Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 106 of 199
Found at i:35497086 original size:15 final size:15
Alignment explanation
Indices: 35497066--35497094 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35497056 AAATTTTAAG
35497066 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
35497081 GTTTAGGGATTATG
1 GTTTAGGGATTATG
35497095 GATTATGGTT
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:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:35497159 original size:22 final size:23
Alignment explanation
Indices: 35497134--35497180 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
35497124 TTTAAGATTC
35497134 AGGGGTTAAGGG-TTAGGGGTTA
1 AGGGGTTAAGGGTTTAGGGGTTA
*
35497156 A-GGGTTAGGGGTTTAGGGGTTA
1 AGGGGTTAAGGGTTTAGGGGTTA
35497178 AGG
1 AGG
35497181 TTTATGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 12 0.55
23 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (23 bp):
AGGGGTTAAGGGTTTAGGGGTTA
Found at i:35497165 original size:6 final size:7
Alignment explanation
Indices: 35497136--35497180 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
35497126 TAAGATTCAG
35497136 GGGTTAA
1 GGGTTAA
*
35497143 GGGTTAG
1 GGGTTAA
35497150 GGGTTAA
1 GGGTTAA
*
35497157 GGGTTAG
1 GGGTTAA
*
35497164 GGGTTTAG
1 GGG-TTAA
35497172 GGGTTAA
1 GGGTTAA
35497179 GG
1 GG
35497181 TTTATGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (7 bp):
GGGTTAA
Found at i:35497173 original size:14 final size:14
Alignment explanation
Indices: 35497108--35497173 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
35497098 TATGGTTTAT
* *
35497108 GGTTTAAGGTTTGG
1 GGTTTAGGGTTAGG
* *
35497122 GGTTTAAGATTCAGG
1 GGTTTAGGGTT-AGG
*
35497137 GGTTAAGGGTTAGG
1 GGTTTAGGGTTAGG
*
35497151 GGTTAAGGGTTAGG
1 GGTTTAGGGTTAGG
35497165 GGTTTAGGG
1 GGTTTAGGG
35497174 GTTAAGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 35 0.78
15 10 0.22
ACGTcount: A:0.20, C:0.02, G:0.45, T:0.33
Consensus pattern (14 bp):
GGTTTAGGGTTAGG
Found at i:35497184 original size:14 final size:14
Alignment explanation
Indices: 35497101--35497168 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
35497091 TATGGATTAT
* *
35497101 GGTTTATGGTTTAA
1 GGTTTAGGGGTTAA
35497115 GGTTT-GGGGTTTAA
1 GGTTTAGGGG-TTAA
* *
35497129 GATTCAGGGGTTAA
1 GGTTTAGGGGTTAA
*
35497143 GGGTTAGGGGTTAA
1 GGTTTAGGGGTTAA
*
35497157 GGGTTAGGGGTT
1 GGTTTAGGGGTT
35497169 TAGGGGTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
13 2 0.04
14 39 0.87
15 4 0.09
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGGTTAA
Found at i:35497205 original size:7 final size:7
Alignment explanation
Indices: 35497060--35497205 Score: 53
Period size: 7 Copynumber: 20.6 Consensus size: 7
35497050 ATATCCAAAT
*
35497060 TTTAAGG
1 TTTAGGG
35497067 TTTAGGG
1 TTTAGGG
* *
35497074 ATTATGTG
1 TTTA-GGG
35497082 TTTAGGG
1 TTTAGGG
* *
35497089 ATTATGG
1 TTTAGGG
* *
35497096 ATTATGG
1 TTTAGGG
*
35497103 TTTATGG
1 TTTAGGG
*
35497110 TTTAAGG
1 TTTAGGG
*
35497117 TTTGGGG
1 TTTAGGG
* *
35497124 TTTAAGA
1 TTTAGGG
*
35497131 TTCAGGGG
1 TTTA-GGG
*
35497139 TTAAGGG
1 TTTAGGG
35497146 -TTAGGGG
1 TTTA-GGG
*
35497153 TTAAGGG
1 TTTAGGG
35497160 -TTAGGGG
1 TTTA-GGG
35497167 TTTAGGG
1 TTTAGGG
* *
35497174 GTTAAGG
1 TTTAGGG
* *
35497181 TTTATGT
1 TTTAGGG
* *
35497188 TTTATGA
1 TTTAGGG
35497195 TTTAGGG
1 TTTAGGG
35497202 TTTA
1 TTTA
35497206 AGAGATAGGG
Statistics
Matches: 104, Mismatches: 29, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
6 4 0.04
7 86 0.83
8 14 0.13
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:35501316 original size:43 final size:43
Alignment explanation
Indices: 35501266--35501506 Score: 254
Period size: 43 Copynumber: 5.6 Consensus size: 43
35501256 AAAATATTTT
* **
35501266 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAACGTTGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
* * * * **
35501309 TAAAGGTCTTATTCTTTAGCGGCATTTGT-AGAAAAAGAGCTAC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAA-CGCCGC
* * * *
35501352 TAAAGGTCTTATTTTTTTAGCGGCGTTTGT-TGAAAAATTGCCGC
1 TAAAGGTCTT-GTTCTTTAGCGGCGTTTGTGGGAAAAA-CGCCGC
*
35501396 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
* * * * * *
35501438 TAAAGGTCTTGCTCTATAACGGCTTTTTTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
35501481 TAAAGGTCTTGTTCTTTAGCGGCGTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTT
35501507 GTCAATAGCG
Statistics
Matches: 165, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 38 0.23
43 91 0.55
44 36 0.22
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
Found at i:35501379 original size:87 final size:85
Alignment explanation
Indices: 35501266--35501503 Score: 253
Period size: 87 Copynumber: 2.8 Consensus size: 85
35501256 AAAATATTTT
* * ** *
35501266 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAACGTTGCTAAAGGTCTTATTCTTTAGCGG
1 TAAAGGTCTTGCTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTGTTCTTTAGCGG
*
35501331 CATTTGTAGAAAAAGAGCTAC
66 CATTTGT-GAAAAAGAGCCAC
** * * *
35501352 TAAAGGTCTTATTTTTTTAGCGGCGTTTGT-TGAAAAATTGCCGCTAAAGGTCTTGTTCTTTAGC
1 TAAAGGTCTT-GCTCTTTAGCGGCGTTTGTGGGAAAAA-CGCCGCTAAAGGTCTTGTTCTTTAGC
* ** * *
35501416 GGCGTTTGTGGGAAAGCGCCGC
64 GGCATTTGTGAAAAAGAGCCAC
* * * * *
35501438 TAAAGGTCTTGCTCTATAACGGCTTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGG
1 TAAAGGTCTTGCTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTGTTCTTTAGCGG
35501503 C
66 C
35501504 GTTGTCAATA
Statistics
Matches: 125, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
85 40 0.32
86 38 0.30
87 47 0.38
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (85 bp):
TAAAGGTCTTGCTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTGTTCTTTAGCGG
CATTTGTGAAAAAGAGCCAC
Found at i:35503085 original size:49 final size:50
Alignment explanation
Indices: 35503021--35503340 Score: 239
Period size: 50 Copynumber: 6.4 Consensus size: 50
35503011 CAAAGCTATG
* * *
35503021 TCCCAGACATAGTCTTACATGAGATGTT-TCTTGTA-CTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGCTGCCAATGCCATA
* * * * *
35503070 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGTCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
** * ** * * * * *
35503120 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* ** * * * * * *
35503170 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCTATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * *
35503220 TCCTAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* ** * * * *
35503270 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
35503320 TCCCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTTACATG
35503341 GGATCTCTTT
Statistics
Matches: 240, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
48 3 0.01
49 27 0.11
50 210 0.88
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:35503133 original size:50 final size:50
Alignment explanation
Indices: 35503057--35503348 Score: 422
Period size: 50 Copynumber: 5.8 Consensus size: 50
35503047 TTTCTTGTAC
* * * ** * *
35503057 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
35503107 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35503157 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
35503207 TGCCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
35503257 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35503307 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35503349 TTACTCAAAT
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 217 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:35509065 original size:104 final size:104
Alignment explanation
Indices: 35508695--35509053 Score: 621
Period size: 104 Copynumber: 3.5 Consensus size: 104
35508685 TAACCGTTAT
* * * *
35508695 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
35508760 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
35508799 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
35508864 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
35508903 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
35508968 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * * *
35509007 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATTAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCAC
35509054 ACAACAACCC
Statistics
Matches: 245, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
104 244 1.00
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:35510197 original size:12 final size:12
Alignment explanation
Indices: 35510177--35510208 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35510167 TACCACACAC
*
35510177 GGCCGTGTGCTA
1 GGCCATGTGCTA
35510189 GGCCATGTGCTA
1 GGCCATGTGCTA
35510201 GGCCATGT
1 GGCCATGT
35510209 AATTCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (12 bp):
GGCCATGTGCTA
Found at i:35514715 original size:17 final size:17
Alignment explanation
Indices: 35514693--35514725 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35514683 GTTAGTGCAC
35514693 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
*
35514710 ATTGTCATTGTATTTT
1 ATTGTCATTGCATTTT
35514726 AATTTTAGTG
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:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:35520387 original size:3 final size:3
Alignment explanation
Indices: 35520372--35520441 Score: 59
Period size: 3 Copynumber: 23.0 Consensus size: 3
35520362 AAAAGGTATT
* * ** *
35520372 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
35520420 TTT TAA TAG TAA TATA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA
35520442 ATTTATTAGT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:35520446 original size:22 final size:22
Alignment explanation
Indices: 35520402--35520458 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
35520392 CTAATAATAA
* **
35520402 TAATAATAATA-ATAATAGTTT
1 TAATAGTAATATATAATAAATT
35520423 TAATAGTAATATATAATAAATT
1 TAATAGTAATATATAATAAATT
* *
35520445 TATTAGTAAAATAT
1 TAATAGTAATATAT
35520459 CCAAAATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TAATAGTAATATATAATAAATT
Found at i:35522100 original size:44 final size:44
Alignment explanation
Indices: 35522047--35522141 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
35522037 GATCTGACCT
35522047 ACTGCAACTTCAGAGAGATAAGATCTGTG-GTTTT-AATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGAT-TG-GCGTTTTCAATCCGCTCC
* * * *
35522091 ACTGCAACTTCAGGGAGATAGGATTGGCTTTTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTGGCGTTTTCAATCCGCTCC
35522135 ACTGCAA
1 ACTGCAA
35522142 TGTCGGGGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 6 0.13
44 38 0.84
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATTGGCGTTTTCAATCCGCTCC
Found at i:35522201 original size:50 final size:50
Alignment explanation
Indices: 35522122--35523128 Score: 653
Period size: 50 Copynumber: 20.2 Consensus size: 50
35522112 GATTGGCTTT
*
35522122 TTCAATCTGCTCCACTGCAAT-GTCGGGGAAGTAAGATTCGCCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * *
35522172 TTCAATCTATTCCACTGCATCGTCTGGGAAGTAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * *
35522222 TTCAATCTTTTTAATTGCAAT-GTCGAGGAAAG-AAGATTCGCTGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCG-GGGAAGTAAGATTCGCCGTTGTAGC
* * * * * * *
35522272 TTTAATCTATTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * ** * * *
35522322 TTCAGTCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * * * *
35522372 TTCAATCTGTTCCACTGCACCGCCTGAGAACTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * *
35522422 TTCAATCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
35522472 TTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCAGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * *
