843986 original size:16 final size:16
Alignment explanation
Indices: 23843965--23844018 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
23843955 TTTGGTTCGC
23843965 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
23843981 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
*
23843997 TGTAATGGAACAGAGG
1 TGTAATGGAATAGAGG
*
23844013 CGTAAT
1 TGTAAT
23844019 AGTAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:23853654 original size:14 final size:14
Alignment explanation
Indices: 23853635--23853666 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23853625 CATCGATGAA
*
23853635 GACCACGATGAGCT
1 GACCACGACGAGCT
23853649 GACCACGACGAGCT
1 GACCACGACGAGCT
23853663 GACC
1 GACC
23853667 TAGATACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.09
Consensus pattern (14 bp):
GACCACGACGAGCT
Found at i:23857530 original size:26 final size:26
Alignment explanation
Indices: 23857462--23857539 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
23857452 AACACAACTC
* *
23857462 TTATGAGCGTCTCGATATATA-GCTCT
1 TTATGAGCTTCTCGAT-TAAAGGCTCT
*
23857488 TTGTGAGCTTCTCGATTAAAGGCTCT
1 TTATGAGCTTCTCGATTAAAGGCTCT
* *
23857514 TTATGAGTTTC-CTGATTAATGGCTCT
1 TTATGAGCTTCTC-GATTAAAGGCTCT
23857540 CCGAAGCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (26 bp):
TTATGAGCTTCTCGATTAAAGGCTCT
Found at i:23865463 original size:3 final size:3
Alignment explanation
Indices: 23865455--23865495 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
23865445 GAAGGAAGAG
* * *
23865455 GAT GAT GAT GAT GAT GAT GAT AAT GAT GAG GAT GAG GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
23865496 GACCTTGGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:23868801 original size:5 final size:5
Alignment explanation
Indices: 23868793--23868837 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
23868783 AGTTTCCCTT
23868793 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
23868838 ATCATGCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CCATA
Found at i:23871535 original size:54 final size:54
Alignment explanation
Indices: 23871461--23871570 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
23871451 TCGTCTTAAT
* *
23871461 TGTTGGAATACTGCTTCTTTTGAAT-ATATATTTTTATGTTTAAATCAATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCAT-TATTTATATGTTTAAATCAACTGTTA
* * *
23871515 TGTTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGACTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATC-ATTATTTATATGTTTAAATCAACTGTTA
23871570 T
1 T
23871571 ATAGCACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 24 0.49
55 23 0.47
56 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (54 bp):
TGTTGGAATACTGCTTCTTTTGAATCATTATTTATATGTTTAAATCAACTGTTA
Found at i:23873647 original size:5 final size:5
Alignment explanation
Indices: 23873637--23873831 Score: 390
Period size: 5 Copynumber: 39.0 Consensus size: 5
23873627 NNNNNNNNNN
23873637 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
23873687 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
23873737 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
23873787 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
23873832 ATCATGCATA
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 190 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CCATA
Found at i:23876515 original size:54 final size:54
Alignment explanation
Indices: 23876441--23876550 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
23876431 TCGTCTTAAT
* *
23876441 TGTTGGAATACTGCTTCTTTTGAAT-ATATATTTTTATGTTTAAATCAATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCAT-TATTTATATGTTTAAATCAACTGTTA
* * *
23876495 TGTTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGACTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATC-ATTATTTATATGTTTAAATCAACTGTTA
23876550 T
1 T
23876551 ATAGCACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 24 0.49
55 23 0.47
56 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (54 bp):
TGTTGGAATACTGCTTCTTTTGAATCATTATTTATATGTTTAAATCAACTGTTA
Found at i:23881838 original size:9 final size:9
Alignment explanation
Indices: 23881816--23881869 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
23881806 TGGTTAAAAA
23881816 TTAACCGA-
1 TTAACCGAT
23881824 TTAACCGAT
1 TTAACCGAT
23881833 TTAACCGAT
1 TTAACCGAT
23881842 TTAACCGA-
1 TTAACCGAT
*
23881850 TTAATCGAT
1 TTAACCGAT
23881859 TTAACCGAT
1 TTAACCGAT
23881868 TT
1 TT
23881870 TCTATATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
