Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 24 of 79
Found at i:8191014 original size:24 final size:24
Alignment explanation
Indices: 8190978--8191033 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
8190968 CAGATTGCCC
8190978 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
8191002 CCATTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
8191026 CCACTGTA
1 CCACTGTA
8191034 CTTTTGGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:8203499 original size:51 final size:50
Alignment explanation
Indices: 8203437--8203627 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 50
8203427 ATGTTCGGTT
*
8203437 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATA
* * * * * * *
8203488 CACGTAGTAGCCTCCACATAGTACTACATACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATA
* * * *
8203539 CACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATA
* *
8203589 CATATAGTAGCCTGCAGATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
8203628 CACTTTCAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATA
Found at i:8203622 original size:101 final size:101
Alignment explanation
Indices: 8203432--8203623 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 101
8203422 CAATGATGTT
* * *
8203432 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTA
*
8203497 GCCTCCACATAGTACTACATACGTGATCGAAACTATC
65 GCCTCCACATAGTACTACACACGTGATCGAAACTATC
* * *
8203534 CGGTACACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATACATATAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTA
* *
8203598 GCCTGCAGATAGTACTACACACGTGA
65 GCCTCCACATAGTACTACACACGTGA
8203624 CCATCACTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.46
102 39 0.49
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAG
CCTCCACATAGTACTACACACGTGATCGAAACTATC
Found at i:8203647 original size:101 final size:101
Alignment explanation
Indices: 8203437--8203623 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 101
8203427 ATGTTCGGTT
* *
8203437 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTC
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTC
* * **
8203502 CACATAGTACTACATACGTGATCGAAACTATCCGGTA
65 CACATAGTACTACACACGTGATCCAAACTATCAAGTA
* * * *
8203539 CACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATACATATAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTC
*
8203603 CAGATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
8203624 CCATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 35 0.46
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTCC
ACATAGTACTACACACGTGATCCAAACTATCAAGTA
Found at i:8210966 original size:29 final size:30
Alignment explanation
Indices: 8210913--8210976 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
8210903 GAAAAACTGC
* *
8210913 TCTCTAATTCCTCTCTCCCTAAAATCCTCA
1 TCTCCAATTCCTCTCACCCTAAAATCCTCA
*
8210943 TCTCCAATTCTTCTCACCC-AAAATCCTCA
1 TCTCCAATTCCTCTCACCCTAAAATCCTCA
8210972 TCTCC
1 TCTCC
8210977 TTACATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.34
Consensus pattern (30 bp):
TCTCCAATTCCTCTCACCCTAAAATCCTCA
Found at i:8215608 original size:323 final size:323
Alignment explanation
Indices: 8215020--8215668 Score: 1226
Period size: 323 Copynumber: 2.0 Consensus size: 323
8215010 AATCTTTCTT
*
8215020 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCGGAA
1 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
8215085 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
66 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
*
8215150 CATCTAGCCACAAAATCTGTAACTTTTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
131 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
8215215 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
196 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
* *
8215280 ACTGCCTCAATTCTGAATCATTGGGCACACATATCCTGCCTCAGAAACACAACACACCCTCAG
261 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
8215343 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
1 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
*
8215408 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAGG
66 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
*
8215473 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGTAGATC
131 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
*
8215538 TCAATACATCTTATTTCCGGCAGGGTGCATAGGATAAAGGCTACTATGCGCCTCTCTTAAAATAG
196 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
*
8215603 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACATCCTCAG
261 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
8215666 AGT
1 AGT
8215669 TCAACCCAAA
Statistics
Matches: 318, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
323 318 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (323 bp):
AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
Found at i:8218891 original size:26 final size:26
Alignment explanation
Indices: 8218862--8218923 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
8218852 TACCTACAGT
**
8218862 AGTTTCAAAATATCCTAACATATATC
1 AGTTTCAAAATATAATAACATATATC
* * * *
8218888 AGTTTTAGAATATAATAACTTGTATC
1 AGTTTCAAAATATAATAACATATATC
8218914 AGTTTCAAAA
1 AGTTTCAAAA
8218924 CACTTACAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
AGTTTCAAAATATAATAACATATATC
Found at i:8231045 original size:48 final size:48
Alignment explanation
Indices: 8230935--8231157 Score: 214
Period size: 48 Copynumber: 4.8 Consensus size: 48
8230925 TCACCCACCA
* *
8230935 AACACAACC-AATTTACCCTCGAAACACAACCA-AT-T-T-ACCATCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACC-TCCG
*
8230979 AACACAACCAAATGTACCCTCCAAACACAACCATATATATAACCTCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
* * ** * *
8231027 AACAGAACCAAGTATACCCTTTAAACACAAACA-AT-T-TACCCTCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
* * * * * *
8231072 AACATAACCAAATGTA-CCTGCAAAACACCATCATATATATAACCTCTG
1 AACACAACCAAATATACCCT-CCAAACACAACCATATATATAACCTCCG
*
8231120 AACACAACCAAGTATACCCTCCAAACACAACCAT-TATA
1 AACACAACCAAATATACCCTCCAAACACAACCATATATA
8231158 CCATTTAACA
Statistics
Matches: 145, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.08
45 51 0.35
46 5 0.03
47 8 0.06
48 63 0.43
49 6 0.04
ACGTcount: A:0.43, C:0.33, G:0.05, T:0.19
Consensus pattern (48 bp):
AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
Found at i:8231062 original size:93 final size:93
Alignment explanation
Indices: 8230935--8231149 Score: 299
Period size: 93 Copynumber: 2.3 Consensus size: 93
8230925 TCACCCACCA
* * *
8230935 AACACAACCAA-TTTACCCTCGAAACACAACCAATTTACCATCCGAACACAACCAAATGTACCCT
1 AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTA-CCT
*
8230999 -CCAAACACAACCATATATATAACCTCCG
65 GCAAAACACAACCATATATATAACCTCCG
* ** * *
8231027 AACAGAACCAAGTATACCCTTTAAACACAAACAATTTACCCTCCGAACATAACCAAATGTACCTG
1 AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTACCTG
* * *
8231092 CAAAACACCATCATATATATAACCTCTG
66 CAAAACACAACCATATATATAACCTCCG
8231120 AACACAACCAAGTATACCCTCCAAACACAA
1 AACACAACCAAGTATACCCTCCAAACACAA
8231150 CCATTATACC
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
92 13 0.12
93 94 0.88
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (93 bp):
AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTACCTG
CAAAACACAACCATATATATAACCTCCG
Found at i:8231135 original size:23 final size:23
Alignment explanation
Indices: 8231108--8231152 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8231098 ACCATCATAT
* *
8231108 ATATAACCTCTGAACACAACCAA
1 ATATACCCTCCGAACACAACCAA
* *
8231131 GTATACCCTCCAAACACAACCA
1 ATATACCCTCCGAACACAACCA
8231153 TTATACCATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.36, G:0.04, T:0.16
Consensus pattern (23 bp):
ATATACCCTCCGAACACAACCAA
Found at i:8236220 original size:41 final size:40
Alignment explanation
Indices: 8236166--8236433 Score: 260
Period size: 41 Copynumber: 6.7 Consensus size: 40
8236156 TGACCTTTCG
*
8236166 GGGCTTTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
8236206 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* **
8236247 GGGGCTTTAGCGGTGTTTTTGAATTAGCG--GC--AT-CT-
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** ** * * *
8236282 TTGAATTAGCGGCGTTTTTGGAAAGGCGCCGCTGATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