35522522 TTCAATCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
35522572 TTCAATTTGTTCCACTGCATCAACTGGAAAGTAAGATTTGCCGTTGT-GG
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * * *
35522621 TCTCAATCTTTTTAATTGTAAT-GTCGGGGGAGCAATATTCGCCGTTGTAGC
1 T-TCAATCTGTTCCACTG-CATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * ** * *
35522672 TTCAATTTGTTCCACTGCACCGCCAAGGAAATAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * * *
35522722 CTCAATCT-TTTAATTGTAAT-GTCGGGGAAGCAAGATTCACTGTTGTAGC
1 TTCAATCTGTTCCACTG-CATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
35522771 TTCAATCTGTTCCACTGTA-CTGCCAGAGAAGTAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATC-GTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * ** *
35522821 TTCAATCTTTTTAATTGTAATAC--CGGGGAAGCAAGATTCATCGTCGTAGC
1 TTCAATCTGTTCCACTG-CAT-CGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
35522871 TTCAATCTGTTTCACTGCACCGCCTGGGGAAGTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTC-GGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * **
35522922 CTCAATCT-TTTAATTG-ATATGTCGGGGAAGCGAGATTCGCCGTTGTAGC
1 TTCAATCTGTTCCACTGCAT-CGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * * * *
35522971 TTCAATCTGTTCCACTGCACCGCCTGGGAAAGTGACATTCGCTGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTC-GGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
35523022 CTCAATCT-TTTAATTGCAAT-GTCGGGGAAGCAAGAGTCACCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
35523071 TTCAATCTTTTCCACTGCATCGCCAGAGAAGTAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
35523121 TTCAATCT
1 TTCAATCT
35523129 TTTTAATTGC
Statistics
Matches: 709, Mismatches: 216, Indels: 64
0.72 0.22 0.06
Matches are distributed among these distances:
48 1 0.00
49 107 0.15
50 526 0.74
51 74 0.10
53 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
Found at i:35522299 original size:100 final size:100
Alignment explanation
Indices: 35522137--35523140 Score: 1408
Period size: 100 Copynumber: 10.1 Consensus size: 100
35522127 TCTGCTCCAC
* * * *
35522137 TGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCATCGTCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
35522202 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * *
35522237 TGCAATGTCGAGGAAAG-AAGATTCGCTGTTGTAGCTTTAATCTATTCCACTGCACCGCCTGGGA
1 TGCAATGTCG-GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
* *
35522301 AGTAAGATTCACCGTTGTGGCTTCAGTCTTTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
35522337 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
35522402 CTAAGATTCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
*
35522437 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
35522502 GTAAGATTCGCAGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * ** *
35522537 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATTTGTTCCACTGCATCAACTGGAAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
35522602 GTAAGATTTGCCGTTGTGG-TCTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCT-TCAATCTTTTTAAT
* * * * **
35522637 TGTAATGTCGGGGGAGCAATATTCGCCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAAGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
35522702 ATAAGATTCGCCGTTGTGGCCTCAATC-TTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * * *
35522736 TGTAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGTACTGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
35522801 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* ** ** * *
35522836 TGTAATACCGGGGAAGCAAGATTCATCGTCGTAGCTTCAATCTGTTTCACTGCACCGCCTGGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGGA
* *
35522901 AGTAAGATTCACCGTTGTGGCCTCAATC-TTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
*
35522936 TG-ATATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
1 TGCA-ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGG-
* * * *
35523000 AAGTGACATTCGCTGTTGTGGCCTCAATC-TTTTAAT
64 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * *
35523036 TGCAATGTCGGGGAAGCAAGAGTCACCGTTGTAGCTTCAATCTTTTCCACTGCATCGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
35523101 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
35523136 TGCAA
1 TGCAA
35523141 ACTATGGTGT
Statistics
Matches: 810, Mismatches: 84, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
99 123 0.15
100 652 0.80
101 35 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:35523217 original size:45 final size:45
Alignment explanation
Indices: 35523168--35523378 Score: 157
Period size: 44 Copynumber: 4.7 Consensus size: 45
35523158 CTGCTTCACC
*
35523168 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGTT
1 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
* * *
35523213 GTCAGTACAGGAAGGCAAG-GCTAG-TGTCTTC-GATCTGCTTCGCT
1 GTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG-TCTGCTCCGCT
* * ** * * *
35523257 G-CTAGCAGAGGAAGGCCTGATCTACTATCTTCAGTCTACTCCACT
1 GTC-AGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
* * * *
35523302 GTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-GATCTGCTTCGCT
1 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* ** *
35523346 G-CTAGTGCAGGAAGGCATTATCTACTATCTTCA
1 GTC-AGTACAGGAAGGCAAGATCTGCTATCTTCA
35523379 CTGATCTGTT
Statistics
Matches: 123, Mismatches: 32, Indels: 21
0.70 0.18 0.12
Matches are distributed among these distances:
43 4 0.03
44 60 0.49
45 57 0.46
46 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (45 bp):
GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
Found at i:35523305 original size:89 final size:88
Alignment explanation
Indices: 35523147--35523378 Score: 313
Period size: 89 Copynumber: 2.6 Consensus size: 88
35523137 GCAAACTATG
* * * * * * *
35523147 GTGTCTTCGATCTGCTTCACCG-TCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCG
1 GTGTCTTCGATCTGCTTCGCTGCT-AG-AGAGGAAGGCATGATCTACTATCTTCAGTCTACTCCA
*
35523211 TTGTCAGTACAGGAAGGCAAGGCTA
64 CTGTCAGTACAGGAAGGCAAGGCTA
*
35523236 GTGTCTTCGATCTGCTTCGCTGCTAGCAGAGGAAGGCCTGATCTACTATCTTCAGTCTACTCCAC
1 GTGTCTTCGATCTGCTTCGCTGCTAG-AGAGGAAGGCATGATCTACTATCTTCAGTCTACTCCAC
*
35523301 TGTCAGTACAGGAAGGCAAGGCTG
65 TGTCAGTACAGGAAGGCAAGGCTA
* *
35523325 GTGTCTTCGATCTGCTTCGCTGCTAGTGCAGGAAGGCATTATCTACTATCTTCA
1 GTGTCTTCGATCTGCTTCGCTGCTAGAG-AGGAAGGCATGATCTACTATCTTCA
35523379 CTGATCTGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 125 0.98
90 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (88 bp):
GTGTCTTCGATCTGCTTCGCTGCTAGAGAGGAAGGCATGATCTACTATCTTCAGTCTACTCCACT
GTCAGTACAGGAAGGCAAGGCTA
Found at i:35525515 original size:27 final size:29
Alignment explanation
Indices: 35525485--35525546 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
35525475 ACGTATGAAT
*
35525485 TTATGAAT-A-ATTATCTATACAGTATGA
1 TTATGAATAAGATTATCTACACAGTATGA
*
35525512 TTATGAATGAAAGATTATCTGCACAGTATGA
1 TTATGAAT--AAGATTATCTACACAGTATGA
35525543 TTAT
1 TTAT
35525547 AAATGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
30 1 0.03
31 20 0.69
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (29 bp):
TTATGAATAAGATTATCTACACAGTATGA
Found at i:35525529 original size:31 final size:31
Alignment explanation
Indices: 35525494--35525559 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
35525484 TTTATGAATA
* *
35525494 ATTATCTATACAGTATGATTATGAATGAAAG
1 ATTATCTACACAGTATGATTATAAATGAAAG
* *
35525525 ATTATCTGCACAGTATGATTATAAATGAAAT
1 ATTATCTACACAGTATGATTATAAATGAAAG
35525556 ATTA
1 ATTA
35525560 ATTTGGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (31 bp):
ATTATCTACACAGTATGATTATAAATGAAAG
Found at i:35529725 original size:3 final size:3
Alignment explanation
Indices: 35529719--35529773 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
35529709 TTAATAATTT
* * * **
35529719 TAA TAA TGA TAC TAA TAA TAA TAA TAA TAA TAA TAG TTT TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
35529768 TAA TAA
1 TAA TAA
35529774 ATTTATTAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:35536286 original size:6 final size:6
Alignment explanation
Indices: 35536272--35536300 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
35536262 TCGAAAAAGG
35536272 AAAAT- AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
35536301 CAATAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:35536286 original size:11 final size:11
Alignment explanation
Indices: 35536272--35536306 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
35536262 TCGAAAAAGG
35536272 AAAATAAAATA
1 AAAATAAAATA
35536283 AAAATAAAAATA
1 AAAAT-AAAATA
*
35536295 AAAATACAATA
1 AAAATAAAATA
35536306 A
1 A
35536307 GTTGTCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:35550711 original size:36 final size:36
Alignment explanation
Indices: 35550671--35550761 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
35550661 TGCCGCGAAC
* *
35550671 TGGGCTTTGTAGGAGGGTTTGAAAGGTACAACAGAT
1 TGGGCTTCGTAGGAGGGTTTGAAAGGTACAACAAAT
* * *
35550707 TGGGCTTCGTAGGAGGGTTTGCAAGGTATATCAAAT
1 TGGGCTTCGTAGGAGGGTTTGAAAGGTACAACAAAT
*
35550743 TGCGCTTCGTAGGAGGGTT
1 TGGGCTTCGTAGGAGGGTT
35550762 CGTAAGGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGGCTTCGTAGGAGGGTTTGAAAGGTACAACAAAT
Found at i:35550788 original size:36 final size:36
Alignment explanation
Indices: 35550710--35550794 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
35550700 AACAGATTGG
* * * * *
35550710 GCTTCGTAGGAGGGTTTGCAAGGTATATCAAATTGC
1 GCTTCGTAGGAGGGTTCGCAAGGGATAGCAAACTAC
* *
35550746 GCTTCGTAGGAGGGTTCGTAAGGGATAGCGAACTAC
1 GCTTCGTAGGAGGGTTCGCAAGGGATAGCAAACTAC
*
35550782 GGTTCGTAGGAGG
1 GCTTCGTAGGAGG
35550795 CAGCGAACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.24, C:0.14, G:0.36, T:0.26
Consensus pattern (36 bp):
GCTTCGTAGGAGGGTTCGCAAGGGATAGCAAACTAC
Found at i:35552119 original size:34 final size:33
Alignment explanation
Indices: 35552081--35552191 Score: 114
Period size: 34 Copynumber: 3.3 Consensus size: 33
35552071 ACTTCACAGC
*
35552081 TTTGATGAGCTAGCACTGTTGGTGAGCTCGCACA
1 TTTGATGAGCTAGCAAT-TTGGTGAGCTCGCACA
* * * *
35552115 TTTGATGAACTTGCAATCTTGGTGAGCCCACACA
1 TTTGATGAGCTAGCAAT-TTGGTGAGCTCGCACA
* * *
35552149 TTTGATGAGCTCGAAATTTCGGTGAGCTCGCAGA
1 TTTGATGAGCTAGCAATTT-GGTGAGCTCGCACA
*
35552183 TTTGGTGAG
1 TTTGATGAG
35552192 TTTGTATCTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
33 2 0.03
34 61 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (33 bp):
TTTGATGAGCTAGCAATTTGGTGAGCTCGCACA
Found at i:35552174 original size:17 final size:17
Alignment explanation
Indices: 35552099--35552191 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 17
35552089 GCTAGCACTG
*
35552099 TTGGTGAGCTCGCACAT
1 TTGGTGAGCTCGCAAAT
* * *
35552116 TTGATGAACTTGC-AAT
1 TTGGTGAGCTCGCAAAT
* * *
35552132 CTTGGTGAGCCCACACAT
1 -TTGGTGAGCTCGCAAAT
*
35552150 TTGATGAGCTCG-AAAT
1 TTGGTGAGCTCGCAAAT
*
35552166 TTCGGTGAGCTCGCAGAT
1 TT-GGTGAGCTCGCAAAT
35552184 TTGGTGAG
1 TTGGTGAG
35552192 TTTGTATCTT
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
16 7 0.12
17 42 0.75
18 7 0.12
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (17 bp):
TTGGTGAGCTCGCAAAT
Found at i:35559790 original size:21 final size:21
Alignment explanation
Indices: 35559766--35559861 Score: 60
Period size: 21 Copynumber: 4.5 Consensus size: 21
35559756 GCGTATGCGC
35559766 ATATAAATAAGTATAATAATA
1 ATATAAATAAGTATAATAATA
*
35559787 ATAT--ATCAG-ATAATAATAA
1 ATATAAATAAGTATAATAAT-A
35559806 ACTAATAACAATACA-T-TAATAATA
1 A-T-AT-A-AATA-AGTATAATAATA
*
35559830 ATATAAA-AAGTATTAAAAATA
1 ATATAAATAAGTA-TAATAATA
35559851 ATAATAAATAA
1 AT-ATAAATAA
35559862 ATAAAACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 26
0.67 0.03 0.30
Matches are distributed among these distances:
18 9 0.16
19 8 0.14
20 3 0.05
21 16 0.28
22 7 0.12
23 3 0.05
24 2 0.03
25 9 0.16
26 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
ATATAAATAAGTATAATAATA
Found at i:35561494 original size:50 final size:49
Alignment explanation
Indices: 35561414--35561695 Score: 199
Period size: 50 Copynumber: 5.7 Consensus size: 49
35561404 TGCACCGCCA
*
35561414 GGGAGATAAGATCTGCCGT-GTGGCTTCAATCTTTTAAATTGCAATGTCG
1 GGGAAATAAGATC-GCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * ** * * * *
35561463 GGGAAATAAGACTCGCTGTCGTGGCTTCAATCTGTTCCACTGCACTGCCA
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * * * * *
35561513 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATCGTAATTTCG
1 GGGAAATAAGAT-CGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
** * * * ** * * * *
35561563 GGGAAACCAGATTCGCCATCGTGACTTCAATCTGTTCCACTGCACTGCCA
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * * *
35561613 AGGAAGTAAGATCCGTCGTTGTGGCTTCAATC-TTTATAATTGCAATGTCG
1 GGGAAATAAGAT-CGCCGTCGTGGCTTCAATCTTTTA-AATTGCAATGTCG
* *
35561663 GGGAAACAAGATTCGCCGTCGTGACTTCAATCT
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCT
35561696 GCTCCACTAG
Statistics
Matches: 166, Mismatches: 59, Indels: 14
0.69 0.25 0.06
Matches are distributed among these distances:
49 18 0.11
50 146 0.88
51 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (49 bp):
GGGAAATAAGATCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
Found at i:35561741 original size:50 final size:50
Alignment explanation
Indices: 35561375--35561745 Score: 196
Period size: 50 Copynumber: 7.4 Consensus size: 50
35561365 AGAGAACCAG
* * * * * *
35561375 TCCGCCGTTGTAGCTTCAATCTGTTCCTCTGCACCGCCAGGGAGATAAGA
1 TCCGTCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGA
* * * ** * * * **
35561425 TCTGCCG-TGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAATAAGA
1 TCCGTCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGA
* * *
35561474 -CTCG-CTGTCGTGGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGA
1 TC-CGTC-GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGA
* ** * * * ** ** **
35561524 TCCGCCGTTGTGGCTTCAATCT-TTTTAATCGTAATTTCGGGGAAACCAGA
1 TCCGTCGTTGTGGCTTCAATCTGTTCCACT-GCACTGCCAAGGAAATAAGA
* * * * * *
35561574 TTCGCCATCGTGACTTCAATCTGTTCCACTGCACTGCCAAGGAAGTAAGA
1 TCCGTCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGA
** * * * ** *
35561624 TCCGTCGTTGTGGCTTCAATCT-TTATAATTGCAATGTCGGGGAAACAAGA
1 TCCGTCGTTGTGGCTTCAATCTGTT-CCACTGCACTGCCAAGGAAATAAGA
* * * * *
35561674 TTCGCCGTCGTGACTTCAATCTGCTCCACTAG-ACTGCCAAGGAAATAAGA
1 TCCGTCGTTGTGGCTTCAATCTGTTCCACT-GCACTGCCAAGGAAATAAGA
*
35561724 TCCGTCTTTGTGGCTTCAATCT
1 TCCGTCGTTGTGGCTTCAATCT
35561746 TTTTAATTGC
Statistics
Matches: 229, Mismatches: 82, Indels: 20
0.69 0.25 0.06
Matches are distributed among these distances:
48 2 0.01
49 39 0.17
50 180 0.79
51 8 0.03
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (50 bp):
TCCGTCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGA
Found at i:35561753 original size:100 final size:100
Alignment explanation
Indices: 35561239--35561757 Score: 575
Period size: 100 Copynumber: 5.2 Consensus size: 100
35561229 GGATTATTTT
* * * ** * * *
35561239 CTTCAAT-TTCTTTAACTGTAATGTCGGGAAAACAAGATTTTCCATTGTGACTTCAATCTATTCC
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCC
* * * * *
35561303 GCTACACCGCCAGGGAGGTAAGATCCGCCGTTATGG
65 ACTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* * * * * * *
35561339 CTTCAATCTTTTAAATCGTAATGTC-GAGAGAACCAG-TCCGCCGTTGT-AGCTTCAATCTGTTC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGA-AACAAGATTCGCCGTCGTGA-CTTCAATCTGTTC
* * *
35561401 CTCTGCACCGCCAGGG-AGATAAGATCTGCCG-TGTGG
64 CACTGCACTGCCAGGGAAG-TAAGATCCGCCGTTGTGG
* * * * *
35561437 CTTCAATCTTTTAAATTGCAATGTCGGGGAAATAAGACTCGCTGTCGTGGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
35561502 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
66 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* * * * *
35561537 CTTCAATCTTTTTAATCGTAATTTCGGGGAAACCAGATTCGCCATCGTGACTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
* *
35561602 CTGCACTGCCAAGGAAGTAAGATCCGTCGTTGTGG
66 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* *
35561637 CTTCAATCTTTATAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGCTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
* * * *
35561702 CTAG-ACTGCCAAGGAAATAAGATCCGTCTTTGTGG
66 CT-GCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
35561737 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAATTGCAA
35561758 CGTCATGGCG
Statistics
Matches: 358, Mismatches: 51, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
98 33 0.09
99 94 0.26
100 228 0.64
101 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:35563199 original size:14 final size:15
Alignment explanation
Indices: 35563161--35563189 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35563151 CCTTAGCCTC
35563161 TCCA-TTTTCATTTT
1 TCCATTTTTCATTTT
35563175 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
35563190 CATTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (15 bp):
TCCATTTTTCATTTT
Found at i:35563726 original size:13 final size:11
Alignment explanation
Indices: 35563700--35563754 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 11
35563690 CTGGTGGAGG
35563700 TTTTTTTTTTC
1 TTTTTTTTTTC
35563711 TTTTTGTTTTTAC
1 TTTTT-TTTTT-C
35563724 TTTTTTTTGTTC
1 TTTTTTTT-TTC
*
35563736 TTCTTTTGTTCTC
1 TT-TTTT-TTTTC
35563749 TTTTTT
1 TTTTTT
35563755 CCCCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 5 0.13
12 15 0.39
13 16 0.42
14 2 0.05
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:35566800 original size:14 final size:14
Alignment explanation
Indices: 35566781--35566807 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35566771 GAATCCTTGG
35566781 ACCATATCCGGACA
1 ACCATATCCGGACA
35566795 ACCATATCCGGAC
1 ACCATATCCGGAC
35566808 CATATCCGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.37, G:0.15, T:0.15
Consensus pattern (14 bp):
ACCATATCCGGACA
Found at i:35566807 original size:25 final size:27
Alignment explanation
Indices: 35566779--35566831 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
35566769 TTGAATCCTT
35566779 GGACCATATCC-GG-ACAACCATATCC
1 GGACCATATCCGGGCACAACCATATCC
35566804 GGACCATATCCGGGTCACAACCATATCC
1 GGACCATATCCGGG-CACAACCATATCC
35566832 TTGAATCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.44
26 2 0.08
28 12 0.48
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (27 bp):
GGACCATATCCGGGCACAACCATATCC
Found at i:35568208 original size:5 final size:6
Alignment explanation
Indices: 35568190--35568215 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35568180 AAAGCCTTTG
35568190 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
35568216 AATGATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:35569427 original size:17 final size:17
Alignment explanation
Indices: 35569398--35569430 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35569388 TTGTTTTTAT
35569398 AAACGAAAGAAAAACAA
1 AAACGAAAGAAAAACAA
35569415 AAAC-AAAGTAAAAACA
1 AAACGAAAG-AAAAACA
35569431 GTAAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.12, G:0.09, T:0.03
Consensus pattern (17 bp):
AAACGAAAGAAAAACAA
Found at i:35589391 original size:19 final size:18
Alignment explanation
Indices: 35589367--35589432 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
35589357 ATTCCAAAAA
35589367 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATA-TT
*
35589386 TAATATTAAATTTAAT-TT
1 TAATATT-ATTTTAATATT
*
35589404 AATAATATTATTTTATTAATT
1 --TAATATTATTTTAAT-ATT
35589425 TAATATTA
1 TAATATTA
35589433 AAGTGATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
18 2 0.05
19 21 0.54
20 14 0.36
21 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATATTATTTTAATATT
Found at i:35589401 original size:20 final size:19
Alignment explanation
Indices: 35589367--35589460 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
35589357 ATTCCAAAAA
*
35589367 TAATATT-ATTTTAATAGTT
1 TAATATTAAATTTAATA-TT
35589386 TAATATTAAATTTAAT-TT
1 TAATATTAAATTTAATATT
* *
35589404 AATAATATT-ATTTTATTAATT
1 --TAATATTAAATTTAAT-ATT
* * *
35589425 TAATATTAAAGTGATTATCT
1 TAATATTAAATTTAATAT-T
35589445 TAATATTAAATTTAAT
1 TAATATTAAATTTAAT
35589461 TTATTGTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.03
19 22 0.37
20 33 0.56
21 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATTAAATTTAATATT
Found at i:35594085 original size:5 final size:5
Alignment explanation
Indices: 35594072--35594307 Score: 60
Period size: 5 Copynumber: 47.2 Consensus size: 5
35594062 CATCTGCATA
* * ** ** * *
35594072 GTTCA GTTCT GTTCT GTTCT GCTCT GTTCT CCTCT ACTCT ATTAT GTTCT
1 GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT
* * * * * * ** * * *
35594122 GTTCT GTTAT GTTAT GCTCT ATT-T TTCTCT GATCT ACTCT ATTCT ATTTT
1 GTTCT GTTCT GTTCT GTTCT GTTCT GT-TCT GTTCT GTTCT GTTCT GTTCT
* * * * * ** * * * *
35594172 GTTCT GTCCT GTTAT GTTTT GCTCT GCTCT ACTCT GTTAT GTTTT GCTAT
1 GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT
* * * * * ** * * *
35594222 GTTCT ATTCT GCTCT GCTCT GTTCT ATTTT GTTCT ACTAT GTTCT ATTTT
1 GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT
* * * *
35594272 GTCCT GTTCT GTTAT GTTAT GTTCT GTCCT GTTCT G
1 GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT GTTCT G
35594308 GATTGATTGT
Statistics
Matches: 166, Mismatches: 63, Indels: 4
0.71 0.27 0.02
Matches are distributed among these distances:
4 2 0.01
5 163 0.98
6 1 0.01
ACGTcount: A:0.09, C:0.21, G:0.15, T:0.55
Consensus pattern (5 bp):
GTTCT
Found at i:35594128 original size:45 final size:45
Alignment explanation
Indices: 35594072--35594237 Score: 116
Period size: 45 Copynumber: 3.6 Consensus size: 45
35594062 CATCTGCATA
* *
35594072 GTTCAGTTCTGTTCTGTTCTGCTCTGTTCTCCTCTACTCTATTAT
1 GTTCTGTTCTGTTCTGTTATGCTCTGTTCTCCTCTACTCTATTAT
* * * *
35594117 GTTCTGTTCTGTTATGTTATGCTCTATTTTTCTCTGATCTACTCTATTCT
1 GTTCTGTTCTGTTCTGTTATGCTC---TGTTCTC--CTCTACTCTATTAT
* * * * * * * *
35594167 ATTTTGTTCTGTCCTGTTATGTTTTGCTCTGCTCTACTCTGTTAT
1 GTTCTGTTCTGTTCTGTTATGCTCTGTTCTCCTCTACTCTATTAT
* * * * *
35594212 GTTTTGCTATGTTCTATTCTGCTCTG
1 GTTCTGTTCTGTTCTGTTATGCTCTG
35594238 CTCTGTTCTA
Statistics
Matches: 90, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
45 50 0.56
47 4 0.04
48 6 0.07
50 30 0.33
ACGTcount: A:0.10, C:0.22, G:0.14, T:0.54
Consensus pattern (45 bp):
GTTCTGTTCTGTTCTGTTATGCTCTGTTCTCCTCTACTCTATTAT
Found at i:35594177 original size:55 final size:55
Alignment explanation
Indices: 35594093--35594196 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
35594083 TTCTGTTCTG
* * *
35594093 CTCTGTTCTCCTCTACTCTATTATGTTCTGTTCTGTTATGTTATGCTCTATTTTT
1 CTCTGATCTACTCTACTCTATTATGTTCTGTCCTGTTATGTTATGCTCTATTTTT
* * *
35594148 CTCTGATCTACTCTATTCTATTTTGTTCTGTCCTGTTATGTTTTGCTCT
1 CTCTGATCTACTCTACTCTATTATGTTCTGTCCTGTTATGTTATGCTCT
35594197 GCTCTACTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.11, C:0.22, G:0.12, T:0.56
Consensus pattern (55 bp):
CTCTGATCTACTCTACTCTATTATGTTCTGTCCTGTTATGTTATGCTCTATTTTT
Found at i:35594227 original size:25 final size:25
Alignment explanation
Indices: 35594180--35594232 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
35594170 TTGTTCTGTC
*
35594180 CTGTTATGTTTTGCTCTGCTCTACT
1 CTGTTATGTTTTGCTATGCTCTACT
* *
35594205 CTGTTATGTTTTGCTATGTTCTATT
1 CTGTTATGTTTTGCTATGCTCTACT
35594230 CTG
1 CTG
35594233 CTCTGCTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.55
Consensus pattern (25 bp):
CTGTTATGTTTTGCTATGCTCTACT
Found at i:35594235 original size:40 final size:40