8 15 0.36
9 27 0.64
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (9 bp):
TTAACCGAT
Found at i:23881838 original size:17 final size:17
Alignment explanation
Indices: 23881815--23881868 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
23881805 TTGGTTAAAA
23881815 ATTAACCGA-TTAACCG
1 ATTAACCGATTTAACCG
23881831 ATTTAACCGATTTAACCG
1 A-TTAACCGATTTAACCG
*
23881849 ATTAATCGATTTAACCG
1 ATTAACCGATTTAACCG
23881866 ATT
1 ATT
23881869 TTCTATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 1 0.03
17 26 0.74
18 8 0.23
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (17 bp):
ATTAACCGATTTAACCG
Found at i:23881845 original size:26 final size:26
Alignment explanation
Indices: 23881816--23881869 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
23881806 TGGTTAAAAA
23881816 TTAACCGATTAACCGATTTAACCGAT
1 TTAACCGATTAACCGATTTAACCGAT
*
23881842 TTAACCGATTAATCGATTTAACCGAT
1 TTAACCGATTAACCGATTTAACCGAT
23881868 TT
1 TT
23881870 TCTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (26 bp):
TTAACCGATTAACCGATTTAACCGAT
Found at i:23881886 original size:17 final size:18
Alignment explanation
Indices: 23881866--23881907 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
23881856 GATTTAACCG
23881866 ATTTT-CTATATAATGTT
1 ATTTTGCTATATAATGTT
23881883 ATTTTATTGCTATATAATGTT
1 A--TT-TTGCTATATAATGTT
23881904 ATTT
1 ATTT
23881908 AACCGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 1 0.05
18 1 0.05
19 4 0.19
20 2 0.10
21 13 0.62
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTGCTATATAATGTT
Found at i:23882544 original size:13 final size:13
Alignment explanation
Indices: 23882522--23882551 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23882512 TTGTTAGAGA
*
23882522 TTTAGTCTTTAGT
1 TTTAGACTTTAGT
23882535 TTTAGACTTTAGT
1 TTTAGACTTTAGT
23882548 TTTA
1 TTTA
23882552 TTGGATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
TTTAGACTTTAGT
Found at i:23882606 original size:44 final size:44
Alignment explanation
Indices: 23882537--23882699 Score: 229
Period size: 44 Copynumber: 3.5 Consensus size: 44
23882527 TCTTTAGTTT
23882537 TAGACTTTAGTTTTATTG-GATTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAG-TTTATTGAG-TTGGTAAATGGTAATTGGGTTTGGG
23882582 TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
*
23882626 TAGACTTTAGTTTATTGGGTTGGTACTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTA-----TT-G-AGTTGGTAAATGGTAATTGGGTTTGGG
23882677 TAGACTTTAGTTTATTGAGTTGG
1 TAGACTTTAGTTTATTGAGTTGG
23882700 GTAATTGAGT
Statistics
Matches: 108, Mismatches: 2, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
44 51 0.47
45 12 0.11
46 2 0.02
49 2 0.02
50 1 0.01
51 40 0.37
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.44
Consensus pattern (44 bp):
TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
Found at i:23882656 original size:51 final size:51
Alignment explanation
Indices: 23882601--23882699 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
23882591 GTTTATTGAG
*
23882601 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTGGTAC
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGGTAC
23882652 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGG
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGG
23882700 GTAATTGAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (51 bp):
TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGGTAC
Found at i:23884653 original size:43 final size:42
Alignment explanation
Indices: 23884578--23884741 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
23884568 CAAAAAGCTC
* ** *
23884578 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
* * * *
23884620 ATAACGATGCCACTGTCCCGGACAAGGTTTTACACGTAATCAT
1 AT-ACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
* * *
23884663 ATACGATGCCAATGTCCCAAACATGCTCTTACACGTAAATCGTAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGT-AATC--AA
* **
23884708 AT-CGATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACG
23884742 ATATCACATA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 30 0.30
43 38 0.38
44 28 0.28
45 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
Found at i:23893491 original size:49 final size:49
Alignment explanation
Indices: 23893436--23893536 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
23893426 AAAAATTCTA
*
23893436 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAATTACTAAAAAACAAC
1 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