8236322 AGGGCTTTAGTGGCGTTTTTGAAAAGGCACCACTGATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * **
8236363 AAGGCTTTAGCGGCGTTTTTGAAAAGGCATCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
8236404 GGGACTTTAGCGGCGTTATTGAAAAAGCGC
1 GGG-CTTTAGCGGCGTTTTTGAAAAAGCGC
8236434 TGCAAAAATA
Statistics
Matches: 187, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
34 19 0.10
36 4 0.02
37 2 0.01
38 2 0.01
39 4 0.02
40 5 0.03
41 148 0.79
42 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:8236275 original size:17 final size:17
Alignment explanation
Indices: 8236253--8236301 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
8236243 GCTCGGGGCT
*
8236253 TTAGCGGTGTTTTTGAA
1 TTAGCGGCGTTTTTGAA
* *
8236270 TTAGCGGCATCTTTGAA
1 TTAGCGGCGTTTTTGAA
8236287 TTAGCGGCGTTTTTG
1 TTAGCGGCGTTTTTG
8236302 GAAAGGCGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.29, T:0.43
Consensus pattern (17 bp):
TTAGCGGCGTTTTTGAA
Found at i:8236311 original size:116 final size:116
Alignment explanation
Indices: 8236171--8236385 Score: 306
Period size: 116 Copynumber: 1.9 Consensus size: 116
8236161 TTTCGGGGCT
*
8236171 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTC-GGGTCTTTAGCGGCGTTTTTGAAAAAGCG
1 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTTTGAAAAAGCA
* ** *
8236235 CCGCTAATGCTCGGGGCTTTAGCGGTGTTTTTGAATTAGCGGCATCTTTGAA
65 CCACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAATTAGCGGCATCTTTGAA
* * * * * *
8236287 TTAGCGGCGTTTTTGGAAAGGCGCCGCTGATGCTCAGGGCTTTAGTGGCGTTTTTGAAAAGGCAC
1 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCAC
*
8236352 CACTGATGCTCAAGGCTTTAGCGGCGTTTTTGAA
66 CACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAA
8236386 AAGGCATCGC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
116 83 0.97
117 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (116 bp):
TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCAC
CACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAATTAGCGGCATCTTTGAA
Found at i:8236706 original size:14 final size:15
Alignment explanation
Indices: 8236678--8236710 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8236668 AAGATTTATA
8236678 GATTATGGAATTAGG
1 GATTATGGAATTAGG
8236693 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
8236707 GATT
1 GATT
8236711 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:8236959 original size:7 final size:7
Alignment explanation
Indices: 8236944--8237036 Score: 53
Period size: 7 Copynumber: 12.9 Consensus size: 7
8236934 TAGGGATTTA
8236944 GGTTAGG
1 GGTTAGG
*
8236951 GGTTGGG
1 GGTTAGG
8236958 GGTTAGG
1 GGTTAGG
* *
8236965 GATT-CG
1 GGTTAGG
*
8236971 GGTTACG
1 GGTTAGG
*
8236978 GTTTAGG
1 GGTTAGG
8236985 GGTTTAGAG
1 GG-TTAG-G
*
8236994 GTTTAAGG
1 GGTT-AGG
* *
8237002 GTTTAAG
1 GGTTAGG
*
8237009 GTTTAGG
1 GGTTAGG
8237016 GGTTAGG
1 GGTTAGG
*
8237023 GATTTAGG
1 G-GTTAGG
8237031 GGTTAG
1 GGTTAG
8237037 ACGTTATGGG
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
6 4 0.06
7 42 0.63
8 17 0.25
9 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.46, T:0.34
Consensus pattern (7 bp):
GGTTAGG
Found at i:8236990 original size:8 final size:8
Alignment explanation
Indices: 8236977--8237034 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
8236967 TTCGGGTTAC
8236977 GGTTTAGG
1 GGTTTAGG
*
8236985 GGTTTAGA
1 GGTTTAGG
*
8236993 GGTTTAAG
1 GGTTTAGG
*
8237001 GGTTTA-A
1 GGTTTAGG
8237008 GGTTTAGG
1 GGTTTAGG
8237016 GG-TTAGG
1 GGTTTAGG
*
8237023 GATTTAGG
1 GGTTTAGG
8237031 GGTT
1 GGTT
8237035 AGACGTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
7 12 0.29
8 29 0.71
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (8 bp):
GGTTTAGG
Found at i:8237028 original size:15 final size:14
Alignment explanation
Indices: 8236944--8237036 Score: 80
Period size: 14 Copynumber: 6.4 Consensus size: 14
8236934 TAGGGATTTA
* *
8236944 GGTTAGGGGTTGGG
1 GGTTAGGGTTTAGG
* *
8236958 GGTTAGGGATT-CG
1 GGTTAGGGTTTAGG
*
8236971 GGTTACGGTTTAGG
1 GGTTAGGGTTTAGG
8236985 GGTTTAGAGGTTTAAGG
1 GG-TTAG-GGTTT-AGG
* *
8237002 GTTTAAGGTTTAGG
1 GGTTAGGGTTTAGG
8237016 GGTTAGGGATTTAGG
1 GGTTAGGG-TTTAGG
8237031 GGTTAG
1 GGTTAG