Alignment explanation
Indices: 35594191--35594269 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
35594181 TGTTATGTTT
* * *
35594191 TGCTCTGCTCTACTCTGTTATGTTTTGCTATGTTCTATTC
1 TGCTCTGCTCTACTCTATTATGTTCTACTATGTTCTATTC
** *
35594231 TGCTCTGCTCTGTTCTATTTTGTTCTACTATGTTCTATT
1 TGCTCTGCTCTACTCTATTATGTTCTACTATGTTCTATT
35594270 TTGTCCTGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.10, C:0.22, G:0.14, T:0.54
Consensus pattern (40 bp):
TGCTCTGCTCTACTCTATTATGTTCTACTATGTTCTATTC
Found at i:35594279 original size:25 final size:25
Alignment explanation
Indices: 35594251--35594306 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
35594241 TGTTCTATTT
* *
35594251 TGTTCTACTATGTTCTATTTTGTCC
1 TGTTCTACTATGTTATATTCTGTCC
** *
35594276 TGTTCTGTTATGTTATGTTCTGTCC
1 TGTTCTACTATGTTATATTCTGTCC
35594301 TGTTCT
1 TGTTCT
35594307 GGATTGATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.09, C:0.18, G:0.16, T:0.57
Consensus pattern (25 bp):
TGTTCTACTATGTTATATTCTGTCC
Found at i:35597577 original size:25 final size:25
Alignment explanation
Indices: 35597549--35597629 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
35597539 TCTGCGTAGT
35597549 TCTGTTCAGTTCTGTTATGTTATGC
1 TCTGTTCAGTTCTGTTATGTTATGC
* * * * *
35597574 TCTGATCTA-CTCTATTCTGTTATGT
1 TCTGTTC-AGTTCTGTTATGTTATGC
* *
35597599 TCTGTT-ATGTTTTGTTATGTTTTGC
1 TCTGTTCA-GTTCTGTTATGTTATGC
35597624 TCTGTT
1 TCTGTT
35597630 ATGTTTTACT
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
23 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (25 bp):
TCTGTTCAGTTCTGTTATGTTATGC
Found at i:35597620 original size:10 final size:10
Alignment explanation
Indices: 35597591--35597622 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
35597581 TACTCTATTC
*
35597591 TGTTATGTTC
1 TGTTATGTTT
35597601 TGTTATGTTT
1 TGTTATGTTT
35597611 TGTTATGTTT
1 TGTTATGTTT
35597621 TG
1 TG
35597623 CTCTGTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.03, G:0.22, T:0.66
Consensus pattern (10 bp):
TGTTATGTTT
Found at i:35597635 original size:15 final size:15
Alignment explanation
Indices: 35597611--35597656 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
35597601 TGTTATGTTT
35597611 TGTTATGTTTTGCTC
1 TGTTATGTTTTGCTC
* *
35597626 TGTTATGTTTTACTT
1 TGTTATGTTTTGCTC
* *
35597641 TGTTTTGTTCTGCTC
1 TGTTATGTTTTGCTC
35597656 T
1 T
35597657 ACTCTATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.13, G:0.17, T:0.63
Consensus pattern (15 bp):
TGTTATGTTTTGCTC
Found at i:35597644 original size:25 final size:25
Alignment explanation
Indices: 35597599--35597652 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
35597589 TCTGTTATGT
*
35597599 TCTGTTATGTTTTGTTATGTTTTGC
1 TCTGTTATGTTTTCTTATGTTTTGC
*
35597624 TCTGTTATGTTTTACTT-TGTTTTGT
1 TCTGTTATGTTTT-CTTATGTTTTGC
35597649 TCTG
1 TCTG
35597653 CTCTACTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.07, C:0.09, G:0.19, T:0.65
Consensus pattern (25 bp):
TCTGTTATGTTTTCTTATGTTTTGC
Found at i:35607451 original size:31 final size:29
Alignment explanation
Indices: 35607408--35607474 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
35607398 TTTTATAAAT
* *
35607408 AATTAATATTTAT-TAATTAAAAATATTTAC
1 AATTTATATTTATAT-ATT-AAAATATTAAC
35607438 AATTTATATTTTATATATTAAAATATTAAC
1 AATTTATA-TTTATATATTAAAATATTAAC
*
35607468 AAGTTAT
1 AATTTAT
35607475 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 23 0.72
31 8 0.25
32 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
AATTTATATTTATATATTAAAATATTAAC
Found at i:35607650 original size:13 final size:13
Alignment explanation
Indices: 35607634--35607708 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
35607624 TTTAAATCAA
35607634 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35607647 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
35607660 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
35607673 ACTTTTCAAAAG-
1 ACTTTTCAAAAGC
*
35607685 -C--TTCAAAAAC
1 ACTTTTCAAAAGC
35607695 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
35607708 A
1 A
35607709 ATGAAATAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 4 0.08
13 34 0.67
14 4 0.08
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:35607692 original size:22 final size:22
Alignment explanation
Indices: 35607664--35607707 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35607654 CACAACACTT
35607664 TTCAAAAACACTTTTCAAAAGC
1 TTCAAAAACACTTTTCAAAAGC
35607686 TTCAAAAACACTTTTCAAAAGC
1 TTCAAAAACACTTTTCAAAAGC
35607708 AATGAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (22 bp):
TTCAAAAACACTTTTCAAAAGC
Found at i:35615239 original size:19 final size:20
Alignment explanation
Indices: 35615209--35615253 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
35615199 TGGAAAATTA
*
35615209 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATAATTTACT
35615229 TTTCT-AAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
35615248 TTTCTG
1 TTTCTG
35615254 GTATTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:35615356 original size:18 final size:18
Alignment explanation
Indices: 35615330--35615372 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35615320 AAAAGCTGTT
*
35615330 TTTACATATACTAATAAA
1 TTTATATATACTAATAAA
*
35615348 TTTATATATATTAATAAA
1 TTTATATATACTAATAAA
*
35615366 ATTATAT
1 TTTATAT
35615373 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATATATACTAATAAA
Found at i:35617206 original size:19 final size:21
Alignment explanation
Indices: 35617144--35617200 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
35617134 ATTTTCGAGG
35617144 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
35617165 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
35617186 ATATACAATCTTAGA
1 ATATACAATCTTAGA
35617201 AGATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:35617769 original size:30 final size:30
Alignment explanation
Indices: 35617695--35617757 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 30
35617685 TTACAGTTTA
*
35617695 AATTAGTCTTTTTTCATTTTCTTTATTTTTTATT
1 AATTAGT-TTTTTT-A--TTCTTTATTTTATATT
35617729 AATTAGTTTTTTTATTCTTT-TTTTATATT
1 AATTAGTTTTTTTATTCTTTATTTTATATT
35617758 TAGTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 8 0.29
30 6 0.21
32 1 0.04
33 6 0.21
34 7 0.25
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (30 bp):
AATTAGTTTTTTTATTCTTTATTTTATATT
Found at i:35622729 original size:32 final size:33
Alignment explanation
Indices: 35622687--35622770 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
35622677 TATTGAAATT
35622687 AGTTTGTTGGAT-TTAGAAATTATTATGTTTTAA
1 AGTTTGTTGGATATT-GAAATTATTATGTTTTAA
*
35622720 AGTTT-TTGGATATTGAATTTATTATGTTTT-A
1 AGTTTGTTGGATATTGAAATTATTATGTTTTAA
*
35622751 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
35622771 GATTGACAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.11
32 34 0.74
33 7 0.15
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (33 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTTAA
Found at i:35623904 original size:46 final size:46
Alignment explanation
Indices: 35623852--35623947 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
35623842 ACTACTAATT
* ** *
35623852 TGTAATATTCGTTATGCACTTGGATGATATTGTAGTTACCATGTGG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
*
35623898 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
35623944 TGTA
1 TGTA
35623948 CTACTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (46 bp):
TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
Found at i:35624512 original size:125 final size:124
Alignment explanation
Indices: 35624300--35624535 Score: 393
Period size: 125 Copynumber: 1.9 Consensus size: 124
35624290 AAATCGCTTC
* * *
35624300 TACCAGGATGCTATTTAAGAAGAATTTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAGT
35624365 GGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCACTGA
66 GGTCATGTAAGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCACTGA
* *
35624425 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAG-
*
35624490 TGGTCATGTAGGAAATAA-TTTTTTTTGACGTTTCTGAGCAAATAGT
65 TGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGT
35624536 GTCAAATCGA
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
124 16 0.15
125 71 0.68
126 17 0.16
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (124 bp):
TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAGT
GGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTGA
Found at i:35627816 original size:61 final size:61
Alignment explanation
Indices: 35627749--35627965 Score: 291
Period size: 61 Copynumber: 3.6 Consensus size: 61
35627739 GGTTTTTACA
35627749 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTT
* * *
35627810 TTAATTAAATTAGGTTAGGATAAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTA
1 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTT
* * * ** * *
35627871 TTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGT---T-AGGGTTGGGGGTT
1 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAAT-GATAAATCAGGGTAAGAGTTT
*
35627929 TTAATTAAATTAGGTTA-GGTTAGGGATTTCAATTAAA
1 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAA
35627966 TTAGGTTAGG
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
57 19 0.13
58 25 0.18
59 1 0.01
61 94 0.67
62 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (61 bp):
TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTT
Found at i:35627962 original size:28 final size:29
Alignment explanation
Indices: 35627749--35628035 Score: 238
Period size: 29 Copynumber: 9.8 Consensus size: 29
35627739 GGTTTTTACA
35627749 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
* * ** * * * *
35627778 TCAAATAAAATGATAAATCAGGGTAAGAGTTT
1 T-TAATTAAAT--TAGGTTAGGGTTAGGGATT
* *
35627810 TTAATTAAATTAGGTTAGGATAAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
* * ** * * *
35627839 TCAAATAAAATGATAAATCAGGGTAAGAG-TT
1 T-TAATTAAAT--TAGGTTAGGGTTAGGGATT
35627870 ATTAATTAAATTAGGTTAGGGTTAGGGATT
1 -TTAATTAAATTAGGTTAGGGTTAGGGATT
* * *
35627900 TTAATTAAAATAGGTTAGGGTTGGGGGTT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
35627929 TTAATTAAATTAGGTTA-GGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
* *
35627957 TCAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
** * *
35627986 TTAATTAAATTAAATTA-GCTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGATT
* *
35628014 TTAATTAAGTTATGTTAGGGTT
1 TTAATTAAATTAGGTTAGGGTT
35628036 TTTAATTAAG
Statistics
Matches: 202, Mismatches: 46, Indels: 20
0.75 0.17 0.07
Matches are distributed among these distances:
28 49 0.24
29 95 0.47
30 16 0.08
31 16 0.08
32 26 0.13
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (29 bp):
TTAATTAAATTAGGTTAGGGTTAGGGATT
Found at i:35627971 original size:57 final size:57
Alignment explanation
Indices: 35627749--35629026 Score: 361
Period size: 46 Copynumber: 25.4 Consensus size: 57
35627739 GGTTTTTACA
* * * * * *
35627749 TTAATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAATGATAAATCAGGGTAAGAGTTT
1 TTAATTAAATTAGGTTA-GGTTAGGGATTTC-AATTAAAT--TAAGTTAGGGTTAGGGGTT
* * * * * *
35627810 TTAATTAAATTAGGTTAGGATAAGGGATTTCAAATAAAATGATAAATCAGGG-TAAGAGTT
1 TTAATTAAATTAGGTTAGG-TTAGGGATTTC-AATTAAAT--TAAGTTAGGGTTAGGGGTT
* * * *
35627870 ATTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTGGGGGTT
1 -TTAATTAAATTAGGTTA-GGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* *
35627929 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
** * *
35627986 TTAATTAAATTAAATTAGCTTAGGG-TTT---TT-AATTAAGTTA-TGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * *
35628035 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
