Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 16 of 279
Found at i:5134428 original size:108 final size:107
Alignment explanation
Indices: 5134275--5134489 Score: 313
Period size: 108 Copynumber: 2.0 Consensus size: 107
5134265 AGATAGCAAA
* * *
5134275 TTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCG
1 TTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCA
* *
5134340 GAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
66 GAAAGCAAATCAAAGATAGCAGATTTGGCATCTCTGTATTGG
* * * * *
5134382 NTTTGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGGT
1 -TTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGC
* *
5134447 AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGG
65 AGAAAGCAAATCAAAGATAGCAGATTTGGCATCTCTGTATTGG
5134490 CGGAGAGCAG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 95 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (107 bp):
TTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCA
GAAAGCAAATCAAAGATAGCAGATTTGGCATCTCTGTATTGG
Found at i:5134824 original size:44 final size:44
Alignment explanation
Indices: 5133768--5134817 Score: 734
Period size: 44 Copynumber: 23.9 Consensus size: 44
5133758 GAATCCTGCG
* * * * *
5133768 GATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
** * *
5133812 GATTTGGCATCTCTGTATTGTTAGAG-GCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
** * *
5133855 GATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* * *
5133899 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* *
5133943 GATTTGGCGTCTCTGTATTGGCAGAGAGCATATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5133987 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATC-AAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5134031 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* ** *
5134075 GATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* *
5134119 GATTTGGCGTCTCTGTATTGGCAGAGAGCATATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5134163 GATTTGGCGTCTCTGTATTGGCGGTGAGCAGATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5134207 GATTTAGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAAT-AGCA
* * * * * * * *** ** *
5134252 -A---GG-A--GCAG-A-TCGAAGATAGCAAATTTG-GCGTCTCT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAAATAGCA
*** * * * * * ** ** *
5134287 GTATTAGTGG-AGAGCAG-A-TCGAAGATAGCAGATTTG-GCATCTCT
1 G-ATT--TGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAAATAGCA
*** * * * * * **** *
5134331 G-TATTGGCGGAAAGC--AAATCGAAGATAGCAGATTTGGCGTCTCT-GTA
1 GAT-TTGGC--ATCTCTGTATTGGCAGAGAGCAGA--T--CGAAAATAGCA
* * * * *
5134378 TTGGNTTTGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGATAGTA
1 ---GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* *
5134425 GATTTGGCGTCTCTGTATTGGTAGAGAGCAGATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* *
5134469 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATC-AAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * * *
5134513 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* * ** *
5134557 AATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* *
5134601 GATTTGGTATCTCTGTATTGGCGGAGAGCAGATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5134645 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
* *
5134689 GATTTGGTATCTCTGTATTGGCGGAGAGCAGATC-AAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAA-ATAGCA
* * *
5134733 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-GACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAG-CA
* *
5134777 GATTTGGCATCTCTATATTGGCAGAGAACAGATCGAAAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATA
5134818 ATAGATTGGT
Statistics
Matches: 838, Mismatches: 127, Indels: 81
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.00
36 10 0.01
37 4 0.00
38 2 0.00
40 1 0.00
41 4 0.00
42 4 0.00
43 48 0.06
44 720 0.86
45 16 0.02
46 3 0.00
47 4 0.00
48 4 0.00
50 16 0.02
51 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCA
Found at i:5134824 original size:88 final size:88
Alignment explanation
Indices: 5133768--5134810 Score: 872
Period size: 88 Copynumber: 11.9 Consensus size: 88
5133758 GAATCCTGCG
* * * * * *
5133768 GATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTGT
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * *
5133833 TAGAG-GCAGATCGAAGATAGTA
66 CAGAGAGCAGATCAAAGATAGCA
** *
5133855 GATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* *
5133920 CAGAGAGCAGATCGAAGATAGTA
66 CAGAGAGCAGATCAAAGATAGCA
* * * * * *
5133943 GATTTGGCGTCTCTGTATTGGCAGAGAGCATATCAAAGATAGCAGATTTGGCATCTCTGTGTTGA
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
*
5134008 CAGAGAGCAGATCAAAGATAACA
66 CAGAGAGCAGATCAAAGATAGCA
* *
5134031 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
** *
5134096 TGGAGAGCAGATCGAAGATAGCA
66 CAGAGAGCAGATCAAAGATAGCA
* * * * *
5134119 GATTTGGCGTCTCTGTATTGGCAGAGAGCATATCAAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* *
5134184 CGGTGAGCAGATCAAAGATAGCA
66 CAGAGAGCAGATCAAAGATAGCA
* * * * ** * *
5134207 GATTTAGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAAGCA-A--GGAGCAGATC-GAAGA
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGAT-AGCAGATTTG-GCATCTCTGTA-T
* * *** **
5134268 TAGCAAATTTG-GC-G-TCTCTGTATTAGTG
63 TGGCAGA---GAGCAGATCAAAG-A-TAGCA
** * * * * ** * * * * ** **
5134296 GA---GAGCAGATC-GAAGATAGCAGATTTG-GCATCTCTGTA-TTGGCGGA--AAGCAAATC-G
1 GATTTG-GCATCTCTGTA-TTGGCGGA---GAGCAGATC-GAAGATAGCAGATTTGGCATCTCTG
* * * *** *
5134352 AAGATAGCAGATTTG-GC-G-TCTCTGTATTG--
60 TA-TTGGCAGA---GAGCAGATCAAAG-ATAGCA
* * * *
5134381 GNTTTGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
*
5134446 TAGAGAGCAGATCAAAGATAGCA
66 CAGAGAGCAGATCAAAGATAGCA
* * *
5134469 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * *
5134534 CAGGGAGCAGATCGAAGATAACA
66 CAGAGAGCAGATCAAAGATAGCA
* * * *
5134557 AATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
*
5134622 CGGAGAGCAGATCAAAGATAGCA
66 CAGAGAGCAGATCAAAGATAGCA
* * * *
5134645 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
*
5134710 CGGAGAGCAGATCAAAGATAGCA
66 CAGAGAGCAGATCAAAGATAGCA
* * * *
5134733 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-GACAGATTTGGCATCTCTATATTG
1 GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTG
*
5134797 GCAGAGAACAGATC
65 GCAGAGAGCAGATC
5134811 GAAAATAATA
Statistics
Matches: 793, Mismatches: 132, Indels: 61
0.80 0.13 0.06
Matches are distributed among these distances:
84 4 0.01
85 11 0.01
86 9 0.01
87 105 0.13
88 642 0.81
89 18 0.02
90 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (88 bp):
GATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCAAAGATAGCA
Found at i:5137997 original size:130 final size:131
Alignment explanation
Indices: 5137762--5138064 Score: 391
Period size: 130 Copynumber: 2.3 Consensus size: 131
5137752 ACGAGATTTG
*
5137762 ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
* * * * * *
5137827 AATCGAATATCACTTCAAAATTTCACTTATGTCTTTTAAAACCCCTT-AAACGAAGGCGATGTGC
66 AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
5137891 A
131 A
*
5137892 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTC-TCGTTTGCTTAAAA
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAA
* * * *
5137956 TAATCAAATATCCCTTCAAAATTTCACTCAGGT-TTCCTAAAAATCTTTCAAAACGAAGGTGATA
65 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTT-CTAAAAACCCTT-AAAACGAAGGCGATA
*
5138020 TTCA
128 TGCA
* * *
5138024 ATGTTTGGCAATT--TGAGAATCGTGCCCTATCGTGCTGGGTT
1 ATATTTGGCAATTCGTG-GAATCGTGCCCTAACGTGTTGGGTT
5138065 ACGCTTTTTC
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
129 3 0.02
130 99 0.65
131 23 0.15
132 27 0.18
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
A
Found at i:5138100 original size:131 final size:131
Alignment explanation
Indices: 5137731--5138195 Score: 338
Period size: 130 Copynumber: 3.5 Consensus size: 131
5137721 TATAATCATT
* * * * * *
5137731 CAAAAATTCTTTAAAAAGAAGACGAGAT-TT-GATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 CAAAAACTCTTTAAAACGAAG--GAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATC
* * * * * * * * * *
5137794 GTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTTA-T
63 GTGCTGGGTTACAATTTC-TCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
5137857 GTCTT-
127 GT-TTC
** * * * * * *
5137862 TTAAAACCCCTT-AAACGAAGGCGATGTGCAATATTTGGCAATTCGTGGAATCGTGCCCTAACGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
* * * * *
5137926 GTTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCA-GGTT
65 GCTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTT
5137990 TC
130 TC
* *
5137992 CTAAAAA-TCTTTCAAAACGAAGGTGATATTCAATGTTTGGCAATT-TGAGAATCGTGCCCTATC
1 C-AAAAACTCTTT-AAAACGAAGGAGATGTTCAATGTTTGGCAATTCTG-GAATCGTGCCCTATC
** * * * *** *
5138055 GTGCTGGGTTACGCTTTTTCATTTG-TTCGAAACAATCGAAGATCCCTTTGGAATTTCACTCACT
63 GTGCTGGGTTACAATTTCTCATTTGCTT-AAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
*
5138119 TTTTC
127 GTTTC
* * * * * *
5138124 CAAAAACTCTTTAAAACGAAAGAAATGTTCGATGATTGGCAATTCGGGGAATAGTGCCCTATCGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
5138189 GCTGGGT
65 GCTGGGT
5138196 CGCAATCTCC
Statistics
Matches: 274, Mismatches: 47, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
128 4 0.01
129 4 0.01
130 103 0.38
131 102 0.37
132 60 0.22
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTCTGGAATCGTGCCCTATCGTG
CTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTTT
C
Found at i:5138255 original size:132 final size:133
Alignment explanation