* * * * *
23893485 AAAAAAAATCACTTTAATGGAGGGTATGAGAAAAGTACTTAAACACAAC
1 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
23893534 AAA
1 AAA
23893537 TGATTCAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.18
Consensus pattern (49 bp):
AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
Found at i:23895136 original size:26 final size:27
Alignment explanation
Indices: 23895099--23895149 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
23895089 ACCATAACAC
23895099 AAATCAGTCATTTACCCTCAAGGGGTA
1 AAATCAGTCATTTACCCTCAAGGGGTA
*
23895126 AAAT-AGTCATTTACCCTCTAGGGG
1 AAATCAGTCATTTACCCTCAAGGGG
23895150 CATTACGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCAAGGGGTA
Found at i:23900562 original size:16 final size:16
Alignment explanation
Indices: 23900541--23900575 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23900531 CTTTAAAGGG
*
23900541 ATTATAGACATACATT
1 ATTATAGACATACAAT
23900557 ATTATAGACATACAAT
1 ATTATAGACATACAAT
23900573 ATT
1 ATT
23900576 GTGGACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTATAGACATACAAT
Found at i:23901784 original size:29 final size:30
Alignment explanation
Indices: 23901736--23901800 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
23901726 ATGGGACCTG
* *
23901736 AATTTTGAAAATTGAAAAATA-AAGAGATTA
1 AATTTTGAAAAATGAAAAATATAA-AAATTA
*
23901766 AATTTTTAAAAAT-AAAAATATAAAAATTA
1 AATTTTGAAAAATGAAAAATATAAAAATTA
23901795 AATTTT
1 AATTTT
23901801 AGATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (30 bp):
AATTTTGAAAAATGAAAAATATAAAAATTA
Found at i:23904516 original size:29 final size:29
Alignment explanation
Indices: 23904483--23904544 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
23904473 CTCACTACAA
**
23904483 AGGCTTTTTTGTCCAAAATTTTGCCACAG
1 AGGCTTTCCTGTCCAAAATTTTGCCACAG
* * *
23904512 AGGCTTTCCTGTCCAAACTTTTGCTAGAG
1 AGGCTTTCCTGTCCAAAATTTTGCCACAG
23904541 AGGC
1 AGGC
23904545 GTCCATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (29 bp):
AGGCTTTCCTGTCCAAAATTTTGCCACAG
Found at i:23905872 original size:92 final size:92
Alignment explanation
Indices: 23905677--23905933 Score: 414
Period size: 92 Copynumber: 2.8 Consensus size: 92
23905667 CAATTGGGAA
* * * *
23905677 ATAAAAATAATTGAATGAAACAGTAGATTAAATCAAATATATGCTTCAATTATTAAAGAG----A
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
23905738 AAGTTTTCATCTTATAATCCCAACCCT
66 AAGTTTTCATCTTATAATCCCAACCCT
23905765 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
*
23905830 AATTTTTCATCTTATAATCCCAACCCT
66 AAGTTTTCATCTTATAATCCCAACCCT
* * *
23905857 ATAAAAGCAATTGAATGAAATAGTAGATTAAATTAAACATATGCTTCAATCATTAAAGAGAATAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
23905922 AAGTTTTCATCT
66 AAGTTTTCATCT
23905934 ATGGTGGTTG
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
88 56 0.36
92 100 0.64
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (92 bp):
ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
AAGTTTTCATCTTATAATCCCAACCCT
Found at i:23909965 original size:23 final size:23
Alignment explanation
Indices: 23909934--23909984 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
23909924 ACCTACTTTC
*
23909934 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
23909957 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
23909980 TTACA
1 TTACA
23909985 CTTCAGCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:23916559 original size:60 final size:60
Alignment explanation
Indices: 23916462--23916585 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
23916452 CTCGGTCATC
* * *
23916462 TATCACCCTATGAACATGAGGATTAGCGCCCTAACCATT-GAAATTATCATTGATACCAGG
1 TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCG-AATTATCATTGAGACCAGG
* * * *
23916522 TATCACCCTATGAACAAGAGGATTAGCATCTTGACCATTCGGATTATCATTGAGACCAGG
1 TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCGAATTATCATTGAGACCAGG
23916582 -ATCA
1 TATCA
23916586 TTCCCGTTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 4 0.07
60 51 0.91
61 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (60 bp):
TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCGAATTATCATTGAGACCAGG
Found at i:23925044 original size:18 final size:19
Alignment explanation
Indices: 23925013--23925081 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
23925003 TTTGCTATTA
*
23925013 TTATTATTTTTACTACTAT
1 TTATTATTTATACTACTAT
*
23925032 TTATTA-TTATACTGCTAT
1 TTATTATTTATACTACTAT
* * *
23925050 GTACCTATTTATA-TATTATT
1 TTA-TTATTTATACTACTA-T