** * *
35628083 TTAATTAAATTAAATTAGCTTAGGG-TTT---TT-AATTAAGTTA-TGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * *
35628132 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAGTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * * *
35628180 TTAATTTAATTAAGTTAGGTTA-GG-TTT---TTTAATTAAGTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* *
35628231 TTAATTTAA--A--TTAGGTTAGGG-TTT---TT-AATTAAATTA-GGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * *
35628276 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAATTA-GGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* *
35628322 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAG-TAGGGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * * * *
35628368 TT--TT-AATTAAGTTATGTTAGGGTTTTTAATTTAATCAAGTTA-GGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * *
35628419 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
**
35628467 TTAATTAAATTA-G---GGTTAGGG-TTT---TT-AATTAAGTTA-TTTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * * * *
35628512 TT--TT-AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
*
35628565 TTAATTAAATTAGGTTAGGGTT-----TTT-AATTAAATTAGGTTAGGGTTA-GGG-T
1 TTAATTAAATTAGGTTA-GGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * *
35628615 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAATTA-GGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* *
35628661 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAG-TAGGGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * * *
35628707 TT--TT-AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * *
35628758 TT--TT-AATTAAGTTATGTTAGGG-TTT---TT-AATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
*
35628806 TTAATTAAATTAGGTTAGGGTTAGGG-TTT---TT-AATTAAG-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTA-GGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
35628858 TTAATT-AA--A--TTAGGTTAGGG-TTT---TT-AATTAAG-TAGGGTTA-GGG-T
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
* * * * * *
35628902 TT--TT-AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
*
35628955 TTAATT-AA--A--TTAGGTTAGGG-TTT---TT-AATTAAG-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
35629001 TTAATTAAATTAGGTTAGGGTTAGGG
1 TTAATTAAATTAGGTTA-GGTTAGGG
35629027 TTTTTTAATC
Statistics
Matches: 1050, Mismatches: 80, Indels: 183
0.80 0.06 0.14
Matches are distributed among these distances:
42 11 0.01
43 5 0.00
44 5 0.00
45 14 0.01
46 342 0.33
47 97 0.09
48 23 0.02
49 9 0.01
50 43 0.04
51 227 0.22
52 70 0.07
53 9 0.01
55 6 0.01
56 12 0.01
57 61 0.06
58 24 0.02
59 5 0.00
60 11 0.01
61 74 0.07
62 2 0.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.47
Consensus pattern (57 bp):
TTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAAGTTAGGGTTAGGGGTT
Found at i:35628003 original size:23 final size:23
Alignment explanation
Indices: 35627993--35629022 Score: 1197
Period size: 23 Copynumber: 42.9 Consensus size: 23
35627983 TTTTTAATTA
*
35627993 AATTAAATTAGCTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628016 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628039 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628062 AATTAAATTAGGTTAGGGTTTTTAATT
1 AATTAAATTAGGTTAGGG--TTT--TT
*
35628089 AAATTAAATTAGCTTAGGGTTTTT
1 -AATTAAATTAGGTTAGGGTTTTT
* *
35628113 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628136 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628159 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
35628182 AATTTAATTAAGTTAGGTTAGGTTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
* *
35628210 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628233 AATTTAAATTAGGTTAGGGTTTTT
1 AA-TTAAATTAGGTTAGGGTTTTT
35628257 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628280 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628303 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628326 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
35628349 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
* *
35628372 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628395 AATTTAATCAAGTTAGGTTAGGGTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
* *
35628423 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628446 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628469 AATTAAATTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
* **
35628493 AATTAAGTTATTTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628516 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628539 AATTTAATTAAGTTAGGTTAGGGTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
35628567 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628590 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
* *
35628619 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628642 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
35628665 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
35628688 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
* *
35628711 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628734 AATTTAATTAAGTTAGGTTAGGGTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
* *
35628762 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628785 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628808 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
*
35628837 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
35628860 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
35628883 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
* *
35628906 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
35628929 AATTTAATTAAGTTAGGTTAGGGTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
35628957 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
35628980 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
35629003 AATTAAATTAGGTTAGGGTT
1 AATTAAATTAGGTTAGGGTT
35629023 AGGGTTTTTT
Statistics
Matches: 885, Mismatches: 69, Indels: 106
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.02
23 605 0.68
24 86 0.10
25 9 0.01
26 10 0.01
27 18 0.02
28 109 0.12
29 34 0.04
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGTTTTT
Found at i:35628060 original size:46 final size:46
Alignment explanation
Indices: 35627964--35629022 Score: 1318
Period size: 46 Copynumber: 21.9 Consensus size: 46
35627954 ATTTCAATTA
* *
35627964 AATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGGTTTTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTT--A-T-G-TTAGGGTTTTT
*
35628016 AATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
* *
35628062 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTT--A-T-G-TTAGGGTTTTT
*
35628113 AATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
* * *
35628159 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTT
1 AATTAAGTTAGGTTAGGG---TT--TTTAATTAAGTTATGTTAGGGTTTTT
* * *
35628210 AATTAAGTTATGTTAGGGTTTTTAATTTAAATTAGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAA-TTAAGTTATGTTAGGGTTTTT
*
35628257 AATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
*
35628303 AATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
35628349 AATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
35628395 AATTTAATCAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AA--T--T-AAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
* * *
35628446 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTA-TGTTAGGGTTTTT
**
35628493 AATTAAGTTATTTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGG---TT--TTT
* *
35628544 AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
35628590 AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATT--A--A-GTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
*
35628642 AATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
35628688 AATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGG---TT--TTT
35628739 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
* *
35628785 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATT--A--A-GTTA-TGTTAGGGTTTTT
* *
35628837 AATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
35628883 AATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGG---TT--TTT
* *
35628934 AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
* *
35628980 AATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTT
35629023 AGGGTTTTTT
Statistics
Matches: 914, Mismatches: 42, Indels: 108
0.86 0.04 0.10
Matches are distributed among these distances:
45 6 0.01
46 421 0.46
47 92 0.10
48 16 0.02
49 12 0.01
50 6 0.01
51 273 0.30
52 88 0.10
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (46 bp):
AATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
Found at i:35628108 original size:97 final size:97
Alignment explanation
Indices: 35627975--35629022 Score: 1212
Period size: 97 Copynumber: 10.9 Consensus size: 97
35627965 ATTAGGTTAG
* *
35627975 GGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
35628040 ATTAAGTTATGTTAGGGTTTTTAATTAAATTA
66 ATTAAGTTATGTTAGGGTTTTTAATTAAATTA
* *
35628072 GGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
*
35628137 ATTAAGTTATGTTAGGGTTTTTAATTAAGTTA
66 ATTAAGTTATGTTAGGGTTTTTAATTAAATTA
* * * * *
35628169 TGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
* *
35628234 ATTTAAATTAGGTTAGGGTTTTTAATTAAATTA
66 A-TTAAGTTATGTTAGGGTTTTTAATTAAATTA
* *
35628267 GGTTAGGGTTTTTAATTAAGTT--A-T--GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
*
35628327 ATTAAGTTATGTTAGGGTTTTTAATT-AAGTA
66 ATTAAGTTATGTTAGGGTTTTTAATTAAATTA
*
35628358 GGGTTAGGGTTTTTAATTAAGTT--A-T--GTTAGGGTTTTTAATTTAATCAAGTTAGGTTAGGG
1 -GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAA--T--T-AAGTTAGGTTAGGG
35628418 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTA
60 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTA
* **
35628456 GGTTAGGGTTTTTAATTAAATT--A--GGGTTAGGGTTTTTAATTAAGTTATTTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
35628517 ATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA
66 ATTAAGTTATGTTAGGGTTTTTAA-TT-A--AA-TTA
35628554 GGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATT--A--A-GTTA-GGTTAGGG
35628614 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTA
60 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTA
*
35628652 GGTTAGGGTTTTTAATTAAGTT--A-T--GTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTT
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTTTT
35628711 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA
65 AATTAAGTTATGTTAGGGTTTTTAA-TT-A--AA-TTA
* *
35628749 GGTTAGGGTTTTTAATTAAGTT--A-T--GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
* *
35628809 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AAGTA
66 ATT--A--A-GTTA-TGTTAGGGTTTTTAATTAAATTA
35628846 GGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTT
1 -GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTTT
35628905 TAATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA
64 TAATTAAGTTATGTTAGGGTTTTTAA-TT-A--AA-TTA
35628944 GGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTT
1 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTTTT
* *
35629003 AATTAAATTAGGTTAGGGTT
65 AATTAAGTTATGTTAGGGTT
35629023 AGGGTTTTTT
Statistics
Matches: 859, Mismatches: 37, Indels: 110
0.85 0.04 0.11
Matches are distributed among these distances:
91 4 0.00
92 116 0.14
93 92 0.11
94 11 0.01
95 4 0.00
96 13 0.02
97 388 0.45
98 152 0.18
99 4 0.00
100 4 0.00
101 4 0.00
102 14 0.02
103 53 0.06
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (97 bp):
GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTA
ATTAAGTTATGTTAGGGTTTTTAATTAAATTA
Found at i:35629031 original size:195 final size:188
Alignment explanation