Indices: 5137766--5138255 Score: 434
Period size: 132 Copynumber: 3.7 Consensus size: 133
5137756 GATTTGATAT
* * * *
5137766 TTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAAT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTC-TCGTTTGTTCAAAATAAT
* * * * * * *
5137830 CGAATATCACTTCAAAATTTCACTTA-TGTCTTT--TAAAACCCCTT-AAACGAAGGCGATGTGC
65 CGAATATCCCTTCAAAATTTCACTCAGTGT-TTTCCAAAAACTCTTTAAAACGAAGGAGATGTTC
5137891 AAT-A
129 AATGA
* * *
5137895 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTT-AAAATAA
1 -TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTG-TTCAAAATAA
* * *
5137959 TCAAATATCCCTTCAAAATTTCACTCAG-G-TTTCCTAAAAA-TCTTTCAAAACGAAGGTGATAT
64 TCGAATATCCCTTCAAAATTTCACTCAGTGTTTTCC-AAAAACTCTTT-AAAACGAAGGAGATGT
*
5138021 TCAATGT
127 TCAATGA
* * * * * * *
5138028 TTGGCAATT-TGAGAATCGTGCCCTATCGTGCTGGGTTACGC--TTTTTCATTTGTTCGAAACAA
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGG-T-CGCAATTTCTCGTTTGTTCAAAATAA
* *** * * *
5138090 TCGAAGATCCCTTTGGAATTTCACTCACT-TTTTCCAAAAACTCTTTAAAACGAAAGAAATGTTC
64 TCGAATATCCCTTCAAAATTTCACTCAGTGTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTC
*
5138154 GATGA
129 AATGA
* * * * *
5138159 TTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTCGCAATCTCCCGTTTGTTCAAAATAATT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
* **
5138224 GAATATCTCTTCGGAATTTCACTC-GTGTTTTC
66 GAATATCCCTTCAAAATTTCACTCAGTGTTTTC
5138256 TAAGGTGAGG
Statistics
Matches: 293, Mismatches: 48, Indels: 36
0.78 0.13 0.10
Matches are distributed among these distances:
128 3 0.01
129 1 0.00
130 90 0.31
131 95 0.32
132 102 0.35
133 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (133 bp):
TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
GAATATCCCTTCAAAATTTCACTCAGTGTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTCAA
TGA
Found at i:5140916 original size:22 final size:22
Alignment explanation
Indices: 5140877--5140919 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5140867 CCTTTATGTT
*
5140877 GGTCACTTGTCTTCGAGGACAA
1 GGTCACGTGTCTTCGAGGACAA
5140899 GGTCACGTGATCTT-GAGGACA
1 GGTCACGTG-TCTTCGAGGACA
5140920 TGTTTAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
GGTCACGTGTCTTCGAGGACAA
Found at i:5155177 original size:217 final size:217
Alignment explanation
Indices: 5154795--5155231 Score: 802
Period size: 217 Copynumber: 2.0 Consensus size: 217
5154785 TGTCAATCGA
* * * *
5154795 AAAATCATGTTTGCCTGAGTACAAAGATGCTGAAATCTTAAAGAGTATAACTTGGTTGGAAAAAG
1 AAAATCATGTTTGCCTCAGTACAAAGATGCTGAAAACTTAAAGAGGATAACTTGGTTCGAAAAAG
*
5154860 CATTTCACATGAAAAGTAAAATTCCTGTATCTTCTCCGTAAATTGATTTAATGAGTACTCTGCTG
66 CATTTCACATAAAAAGTAAAATTCCTGTATCTTCTCCGTAAATTGATTTAATGAGTACTCTGCTG
*
5154925 ACACTGAGGCTGCTAAGTTGGCAGATAAGATAAGTTAAACAATAGGTAGTTATGTAATTGCAGTT
131 ACACGGAGGCTGCTAAGTTGGCAGATAAGATAAGTTAAACAATAGGTAGTTATGTAATTGCAGTT
5154990 ACAGCAAGGATACGGAGTTTTC
196 ACAGCAAGGATACGGAGTTTTC
5155012 AAAATCATGTTTGCCTCAGTACAAAGATGCTGAAAACTTAAAGAGGATAACTTGGTTCGAAAAAG
1 AAAATCATGTTTGCCTCAGTACAAAGATGCTGAAAACTTAAAGAGGATAACTTGGTTCGAAAAAG
5155077 CATTTCACATAAAAAGTAAAATTCCTGTATCTTCTCCGTAAATTGATTTAATGAGTACTCTGCTG
66 CATTTCACATAAAAAGTAAAATTCCTGTATCTTCTCCGTAAATTGATTTAATGAGTACTCTGCTG
* *
5155142 ACACGGAGGCTGCTTAGTTGGCAGATAATATAAGTTAAACAATAGGTAGTTATGTAATTGCAGTT
131 ACACGGAGGCTGCTAAGTTGGCAGATAAGATAAGTTAAACAATAGGTAGTTATGTAATTGCAGTT
5155207 ACAGCAAGGATACGGAGTTTTC
196 ACAGCAAGGATACGGAGTTTTC
5155229 AAA
1 AAA
5155232 GCGGACAAGC
Statistics
Matches: 212, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 212 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (217 bp):
AAAATCATGTTTGCCTCAGTACAAAGATGCTGAAAACTTAAAGAGGATAACTTGGTTCGAAAAAG
CATTTCACATAAAAAGTAAAATTCCTGTATCTTCTCCGTAAATTGATTTAATGAGTACTCTGCTG
ACACGGAGGCTGCTAAGTTGGCAGATAAGATAAGTTAAACAATAGGTAGTTATGTAATTGCAGTT
ACAGCAAGGATACGGAGTTTTC
Found at i:5161075 original size:15 final size:16
Alignment explanation
Indices: 5161049--5161081 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5161039 AACAAATAAT
5161049 ATAAAAATATTTAAAA
1 ATAAAAATATTTAAAA
5161065 ATAAAAA-ATTTAAAA
1 ATAAAAATATTTAAAA
5161080 AT
1 AT
5161082 TTAAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATATTTAAAA
Found at i:5167877 original size:27 final size:27
Alignment explanation
Indices: 5167839--5167892 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5167829 TATATACAAG
5167839 ATATTTTTTTAATATTCTGCATGTGCT
1 ATATTTTTTTAATATTCTGCATGTGCT
5167866 ATATTTTTTTAATATTCTGCATGTGCT
1 ATATTTTTTTAATATTCTGCATGTGCT
5167893 TTTTACAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (27 bp):
ATATTTTTTTAATATTCTGCATGTGCT
Found at i:5169145 original size:18 final size:18
Alignment explanation
Indices: 5169111--5169177 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
5169101 AAAATGTGAG
* * *
5169111 AAATGATATTTACATTTT
1 AAATGATGTTCACATTTC
*
5169129 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
5169147 AAATGA---TCACATTTC
1 AAATGATGTTCACATTTC
5169162 AAATGATGTTCACATT
1 AAATGATGTTCACATT
5169178 GATGGAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 14 0.34
18 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:5169696 original size:72 final size:71
Alignment explanation
Indices: 5169601--5169912 Score: 358
Period size: 72 Copynumber: 4.3 Consensus size: 71
5169591 CAATGCTAAA
* *
5169601 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATCTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
5169666 GTGTAAT
66 GT-TAAT
* * ** *
5169673 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTT-GAATATTGAATTTACATTCTATTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAA-ATTGAATTTATGTTCTACTTATTTA
*
5169737 TGGATAAT
65 T-GTTAAT
* * * * *
5169745 CTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGATATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
**
5169810 GCTTAGGG
66 G-TTA-AT
* ** * *
5169818 CTAGTTTTATCAATAATTGTTTATGTTTGACTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
* *
5169883 ACTAAAT
66 -GTTAAT
5169890 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
5169913 ATATGATTTT
Statistics
Matches: 201, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
71 26 0.13
72 113 0.56
73 62 0.31
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.53
Consensus pattern (71 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
GTTAAT
Found at i:5170521 original size:15 final size:15
Alignment explanation
Indices: 5170497--5170529 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5170487 AAGGTTAAAA
5170497 TTTAATTTT-ATATT
1 TTTAATTTTAATATT
5170511 TTTATATTTTAATATT
1 TTTA-ATTTTAATATT
5170527 TTT
1 TTT
5170530 GGTCGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTAATTTTAATATT
Found at i:5178458 original size:18 final size:18
Alignment explanation
Indices: 5178424--5178490 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
5178414 AAAATGTGAG
* * *
5178424 AAATGATATTTACATTTT
1 AAATGATGTTCACATTTC
*
5178442 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
5178460 AAATGA---TCACATTTC
1 AAATGATGTTCACATTTC
5178475 AAATGATGTTCACATT
1 AAATGATGTTCACATT
5178491 GATGGAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 14 0.34
18 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:5179009 original size:72 final size:71
Alignment explanation
Indices: 5178914--5179225 Score: 358
Period size: 72 Copynumber: 4.3 Consensus size: 71
5178904 CAATGCTAAA
* *
5178914 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATCTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
5178979 GTGTAAT
66 GT-TAAT
* * ** *
5178986 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTT-GAATATTGAATTTACATTCTATTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAA-ATTGAATTTATGTTCTACTTATTTA
*
5179050 TGGATAAT
65 T-GTTAAT
* * * * *
5179058 CTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGATATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
**
5179123 GCTTAGGG
66 G-TTA-AT
* ** * *
5179131 CTAGTTTTATCAATAATTGTTTATGTTTGACTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
* *
5179196 ACTAAAT
66 -GTTAAT
5179203 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
5179226 ATATGATTTT
Statistics
Matches: 201, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
71 26 0.13
72 113 0.56
73 62 0.31
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.53
Consensus pattern (71 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGAAATTGAATTTATGTTCTACTTATTTAT
GTTAAT
Found at i:5179834 original size:15 final size:15
Alignment explanation
Indices: 5179810--5179842 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5179800 AAGGTTAAAA
5179810 TTTAATTTT-ATATT
1 TTTAATTTTAATATT
5179824 TTTATATTTTAATATT
1 TTTA-ATTTTAATATT
5179840 TTT
1 TTT
5179843 GGTCGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTAATTTTAATATT
Found at i:5180703 original size:27 final size:26
Alignment explanation
Indices: 5180655--5180813 Score: 194
Period size: 27 Copynumber: 5.9 Consensus size: 26
5180645 GCGAGGCTGC
* *
5180655 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
* *
5180681 ACAGATATTGTGGAAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
5180708 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
5180735 CAGATAATCGTGGCAGAGCCACCAGAC
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
5180762 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
5180789 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
5180814 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.08
27 102 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:5180753 original size:54 final size:54