23925070 TTATTATATTAT
1 TTATTAT-TTAT
23925082 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 12 0.32
19 14 0.37
20 12 0.32
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATTATTTATACTACTAT
Found at i:23930285 original size:32 final size:28
Alignment explanation
Indices: 23930221--23930292 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
23930211 GTTCAGATTC
*
23930221 AAAAAAAAAAGATCAAAATAAAAAAAAAG
1 AAAAGAAAAA-ATCAAAATAAAAAAAAAG
*
23930250 AAAAGAAAAAATCACAATCAAAACAAAATATG
1 AAAAGAAAAAATCAAAAT-AAAA-AAAA-A-G
*
23930282 AAAAGAGAAAA
1 AAAAGAAAAAA
23930293 GGAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.19
29 13 0.36
30 4 0.11
31 1 0.03
32 11 0.31
ACGTcount: A:0.76, C:0.07, G:0.08, T:0.08
Consensus pattern (28 bp):
AAAAGAAAAAATCAAAATAAAAAAAAAG
Found at i:23932038 original size:86 final size:86
Alignment explanation
Indices: 23931893--23932430 Score: 765
Period size: 86 Copynumber: 6.2 Consensus size: 86
23931883 CAGTGAAGAT
* * * * * * *
23931893 AGCAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGATTAAAAACAAAGCCTTGCCTCCATTGGT
1 AGCAGATCTTGCTTTCCTGCACTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGAT
*
23931958 TGCAGTAGAGCTGGTTAAAGA
66 TGCAGTAGAGCTGGTTAAAAA
* * *
23931979 AGCAGATCTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATTGAT
1 AGCAGATCTTGCTTTCCTGCACTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGAT
23932044 TGCAGTAGAGCTGGTTAAAAA
66 TGCAGTAGAGCTGGTTAAAAA
* *
23932065 AGCAGATCTTGCTTTCCTGC-CTTAACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGA
1 AGCAGATCTTGCTTTCCTGCAC-TAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGA
23932129 TTGCAGTAGAGCTGGTTAAAAA
65 TTGCAGTAGAGCTGGTTAAAAA
* *
23932151 AGCAGATCTTGCTTTCCTGC-CTTAACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGA
1 AGCAGATCTTGCTTTCCTGCAC-TAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGA
23932215 TTGCAGTAGAGCTGGTTAAAAA
65 TTGCAGTAGAGCTGGTTAAAAA
* * * *
23932237 AGCAGATCTTGCTTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGT
1 AGCAGATCTTGCTTTCCTGCACTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGAT
*
23932302 TGTAGTAGAGCTGGTTAAAAA
66 TGCAGTAGAGCTGGTTAAAAA
* * * *
23932323 AGCAGATCTTGCTTTCCTGCATTAACAGCGGAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGT
1 AGCAGATCTTGCTTTCCTGCACTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGAT
* * *
23932388 TGCAGTGGAGCTGGTTGAAGAT
66 TGCAGTAGAGCTGGTT-AAAAA
* **
23932410 AGCAAATCTTGCCCTCCTGCA
1 AGCAGATCTTGCTTTCCTGCA
23932431 TCGATAGTGA
Statistics
Matches: 420, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
85 1 0.00
86 398 0.95
87 21 0.05
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (86 bp):
AGCAGATCTTGCTTTCCTGCACTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATTGAT
TGCAGTAGAGCTGGTTAAAAA
Found at i:23932076 original size:43 final size:43
Alignment explanation
Indices: 23932029--23932248 Score: 118
Period size: 43 Copynumber: 5.1 Consensus size: 43
23932019 AAAACAAAGC
23932029 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
1 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
* * * ** * * * *
23932072 CTTGCTTTCC--TGCCTTAACAGCGGAGCAGAG--CAAAAA-CAAAGC
1 CTTGC-CTCCATTG-ATT-GCAGTAGAGCTG-GTTAAAAAAGCAGA-T
23932115 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
1 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
* * * ** * * * *
23932158 CTTGCTTTCC--TGCCTTAACAGCGGAGCAGAG--CAAAAA-CAAAGC
1 CTTGC-CTCCATTG-ATT-GCAGTAGAGCTG-GTTAAAAAAGCAGA-T
23932201 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
1 CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
23932244 CTTGC
1 CTTGC
23932249 TTTCCTGCAT
Statistics
Matches: 121, Mismatches: 36, Indels: 40
0.61 0.18 0.20
Matches are distributed among these distances:
41 2 0.02
42 32 0.26
43 53 0.44
44 32 0.26
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
CTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGAT
Found at i:23932350 original size:258 final size:259
Alignment explanation
Indices: 23931893--23932431 Score: 846
Period size: 258 Copynumber: 2.1 Consensus size: 259
23931883 CAGTGAAGAT
* * * ** *
23931893 AGCAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGATTAAAAACAAAGCCTTGCCTCCATTGGT
1 AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGAT
* *
23931958 TGCAGTAGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAA
66 TGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAAA
* *