Indices: 35627936--35629022 Score: 1424
Period size: 195 Copynumber: 5.6 Consensus size: 188
35627926 GTTTTAATTA
* * * * * *
35627936 AATTAGGTTAGGTTAGGGATTTCAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAAT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGG--TTT--TT-AATTAAAT
* * *
35628001 TAGCTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATT
60 TAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATT
* *
35628066 AAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGCTTAGGGTTTTTAATTAAGTTATGTTAGGG
125 AAATTAGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTTTTAATTAAG-TAGGTTAGGG
35628131 TTTTT
184 TTTTT
*
35628136 AATTAAGTTATGTTAGGG---TT--TTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAA-TT-A--AA-TT
* * *
35628196 AGGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAAATTAGGTTAGGGTTTTTAATT
61 AGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAA-TTAAGTTAGGTTAGGGTTTTTAATT
* * *
35628261 AAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
125 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AAGTAGGTTAGGGTTTTT
* * *
35628326 AATTAAGTTATGTTAGGGTTTTTAA-TTAAGT-AG---GGTTAGGGTTTTTAATTAAGTTATGTT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
*
35628386 AGGGTTTTTAATTTAATCAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTA
66 AGGGTTTTTAA--T--T-AAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTA
**
35628451 AATTAGGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTTAATTAAGTTATTTTAGGGTTTTT
126 AATTAGGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAAG-TAGGTTAGGGTTTTT
35628516 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
*
35628581 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATT
66 AGGGTTTTTAATT--A--A-GTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATT
* *
35628646 AAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTT
125 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTA-GGTTAGGGTTTTT
* *
35628711 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
*
35628776 AGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
66 AGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATT--A--A-GTTA-GGTTAGGGTTTTTAATT
*
35628841 -AAGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTT
125 AAATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTA-GGTTAGGGTTTT
35628905 T
188 T
35628906 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
*
35628971 AGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
66 AGGGTTTTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTT
35629023 AGGGTTTTTT
Statistics
Matches: 802, Mismatches: 47, Indels: 87
0.86 0.05 0.09
Matches are distributed among these distances:
185 16 0.02
186 1 0.00
187 1 0.00
188 1 0.00
189 85 0.11
190 154 0.19
191 14 0.02
192 6 0.01
193 13 0.02
194 64 0.08
195 362 0.45
196 68 0.08
197 1 0.00
200 16 0.02
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (188 bp):
AATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
AGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGTTAGGGTTTTT
Found at i:35631183 original size:14 final size:15
Alignment explanation
Indices: 35631166--35631199 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35631156 AATAAATATC
35631166 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
35631180 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
35631195 TAAAA
1 TAAAA
35631200 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:35631328 original size:27 final size:28
Alignment explanation
Indices: 35631297--35631360 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
35631287 TTGAAAATAT
35631297 TAAAAATTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAA
*
35631324 TAAAAAATTTTAAAATTTTCTTAAAAAAA
1 T-AAAAATTTTAAAATTATCTTAAAAAAA
*
35631353 -AGAAATTT
1 TAAAAATTT
35631361 AATGGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 8 0.24
28 16 0.48
29 9 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATCTTAAAAAAA
Found at i:35631330 original size:28 final size:29
Alignment explanation
Indices: 35631298--35631352 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
35631288 TGAAAATATT
35631298 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
35631326 AAAAATTTTAAAATTTTCTTAAAAAAA
1 AAAAATTTTAAAATTATCTTAAAAAAA
35631353 AGAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:35631425 original size:22 final size:22
Alignment explanation
Indices: 35631395--35631436 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35631385 ATTTGGAGAT
*
35631395 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
35631417 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
35631437 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:35631467 original size:22 final size:22
Alignment explanation
Indices: 35631438--35631529 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
35631428 ATTTGAGAGT
35631438 TTGAGAGAA-TTTTGAAAGGAAA
1 TTGAGAGAATTTTTG-AAGGAAA
* * *
35631460 TTAAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
35631482 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAATTTTTG-AAGGAAA
35631504 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
35631526 TTGA
1 TTGA
35631530 TATTGAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
21 4 0.06
22 50 0.79
23 9 0.14
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:35631487 original size:44 final size:44
Alignment explanation
Indices: 35631438--35631529 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
35631428 ATTTGAGAGT
*
35631438 TTGAGAGAA-TTTTGAAAGGAAATTAAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTAAGAGAAATTTTGAAGGAAA
* *
35631482 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTAAGAGAAATTTTGAAGGAAA
35631526 TTGA
1 TTGA
35631530 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 34 0.77
45 10 0.23
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTAAGAGAAATTTTGAAGGAAA
Found at i:35633037 original size:26 final size:28
Alignment explanation
Indices: 35632984--35633039 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
35632974 GCAATATGGA
* *
35632984 TGCTTAAATTACAAATTTTTATTTTAAT
1 TGCTTAAAATACAAATTTTTATTATAAT
35633012 TGCTTAAAATA-AAATTTTT-TTATAAT
1 TGCTTAAAATACAAATTTTTATTATAAT
35633038 TG
1 TG
35633040 GGTGACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.31
27 8 0.31
28 10 0.38
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (28 bp):
TGCTTAAAATACAAATTTTTATTATAAT
Found at i:35642794 original size:19 final size:20
Alignment explanation
Indices: 35642770--35642809 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35642760 TTCTCTTGAA
*
35642770 AATTGCAATTAA-AATATGT
1 AATTGCAATCAATAATATGT
*
35642789 AATTGCAGTCAATAATATGT
1 AATTGCAATCAATAATATGT
35642809 A
1 A
35642810 GTAATTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (20 bp):
AATTGCAATCAATAATATGT
Found at i:35645647 original size:18 final size:18
Alignment explanation
Indices: 35645616--35645668 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
35645606 ATTCACCAAA
*
35645616 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
35645635 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
35645653 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
35645669 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:35645742 original size:8 final size:8
Alignment explanation
Indices: 35645729--35645755 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
35645719 AACTAAAACT
35645729 AAAGTCTA
1 AAAGTCTA
35645737 AAAGTCTA
1 AAAGTCTA
35645745 AAAGTCTA
1 AAAGTCTA
35645753 AAA
1 AAA
35645756 AAATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (8 bp):
AAAGTCTA
Found at i:35645836 original size:9 final size:9
Alignment explanation
Indices: 35645778--35645835 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
35645768 GTAGTGATTC
35645778 AATTCGGTT
1 AATTCGGTT
*
35645787 AATTCGGGT
1 AATTCGGTT
35645796 AATTCGGTT
1 AATTCGGTT
35645805 AATTCGGTT
1 AATTCGGTT
*
35645814 AATTCAGTT
1 AATTCGGTT
*
35645823 AATTTGGTT
1 AATTCGGTT
35645832 AATT
1 AATT
35645836 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:35658251 original size:20 final size:18
Alignment explanation
Indices: 35658204--35658252 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
35658194 CAAGATAAAC
35658204 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
35658221 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
35658241 ATTAAATTAATA
1 ATTAAATTAATA
35658253 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:35660478 original size:51 final size:51
Alignment explanation
Indices: 35660386--35660503 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
35660376 ATAAAAATGG
*
35660386 TGAAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAA
1 TGAAAATGGA-AAATGAGAAACATTTGGAAATGAATATGGTTTTATCCAAAA
* * *
35660438 TGAAAATGGAGAAATGA-AATCATTTGGAAATGAATGTGGTTTTCTCCAAAA
1 TGAAAATGGA-AAATGAGAAACATTTGGAAATGAATATGGTTTTATCCAAAA
*
35660489 TAAAAAT-GAAAATGA
1 TGAAAATGGAAAATGA
35660504 TCTGGAAATG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 6 0.10
50 2 0.03
51 36 0.60
52 16 0.27
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (51 bp):
TGAAAATGGAAAATGAGAAACATTTGGAAATGAATATGGTTTTATCCAAAA
Found at i:35669973 original size:33 final size:33
Alignment explanation
Indices: 35669936--35670009 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
35669926 ATTATTATAA
* *
35669936 GATATTATCTTTTAGAAATTTGATTCTTAATAG
1 GATATTATCTCTTAGAAATTTGATTCCTAATAG
* * *
35669969 GATATCATCTCTTAGGAATTTGATTCCTAATGG
1 GATATTATCTCTTAGAAATTTGATTCCTAATAG
35670002 GATATTAT
1 GATATTAT
35670010 AGGATATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (33 bp):
GATATTATCTCTTAGAAATTTGATTCCTAATAG
Found at i:35673631 original size:56 final size:56
Alignment explanation
Indices: 35673540--35673692 Score: 227
Period size: 56 Copynumber: 2.7 Consensus size: 56
35673530 AGGAGGGTAT
* *
35673540 TAAGATATTATTCTGGGATATTATATTTTAACAATTTGATTCTTAATAGGATATTA
1 TAAGATATTATTCTGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTA
* * * *
35673596 TAAGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTA
1 TAAGATATTATTCTGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTA
*
35673652 T-AGAATATTATTCTGGGATATTATTTTTTAGCAATTTGATT
1 TAAG-ATATTATTCTGGGATATTATATTTTAGCAATTTGATT
35673693 TCTACGTAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 2 0.02
56 85 0.98
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (56 bp):
TAAGATATTATTCTGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTA
Found at i:35676149 original size:31 final size:31
Alignment explanation
Indices: 35676114--35676176 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
35676104 TAAAGTTAGA
*
35676114 TTTAACATAAAAGTCGAATAGTTAAATTCAT
1 TTTAACATAAAAGTCGAATAATTAAATTCAT
35676145 TTTAACATAAAAGTCGAATAATTAAATTCAT
1 TTTAACATAAAAGTCGAATAATTAAATTCAT
35676176 T
1 T
35676177 CTATTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (31 bp):
TTTAACATAAAAGTCGAATAATTAAATTCAT
Found at i:35678321 original size:11 final size:11
Alignment explanation
Indices: 35678307--35678331 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35678297 TCGATTTTCA
35678307 TTACTTTTGTT
1 TTACTTTTGTT
35678318 TTACTTTTGTT
1 TTACTTTTGTT
35678329 TTA
1 TTA
35678332 ATGAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (11 bp):
TTACTTTTGTT
Found at i:35690049 original size:18 final size:18
Alignment explanation
Indices: 35690021--35690060 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
35690011 TATTTTTAAA
35690021 AAAATTTAAAAAAAATT-
1 AAAATTTAAAAAAAATTC
35690038 AAAATTTAAAAAAAAATTC
1 AAAATTT-AAAAAAAATTC
35690057 AAAA
1 AAAA