8237037 ACGTTATGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
13 10 0.16
14 22 0.34
15 20 0.31
16 8 0.12
17 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.46, T:0.34
Consensus pattern (14 bp):
GGTTAGGGTTTAGG
Found at i:8237382 original size:23 final size:23
Alignment explanation
Indices: 8237352--8237434 Score: 94
Period size: 23 Copynumber: 3.4 Consensus size: 23
8237342 TTTAAATATT
8237352 AGTTTAAATAGAATTAATAATTA
1 AGTTTAAATAGAATTAATAATTA
* * *
8237375 AGTTTAAATAAAATATATTTAAATATT
1 AGTTTAAATAGAAT-TA-AT-AAT-TA
*
8237402 AGTTTAAATAGAATTAATAAATA
1 AGTTTAAATAGAATTAATAATTA
8237425 AGTTTAAATA
1 AGTTTAAATA
8237435 AAATATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
23 24 0.49
24 4 0.08
25 2 0.04
26 5 0.10
27 14 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
AGTTTAAATAGAATTAATAATTA
Found at i:8237453 original size:23 final size:24
Alignment explanation
Indices: 8237375--8238572 Score: 117
Period size: 23 Copynumber: 50.0 Consensus size: 24
8237365 TTAATAATTA
8237375 AGTTTAAATAAAATATATTTAAATATT
1 AGTTTAAATAAAATATATTT-AA-A-T
* *
8237402 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8237424 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8237449 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
* *
8237469 AGAATT-AAT-AATTA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * *
8237492 AAAATATATTTAAATATTAGTTTAAAT
1 AGTTTA-AATAAAATA-TA-TTTAAAT
*
8237519 AGAATT-AAT-AAATA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * * *
8237542 AAAATATATTTAAATAT-TTAAATATT
1 AGTTTA-AATAAAATATATTTAA-A-T
* * *
8237568 AGTTTAAATAGAAT-TA-ATAATT
1 AGTTTAAATAAAATATATTTAAAT
8237590 AAGTTTAAATAAAATATATTTAAATATT
1 -AGTTTAAATAAAATATATTT-AA-A-T
* *
8237618 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8237640 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8237665 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
* *
8237685 AGAATT-AAT-AATTA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * *
8237708 AAAATATATTTAAATATTAGTTTAAAT
1 AGTTTA-AATAAAATA-TA-TTTAAAT
*
8237735 AGAATT-AAT-AAATA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * * *
8237758 AAAATATATTTAAATAT-TTAAATATT
1 AGTTTA-AATAAAATATATTTAA-A-T
* * *
8237784 AGTTTAAATAGAAT-TA-ATAATT
1 AGTTTAAATAAAATATATTTAAAT
8237806 AAGTTTAAATAAAATATATTTAAATATT
1 -AGTTTAAATAAAATATATTT-AA-A-T
* *
8237834 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8237856 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8237881 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
* *
8237901 AGAATT-AAT-AATTA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * *
8237924 AAAATATATTTAAATATTAGTTTAAAT
1 AGTTTA-AATAAAATA-TA-TTTAAAT
*
8237951 AGAATT-AAT-AAATA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * * *
8237974 AAAATATATTTAAATAT-TTAAATATT
1 AGTTTA-AATAAAATATATTTAA-A-T
* * *
8238000 AGTTTAAATAGAAT-TA-ATAATT
1 AGTTTAAATAAAATATATTTAAAT
8238022 AAGTTTAAATAAAATATATTTAAATATT
1 -AGTTTAAATAAAATATATTT-AA-A-T
* *
8238050 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8238072 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8238097 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
* *
8238117 AGAATT-AAT-AATTA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * *
8238140 AAAATATATTTAAATATTAGTTTAAAT
1 AGTTTA-AATAAAATA-TA-TTTAAAT
*
8238167 AGAATT-AAT-AAATA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * * *
8238190 AAAATATATTTAAATAT-TTAAATATT
1 AGTTTA-AATAAAATATATTTAA-A-T
* * *
8238216 AGTTTAAATAGAAT-TA-ATAATT
1 AGTTTAAATAAAATATATTTAAAT
8238238 AAGTTTAAATAAAATATATTTAAATATT
1 -AGTTTAAATAAAATATATTT-AA-A-T
* *
8238266 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8238288 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8238313 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
* *
8238333 AGAATT-AAT-AATTA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * *
8238356 AAAATATATTTAAATATTAGTTTAAAT
1 AGTTTA-AATAAAATA-TA-TTTAAAT
*
8238383 AGAATT-AAT-AAATA-AGTTTAAAT
1 AG-TTTAAATAAAATATA-TTTAAAT
*** * * *
8238406 AAAATATATTTAAATAT-TTAAATATT
1 AGTTTA-AATAAAATATATTTAA-A-T