23932023 CAAAGCCTTGCCTCCATTGATTGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCCTT
131 CAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCATT
*
23932088 AACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGATTGCAGTAGAGCTGGTT-AAAAA
196 AACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTGAAAAA
* * *
23932151 AGCAGATCTTGCTTTCCTGCCTTAACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGAT
1 AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGAT
* *
23932216 TGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCATTAACAGCGAAGCAGATCGAAAA
66 TGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAAA
* *
23932281 CAAAGCCTTGCCTCCATCGGTTGTAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCATT
131 CAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCATT
* * * * *
23932346 AACAGCGGAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGAT
196 AACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTGAAAAA
* *
23932410 AGCAAATCTTGCCCTCCTGCAT
1 AGCAGATCTTGCCTTCCTGCAT
23932432 CGATAGTGAA
Statistics
Matches: 253, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
258 232 0.92
259 21 0.08
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (259 bp):
AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAGCAAAAACAAAGCCTTGCCTCCATTGAT
TGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAAA
CAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTAAAAAAGCAGATCTTGCTTTCCTGCATT
AACAGCGGAGCAGAGCAAAAACAAAGCCTTGCCTCCATCGATTGCAGTAGAGCTGGTTGAAAAA
Found at i:23932604 original size:44 final size:44
Alignment explanation
Indices: 23932553--23932669 Score: 162
Period size: 44 Copynumber: 2.7 Consensus size: 44
23932543 AGCAAATCTT
23932553 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
* * * * *
23932597 ATTTCCCTGAGGTTGCAATGGAGCAAATCGAATTCGATAATCCT
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
* * *
23932641 ATCTCCCTGAAGTTGTAGTGGAGCGGATT
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATT
23932670 AAAGTAATAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
Found at i:23934189 original size:83 final size:84
Alignment explanation
Indices: 23934049--23934216 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 84
23934039 TTTCTGCTGA
23934049 TTTCACTTCGACCCTTATTGAAACGCAGCGTTTTAAAGGGGTAGGGATTAATTTCCTTTTGACCC
1 TTTCACTTCGACCCTTATTGAAACGCAGCGTTTTAAAGGGGTAGGGATTAATTTCCTTTTGACCC
23934114 CTCTTTGTTGCTCGCGTGT
66 CTCTTTGTTGCTCGCGTGT
23934133 TTTCACTTCGA-CCTTATTGAAACGCAGCGTTTTAAAGGGGTAGGGATTAATTTCCTTTTGACCC
1 TTTCACTTCGACCCTTATTGAAACGCAGCGTTTTAAAGGGGTAGGGATTAATTTCCTTTTGACCC
23934197 CTCTTTGTTGCTCGCGTGT
66 CTCTTTGTTGCTCGCGTGT
23934216 T
1 T
23934217 CAATATGGTT
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 73 0.87
84 11 0.13
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (84 bp):
TTTCACTTCGACCCTTATTGAAACGCAGCGTTTTAAAGGGGTAGGGATTAATTTCCTTTTGACCC
CTCTTTGTTGCTCGCGTGT
Found at i:23934377 original size:16 final size:15
Alignment explanation
Indices: 23934353--23934382 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23934343 ATGTACCTAT
23934353 TTATATATTATTTTA
1 TTATATATTATTTTA
23934368 TTATACTATTATTTT
1 TTATA-TATTATTTT
23934383 TTAAACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATATTATTTTA
Found at i:23944032 original size:40 final size:40
Alignment explanation
Indices: 23943988--23944063 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
23943978 TGAGTGCATT
*
23943988 TAGGGACA-CGAATGTGTAAACAGGGGCACAGTTGTGAAAA
1 TAGGGACACCGAA-GTGTAAACAGGGGCACAATTGTGAAAA
** *
23944028 TAGGGACACCGAAGTGTTTATAGGGGCACAATTGTG
1 TAGGGACACCGAAGTGTAAACAGGGGCACAATTGTG
23944064 CAATGAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (40 bp):
TAGGGACACCGAAGTGTAAACAGGGGCACAATTGTGAAAA
Found at i:23945770 original size:16 final size:16
Alignment explanation
Indices: 23945749--23945781 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23945739 TTCGCTGTAT
23945749 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23945765 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23945781 T
1 T
23945782 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:23945856 original size:44 final size:45
Alignment explanation
Indices: 23945763--23945857 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
23945753 ATAGAGGCGT
* * *
23945763 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCATAATAGCAATTCAATTGTTTGGTTGAACGG
* *
23945808 AATGGAATAGAGGCATAATAG-TATTC-TTGTGTTTGGTTGAACGG
1 AATGGAATAGAGGCATAATAGCAATTCAAT-TGTTTGGTTGAACGG