Alignment explanation
Indices: 5180673--5180813 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
5180663 GTGACGAAGT
*
5180673 CACCAGATACAGAT-ATTGTGGAAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
5180727 CACCAGATCAGATAATCGTGGCAGAGCCACCAGACCAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
*
5180781 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAG
5180814 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:5181793 original size:26 final size:26
Alignment explanation
Indices: 5181762--5181869 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
5181752 TGAAATGCCC
*
5181762 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
5181788 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
5181814 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
5181840 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5181866 ATCA
1 ATCA
5181870 ATTTGGACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5182963 original size:20 final size:21
Alignment explanation
Indices: 5182912--5182968 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 21
5182902 TTAAATTTAA
*
5182912 TAAATAATTAATATTAATTACT
1 TAAAT-ATTAAAATTAATTACT
5182934 TAGAATTATTTAAAATTAA-TA-T
1 TA-AA-TA-TTAAAATTAATTACT
5182956 TAAATATTAAAAT
1 TAAATATTAAAAT
5182969 ATTAACAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.23
20 2 0.06
21 2 0.06
22 5 0.16
23 5 0.16
24 10 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAATATTAAAATTAATTACT
Found at i:5183164 original size:13 final size:13
Alignment explanation
Indices: 5183148--5183200 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
5183138 TTTAAACCAA
*
5183148 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
*
5183161 ACTTCCCAAAAGC
1 ACTTCTCAAAAGC
* * *
5183174 ACTTTTCCACAGC
1 ACTTCTCAAAAGC
5183187 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
5183200 A
1 A
5183201 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.25
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:5183177 original size:26 final size:26
Alignment explanation
Indices: 5183148--5183200 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5183138 TTTAAACCAA
5183148 ACTTTTCAAAAGCACTTCCCAAAAGC
1 ACTTTTCAAAAGCACTTCCCAAAAGC
* * *
5183174 ACTTTTCCACAGCACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCCCAAAAGC
5183200 A
1 A
5183201 TTGCCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.25
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCCCAAAAGC
Found at i:5200046 original size:27 final size:27
Alignment explanation
Indices: 5200007--5200075 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
5199997 TTTAATGGGT
*
5200007 TTCTGGTGTGTTTGGGAGGATTATTTA
1 TTCTGGTGTGTTTGGGAGGATTATGTA
*
5200034 TTCTGGTGCGTTTGGGAGGATTATGTA
1 TTCTGGTGTGTTTGGGAGGATTATGTA
*
5200061 TTCTTGTGTGTTTGG
1 TTCTGGTGTGTTTGG
5200076 TTGGAATCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.12, C:0.06, G:0.35, T:0.48
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGGAGGATTATGTA
Found at i:5201502 original size:49 final size:50
Alignment explanation
Indices: 5201378--5201510 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
5201368 TATGAGATGT
* *
5201378 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCAATATGTAAGA
* * *
5201428 G-CTAGTGTAAGACCATGTTTAGGACATGGCGTCGGC-CTCAAT-T-TCAATA
1 GTC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-CAATATGT-AAGA
*
5201477 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCG
5201511 ACTTGATGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.48
50 36 0.51
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCAATATGTAAGA
Found at i:5202127 original size:270 final size:270
Alignment explanation
Indices: 5201646--5202185 Score: 1080
Period size: 270 Copynumber: 2.0 Consensus size: 270
5201636 TTAAATGAGA
5201646 GAAGTATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGGAAGCTCAATG
1 GAAGTATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGGAAGCTCAATG
5201711 TATGCTATGTGAATTGTATTGGATAGTGATGAGTATGTTGTGCTTATACCTACTTTAGTGCAAAG
66 TATGCTATGTGAATTGTATTGGATAGTGATGAGTATGTTGTGCTTATACCTACTTTAGTGCAAAG
5201776 AGCATAATGATAAATGGTAAAGTTGTTATTATTTTTATTACATGCAACTTACTAAGCTTTATGCT
131 AGCATAATGATAAATGGTAAAGTTGTTATTATTTTTATTACATGCAACTTACTAAGCTTTATGCT
5201841 TACTCCCTCTCTTTTCTATTTTCTTATAGTGCCGCCTAATTAGCTTGAGGATCATCGGAGTCCGA
196 TACTCCCTCTCTTTTCTATTTTCTTATAGTGCCGCCTAATTAGCTTGAGGATCATCGGAGTCCGA
5201906 GGCATCAATT
261 GGCATCAATT
5201916 GAAGTATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGGAAGCTCAATG
1 GAAGTATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGGAAGCTCAATG
5201981 TATGCTATGTGAATTGTATTGGATAGTGATGAGTATGTTGTGCTTATACCTACTTTAGTGCAAAG
66 TATGCTATGTGAATTGTATTGGATAGTGATGAGTATGTTGTGCTTATACCTACTTTAGTGCAAAG
5202046 AGCATAATGATAAATGGTAAAGTTGTTATTATTTTTATTACATGCAACTTACTAAGCTTTATGCT
131 AGCATAATGATAAATGGTAAAGTTGTTATTATTTTTATTACATGCAACTTACTAAGCTTTATGCT
5202111 TACTCCCTCTCTTTTCTATTTTCTTATAGTGCCGCCTAATTAGCTTGAGGATCATCGGAGTCCGA
196 TACTCCCTCTCTTTTCTATTTTCTTATAGTGCCGCCTAATTAGCTTGAGGATCATCGGAGTCCGA
5202176 GGCATCAATT
261 GGCATCAATT
5202186 ACACTATCAA
Statistics
Matches: 270, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
270 270 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (270 bp):
GAAGTATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGGAAGCTCAATG
TATGCTATGTGAATTGTATTGGATAGTGATGAGTATGTTGTGCTTATACCTACTTTAGTGCAAAG
AGCATAATGATAAATGGTAAAGTTGTTATTATTTTTATTACATGCAACTTACTAAGCTTTATGCT
TACTCCCTCTCTTTTCTATTTTCTTATAGTGCCGCCTAATTAGCTTGAGGATCATCGGAGTCCGA
GGCATCAATT
Found at i:5207303 original size:7 final size:7
Alignment explanation
Indices: 5207291--5207344 Score: 99
Period size: 7 Copynumber: 7.6 Consensus size: 7
5207281 CAACAAAACA
5207291 TAAACCC
1 TAAACCC
5207298 TAAACCC
1 TAAACCC
5207305 TAAACCC
1 TAAACCC
5207312 TAAACCC
1 TAAACCC
5207319 TAAAACCC
1 T-AAACCC
5207327 TAAACCC
1 TAAACCC
5207334 TAAACCC
1 TAAACCC
5207341 TAAA
1 TAAA
5207345 AAGATCACGC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 39 0.85
8 7 0.15
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:5207345 original size:22 final size:21
Alignment explanation
Indices: 5207291--5207344 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 21
5207281 CAACAAAACA
5207291 TAAACCCTAAACCCTAAACCC
1 TAAACCCTAAACCCTAAACCC
5207312 TAAACCCTAAAACCCTAAACCC
1 TAAACCCT-AAACCCTAAACCC
5207334 TAAACCCTAAA
1 TAAACCCTAAA
5207345 AAGATCACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 11 0.34
22 21 0.66
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACCC
Found at i:5207874 original size:27 final size:26
Alignment explanation
Indices: 5207857--5207926 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
5207847 ATATTAAGTC
5207857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
5207884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
5207912 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
5207927 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:5207920 original size:28 final size:28
Alignment explanation
Indices: 5207857--5207951 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
5207847 ATATTAAGTC
*
5207857 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
5207884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
5207912 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
5207941 CGCACACTTAG
1 CGCACACTTAG
5207952 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5211353 original size:22 final size:22
Alignment explanation
Indices: 5211310--5211353 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
5211300 GCCCAAAGAG
**
5211310 CTTTCACACTTGCTGGGAATTC
1 CTTTCACACTTGCTGCCAATTC
* *
5211332 CTTTCACACTTGTTGCCCATTC
1 CTTTCACACTTGCTGCCAATTC
5211354 AGTTTTTGAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.39
Consensus pattern (22 bp):
CTTTCACACTTGCTGCCAATTC
Found at i:5216833 original size:18 final size:18
Alignment explanation
Indices: 5216810--5216851 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
5216800 AATGAATTGT
5216810 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
5216828 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
5216846 ATTAAA
1 ATTAAA
5216852 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:5218043 original size:47 final size:47
Alignment explanation
Indices: 5217990--5218404 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
5217980 TTAGGATTCT
5217990 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
5218037 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
5218086 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
5218135 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5218182 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5218229 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5218276 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
5218323 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
5218370 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
5218405 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 259 0.73
49 95 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:5220181 original size:35 final size:35
Alignment explanation
Indices: 5220135--5220204 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
5220125 CACACGCCTA
*
5220135 TGCCTGAGGCCGTGTCATCCGCACGGCTGAGACAT
1 TGCCTGAGGCCGTGTCATCCACACGGCTGAGACAT
5220170 TGCCTGAGGCCGTGTCATCCACACGGCTGAGACAT
1 TGCCTGAGGCCGTGTCATCCACACGGCTGAGACAT