35690061 AGAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 10 0.48
19 4 0.19
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTTAAAAAAAATTC
Found at i:35692099 original size:22 final size:22
Alignment explanation
Indices: 35692071--35692112 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35692061 AGGACGAAAC
*
35692071 AGGGTGTGCGTGTTGTGACACA
1 AGGGTGTGCGTGTTGCGACACA
*
35692093 AGGGTGTGTGTGTTGCGACA
1 AGGGTGTGCGTGTTGCGACA
35692113 TAGACACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.43, T:0.29
Consensus pattern (22 bp):
AGGGTGTGCGTGTTGCGACACA
Found at i:35693451 original size:26 final size:24
Alignment explanation
Indices: 35693415--35693464 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
35693405 CTGTTGTAAC
*
35693415 TTTTTTAGTTAGTTTTATTTTAATTA
1 TTTTTTAGTTA-TTTT-TTATAATTA
*
35693441 TTTTTTTGTTATTTTTTATAATTA
1 TTTTTTAGTTATTTTTTATAATTA
35693465 CCTTGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 4 0.18
26 10 0.45
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTAGTTATTTTTTATAATTA
Found at i:35695788 original size:20 final size:20
Alignment explanation
Indices: 35695763--35695803 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35695753 GTCCAGTAAG
*
35695763 TTAGGGCATGATATCTTGAA
1 TTAGGGCACGATATCTTGAA
35695783 TTAGGGCACGATATCTTGAA
1 TTAGGGCACGATATCTTGAA
35695803 T
1 T
35695804 CCTCGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (20 bp):
TTAGGGCACGATATCTTGAA
Found at i:35698256 original size:94 final size:95
Alignment explanation
Indices: 35698120--35698532 Score: 369
Period size: 94 Copynumber: 4.4 Consensus size: 95
35698110 TTATAGTTTC
* * * * * * *
35698120 ATTCTAACCCACTACAACTTCAGAGGTATAGGAATTATAGTTTCAATC-TGAC-CTATTGA-AAC
1 ATTCTAACCCACTAAAACTTTAGGGGTATAGGATTTGTAGTTT-AATCTTG-CTCCACT-ATAAC
*
35698182 TTTAGGGAGATAAGATTTGCTATGATAACTTCA
63 TTTAGGGAGATAAGATTCGCTATGATAACTTCA
*
35698215 ATTC-AACCCACTAAAACTTTAGGGGTAT-GAGATTTGTAGTTTTATCTTGCTCCACTATAACTT
1 ATTCTAACCCACTAAAACTTTAGGGGTATAG-GATTTGTAGTTTAATCTTGCTCCACTATAACTT
*
35698278 TAGGGAGATAAGATTCGCTATGGTAACTTCA
65 TAGGGAGATAAGATTCGCTATGATAACTTCA
* * ** * *
35698309 A-TCTGACCTACTGTAACTTTAGGGGTATATGATTTGTAGCTTT-ATCTTGCTCCACTACAACTT
1 ATTCTAACCCACTAAAACTTTAGGGGTATAGGATTTGTAG-TTTAATCTTGCTCCACTATAACTT
* * * ** * *
35698372 CAAGGAGATAAGGTTCATTATGGTAACTTTA
65 TAGGGAGATAAGATTCGCTATGATAACTTCA
* * * * **
35698403 A-TCTGACCCACTACAACTTTAAGGGTATAGGATTTGTAGCTTT-ATCTTGCTCCATTGCAACTT
1 ATTCTAACCCACTAAAACTTTAGGGGTATAGGATTTGTAG-TTTAATCTTGCTCCACTATAACTT
* *
35698466 TAGAGAGATAAGATTCGCTATGGTAACTTCA
65 TAGGGAGATAAGATTCGCTATGATAACTTCA
** ** * *
35698497 A-TCCGACCCACTGCAACTTCAGAGGTATAGGATTTG
1 ATTCTAACCCACTAAAACTTTAGGGGTATAGGATTTG
35698533 CTATGGTAAC
Statistics
Matches: 270, Mismatches: 41, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
93 8 0.03
94 255 0.94
95 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (95 bp):
ATTCTAACCCACTAAAACTTTAGGGGTATAGGATTTGTAGTTTAATCTTGCTCCACTATAACTTT
AGGGAGATAAGATTCGCTATGATAACTTCA
Found at i:35698292 original size:44 final size:43
Alignment explanation
Indices: 35698222--35698480 Score: 112
Period size: 44 Copynumber: 5.6 Consensus size: 43
35698212 TCAATTCAAC
* *
35698222 CCACTAAAACTTTAGGGGTATGAGATTTGTAGTTTTATCTTGCT
1 CCACTACAACTTTAGGGG-ATAAGATTTGTAGTTTTATCTTGCT
* * *
35698266 CCACTATAACTTTAGGGAGATAAGATTCGCTATGGTAACTTCAATC-TGAC-
1 CCACTACAACTTTAGGG-GATAAGATTTG-TA--GT---TT-TATCTTG-CT
* ** * *
35698316 CTACTGTAACTTTAGGGGTATATGATTTGTAGCTTTATCTTGCT
1 CCACTACAACTTTAGGGG-ATAAGATTTGTAGTTTTATCTTGCT
* * * *
35698360 CCACTACAACTTCAAGGAGATAAGGTTCATTATGGTAACTTTAATC-TGAC-
1 CCACTACAACTT-TAGGGGATAA-G---ATT-T-GT-AGTTTTATCTTG-CT
* * *
35698410 CCACTACAACTTTAAGGGTATAGGATTTGTAGCTTTATCTTGCT
1 CCACTACAACTTT-AGGGGATAAGATTTGTAGTTTTATCTTGCT
* * *
35698454 CCATTGCAACTTTAGAGAGATAAGATT
1 CCACTACAACTTTAG-GGGATAAGATT
35698481 CGCTATGGTA
Statistics
Matches: 159, Mismatches: 31, Indels: 50
0.66 0.13 0.21
Matches are distributed among these distances:
43 13 0.08
44 63 0.40
45 9 0.06
46 3 0.02
47 3 0.02
48 3 0.02
49 5 0.03
50 49 0.31
51 11 0.07
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (43 bp):
CCACTACAACTTTAGGGGATAAGATTTGTAGTTTTATCTTGCT
Found at i:35698538 original size:50 final size:50
Alignment explanation
Indices: 35698458--35698661 Score: 196
Period size: 50 Copynumber: 4.2 Consensus size: 50
35698448 CTTGCTCCAT
* * *
35698458 TGCAACTTTAGAGAG-ATAAGATTCGCTATGGTAACTTCAATCCGACCCAC
1 TGCAACTTCAGAG-GTATAGGATTCGCTATGGTAACTTCAATCTGACCCAC
*
35698508 TGCAACTTCAGAGGTATAGGATTTGCTATGGTAACTTCAATCTGACCCAC
1 TGCAACTTCAGAGGTATAGGATTCGCTATGGTAACTTCAATCTGACCCAC
* * * * * *
35698558 TACAACTTTAGGGGTATAGGA-T---T-T-GTAGCTT-TATCTTG-CTCCAT
1 TGCAACTTCAGAGGTATAGGATTCGCTATGGTAACTTCAATC-TGAC-CCAC
*
35698602 TGCAACTTCAG-GGAGATA-GATTCGCTATGGTAACTTCAATCTGACCCAC
1 TGCAACTTCAGAGG-TATAGGATTCGCTATGGTAACTTCAATCTGACCCAC
35698651 TGCAACTTCAG
1 TGCAACTTCAG
35698662 GGAGATAAGA
Statistics
Matches: 126, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
43 8 0.06
44 24 0.19
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 24 0.19
50 66 0.52
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCAACTTCAGAGGTATAGGATTCGCTATGGTAACTTCAATCTGACCCAC
Found at i:35698639 original size:93 final size:93
Alignment explanation
Indices: 35698508--35698719 Score: 275
Period size: 93 Copynumber: 2.3 Consensus size: 93
35698498 TCCGACCCAC
* * *
35698508 TGCAACTTCAGAGG-TATAGGATTTGCTATGGTAACTTCAATCTGACCCACTACAACTTTAGGG-
1 TGCAACTTCAG-GGAGATA-GATTCGCTATGGTAACTTCAATCTGACCCACTACAACTTCAGGGA
* * * *
35698571 GTATAGGATTTGTAGCTTTATCTTGCTCCAT
64 G-ATAAGATTCGTAGCTTCATCTTACTCCAT
*
35698602 TGCAACTTCAGGGAGATAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGAGA
1 TGCAACTTCAGGGAGATAGATTCGCTATGGTAACTTCAATCTGACCCACTACAACTTCAGGGAGA
*
35698667 TAAGATTCGTAGCTTCATTTTACTCCAT
66 TAAGATTCGTAGCTTCATCTTACTCCAT
* *
35698695 TGCAACTTTAGGAAGATAAGATTCG
1 TGCAACTTCAGGGAGAT-AGATTCG
35698720 TGGCTTCATT
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
93 82 0.79
94 22 0.21
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (93 bp):
TGCAACTTCAGGGAGATAGATTCGCTATGGTAACTTCAATCTGACCCACTACAACTTCAGGGAGA
TAAGATTCGTAGCTTCATCTTACTCCAT
Found at i:35698701 original size:44 final size:44
Alignment explanation
Indices: 35698554--35698900 Score: 204
Period size: 44 Copynumber: 7.6 Consensus size: 44
35698544 TCAATCTGAC
* * * * * * *
35698554 CCACTACAACTTTAGGG-GTATAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGTAGCTTCATTTTACT
* * *
35698598 CCATTGCAACTTCAGGGAGAT-AGATTCGCTATGGTAACTTCAATCTGAC-
1 CCACTGCAACTTCAGGGAGATAAGATTCG-TA--G---CTTC-ATTTTACT
35698647 CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATTTTACT
1 CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATTTTACT
* * * * *
35698691 CCATTGCAACTTTAGGAAGATAAGATTCGTGGCTTCATTTTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATTTTACT
* * *
35698735 CCATTGCAACTTTAGGGAGATAAGATTTGCCCTCGTAGTTTCATTTTGA-T
1 CCACTGCAACTTCAGGGAGATAAGA--T----TCGTAGCTTCATTTT-ACT
* * * * **
35698785 CCACTGCAACTTCAAAGG-TATAGGAATT-GTAGCTTTAATTCGA-T
1 CCACTGCAACTTC-AGGGAGATAAG-ATTCGTAGC-TTCATTTTACT
* * * * * *
35698829 CCACTGCGACTTCAAGGATATAGGATTTGTAGCTTCATCTTACT
1 CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATTTTACT
*
35698873 CCACTGCAACTTCAGGGATATAAGATTC
1 CCACTGCAACTTCAGGGAGATAAGATTC
35698901 TCTGTGGTAG
Statistics
Matches: 242, Mismatches: 38, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
43 22 0.09
44 139 0.57
45 7 0.03
46 2 0.01
47 1 0.00
49 26 0.11
50 41 0.17
51 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATTTTACT
Found at i:35698931 original size:138 final size:138
Alignment explanation
Indices: 35698410--35698946 Score: 501
Period size: 138 Copynumber: 3.9 Consensus size: 138
35698400 TTAATCTGAC
* * * * *
35698410 CCACTACAACTTTAAGGGTATAGGATTTGTAGCTTTATCTTGCTCCATTGCAACTTTAGAGAGAT
1 CCACTGCAACTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAGAT
* * *
35698475 AAGATTCGCTATGGTAACTTCAATCCGACCCACTGCAACTTCAGAGGTATAGGATTTGCTATGGT
66 AAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAAAGGTATAGGAATTG-TA--G-
* *
35698540 AACTTCAA-TCTGAC
127 --CTTTAATTC-GAT
* * * *
35698554 CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCATTGCAACTTCAGGGAGAT
1 CCACTGCAACTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAGAT
* * *
35698619 -AGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTC-AGGGAGATAAG-ATTCGTAGC-
66 AAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAAAGG-TATAGGAATT-GTAGCT
* **
35698680 TTCATTTTACT
129 TTAATTCGA-T
* * * * * * * *
35698691 CCATTGCAACTTT-AGGAAGATAAGATTCGTGGCTTCATTTTTCTCCATTGCAACTTTAGGGAGA
1 CCACTGCAACTTTAAGG-ATATAGGATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAGA
* ** * ** * * *
35698755 TAAGATTTGCCCTCGTAGTTTCATTTTGATCCACTGCAACTTCAAAGGTATAGGAATTGTAGCTT
65 TAAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAAAGGTATAGGAATTGTAGCTT
35698820 TAATTCGAT
130 TAATTCGAT
* * * * *
35698829 CCACTGCGACTTCAAGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGATAT
1 CCACTGCAACTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAGAT
* * ** * *
35698894 AAGATTCTCTGTGGTAGGTTCAATCTGACCCATTGCAACTTCAAGGGTATAGG
66 AAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAAAGGTATAGG
35698947 GTCTATGGTT
Statistics
Matches: 319, Mismatches: 64, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
136 5 0.02
137 52 0.16
138 133 0.42
139 15 0.05
140 1 0.00
142 6 0.02
143 45 0.14
144 62 0.19
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (138 bp):
CCACTGCAACTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAGAT
AAGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTCAAAGGTATAGGAATTGTAGCTTT
AATTCGAT
Found at i:35698945 original size:94 final size:93
Alignment explanation
Indices: 35698504--35698946 Score: 265
Period size: 94 Copynumber: 4.8 Consensus size: 93
35698494 TCAATCCGAC
* * * *
35698504 CCACTGCAACTTCAGAGG-TATAGGATTTGCTATGGTAACTTCAATCTGACCCACTACAACTTTA
1 CCACTGCAACTTCAG-GGATATAAGATTT-CTATGGTAGCTTCAATCTGACCCACTGCAACTTCA
* * *
35698568 GGGGTATAGGATTTGTAGCTTTATCTTGCT
64 AGGGTATAGGATTTGTAGCTTCATCTTACT
* * * *
35698598 CCATTGCAACTTCAGGGAGAT-AGATTCGCTATGGTAACTTCAATCTGACCCACTGCAACTTC-A
1 CCACTGCAACTTCAGGGATATAAGATT-TCTATGGTAGCTTCAATCTGACCCACTGCAACTTCAA
* * * *
35698661 GGGAGATAAGATTCGTAGCTTCATTTTACT
65 GGG-TATAGGATTTGTAGCTTCATCTTACT
* * * * * * ** * *
35698691 CCATTGCAACTTTAGGAAGATAAGA-TTC----GTGGCTTC-ATTTTTCTCCATTGCAACTT-TA
1 CCACTGCAACTTCAGGGATATAAGATTTCTATGGTAGCTTCAATCTGAC-CCACTGCAACTTCAA
* * * *
35698749 GGGAGATAAGATTTGCCCTCGTAGTTTCATTTTGA-T
65 GGG-TATAGGA-TT----T-GTAGCTTCATCTT-ACT
* * * * * *
35698785 CCACTGCAACTTCAAAGG-TATAGGA-----ATTGTAGCTTTAAT-TCGATCCACTGCGACTTCA
1 CCACTGCAACTTC-AGGGATATAAGATTTCTATGGTAGCTTCAATCT-GACCCACTGCAACTTCA
*
35698843 AGGATATAGGATTTGTAGCTTCATCTTACT
64 AGGGTATAGGATTTGTAGCTTCATCTTACT
* * *
35698873 CCACTGCAACTTCAGGGATATAAGATTCTCTGTGGTAGGTTCAATCTGACCCATTGCAACTTCAA
1 CCACTGCAACTTCAGGGATATAAGATT-TCTATGGTAGCTTCAATCTGACCCACTGCAACTTCAA
35698938 GGGTATAGG
65 GGGTATAGG
35698947 GTCTATGGTT
Statistics
Matches: 267, Mismatches: 53, Indels: 58
0.71 0.14 0.15
Matches are distributed among these distances:
87 8 0.03
88 60 0.22
89 3 0.01
92 4 0.01
93 80 0.30
94 103 0.39
95 9 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (93 bp):
CCACTGCAACTTCAGGGATATAAGATTTCTATGGTAGCTTCAATCTGACCCACTGCAACTTCAAG
GGTATAGGATTTGTAGCTTCATCTTACT
Found at i:35700365 original size:16 final size:16
Alignment explanation
Indices: 35700341--35700372 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35700331 AATGTTCTTA
*
35700341 TTGGTTGCTTCCACTG
1 TTGGCTGCTTCCACTG
35700357 TTGGCTGCTTCCACTG