23945852 AATGGA
1 AATGGA
23945858 GGTATAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCATAATAGCAATTCAATTGTTTGGTTGAACGG
Found at i:23946034 original size:18 final size:17
Alignment explanation
Indices: 23946013--23946047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23946003 TTATTATTAA
*
23946013 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23946031 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23946048 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23958704 original size:27 final size:26
Alignment explanation
Indices: 23958666--23958768 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
23958656 ACTGTACCGA
*
23958666 AATATCCTCGATGGGTAAAATTATCAG
1 AATACCCTCGATGGGTAAAATTA-CAG
*
23958693 AATACCCTCGATGGGTAAAATTACCAA
1 AATACCCTCGATGGGTAAAATTA-CAG
* *
23958720 AATACCCTCGACGGGTAAAATTACCG
1 AATACCCTCGATGGGTAAAATTACAG
*
23958746 AAATACGCC-CAATGGGTAAAATT
1 -AATAC-CCTCGATGGGTAAAATT
23958769 GACTGTTGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.95
28 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (26 bp):
AATACCCTCGATGGGTAAAATTACAG
Found at i:23958751 original size:54 final size:54
Alignment explanation
Indices: 23958660--23958768 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
23958650 TCGTTAACTG
* * * * *
23958660 TACCGAAATATCCTCGATGGGTAAAATTATCAGAATAC-CCTCGATGGGTAAAAT
1 TACCAAAATACCCTCGACGGGTAAAATTACCAGAATACGCC-CAATGGGTAAAAT
23958714 TACCAAAATACCCTCGACGGGTAAAATTACC-GAAATACGCCCAATGGGTAAAAT
1 TACCAAAATACCCTCGACGGGTAAAATTACCAG-AATACGCCCAATGGGTAAAAT
23958768 T
1 T
23958769 GACTGTTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 45 0.94
55 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (54 bp):
TACCAAAATACCCTCGACGGGTAAAATTACCAGAATACGCCCAATGGGTAAAAT
Found at i:23972875 original size:42 final size:42
Alignment explanation
Indices: 23972808--23972920 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
23972798 GTGCTAAATA
* * * ** *
23972808 GAAACCCATAAAGGTTGAACCGAAGCTCAGCAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
* *
23972850 GAAACCCATAAGGGTTAAATTGAAGCTCAAAAGAACTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
* *
23972892 AAAACCCA-ATAGGGTTAAACTGAAACTCA
1 GAAACCCATA-AGGGTTAAACTGAAGCTCA
23972921 TATGAGTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
Found at i:24002054 original size:45 final size:44
Alignment explanation
Indices: 24001969--24002055 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 44
24001959 ATATACAACG
* ***
24001969 AAAATTCACAGATGAAACTTGCAACTAGGCTGTGGGTGCACAGC
1 AAAATTCACAGATAAAACTTGCAACTAGGCTGTAAATGCACAGC
* * *
24002013 AAAATGTCACAGATAAAATTTGCCACTAGGTTGTAAATGCACA
1 AAAAT-TCACAGATAAAACTTGCAACTAGGCTGTAAATGCACA
24002056 ACATATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
44 5 0.14
45 30 0.86
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (44 bp):
AAAATTCACAGATAAAACTTGCAACTAGGCTGTAAATGCACAGC
Found at i:24002613 original size:17 final size:19
Alignment explanation
Indices: 24002577--24002614 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24002567 ACTGAACAAT
24002577 TTATAAAATTATGGGAAAAA
1 TTATAAAATTAT-GGAAAAA
24002597 TTATAAAA-TAT-GAAAAA
1 TTATAAAATTATGGAAAAA
24002614 T
1 T
24002615 AGGGACCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
TTATAAAATTATGGAAAAA
Found at i:24003907 original size:19 final size:20
Alignment explanation
Indices: 24003867--24003915 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24003857 AATTAGATTT
*
24003867 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATGAA
*
24003887 ATTTAAATTAAAAATA-GAA
1 ATTTAAAATAAAAATATGAA
*
24003906 ATTTATAATA
1 ATTTAAAATA
24003916 TTAAATACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTTAAAATAAAAATATGAA
Found at i:24009482 original size:9 final size:9
Alignment explanation
Indices: 24009468--24009543 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
24009458 TTTGGTTAAA
24009468 AATTAACCG
1 AATTAACCG
*
24009477 AATTAACCA
1 AATTAACCG
*
24009486 AATTACCCG
1 AATTAACCG
*
24009495 AATTACCCG
1 AATTAACCG
*
24009504 AATTACCCG
1 AATTAACCG
24009513 AATTAACCG
1 AATTAACCG
*
24009522 AATTAACCA
1 AATTAACCG
*
24009531 AATTAACCA
1 AATTAACCG
24009540 AATT
1 AATT
24009544 GAATCACTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:24015183 original size:16 final size:17
Alignment explanation
Indices: 24015155--24015194 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
24015145 CTATACATGT