5220205 ACACCCGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (35 bp):
TGCCTGAGGCCGTGTCATCCACACGGCTGAGACAT
Found at i:5227380 original size:46 final size:48
Alignment explanation
Indices: 5227324--5227446 Score: 178
Period size: 46 Copynumber: 2.6 Consensus size: 48
5227314 GGTGGTATGT
*
5227324 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC-GA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* * *
5227370 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACATAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* *
5227418 AAGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
5227447 GCATTAGCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 41 0.60
47 1 0.01
48 26 0.38
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
Found at i:5227582 original size:49 final size:48
Alignment explanation
Indices: 5227464--5227595 Score: 183
Period size: 49 Copynumber: 2.7 Consensus size: 48
5227454 CTTATTGTGT
* * * *
5227464 GTCAGTGTAAGACCTGTCTGGGATATGACATCGACACGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGACATCGACACAATACATGAAA
* ** *
5227512 GCCAGTGTAAGACCTGTCTGGGACATGGTATCGACCTCAATACATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGACATCGA-CACAATACATGAAA
5227561 GTCAGTGTAAGACCTGTCTGGGACATGACATCGAC
1 GTCAGTGTAAGACCTGTCTGGGACATGACATCGAC
5227596 TTTAATGTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 31 0.43
49 41 0.57
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GTCAGTGTAAGACCTGTCTGGGACATGACATCGACACAATACATGAAA
Found at i:5233567 original size:25 final size:25
Alignment explanation
Indices: 5233533--5233582 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5233523 GAGTAGGGCC
* *
5233533 ATATTCACAGTTCGTGTAAGCATTT
1 ATATTCACAGCTCGTGCAAGCATTT
*
5233558 ATATTCACAGCTCGTGCGAGCATTT
1 ATATTCACAGCTCGTGCAAGCATTT
5233583 CTATCACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (25 bp):
ATATTCACAGCTCGTGCAAGCATTT
Found at i:5245548 original size:35 final size:35
Alignment explanation
Indices: 5245394--5245559 Score: 147
Period size: 35 Copynumber: 4.7 Consensus size: 35
5245384 TTTTCAGTAG
* * * *
5245394 GCATGCTTTACATGCGAATCAGAATCAA-CATAGT-
1 GCATGCTTAACATGCGAATCAAAAT-AAGAATAATA
* * * * *
5245428 GACATGCTTTACATGCAAATCAAAATAAGTATAGTG
1 G-CATGCTTAACATGCGAATCAAAATAAGAATAATA
* ** * * *
5245464 GCATTCTTAACATGAAAATCATAATAAAAAAAATA
1 GCATGCTTAACATGCGAATCAAAATAAGAATAATA
* *
5245499 GCATGGTTAACATGCGAATCATAATAAGAATAATA
1 GCATGCTTAACATGCGAATCAAAATAAGAATAATA
5245534 GCATGCTTAACATGCGAATCAAAATA
1 GCATGCTTAACATGCGAATCAAAATA
5245560 TCAATAAACT
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
34 3 0.03
35 105 0.96
36 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCAAAATAAGAATAATA
Found at i:5245554 original size:70 final size:70
Alignment explanation
Indices: 5245394--5245559 Score: 163
Period size: 70 Copynumber: 2.4 Consensus size: 70
5245384 TTTTCAGTAG
* * * * * * * *
5245394 GCATGCTTTACATGCGAATCAGAATCAACATAGTGACATGCTTTACATGCAAATCAAAATAAGTA
1 GCATGCTTAACATGCGAATCAAAATAAAAAAAATGACATGCTTAACATGCAAATCAAAATAAGAA
* *
5245459 TAGTG
66 TAATA
* ** * * * *
5245464 GCATTCTTAACATGAAAATCATAATAAAAAAAAT-AGCATGGTTAACATGCGAATCATAATAAGA
1 GCATGCTTAACATGCGAATCAAAATAAAAAAAATGA-CATGCTTAACATGCAAATCAAAATAAGA
5245528 ATAATA
65 ATAATA
5245534 GCATGCTTAACATGCGAATCAAAATA
1 GCATGCTTAACATGCGAATCAAAATA
5245560 TCAATAAACT
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
69 1 0.01
70 74 0.99
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (70 bp):
GCATGCTTAACATGCGAATCAAAATAAAAAAAATGACATGCTTAACATGCAAATCAAAATAAGAA
TAATA
Found at i:5246002 original size:16 final size:16
Alignment explanation
Indices: 5245981--5246012 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5245971 TAGAACGAAG
5245981 TTGTTGTAGTGAATAA
1 TTGTTGTAGTGAATAA
5245997 TTGTTGTAGTGAATAA
1 TTGTTGTAGTGAATAA
5246013 CTCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
TTGTTGTAGTGAATAA
Found at i:5262474 original size:27 final size:26
Alignment explanation
Indices: 5262443--5262553 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
5262433 TGGCTGCCAA
* * *
5262443 AACAGGTATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
5262469 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
5262496 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
** *
5262523 AAACAGATATTTGTGGCGTAGCCACTAG
1 -AACAGATA-TTGTGGCAAAGCCACCAG
5262551 AAC
1 AAC
5262554 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 8 0.11
27 42 0.56
28 25 0.33
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:5262536 original size:28 final size:28
Alignment explanation
Indices: 5262463--5262552 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
5262453 GTGACAAAGT
* *
5262463 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
5262490 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
5262517 CACCAGAAACAGATATTTGTGGCGTAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
5262545 CACTAGAA
1 CACCAGAA
5262553 CGCTTCCTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 7 0.12
27 23 0.40
28 27 0.47
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:5262683 original size:27 final size:26
Alignment explanation
Indices: 5262653--5262718 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
5262643 GTCAAAATTA
5262653 ACCTTAGGGGTATAATGGTAATTTTGC
1 ACCTTAGGGGTATAATGGTAATTTT-C
*
5262680 ACC-TAAGGGTATAATGGTAATTTTC
1 ACCTTAGGGGTATAATGGTAATTTTC
*
5262705 ATACTTAGGGGTAT
1 A-CCTTAGGGGTAT
5262719 TTAGTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.62
27 11 0.32
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (26 bp):
ACCTTAGGGGTATAATGGTAATTTTC
Found at i:5263663 original size:17 final size:16
Alignment explanation
Indices: 5263637--5263669 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
5263627 GGGTTCGGTT
5263637 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
5263653 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
5263670 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:5269712 original size:20 final size:20
Alignment explanation
Indices: 5269687--5269726 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5269677 ACAACCATTG
5269687 CCACACTTTAACTGAGTGTT
1 CCACACTTTAACTGAGTGTT
5269707 CCACACTTTAACTGAGTGTT
1 CCACACTTTAACTGAGTGTT
5269727 TGTTCATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
CCACACTTTAACTGAGTGTT
Found at i:5270394 original size:27 final size:26
Alignment explanation
Indices: 5270354--5270468 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
5270344 AGCATGGCTG
* *
5270354 CCAGAACAGGTATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
5270380 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
5270407 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * * *
5270434 CTAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGACAGAGCCA
*
5270462 CTAGAAC
1 CCAGAAC
5270469 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.15
27 42 0.52
28 26 0.32
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:5270451 original size:28 final size:28
Alignment explanation
Indices: 5270393--5270467 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
5270383 GATACAGATA
* * *
5270393 TTGTGGCAGAGCCACCAG-AACAGATAT
1 TTGTGGCATAGCCACTAGAAACAAATAT
5270420 TTGTGGCATAGCCACTAGAAACAAATAT
1 TTGTGGCATAGCCACTAGAAACAAATAT
5270448 TTGTGGCATAGCCACTAGAA
1 TTGTGGCATAGCCACTAGAA
5270468 CGCTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 16 0.36
28 28 0.64
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (28 bp):
TTGTGGCATAGCCACTAGAAACAAATAT
Found at i:5270461 original size:55 final size:53
Alignment explanation
Indices: 5270354--5270468 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
5270344 AGCATGGCTG
* * * *
5270354 CCAGAACAGGTATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
* * * *
5270407 CCAGAACAGATATTTGTGGCATAGCCACTAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAAATA-TTGTGGCAGAGCCA
*
5270462 CTAGAAC
1 CCAGAAC
5270469 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 11 0.22
54 21 0.41
55 19 0.37
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
Found at i:5271580 original size:17 final size:16
Alignment explanation
Indices: 5271554--5271586 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
5271544 GGGTTCGGCT
5271554 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
5271570 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
5271587 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:5274024 original size:21 final size:21
Alignment explanation
Indices: 5273982--5274024 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5273972 TCATTTTTAG
* *
5273982 CAACTTCCTCTACTTCAGCAA
1 CAACTTCCTCTACTGCAACAA
*
5274003 CAACTTCCTCTTCTGCAACAA
1 CAACTTCCTCTACTGCAACAA
5274024 C
1 C
5274025 TTCTACTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.40, G:0.05, T:0.28
Consensus pattern (21 bp):
CAACTTCCTCTACTGCAACAA
Found at i:5274033 original size:18 final size:18
Alignment explanation
Indices: 5273990--5274035 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
5273980 AGCAACTTCC
*
5273990 TCTACTTCAGCAACAACT
1 TCTACTTCTGCAACAACT
5274008 TCCT-CTTCTGCAACAACT
1 T-CTACTTCTGCAACAACT
5274026 TCTACTTCTG
1 TCTACTTCTG
5274036 TAGCATCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.24, C:0.35, G:0.07, T:0.35
Consensus pattern (18 bp):
TCTACTTCTGCAACAACT
Found at i:5293575 original size:48 final size:48
Alignment explanation
Indices: 5293516--5293711 Score: 152
Period size: 48 Copynumber: 4.1 Consensus size: 48
5293506 CCTGGATATT