* * *
8238432 AGTTTAAATAGAAT-TA-ATAATT
1 AGTTTAAATAAAATATATTTAAAT
8238454 AAGTTTAAATAAAATATATTTAAATATT
1 -AGTTTAAATAAAATATATTT-AA-A-T
* *
8238482 AGTTTAAATAGAAT-TA-ATAAAT
1 AGTTTAAATAAAATATATTTAAAT
8238504 AAGTTTAAATAAAATATATTTAAAT
1 -AGTTTAAATAAAATATATTTAAAT
8238529 A-TTTAAAT---AT-TAGTTTAAAT
1 AGTTTAAATAAAATATA-TTTAAAT
*
8238549 AGAATT-AAT-AAATATATTTAAAT
1 AG-TTTAAATAAAATATATTTAAAT
8238572 A
1 A
8238573 AAATGATTTT
Statistics
Matches: 872, Mismatches: 150, Indels: 302
0.66 0.11 0.23
Matches are distributed among these distances:
19 12 0.01
20 60 0.07
21 18 0.02
22 43 0.05
23 306 0.35
24 97 0.11
25 141 0.16
26 52 0.06
27 128 0.15
28 15 0.02
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
AGTTTAAATAAAATATATTTAAAT
Found at i:8237459 original size:108 final size:108
Alignment explanation
Indices: 8237337--8238576 Score: 2455
Period size: 108 Copynumber: 11.5 Consensus size: 108
8237327 ATATTTAAAA
8237337 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237402 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237445 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237510 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237553 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237618 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237661 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237726 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237769 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237834 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237877 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8237942 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8237985 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8238050 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8238093 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8238158 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8238201 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8238266 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8238309 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8238374 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
8238417 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
8238482 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
66 AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
*
8238525 AAATATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATAAAAT
1 AAATATTTAAATATTAGTTTAAATAGAATTAATAATTA-AGTTTAAATAAAAT
8238577 GATTTTTGTT
Statistics
Matches: 1130, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
108 1129 1.00
109 1 0.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (108 bp):
AAATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTTAAATATT
AGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
Found at i:8246438 original size:21 final size:21
Alignment explanation
Indices: 8246414--8246453 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8246404 GCAGAGGTGG
* *
8246414 CAGCAAGGGAAGCAGAGGCTA
1 CAGCAAGAGAAGCAAAGGCTA
*
8246435 CAGCGAGAGAAGCAAAGGC
1 CAGCAAGAGAAGCAAAGGC
8246454 CGTAGCGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.03
Consensus pattern (21 bp):
CAGCAAGAGAAGCAAAGGCTA
Found at i:8247131 original size:42 final size:41
Alignment explanation
Indices: 8247072--8247195 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 41
8247062 GTTTGTGAAA
8247072 TAAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACACTACT-TTAGCGGCGTTTTT-ACC
* * * *
8247115 -AAGCGCCGTTATAGAACATTACTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACACTAC-TTTAGCGGCGTTTT-TACC
**
8247157 TAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACACTA-CTTTAGCGGCGTTTTT
8247196 TCCCATGTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 35 0.51
43 33 0.48
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACACTACTTTAGCGGCGTTTTTACC
Found at i:8247254 original size:67 final size:68
Alignment explanation
Indices: 8247138--8247264 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 68
8247128 GAACATTACT
*
8247138 TTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