24015155 GAACCCCCTTTATATGC
1 GAACCCCCTTTATATGC
24015172 GAACCCCC-TTATATGC
1 GAACCCCCTTTATATGC
*
24015188 GAGCCCC
1 GAACCCC
24015195 TTTTGCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.23
Consensus pattern (17 bp):
GAACCCCCTTTATATGC
Found at i:24015378 original size:24 final size:24
Alignment explanation
Indices: 24015346--24015397 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
24015336 TCATGATATG
*
24015346 CGAACCCTAAACTGATATTACATA
1 CGAAACCTAAACTGATATTACATA
24015370 CGAAACCTAAACTGATATTACATA
1 CGAAACCTAAACTGATATTACATA
24015394 CGAA
1 CGAA
24015398 CCCCTAGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (24 bp):
CGAAACCTAAACTGATATTACATA
Found at i:24018213 original size:3 final size:3
Alignment explanation
Indices: 24018201--24018264 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
24018191 TGTGCTTTTA
* *
24018201 TAT T-T TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24018248 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
24018265 GTATGCATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24020841 original size:100 final size:102
Alignment explanation
Indices: 24020728--24020911 Score: 257
Period size: 102 Copynumber: 1.8 Consensus size: 102
24020718 AAAGTGATGG
* *
24020728 TCACGTGTGTAGTACTAT-GGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
* *
24020790 ACTATTTGTAGGCTACTATGCGTACCAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
* * * * *
24020828 TCACGTGTGTAGTACTATATCCAGGCTACTATGTGTATCGAATGGTAATGGTCATATGTGTAGTA
1 TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
24020893 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
24020912 TGAACCGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
100 24 0.33
101 17 0.24
102 31 0.43
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:24020971 original size:45 final size:45
Alignment explanation
Indices: 24020915--24021009 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
24020905 TACTATGTGA
* *
24020915 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
24020960 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
24021005 ACCGA
1 ACCGA
24021010 GTATCTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:24028585 original size:9 final size:9
Alignment explanation
Indices: 24028571--24028601 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24028561 GTTAAACGAA
24028571 TCGAGTTAT
1 TCGAGTTAT
*
24028580 TCGAGTTAA
1 TCGAGTTAT
24028589 TCGAGTTAT
1 TCGAGTTAT
24028598 TCGA
1 TCGA
24028602 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24029430 original size:5 final size:5
Alignment explanation
Indices: 24029420--24029445 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24029410 CTCAAAAATT
24029420 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
24029446 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:24035198 original size:17 final size:17
Alignment explanation
Indices: 24035176--24035208 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24035166 TTTGGTTCGA
24035176 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
*
24035193 AAAAAAAAGGAAAAAA
1 AAAAAAAAAGAAAAAA
24035209 ACTTAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:24044417 original size:44 final size:44
Alignment explanation
Indices: 24044302--24044645 Score: 202
Period size: 44 Copynumber: 7.5 Consensus size: 44
24044292 CTCATTGAAT
* * * *
24044302 TTGCAATGGAGCAGATTAAAGCTACAAATCTTAT-TCCCTAAAG
1 TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAGAG
* * * *
24044345 TTACAATGGAGCAGATTGAAA--TGACAAATCTTATCTCCTTAGAG
1 TTGCAGTGGAACAGATT-AAAGCTG-CAAATCTTATCTCCCTAGAG
* * *
24044389 TTGCAGTGAAACAGATTGAAGCTGCAAATCTTATTTCCCT-GAAG
1 TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAG-AG
* * *
24044433 TTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAG
1 TTGCAGTGGAACAGATTAAAGCT----G---CAAATCTTATCTCCCTAGAG
* * *
24044484 TTGCAGTGGAATAGATTGAAA-CTACAAATCTTATTTCCCT-GAGG
1 TTGCAGTGGAACAGATT-AAAGCTGCAAATCTTATCTCCCTAGA-G
*
24044528 TTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT-GAAG
1 TTGCAGTGGAACAGATTAAAGCT----G---CAAATCTTATCTCCCTAG-AG
* * * * *
24044579 TTGCAGAGGAGCAGATTGAAA-CTACAAATCTTAT-TACCTCGAGG
1 TTGCAGTGGAACAGATT-AAAGCTGCAAATCTTATCTCCCTAGA-G
* *
24044623 TTCCAATGGAACAGATTAAAGCT
1 TTGCAGTGGAACAGATTAAAGCT
24044646 ACAAGTTACA
Statistics
Matches: 236, Mismatches: 36, Indels: 57
0.72 0.11 0.17
Matches are distributed among these distances:
42 1 0.00
43 41 0.17
44 118 0.50
45 2 0.01
48 1 0.00