* *
5293516 GTCTTATATGGGACCACTTATCGATGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGACCACATATCGATGCCAATGCCATGTCCCAGACATG
* *
5293564 GTCTTACATGGGACCACACAT--AT-CGAA-GCCGATAG-CCCA-ACTATG
1 GTCTTACATGGGACCACATATCGATGCCAATGCC-AT-GTCCCAGAC-ATG
** * * * * * *
5293609 GTCTTACATGATATTCTCATATCGATACCGATGACATGTCCCAAACATG
1 GTCTTACATGGGA-CCACATATCGATGCCAATGCCATGTCCCAGACATG
* ** * *
5293658 GTCTTACATGGGATCACATATCGATGCTGATGCCATATCCCAGATATG
1 GTCTTACATGGGACCACATATCGATGCCAATGCCATGTCCCAGACATG
*
5293706 GCCTTA
1 GTCTTA
5293712 TACGGGATCT
Statistics
Matches: 116, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
44 5 0.04
45 23 0.20
46 8 0.07
48 54 0.47
49 22 0.19
50 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
GTCTTACATGGGACCACATATCGATGCCAATGCCATGTCCCAGACATG
Found at i:5296689 original size:28 final size:28
Alignment explanation
Indices: 5296624--5296719 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
5296614 GAGATTGGCG
* * * *
5296624 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
5296653 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
5296681 CTAAGTGTGCGAGTTTGATTATATAACA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
5296709 CTAAGTGTGCG
1 CTAAGTGTGCG
5296720 GACTTACTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 47 0.76
29 15 0.24
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:5301292 original size:24 final size:24
Alignment explanation
Indices: 5301249--5301294 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
5301239 TAAAGAAATG
*
5301249 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
5301273 GAAAACAAAAGA-AAAAAAAATG
1 GAAAA-AAAAGAGAAAAAAAATG
5301295 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:5307111 original size:18 final size:18
Alignment explanation
Indices: 5307088--5307129 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
5307078 AATGAATTGT
5307088 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
5307106 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
5307124 ATTAAA
1 ATTAAA
5307130 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:5308321 original size:47 final size:47
Alignment explanation
Indices: 5308268--5308678 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
5308258 TTAGGATTCT
5308268 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308315 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308362 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308409 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308456 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308503 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5308550 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
5308597 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
5308644 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
5308679 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:5308853 original size:37 final size:37
Alignment explanation
Indices: 5308797--5308875 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
5308787 CCGAGCTCTA
* * *
5308797 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
5308834 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
5308871 AAGAC
1 AAGAC
5308876 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:5315423 original size:66 final size:66
Alignment explanation
Indices: 5315317--5315440 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
5315307 ATCTAGACAG
* *
5315317 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTTGAATTAACCCATGTAGTGACATTGTGAACA
1 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATTGTGAACA
5315382 T
66 T
* * * *
5315383 CTGTCAGGTGTGGCGACAATTCTGGACGCAATCTGGAATTAACTCATGTAGCGACATT
1 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATT
5315441 AATGCAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (66 bp):
CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATTGTGAACA
T
Found at i:5324326 original size:26 final size:26
Alignment explanation
Indices: 5324297--5324360 Score: 121
Period size: 25 Copynumber: 2.5 Consensus size: 26
5324287 TTTTCTTGGA
5324297 AATTTTACTAGGGGTAAAATCTTCAT
1 AATTTTACTAGGGGTAAAATCTTCAT
5324323 AATTTTACTA-GGGTAAAATCTTCAT
1 AATTTTACTAGGGGTAAAATCTTCAT
5324348 AATTTTACTAGGG
1 AATTTTACTAGGG
5324361 ATGAGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.68
26 12 0.32
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
AATTTTACTAGGGGTAAAATCTTCAT
Found at i:5326695 original size:36 final size:35
Alignment explanation
Indices: 5326605--5326700 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 35
5326595 ACATGTTGAT
5326605 ATTCTGATTCGCATGTTAAGCATGC-TATTAATCTA
1 ATTCTGATTCGCATGTTAAGCATGCAT-TTAATCTA
* * ** *
5326640 ATTTTGACTCGCATGTTAAGCATGTCATTTTTTCTG
1 ATTCTGATTCGCATGTTAAGCATG-CATTTAATCTA
5326676 ATTCTGATTCGCATGTTAAGCATGC
1 ATTCTGATTCGCATGTTAAGCATGC
5326701 CATTGTGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 23 0.44
36 28 0.54
37 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGCATGCATTTAATCTA
Found at i:5328091 original size:22 final size:22
Alignment explanation
Indices: 5328041--5328093 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
5328031 ACTTGTACGG
* *
5328041 GATTTGCACTACGGTGCCTACT
1 GATTCGCACTACGGTGCCCACT
*
5328063 -ATTCGCACTACGGTGCCCATT
1 GATTCGCACTACGGTGCCCACT
5328084 GATTCGCACT
1 GATTCGCACT
5328094 TCAGTATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (22 bp):
GATTCGCACTACGGTGCCCACT
Found at i:5328126 original size:22 final size:22
Alignment explanation
Indices: 5328057--5328128 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
5328047 CACTACGGTG
* * *
5328057 CCTACT-ATTCGCACTACGGTG
1 CCTACTGATTCGCACTTCAGTA
* *
5328078 CCCATTGATTCGCACTTCAGTA
1 CCTACTGATTCGCACTTCAGTA
* * **
5328100 TCTACTGATTTGCACTTTGGTA
1 CCTACTGATTCGCACTTCAGTA
5328122 CCTACTG
1 CCTACTG
5328129 TTAAAGCACT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
21 4 0.11
22 34 0.89
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (22 bp):
CCTACTGATTCGCACTTCAGTA
Found at i:5331942 original size:88 final size:89
Alignment explanation
Indices: 5331821--5331998 Score: 304
Period size: 88 Copynumber: 2.0 Consensus size: 89
5331811 GATGACTTCT
5331821 GACCTTTTAAATAATTTTTTTATAGTAAATGGATCCCGATCCAGCTGTGGCTGATGATATAGAGA
1 GACCTTTTAAATAATTTTTTTATAGTAAATGGATCCCGATCCAGCTGTGGCTGATGATATAGAGA
*
5331886 GTAATGCACCAACTCCGGCTGAAG
66 GTAATGCACCAACTCCAGCTGAAG
* * *
5331910 GACCTTTTAAATGA-TTTTTTATAGTAAATGGATCCCGATCCAGCTGTGGTTGATGATGTAGAGA
1 GACCTTTTAAATAATTTTTTTATAGTAAATGGATCCCGATCCAGCTGTGGCTGATGATATAGAGA
*
5331974 GTAATGCACCAGCTCCAGCTGAAG
66 GTAATGCACCAACTCCAGCTGAAG
5331998 G
1 G
5331999 GGCAGTGTCG
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 71 0.85
89 13 0.15
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (89 bp):
GACCTTTTAAATAATTTTTTTATAGTAAATGGATCCCGATCCAGCTGTGGCTGATGATATAGAGA
GTAATGCACCAACTCCAGCTGAAG
Found at i:5334754 original size:19 final size:19
Alignment explanation
Indices: 5334708--5334755 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
5334698 GTATATATTT
5334708 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
5334726 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
5334745 TAATTTTTATT
1 TAAATTTTATT
5334756 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:5334817 original size:43 final size:43
Alignment explanation
Indices: 5334769--5334861 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
5334759 ATTCTAGAAA
5334769 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
5334812 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
5334855 TATTTTC
1 TATTTTC
5334862 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:5339144 original size:19 final size:19
Alignment explanation
Indices: 5339098--5339145 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
5339088 GTATATATTT
5339098 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
5339116 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
5339135 TAAGTTTTATT
1 TAAATTTTATT
5339146 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:5339207 original size:43 final size:43
Alignment explanation
Indices: 5339159--5339251 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
5339149 ATTCTAGAAA
5339159 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
5339202 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
5339245 TATTTTC
1 TATTTTC
5339252 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:5342713 original size:28 final size:28
Alignment explanation
Indices: 5342681--5342808 Score: 157
Period size: 28 Copynumber: 4.5 Consensus size: 28
5342671 ATAGTAAGTC
* *
5342681 CGCACACTTAGTGTTATATAATAAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
5342709 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
5342738 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** * *
5342766 TGCAAACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
5342795 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5342809 AAATCTCATG
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 43 0.50
29 43 0.50
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5342740 original size:29 final size:29
Alignment explanation
Indices: 5342681--5342808 Score: 145
Period size: 29 Copynumber: 4.5 Consensus size: 29
5342671 ATAGTAAGTC
* *
5342681 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
5342709 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
5342738 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * * *
5342766 TGCAAACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
5342795 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5342809 AAATCTCATG
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 38 0.45
29 45 0.53
30 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:5342775 original size:57 final size:57
Alignment explanation
Indices: 5342680--5342808 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 57
5342670 TATAGTAAGT
* *
5342680 CCGCACACTTAGTGTTATATAATAAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATAAAACTCGCAAACTTAGTGCTATACA-AATCAAAC
* * * * * *
5342737 TCGCACACTTAGTGCTATATAATCAAACTTGCAAACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATAAAACTCGCAAACTTAGTGCTATACAAATCAAAC
5342794 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
5342809 AAATCTCATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATAAAACTCGCAAACTTAGTGCTATACAAATCAAAC
Found at i:5346457 original size:23 final size:23
Alignment explanation
Indices: 5346426--5346489 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
5346416 CCACACGGCT
* *
5346426 ATGTCACCCTAGTTTACATGGTC
1 ATGTGACCCTAGTTTACATGGGC
*
5346449 ATGTGACCCTACTTTACATGGGC
1 ATGTGACCCTAGTTTACATGGGC
*
5346472 GTGTGACCCT-GCTTTACA
1 ATGTGACCCTAG-TTTACA
5346490 CTTTTGTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (23 bp):
ATGTGACCCTAGTTTACATGGGC
Found at i:5349000 original size:48 final size:48
Alignment explanation
Indices: 5348920--5349075 Score: 213
Period size: 48 Copynumber: 3.2 Consensus size: 48
5348910 TCTGGGATAT
* * * * *
5348920 GGCATCGGTATGTGATCCCGTATAAGATCATGTCTGGGACATGGCATC
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* *
5348968 GGCATCGTTATGTGAGCTAGTGTAAGGCCATGTCTGGGACATGGCATC
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* * *
5349016 GGCATTGTTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
*
5349064 GGCATCATTATG
1 GGCATCGTTATG
5349076 GCATCGGCAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
Found at i:5349078 original size:17 final size:17
Alignment explanation
Indices: 5349056--5349091 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5349046 TGTCTAGGAC
*
5349056 ATGGCATTGGCATCATT
1 ATGGCATCGGCATCATT
*
5349073 ATGGCATCGGCATCGTT
1 ATGGCATCGGCATCATT
5349090 AT
1 AT
5349092 TTGAACCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (17 bp):
ATGGCATCGGCATCATT
Found at i:5349112 original size:65 final size:65
Alignment explanation
Indices: 5349008--5349133 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
5348998 TGTCTGGGAC
* * *
5349008 ATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
1 ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCATT
* *
5349073 ATGGCATCGGCATCGTTATTTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
5349134 GAGGCATCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (65 bp):
ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCATT
Found at i:5349221 original size:43 final size:42
Alignment explanation
Indices: 5349103--5349221 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
5349093 TGAACCAGTG
* * *
5349103 TAAGACCATGTCTGGGACATGGCATCGGCATGAGGCATCCTG
1 TAAGACCATGTCTGGGACATGGCATCGGTATGAGACATCCTA
* ** **
5349145 TAAGACCATAG-CTGGGCCATTGGCATCAATATGAGATTTCCATA
1 TAAGACCAT-GTCTGGGACA-TGGCATCGGTATGAGACATCC-TA
* *
5349189 TAAGACCATGTCTAGGACATGGCATTGGTATGA
1 TAAGACCATGTCTGGGACATGGCATCGGTATGA
5349222 TAAATCATGT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 16 0.27
43 28 0.47
44 16 0.27
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATGGCATCGGTATGAGACATCCTA
Found at i:5357012 original size:20 final size:20
Alignment explanation
Indices: 5356986--5357034 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
5356976 AAAAACCCTC
*
5356986 CATTTACTTTCTTACCA-TT
1 CATTTACTTACTTACCATTT
* *
5357005 CTATTTACCTACTTTCCATTT
1 C-ATTTACTTACTTACCATTT
5357026 CATTTACTT
1 CATTTACTT
5357035 CGCATAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (20 bp):
CATTTACTTACTTACCATTT
Found at i:5358947 original size:27 final size:27
Alignment explanation
Indices: 5358906--5358959 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5358896 TGTCATGTGA
* *
5358906 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
5358933 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
5358960 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:5359274 original size:49 final size:50
Alignment explanation
Indices: 5359213--5359437 Score: 242
Period size: 49 Copynumber: 4.5 Consensus size: 50
5359203 TGAGGTCACG
* *
5359213 TGTGTAGTACTAAGTCCAGGCTACTACGTGTACCAGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * ** * * * *
5359262 TGTGTAGTACTAAGTGCAAGTTACTATGCATACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCGCA
* * **
5359313 TGTCTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* *
5359361 TGTTTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
5359412 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
5359438 TGCGTACTAG
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
48 4 0.03
49 59 0.42
50 40 0.28
51 39 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:5361417 original size:18 final size:18
Alignment explanation
Indices: 5361394--5361428 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5361384 AGTATAGGGG
*
5361394 GTTTTCGTAAATTTTTTT
1 GTTTTCCTAAATTTTTTT
*
5361412 GTTTTCCTCAATTTTTT
1 GTTTTCCTAAATTTTTT
5361429 CACTCGATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (18 bp):
GTTTTCCTAAATTTTTTT
Found at i:5362747 original size:15 final size:15
Alignment explanation
Indices: 5362727--5362756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5362717 AAAAAAGGGC
5362727 TAGTCACAGCACCAA
1 TAGTCACAGCACCAA
*
5362742 TAGTCATAGCACCAA
1 TAGTCACAGCACCAA
5362757 ATTGGACGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.17
Consensus pattern (15 bp):
TAGTCACAGCACCAA
Found at i:5369363 original size:27 final size:27
Alignment explanation
Indices: 5369322--5369378 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
5369312 AATTCACTTT
5369322 TCAATTTCCAATCAACAC-CAATTTCAA
1 TCAATTTCCAATCAACACAC-ATTTCAA
*
5369349 TCAA-TTCCAATTCAATACACATTTCAA
1 TCAATTTCCAA-TCAACACACATTTCAA
5369376 TCA
1 TCA
5369379 TTCATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.22
27 20 0.74
28 1 0.04
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (27 bp):
TCAATTTCCAATCAACACACATTTCAA
Found at i:5370117 original size:16 final size:15
Alignment explanation
Indices: 5370066--5370118 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
5370056 GTTATATACT
5370066 CATGAATTGAGTATGG
1 CATGAATTGAGTAT-G
* * *
5370082 TATGAAATGATGTATT
1 CATGAATTGA-GTATG
5370098 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
5370114 CATGA
1 CATGA
5370119 CTGATGCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:5371435 original size:43 final size:43
Alignment explanation
Indices: 5371385--5371486 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
5371375 TCCCGGACGT
* *
5371385 GGTCTTACATGTAATTCAG-TACCGATG-TCTCTGTCCCAGATAG
1 GGTCTTACATGTAAATCAGATA-CGATGCT-TATGTCCCAGATAG
* * *
5371428 GGTCTTACACG-AAATCAGATATGATGCTTATGTCCCAGATAT
1 GGTCTTACATGTAAATCAGATACGATGCTTATGTCCCAGATAG
5371470 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
5371487 TCAAATCAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGATACGATGCTTATGTCCCAGATAG
Found at i:5371815 original size:8 final size:8
Alignment explanation
Indices: 5371802--5371840 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
5371792 TACAATTCAA
*
5371802 ATTCAACC
1 ATTCAATC
5371810 ATTCAATC
1 ATTCAATC
5371818 ATTCAATC
1 ATTCAATC
*
5371826 ATTCATTTC
1 ATTCA-ATC
5371835 ATTCAA
1 ATTCAA
5371841 AATAATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTCAATC
Found at i:5382080 original size:35 final size:33
Alignment explanation
Indices: 5382041--5382109 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 33
5382031 TAATTCTCTG
5382041 AAAGGAG-AGAAAAAGAGGTAAATAGTTTGCTAAAA
1 AAAGGAGAAGAAAAAGA-GTAAA-AG-TTGCTAAAA
*
5382076 AAAGGAGAAAGATAAAGAGTAAAAGTTGCTAAAA
1 AAAGGAG-AAGAAAAAGAGTAAAAGTTGCTAAAA
5382110 TGTTGGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 9 0.29
35 9 0.29
36 5 0.16
37 8 0.26
ACGTcount: A:0.57, C:0.03, G:0.25, T:0.16
Consensus pattern (33 bp):
AAAGGAGAAGAAAAAGAGTAAAAGTTGCTAAAA
Found at i:5389746 original size:40 final size:40
Alignment explanation
Indices: 5389534--5389739 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
5389524 AACCCAAGTA
* *
5389534 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5389573 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5389613 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5389653 CCTTCGGGACTTAGCCGGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
5389693 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
5389733 CCTTCGG
1 CCTTCGG
5389740 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:5397902 original size:40 final size:40
Alignment explanation
Indices: 5397650--5397895 Score: 395
Period size: 40 Copynumber: 6.2 Consensus size: 40
5397640 AACCCAAGTA
* *
5397650 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5397689 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5397729 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
5397769 CCTTCGGGACTTAGCCGGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
5397809 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
5397849 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5397889 TCTTCGG
1 CCTTCGG