1 TTGGCTGCTTCCACTG
35700373 CACCATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.28, G:0.25, T:0.41
Consensus pattern (16 bp):
TTGGCTGCTTCCACTG
Found at i:35713469 original size:90 final size:90
Alignment explanation
Indices: 35713300--35713470 Score: 209
Period size: 90 Copynumber: 1.9 Consensus size: 90
35713290 ATCTTCAATT
* * * * *
35713300 CTAGTGGTTTATCTACATATTATCTGGAAACTATTATCTGTAATTATTTTTTGTATTCACAACCA
1 CTAGTGGTTTATCCACATATTATCTGGAAACTATTATCTGTAATCATGTTGTGCATTCACAACCA
* *
35713365 TCCGGCAGCGTATTAACCTGCAACA
66 TCCGGCAACATATTAACCTGCAACA
* * * * * *
35713390 CTAGTGGTTTGTCCACCTATTATCTGGCAGCTTTTATCTGTAATCATGTTGTGCATTCATAACCA
1 CTAGTGGTTTATCCACATATTATCTGGAAACTATTATCTGTAATCATGTTGTGCATTCACAACCA
35713455 TCTC-GCAACATATTAA
66 TC-CGGCAACATATTAA
35713471 GCTACAAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 66 0.99
91 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (90 bp):
CTAGTGGTTTATCCACATATTATCTGGAAACTATTATCTGTAATCATGTTGTGCATTCACAACCA
TCCGGCAACATATTAACCTGCAACA
Found at i:35716879 original size:13 final size:13
Alignment explanation
Indices: 35716857--35716897 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35716847 TCATGAGCAA
35716857 TTTC-TTTATCCT
1 TTTCTTTTATCCT
35716869 TTTCTTTTATCCT
1 TTTCTTTTATCCT
* *
35716882 TTGCTTTTATTCT
1 TTTCTTTTATCCT
35716895 TTT
1 TTT
35716898 ATTTATACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTCTTTTATCCT
Found at i:35718508 original size:15 final size:16
Alignment explanation
Indices: 35718481--35718513 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
35718471 ATAATTGTTG
35718481 ATATTTATAAATTTTT
1 ATATTTATAAATTTTT
35718497 ATATTT-TAAATTTTT
1 ATATTTATAAATTTTT
35718512 AT
1 AT
35718514 CACTATGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTATAAATTTTT
Found at i:35719351 original size:21 final size:21
Alignment explanation
Indices: 35719327--35719367 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35719317 AAATTTTATT
*
35719327 AATTTGATTCT-AATTATAAAA
1 AATTTGACTCTCAATT-TAAAA
35719348 AATTTGACTCTCAATTTAAA
1 AATTTGACTCTCAATTTAAA
35719368 TTTTAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
AATTTGACTCTCAATTTAAAA
Found at i:35719866 original size:8 final size:7
Alignment explanation
Indices: 35719841--35719865 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35719831 TTTTACATTA
35719841 AAAATTT
1 AAAATTT
35719848 AAAATTT
1 AAAATTT
35719855 AAAATTT
1 AAAATTT
35719862 AAAA
1 AAAA
35719866 AAAATTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:35725449 original size:29 final size:29
Alignment explanation
Indices: 35725367--35725477 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 29
35725357 TCATTAGGGT
** * *
35725367 TTATCAGGCACTATGTGCCCGTGATTACAA
1 TTATCAGGCACTATGTATCGGTG-TTACAG
* * * * * *
35725397 TTATCAGGTATTTTTTACCAGTGTTACAG
1 TTATCAGGCACTATGTATCGGTGTTACAG
* * * *
35725426 TTATCAGGCACTCTGTGTCGGTGTTATAT
1 TTATCAGGCACTATGTATCGGTGTTACAG
*
35725455 TTATCAGGTACTATGTATCGGTG
1 TTATCAGGCACTATGTATCGGTG
35725478 GTGGATACCA
Statistics
Matches: 62, Mismatches: 19, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
29 45 0.73
30 17 0.27
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (29 bp):
TTATCAGGCACTATGTATCGGTGTTACAG
Found at i:35729143 original size:41 final size:40
Alignment explanation
Indices: 35729074--35729216 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 40
35729064 TAAAATGATT
* * *
35729074 CACCGGCATGT-AGCCTGCTAGCCTTAAAGCCTGATTCAGAA
1 CACCGGCAT-TAAGCCTGCTAGACGTAAAGTCTGATT-AGAA
* ***
35729115 CACCGGTATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-ATTAGAA
* ***
35729156 CACTGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-ATTAGAA
*
35729197 CACTGGCATTAAGCCTGCTA
1 CACCGGCATTAAGCCTGCTA
35729217 AGCACAGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 87 0.96
42 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATTAGAA
Found at i:35732480 original size:14 final size:13
Alignment explanation
Indices: 35732451--35732484 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
35732441 GTCGTACGTC
35732451 TTCTCTTCTTTTTT
1 TTCT-TTCTTTTTT
35732465 TTCTTTCTTTTATT
1 TTCTTTCTTTT-TT
35732479 TTCTTT
1 TTCTTT
35732485 TCGAATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTCTTTTTT
Found at i:35746769 original size:15 final size:15
Alignment explanation
Indices: 35746751--35746781 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35746741 ATTTTACTAC
*
35746751 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
35746766 TATGTCTTTTATATT
1 TATGTCTTTTATATT
35746781 T
1 T
35746782 TTCATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:35748409 original size:11 final size:11
Alignment explanation
Indices: 35748334--35748409 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
35748324 ATTCCAAAAA
*
35748334 TAATATTACTT
1 TAATATTAATT
35748345 TAATAGTTTAATAT
1 TAATA--TTAAT-T
35748359 TAA-ATTTAATT
1 TAATA-TTAATT
*
35748370 TAATATTTATCT
1 TAATATTAAT-T
*
35748382 TAATAGT-ATT
1 TAATATTAATT
35748392 T--TATTAATT
1 TAATATTAATT
35748401 TAATATTAA
1 TAATATTAA
35748410 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:35748423 original size:20 final size:20
Alignment explanation
Indices: 35748400--35748437 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
35748390 TTTTATTAAT
35748400 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
35748420 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
35748438 AGCTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:35750377 original size:19 final size:17
Alignment explanation
Indices: 35750344--35750378 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
35750334 GTTTCTACAA
35750344 ATTCTTTACTTTAATTT
1 ATTCTTTACTTTAATTT
35750361 ATTCTTTTACATTTAATT
1 ATTC-TTTAC-TTTAATT
35750379 CATTTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTCTTTACTTTAATTT
Found at i:35752777 original size:3 final size:3
Alignment explanation
Indices: 35752769--35752806 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
35752759 CACAAATCAC
35752769 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35752807 AATTCAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35772809 original size:42 final size:43
Alignment explanation
Indices: 35772763--35772845 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
35772753 ATATGATATC
35772763 GAATCTATATAAATGTAA-TTTTTTATTTTATTTCTCATGTTT
1 GAATCTATATAAATGTAATTTTTTTATTTTATTTCTCATGTTT
*
35772805 GAATCTATATAAATGTAATTTTTTTATTTTTTTTCTCATGT
1 GAATCTATATAAATGTAATTTTTTTATTTTATTTCTCATGT
35772846 AGAAAAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 18 0.46
43 21 0.54
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (43 bp):
GAATCTATATAAATGTAATTTTTTTATTTTATTTCTCATGTTT
Found at i:35784270 original size:27 final size:27
Alignment explanation
Indices: 35784232--35784289 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
35784222 TAAGGAGAGA
*
35784232 GGTAGACATCTCCATTTTCGGATTCCC
1 GGTAGACATCTCCATTTTCGGATACCC
35784259 GGTAGACATCTCCATTTTCGGATACCC
1 GGTAGACATCTCCATTTTCGGATACCC
35784286 GGTA
1 GGTA
35784290 CAATATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (27 bp):
GGTAGACATCTCCATTTTCGGATACCC
Found at i:35795912 original size:21 final size:22
Alignment explanation
Indices: 35795883--35795933 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35795873 TCTCTCTCGC
*
35795883 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
35795904 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
35795926 TTT-ATTTT
1 TTTCATTTT
35795934 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:35810713 original size:3 final size:3
Alignment explanation
Indices: 35810707--35810752 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
35810697 AATAATAATA
35810707 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
35810753 AGCCCGAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35819352 original size:19 final size:19
Alignment explanation
Indices: 35819310--35819346 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35819300 AATATATATT
*
35819310 AATATTTTTTTACCAAAAA
1 AATATTTATTTACCAAAAA
*
35819329 AATATTTATTTATCAAAA
1 AATATTTATTTACCAAAA
35819347 TGATATGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (19 bp):
AATATTTATTTACCAAAAA
Found at i:35827019 original size:25 final size:24
Alignment explanation
Indices: 35826973--35827021 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
35826963 TAGGGTTACC
35826973 GATTTATAACTCTAAGAGCATACT
1 GATTTATAACTCTAAGAGCATACT
* *
35826997 GATTTATAGCTCGTGAGAGCATACT
1 GATTTATAACTC-TAAGAGCATACT
35827022 AATCTTTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (24 bp):
GATTTATAACTCTAAGAGCATACT
Found at i:35827599 original size:15 final size:16
Alignment explanation
Indices: 35827581--35827610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35827571 TCGTGTCTTG
35827581 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
35827596 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
35827611 AACCTATTTG
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:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:35831629 original size:37 final size:37
Alignment explanation
Indices: 35831546--35831688 Score: 126
Period size: 37 Copynumber: 3.8 Consensus size: 37
35831536 TCGTTCAAGT
* * * *
35831546 TTCACTCAGTATAACAGTAGGATTTTGCTCAATTGAAC
1 TTCATTCAGTATAACAGTAAGA-TTTGCTCAGTTGAGC
* * *
35831584 ATCGTTCAGTATAACAGCAAGATTTGCTCAGTTGAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTCAGTTGAGC
** * *
35831621 TTCATTCAGTATAATGGTATGATTTGCTC-GATTAAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTCAG-TTGAGC
* * *
35831658 CTCATTTAGTATAATAGTAAGATTTGGCTCA
1 TTCATTCAGTATAACAGTAAGATTT-GCTCA
35831689 ATATAACGTG
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
36 1 0.01
37 62 0.74
38 21 0.25
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (37 bp):
TTCATTCAGTATAACAGTAAGATTTGCTCAGTTGAGC
Found at i:35832042 original size:22 final size:23
Alignment explanation
Indices: 35832017--35832071 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
35832007 TTTAACTTTC
* *
35832017 TTAATTAAGCTTAAATAAATCA-
1 TTAATTAAGCCTAAATAAACCAT
*
35832039 TTAATTAAGCCTAATTAAACCAT
1 TTAATTAAGCCTAAATAAACCAT
*
35832062 TTTATTAAGC
1 TTAATTAAGC
35832072 ATAACCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (23 bp):
TTAATTAAGCCTAAATAAACCAT
Found at i:35834034 original size:108 final size:109
Alignment explanation
Indices: 35833779--35834075 Score: 382
Period size: 108 Copynumber: 2.7 Consensus size: 109
35833769 CCTTAAATAC
* * * * *
35833779 GATATAAAATACAACAAAAACATTAATAAAATAAATTAATCATACATTTAATATAAACTTAAAAC
1 GATATAAAATACAACCAAAACTTTAATAAAACAAATTAATCATACATTTAATACAAACTTAAACC
* *
35833844 TAATCAAACACAACAACAAAAATATTCTTTCCCTTAAATACGAAAAACT
66 TAAT---A-A-AACAACAAAAATATTATTTCCCTTAAAAACGAAAAACT
* * * *
35833893 AATATAAAATACTA-CAAAAATATTAATAAAACAAATTAACCATACATTTAATACAAACTTAAAC
1 GATATAAAATACAACCAAAACT-TTAATAAAACAAATTAATCATACATTTAATACAAACTTAAAC
* *
35833957 CTAATAAAACAA-AAAAATATTATTTCCCTTAAAAATGAAAAATT
65 CTAATAAAACAACAAAAATATTATTTCCCTTAAAAACGAAAAACT
* * *
35834001 GATATAAAATACCACCAAAACTTTAATAAAACAAACTAATCATACCTTTAATACAAACTTAAACC
1 GATATAAAATACAACCAAAACTTTAATAAAACAAATTAATCATACATTTAATACAAACTTAAACC
35834066 TAATAAAACA
66 TAATAAAACA
35834076 CAACAACAAC
Statistics
Matches: 162, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
108 90 0.56
109 11 0.07
110 1 0.01
111 1 0.01
113 4 0.02
114 55 0.34
ACGTcount: A:0.57, C:0.16, G:0.01, T:0.26
Consensus pattern (109 bp):
GATATAAAATACAACCAAAACTTTAATAAAACAAATTAATCATACATTTAATACAAACTTAAACC
TAATAAAACAACAAAAATATTATTTCCCTTAAAAACGAAAAACT
Done.