1 TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
8247203 TTC
66 TTC
* *
8247206 TTTAGCGGCGTTTT-TTCCTAAGCACCGCTAAAGAACATGAT-TTGTAGCGGTGTTTTTTC
1 TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTT-TAGCGGCGTTTTTTC
8247265 ATAAGCACTG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
66 2 0.04
67 39 0.71
68 14 0.25
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (68 bp):
TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
TTC
Found at i:8247270 original size:42 final size:42
Alignment explanation
Indices: 8247199--8247314 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
8247189 CGTTTTTTCC
* *
8247199 CATGTTCTTTAGCGGCGTTTTTTCCTAAGCACCGCTAAAGAA
1 CATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
* *
8247241 CATGAT-TTGTAGCGGTGTTTTTTCATAAGCACTGCTAAAGAA
1 CATGATCTT-TAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
8247283 CATGATCTTTAGCGGCGTTTTTTTCTATAAGC
1 CATGATCTTTAGCGGCG-TTTTTTC-ATAAGC
8247315 GTCGCAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
41 2 0.03
42 48 0.74
43 9 0.14
44 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (42 bp):
CATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
Found at i:8247307 original size:110 final size:110
Alignment explanation
Indices: 8247097--8247305 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 110
8247087 AACACTACTG
* * * * *
8247097 TTAGCGGCGTTTTTGACCAAGCGCCGTTATAGAACATTACTTTTAGCGGCGTTTTCTTCCTAAGC
1 TTAGCGGCGTTTTTGACCAAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCATAAGC
*
8247162 GCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
66 ACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
* *
8247207 TTAGCGGCGTTTTT-TCCTAAGCACCGCTAAAGAACATGA-TTTGTAGCGGTGTTTT-TTCATAA
1 TTAGCGGCGTTTTTGACC-AAGCACCGCTAAAGAACATGACTTT-TAGCGGCGTTTTCTTCATAA
* *
8247269 GCACTGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
64 GCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTT
8247306 TCTATAAGCG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
109 45 0.52
110 42 0.48
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (110 bp):
TTAGCGGCGTTTTTGACCAAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCATAAGC
ACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
Found at i:8251670 original size:9 final size:9
Alignment explanation
Indices: 8251642--8251682 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
8251632 CTTATCTCTT
8251642 ATTATATT-
1 ATTATATTA
8251650 A-TATATT-
1 ATTATATTA
8251657 A-TATATTA
1 ATTATATTA
8251665 ATTATATTA
1 ATTATATTA
8251674 ATTATATTA
1 ATTATATTA
8251683 TATTTATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 13 0.42
8 2 0.06
9 16 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATATTA
Found at i:8251677 original size:4 final size:5
Alignment explanation
Indices: 8251641--8251686 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
8251631 TCTTATCTCT
8251641 TATTA TATTA TA-TA T-TATA TATTA -ATTA TATTA -ATTA TATTA TATT
1 TATTA TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATT
8251687 TATGCATCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 11 0.31
5 24 0.67
6 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:8252714 original size:10 final size:10
Alignment explanation
Indices: 8252699--8252729 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8252689 TGTTGAATAT
8252699 TATTAAAGCA
1 TATTAAAGCA
8252709 TATTAAAGCA
1 TATTAAAGCA
*
8252719 TATGAAAGCA
1 TATTAAAGCA
8252729 T
1 T
8252730 TTATAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (10 bp):
TATTAAAGCA
Found at i:8255935 original size:21 final size:21
Alignment explanation
Indices: 8255906--8255966 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
8255896 CCTTATGACA
8255906 AGAGTACACAACCGTGTGGCTG
1 AGAG-ACACAACCGTGTGGCTG
**
8255928 AGAGACAC-ACCAGTGTGATTG
1 AGAGACACAACC-GTGTGGCTG
* *
8255949 AGATACACAGCCGTGTGG
1 AGAGACACAACCGTGTGG
8255967 GTAGACCGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.09
21 23 0.72
22 6 0.19
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGACACAACCGTGTGGCTG
Found at i:8262874 original size:137 final size:137
Alignment explanation