51 66 0.28
52 7 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (44 bp):
TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAGAG
Found at i:24044494 original size:51 final size:51
Alignment explanation
Indices: 24044413--24044727 Score: 269
Period size: 51 Copynumber: 6.6 Consensus size: 51
24044403 ATTGAAGCTG
* * *
24044413 CAAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
24044464 CAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
24044508 CAAATCTTATTTCCCTGAGGTTGCAGTAGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
24044559 CAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * *
24044603 CAAATCTTAT-TACCTCGAGGTTCCAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * * * *
24044654 CAAATTTTATCTCCTTGAAGATGTAGTGGAGCAGATTAAAGTTACAAG-T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
24044703 C---TC--ATCTCCCTGAAGTTGCAGTGGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGA
24044728 CCAAATTGAA
Statistics
Matches: 209, Mismatches: 39, Indels: 39
0.73 0.14 0.14
Matches are distributed among these distances:
43 4 0.02
44 81 0.39
45 4 0.02
46 3 0.01
47 2 0.01
48 2 0.01
49 3 0.01
50 5 0.02
51 102 0.49
52 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
Found at i:24044743 original size:95 final size:94
Alignment explanation
Indices: 24044283--24044727 Score: 469
Period size: 95 Copynumber: 4.8 Consensus size: 94
24044273 TCATTGTGAA
** * * *
24044283 AAATCTTATCTCATTGAATTTGCAATGGAGCAGATT-AAAGCTACAAATCTTATTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTATTCCCTGAAGTT
* * *
24044347 ACAATGGAGCAGATT---G--A-AA-TGAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * * * *
24044370 AAATCTTATCT-CCTTAGAGTTGCAGTGAAACAGATTGAAGCTGCAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAACTACAAATCTTA-TTCCCTGAAGT
*
24044434 TACAATGGAACAGATTAAAGCTACAAGTTAC
64 TGCAATGGAACAGATTAAAGCTACAAGTTAC
* ** *
24044465 AAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAACTACAAATCTTATTTCCCTGAGGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTA-TTCCCTGAAGTT
* *
24044530 GCAGTAGAACAGATTAAAGCTACAAGTTAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * *
24044560 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAACTACAAATCTTATTACCTCGAGGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTCCCT-GAAGTT
*
24044625 CCAATGGAACAGATTAAAGCTACAAGTTAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * * * * * *
24044655 AAATTTTATCTCCTTGAAGATGTAGTGGAGCAGATT-AAAGTTACAAGTCTCATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTAT-TCCCTGAAGT
*
24044719 TGCAGTGGA
64 TGCAATGGA
24044728 CCAAATTGAA
Statistics
Matches: 303, Mismatches: 41, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
86 2 0.01
87 37 0.12
88 27 0.09
91 1 0.00
93 1 0.00
94 10 0.03
95 217 0.72
96 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTCCCTGAAGTTG
CAATGGAACAGATTAAAGCTACAAGTTAC
Found at i:24045355 original size:8 final size:8
Alignment explanation
Indices: 24045342--24045380 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
24045332 TTGAATACAA
24045342 AAAAAGGT
1 AAAAAGGT
*
24045350 AAAAAGTT
1 AAAAAGGT
24045358 AACAAAGGT
1 AA-AAAGGT
24045367 AAAAA-GT
1 AAAAAGGT
24045374 AAAAAGG
1 AAAAAGG
24045381 CTCCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.13
Consensus pattern (8 bp):
AAAAAGGT
Found at i:24046507 original size:3 final size:3
Alignment explanation
Indices: 24046495--24046538 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
24046485 TGCACTTTTA
* *
24046495 TAT T-T TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24046539 GCGTATTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24048249 original size:60 final size:59
Alignment explanation
Indices: 24048164--24048317 Score: 184
Period size: 60 Copynumber: 2.6 Consensus size: 59
24048154 GAGAAGAATA
* * * * * *
24048164 GCCTTTATGGAAAAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGAGTGTAAATGAT
1 GCCTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
* *
24048224 GCCTTTGTGGTAAATCTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAAGGAT
1 GCCTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
* *
24048284 GCCTTTGTAGCAAACT-TTGGATAGGAAAGCCTTT
1 GCCTTTGTGGAAAACTCTT-GATAGGAAAGCCTTT
24048318 GTGGAAAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
58 2 0.02
59 19 0.23
60 60 0.74
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (59 bp):
GCCTTTGTGGAAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
Done.