5397896 ATCTTAGTCC
Statistics
Matches: 193, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 13 0.07
40 180 0.93
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:5400284 original size:110 final size:110
Alignment explanation
Indices: 5400085--5400304 Score: 350
Period size: 110 Copynumber: 2.0 Consensus size: 110
5400075 TTGATTGTTC
* *
5400085 ACCAAATGGATGTTAAAACTGCATTTTTAAATGATGAATTGGAAGAGGAACTGTACATGGAACAA
1 ACCAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAA
* *
5400150 CTAAAAGGATTTGTTGTTCCAGGACAAGAGCATCAGGTATGTAAG
66 CCAAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAG
*
5400195 ACCAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAAGTGTACATGGAACAA
1 ACCAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAA
* ** **
5400260 CCAGAATTATTTGTTGTTTTAGGACAAGAGCATAAGGTATGTAAG
66 CCAAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAG
5400305 CTTGTTAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 100 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (110 bp):
ACCAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAA
CCAAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAG
Found at i:5402117 original size:20 final size:20
Alignment explanation
Indices: 5402083--5402124 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5402073 AACAATTCAA
** *
5402083 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
5402103 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
5402123 AT
1 AT
5402125 GTGTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:5402771 original size:36 final size:36
Alignment explanation
Indices: 5402724--5402795 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5402714 CATAAAAGGA
5402724 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
1 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
5402760 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
1 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
5402796 TTACTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (36 bp):
ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
Found at i:5406524 original size:6 final size:6
Alignment explanation
Indices: 5406513--5406537 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5406503 GTTAGGCGGA
5406513 GTGGAG GTGGAG GTGGAG GTGGAG G
1 GTGGAG GTGGAG GTGGAG GTGGAG G
5406538 ACGGGTGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GTGGAG
Found at i:5408943 original size:6 final size:6
Alignment explanation
Indices: 5408934--5408958 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5408924 CCATTCTCTT
5408934 TCTAAA TCTAAA TCTAAA TCTAAA T
1 TCTAAA TCTAAA TCTAAA TCTAAA T
5408959 TTCATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTAAA
Found at i:5411914 original size:12 final size:12
Alignment explanation
Indices: 5411897--5411923 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5411887 TTCATTTGAC
5411897 TCAACATGCAAT
1 TCAACATGCAAT
5411909 TCAACATGCAAT
1 TCAACATGCAAT
5411921 TCA
1 TCA
5411924 TTTCTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (12 bp):
TCAACATGCAAT
Found at i:5415090 original size:47 final size:47
Alignment explanation
Indices: 5415012--5415178 Score: 244
Period size: 47 Copynumber: 3.6 Consensus size: 47
5415002 CCCTTCGGGA
* * * * *
5415012 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
5415059 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
5415106 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
5415153 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
5415179 CACAATTATC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:5428355 original size:16 final size:17
Alignment explanation
Indices: 5428319--5428356 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
5428309 ATTTAAAAGG
5428319 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
5428336 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
5428353 AAAA
1 AAAA
5428357 TTTGATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:5435417 original size:15 final size:13
Alignment explanation
Indices: 5435387--5435419 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
5435377 CTCGGCAGGG
*
5435387 ACACGCCCGTGGC
1 ACACACCCGTGGC
5435400 ACACACCCGTGGC
1 ACACACCCGTGGC
5435413 ACACACC
1 ACACACC
5435420 TGTGTTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACCCGTGGC
Found at i:5435534 original size:21 final size:20
Alignment explanation
Indices: 5435510--5435548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5435500 CCGTGTTGAT
5435510 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
5435531 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
5435549 CTCGTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:5435948 original size:44 final size:44
Alignment explanation
Indices: 5435899--5435993 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
5435889 GCCATTTTTG
*
5435899 GCTTGCACCCTCTCGAGCTTGCATTTAGACCGTCCGCC-TCTTCA
1 GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCAT-TTCA
* * *
5435943 GCTTGCACCCACTCGGGCTTGCATTTAGACTGTCCGCCATTTTA
1 GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCATTTCA
5435987 GCTTGCA
1 GCTTGCA
5435994 ATTAGACAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.15, C:0.35, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCATTTCA
Found at i:5436027 original size:16 final size:16
Alignment explanation
Indices: 5435987--5436030 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
5435977 CGCCATTTTA
* *
5435987 GCTTGCAATTAGACAG
1 GCTTGCACTTTGACAG
**
5436003 GCTCACACTTTGACAG
1 GCTTGCACTTTGACAG
5436019 GCTTGCACTTTG
1 GCTTGCACTTTG
5436031 CTTATTGTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (16 bp):
GCTTGCACTTTGACAG
Found at i:5439028 original size:39 final size:39
Alignment explanation
Indices: 5438974--5439089 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
5438964 TTCAGTGATG
*
5438974 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
5439013 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
5439052 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
5439090 ATATGTTCGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:5439113 original size:39 final size:39
Alignment explanation
Indices: 5438974--5439126 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 39
5438964 TTCAGTGATG
** * * *
5438974 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** * *
5439013 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
5439052 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * * *
5439091 TATGTTCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
5439127 TATTATACCG
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 5 0.05
39 98 0.95
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:5439113 original size:78 final size:78
Alignment explanation
Indices: 5438974--5439117 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
5438964 TTCAGTGATG
* * * * **
5438974 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
5439039 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
5439052 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTTCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
5439116 CT
65 CT
5439118 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:5439126 original size:78 final size:78
Alignment explanation
Indices: 5438974--5439137 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
5438964 TTCAGTGATG
* * * * **
5438974 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
5439039 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
5439052 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTTCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
5439116 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
5439130 TATA-CCGG
1 TATATCCGG
5439138 GTTTAAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.12
78 64 0.88
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:5445649 original size:39 final size:39
Alignment explanation
Indices: 5445595--5445751 Score: 192
Period size: 39 Copynumber: 4.0 Consensus size: 39
5445585 TTCAGTGATG
* *
5445595 TATATCCGGACTTAGGGTCTGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
5445634 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
5445673 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * **
5445712 TATGTCCGGGC-TAAAGTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGG-AAT
5445751 T
1 T
5445752 GGTTTCAAGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.12
39 92 0.88
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:5449563 original size:92 final size:92
Alignment explanation
Indices: 5449456--5449697 Score: 425
Period size: 92 Copynumber: 2.6 Consensus size: 92
5449446 TTTAAAAAAG
5449456 GATAAT-TATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAATTTTAGGATT
1 GATAATCT-TTAATATATAATTATATCCATTATAATATATATTAATTATTATCAATTTTAGGATT
5449520 TTTGATAAGTTTTTAATGATAATAAGAA
65 TTTGATAAGTTTTTAATGATAATAAGAA
5449548 GATAATCTTTAATATATAATTATATCCATTATAATATATATTAATTATTATCAATTTTAGGATTT
1 GATAATCTTTAATATATAATTATATCCATTATAATATATATTAATTATTATCAATTTTAGGATTT
5449613 TTGATAAGTTTTTAATGATAATAAGAA
66 TTGATAAGTTTTTAATGATAATAAGAA
*
5449640 GATAATCTTTAATATATAATTATATCTATTATAATTTATATATTAATCT-TTATCAATT
1 GATAATCTTTAATATATAATTATATCCATTATAA--TATATATTAAT-TATTATCAATT
5449698 AGCATAGAAT
Statistics
Matches: 145, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
92 123 0.85
93 1 0.01
94 20 0.14
95 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (92 bp):