Indices: 8262628--8262901 Score: 381
Period size: 137 Copynumber: 2.0 Consensus size: 137
8262618 ATTTCATTAG
* *
8262628 GGTTACCATGTTTCGGGTGCTGATCCTGAACGTCCCACTGGTGGCTGCGTTCTGACATTTGTTGC
1 GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCTGACATTTGTTGC
* *
8262693 GAATACTCAACAGCTTGTGTGAGCGGCATTGTGTAGCTACGTTTCGACCGAC-AGCTTGTGTGAG
66 GAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAG-TTGCGTGAG
8262757 CAGACCCA
130 CAGACCCA
* * * *
8262765 GGTTACCATGTTTCGAGTGCTGGTCCTGGATGTCCTACTGGTGGCTGAGTT-TCGACATTTGTTG
1 GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCT-GACATTTGTTG
* * * * * *
8262829 TGGATACTCGACAGCTTGTGTGAGTAGCATTGTGTAGCTATGTTTCGACTGACAAGTTGCGTGAG
65 CGAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAGTTGCGTGAG
*
8262894 CAGGCCCA
130 CAGACCCA
8262902 TTTATAGCTT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 1 0.01
137 117 0.98
138 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.31
Consensus pattern (137 bp):
GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCTGACATTTGTTGC
GAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAGTTGCGTGAGC
AGACCCA
Found at i:8266343 original size:41 final size:41
Alignment explanation
Indices: 8266298--8266380 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
8266288 GCCATACGGG
*
8266298 CATGTG-CCAAGCCGTGTGGTAGGCCGTGTG-CGACACATGGC
1 CATGTGACCAA-CCGTGTGCTAGGCCGTGTGTC-ACACATGGC
* *
8266339 CATGTGACCGACCTTGTGCTAGGCCGTGTGTCACACATGGC
1 CATGTGACCAACCGTGTGCTAGGCCGTGTGTCACACATGGC
8266380 C
1 C
8266381 TAGGCTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.22
Consensus pattern (41 bp):
CATGTGACCAACCGTGTGCTAGGCCGTGTGTCACACATGGC
Found at i:8271125 original size:19 final size:19
Alignment explanation
Indices: 8271101--8271141 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8271091 CATGAAAATC
8271101 TAATGGTCTAATTACCATT
1 TAATGGTCTAATTACCATT
8271120 TAATGGTCTAATTACCATT
1 TAATGGTCTAATTACCATT
8271139 TAA
1 TAA
8271142 GGACCTCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
TAATGGTCTAATTACCATT
Found at i:8287930 original size:24 final size:23
Alignment explanation
Indices: 8287903--8287952 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8287893 CGATAACAAT
*
8287903 ATGCAGAAAATTCTGCCAATAAAA
1 ATGCAGAAAAGT-TGCCAATAAAA
* *
8287927 ATGCAGACAAGTTGCCATTAAAA
1 ATGCAGAAAAGTTGCCAATAAAA
8287950 ATG
1 ATG
8287953 TGATTAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (23 bp):
ATGCAGAAAAGTTGCCAATAAAA
Found at i:8290742 original size:30 final size:29
Alignment explanation
Indices: 8290645--8290776 Score: 92
Period size: 30 Copynumber: 4.3 Consensus size: 29
8290635 TTGCATACAG
8290645 TATATATATTAGTGGGT-GTTATATATA-A-
1 TATATATA-T-GTGGGTGGTTATATATATAT
* * * *
8290673 TATATAAATGGGGGAGTTGGTAATATACATAT
1 TATATATAT-GTGG-G-TGGTTATATATATAT
*
8290705 ATATATATATGAGTGGG-GTTGTATATATATACT
1 -TATATATAT--GTGGGTGGT-TATATATATA-T
*
8290738 TATATATATGTGGGTGGTTATACATATAT
1 TATATATATGTGGGTGGTTATATATATAT
8290767 TATATATATG
1 TATATATATG
8290777 CATGACTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
27 4 0.05
28 8 0.10
29 12 0.15
30 22 0.27
31 5 0.06
32 17 0.21
33 10 0.12
34 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (29 bp):
TATATATATGTGGGTGGTTATATATATAT
Found at i:8290742 original size:32 final size:29
Alignment explanation
Indices: 8290645--8290776 Score: 99
Period size: 32 Copynumber: 4.3 Consensus size: 29
8290635 TTGCATACAG
* *
8290645 TATATATATTAGTGGG-TGT-TATATATAA
1 TATATATA-TGGTGGGTTGTATATATATAT
* * *
8290673 TATATAAATGGGGGAGTTGGTAATATACATAT
1 TATATATATGGTGG-GTT-GT-ATATATATAT
8290705 ATATATATATGAGTGGGGTTGTATATATATACT
1 -TATATATATG-GT-GGGTTGTATATATATA-T
* *
8290738 TATATATAT-GTGGGTGGTTATACATATAT
1 TATATATATGGTGGGTTG-TATATATATAT
8290767 TATATATATG
1 TATATATATG
8290777 CATGACTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.05
28 8 0.10
29 16 0.19
30 13 0.16
32 24 0.29
33 12 0.14
34 4 0.05
35 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (29 bp):
TATATATATGGTGGGTTGTATATATATAT
Found at i:8293371 original size:13 final size:14
Alignment explanation