GATAATCTTTAATATATAATTATATCCATTATAATATATATTAATTATTATCAATTTTAGGATTT
TTGATAAGTTTTTAATGATAATAAGAA
Found at i:5449697 original size:22 final size:24
Alignment explanation
Indices: 5449652--5449697 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
5449642 TAATCTTTAA
5449652 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
5449676 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
5449698 AGCATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:5463042 original size:31 final size:31
Alignment explanation
Indices: 5462966--5463043 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
5462956 ACTACAAAAA
*
5462966 TAGTCACTTTTATTTGTCTCAGATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
5462997 TAGTCACTTTTGTTTGTCTCATATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
5463028 TAGTCACTTATGTTTG
1 TAGTCACTTTTGTTTG
5463044 AAATGTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (31 bp):
TAGTCACTTTTGTTTGTCTCAGATTACATTT
Found at i:5472039 original size:3 final size:3
Alignment explanation
Indices: 5472019--5472079 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
5472009 ATACTGCTAT
* *
5472019 TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
5472067 TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TT
5472080 TTTTGGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:5472396 original size:25 final size:25
Alignment explanation
Indices: 5472362--5472410 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
5472352 ATCTTACTAC
5472362 TAAACCCAATAAATTCAAATCCATA
1 TAAACCCAATAAATTCAAATCCATA
5472387 TAAACCCAATAAATTCAAATCCAT
1 TAAACCCAATAAATTCAAATCCAT
5472411 TCAACTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (25 bp):
TAAACCCAATAAATTCAAATCCATA
Found at i:5475831 original size:39 final size:38
Alignment explanation
Indices: 5475744--5475831 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
5475734 GTATCTATTC
* * * * *
5475744 AAATAATTATAAAGTGTAAAATTAAATTATTACATTAT
1 AAATAATTAAAAAGTATAAAATTAAATAATTACAATAA
*
5475782 AAATGGATTAAAAAGTATAAAATTAAATAATTACAATAA
1 AAAT-AATTAAAAAGTATAAAATTAAATAATTACAATAA
5475821 AAATAAATTAA
1 AAAT-AATTAA
5475832 GAATTGAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (38 bp):
AAATAATTAAAAAGTATAAAATTAAATAATTACAATAA
Found at i:5476351 original size:23 final size:24
Alignment explanation
Indices: 5476325--5476384 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
5476315 TTTAAAAATG
5476325 ATAAAATTATAATTTT-ATATATA
1 ATAAAATTATAATTTTGATATATA
* *
5476348 ATAAATTTAT-ATTTTGATCTATA
1 ATAAAATTATAATTTTGATATATA
5476371 A-AAATATTATAATT
1 ATAAA-ATTATAATT
5476385 AATTTCAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 20 0.65
24 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATAAAATTATAATTTTGATATATA
Found at i:5476927 original size:18 final size:19
Alignment explanation
Indices: 5476892--5476931 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
5476882 ACGTAGTTCT
* *
5476892 AAATGAAAATTTTTAAGAA
1 AAATGAAAATGTTAAAGAA
5476911 AAAT-AAAATGTTAAAGAA
1 AAATGAAAATGTTAAAGAA
5476929 AAA
1 AAA
5476932 AGCTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (19 bp):
AAATGAAAATGTTAAAGAA
Found at i:5487359 original size:42 final size:42
Alignment explanation
Indices: 5487312--5487393 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
5487302 GCCAATGTGT
**
5487312 ATATATAGTCGAAGCTATCTCAATCTCACACACTAAGTGCAA
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
* * * *
5487354 ATATATAACCGAAGCTGTCTCAATTTCGCATACTAAGTGC
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGC
5487394 CCACAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (42 bp):
ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
Found at i:5490639 original size:42 final size:42
Alignment explanation
Indices: 5490592--5490673 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
5490582 GCCAATGTGT
**
5490592 ATATATAGTCGAAGCTATCTCAATCTCACACACTAAGTGCAA
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
** * *
5490634 ATATATAACCGAAGCTATCTTGATTTCGCACACTAAGTGC
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGC
5490674 CCACAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (42 bp):
ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
Found at i:5501230 original size:39 final size:40
Alignment explanation
Indices: 5501135--5501396 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
5501125 TTGAATGATG
*
5501135 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5501173 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5501214 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
5501253 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5501292 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5501331 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5501370 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5501397 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5509476 original size:205 final size:203
Alignment explanation
Indices: 5509110--5509816 Score: 1063
Period size: 205 Copynumber: 3.4 Consensus size: 203
5509100 ACAAATCTGG
*
5509110 CCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAA
1 CCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAA
* *
5509175 TCGAAGACATAGCTGATTTGGCTTTCACTTGATTACGATGAAGAAAATCTAAGATGATTTGTCGT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGT
*
5509240 CTCTGTATTGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAG
130 CTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAG
5509305 CAGATCTCA
195 CAGATCTCA
* *
5509314 CCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGTATCTTTGTGTTTACAAGGAACAA
1 CCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
5509379 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
* * *
5509444 TCTCTGTGTTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATA
129 TCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATA
*
5509509 GCAGATCTCG
194 GCAGATCTCA
* * *
5509519 CCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGAATCCTTGTGTTTACAAGGAACAA
1 CCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
* * * * *
5509584 ATCGAAGACATAGCTGATTTTGTTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCG
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
* * * * * *
5509649 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTTAATGGAGAGCAGATACATA
129 TCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATA
*
5509714 GCAGATCTGA
194 GCAGATCTCA
* * *
5509724 TCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAAGAACA
1 CCTTCAGATG-TT-TACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACA
* * *
5509789 AATCAAAGACATAGCAGATTTGACTTTC
63 AATCGAAGACATAGCTGATTTGGCTTTC
5509817 GGATGTTCCC
Statistics
Matches: 455, Mismatches: 41, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
203 1 0.00
204 14 0.03
205 376 0.83
206 62 0.14
207 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (203 bp):
CCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTC
TCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGC
AGATCTCA
Found at i:5509984 original size:44 final size:44
Alignment explanation
Indices: 5509899--5510020 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
5509889 GAGATTAGCA
* * *
5509899 TGGCATCCCTGTGCTTATAGGGAACAAGTTGGAAATTGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAATAGCAGATT
* * *
5509943 TGGCATCCCTGTGTTTATAGGGGACAA-ATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAA-ATAGCAGATT
** * * *
5509987 TAACATTCCTGTGCTTACAGTGAAGC-AGATCGAA
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGATCGAA
5510021 GATTTCAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
43 4 0.06
44 51 0.82
45 7 0.11
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAATAGCAGATT
Found at i:5511834 original size:25 final size:25
Alignment explanation
Indices: 5511801--5511848 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5511791 TTAAATTAAC
5511801 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
5511826 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
5511849 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:5517150 original size:21 final size:22
Alignment explanation
Indices: 5517124--5517164 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5517114 TGCTAGACAC
5517124 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
*
5517145 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACACCCGTGTG
5517165 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:5520038 original size:15 final size:15
Alignment explanation
Indices: 5520018--5520048 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5520008 AAATATGAAA
5520018 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
5520033 GATATGTTTTGTATT
1 GATATGTTTTGGATT
5520048 G
1 G
5520049 GAATTTTTGA
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:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:5520725 original size:43 final size:40
Alignment explanation
Indices: 5520642--5520746 Score: 93
Period size: 43 Copynumber: 2.5 Consensus size: 40
5520632 TGGCACCGAT
* * * ** *
5520642 ATATGTGTTTTCGTGTAAGACCATGTCTGAGATGTTGGCATC
1 ATATGTG-ATTCG-GTAAGACCACGTATGAGACATCGGCATC
*
5520684 GATATGTGGTTACGAGTAAGACCACGTATGAGACATCGGCATC
1 -ATATGTGATT-CG-GTAAGACCACGTATGAGACATCGGCATC
*
5520727 ATATTTGATTCGGTAAGACC
1 ATATGTGATTCGGTAAGACC
5520747 TTGTCTGGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
40 8 0.15
41 2 0.04
42 10 0.19
43 32 0.62
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (40 bp):
ATATGTGATTCGGTAAGACCACGTATGAGACATCGGCATC
Done.