Indices: 8293327--8293371 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
8293317 TCACTAAATA
*
8293327 AATATGTATATTTCT
1 AATATG-ATATTTGT
8293342 AATAT-ATATTTGT
1 AATATGATATTTGT
8293355 -ATATGAT-TTTGT
1 AATATGATATTTGT
8293367 AATAT
1 AATAT
8293372 TTATGAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 13 0.48
15 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (14 bp):
AATATGATATTTGT
Found at i:8301805 original size:2 final size:2
Alignment explanation
Indices: 8301798--8301823 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8301788 TCTCAATCGA
8301798 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8301824 TTCAATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8303814 original size:23 final size:23
Alignment explanation
Indices: 8303783--8303833 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
8303773 ACCTACTTTC
* *
8303783 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
8303806 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
8303829 TTACA
1 TTACA
8303834 ATATTTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:8307557 original size:43 final size:41
Alignment explanation
Indices: 8307509--8307634 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 41
8307499 GGTGTGACTT
*
8307509 CGTGTAAGACCATGTCTGGGACATTGGCATTGTTATGAGATTA
1 CGTGTAAGACCAT-TCTGGGACA-TGGCATTGTTATGAGATAA
* * * *
8307552 CGTGTAAGACCAATACTGGGACAGTGGCATCGATATGTGATAA
1 CGTGTAAGACC-ATTCTGGGACA-TGGCATTGTTATGAGATAA
* * * *
8307595 CATGTAAGACCATATTTGGGATATGGCATTG-TATGTGATA
1 CGTGTAAGACCAT-TCTGGGACATGGCATTGTTATGAGATA
8307635 TATGTGTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 9 0.13
42 9 0.13
43 50 0.71
44 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCATTCTGGGACATGGCATTGTTATGAGATAA
Found at i:8314712 original size:22 final size:22
Alignment explanation
Indices: 8314681--8314901 Score: 129
Period size: 23 Copynumber: 9.6 Consensus size: 22
8314671 ATCACCTACT
*
8314681 AAACACAACCAATTTACCCTCG
1 AAACACAACCAATTTACCCTCC
*
8314703 AAGCACAACCAATTTACCCTCC
1 AAACACAACCAATTTACCCTCC
** * ***
8314725 AAACACAATGAAATGTGTTCTCC
1 AAACACAA-CCAATTTACCCTCC
* *
8314748 AAACAAAACCATATATATAACCTCC
1 AAACACAACCA-AT-T-TACCCTCC
* * *
8314773 GAACAAAACCAAGTATACCCTCC
1 AAACACAACCAA-TTTACCCTCC
* *
8314796 AAACATAACTAATTTACCCTCC
1 AAACACAACCAATTTACCCTCC
* * **
8314818 AAACATAACCAAATGTA-CCTGTA
1 AAACACAACC-AATTTACCCT-CC
* * *
8314841 AAACACCACCAAATATATAACCTCT
1 AAACACAACC-AAT-T-TACCCTCC
*
8314866 AAACACAACCAAGTATACCCTCC
1 AAACACAACCAA-TTTACCCTCC
8314889 AAACACAACCAAT
1 AAACACAACCAAT
8314902 ATAGTCTTTA
Statistics
Matches: 152, Mismatches: 36, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
22 50 0.33
23 68 0.45
24 3 0.02
25 28 0.18
26 3 0.02
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.19
Consensus pattern (22 bp):
AAACACAACCAATTTACCCTCC
Found at i:8314796 original size:48 final size:48
Alignment explanation
Indices: 8314744--8314904 Score: 152
Period size: 48 Copynumber: 3.4 Consensus size: 48
8314734 GAAATGTGTT
* *
8314744 CTCCAAACAAAACCATATATATAACCTCCGAACAAAACCAAGTATACC
1 CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
* * * * * *
8314792 CTCCAAACATAA-C-TA-ATTTACCCTCCAAACATAACCAAATGTA-C
1 CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
** * * * *
8314836 CTGTAAAACACCACCAAATATATAACCTCTAAACACAACCAAGTATACC
1 CT-CCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
8314885 CTCCAAACACAACCA-ATATA
1 CTCCAAACACAACCATATATA
8314905 GTCTTTAACA
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
44 3 0.03
45 28 0.32
46 3 0.03
47 7 0.08
48 43 0.49
49 3 0.03
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.19
Consensus pattern (48 bp):
CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
Found at i:8320681 original size:48 final size:47
Alignment explanation
Indices: 8320585--8320793 Score: 191
Period size: 48 Copynumber: 4.5 Consensus size: 47
8320575 TAAAGCTATC
* * * *
8320585 ACCCACCAAACACAACCAAT-T-TACCCTCCGAAC-AAAACAAAATGT
1 ACCCTCCAAACACAACCAATATATAACCTCCGAACTCAAAC-AAATAT
*
8320630 ACCCTCCAAACACAACCATATATATAACCTCCGAACTCAAACAAGTAT
1 ACCCTCCAAACACAACCA-ATATATAACCTCCGAACTCAAACAAATAT
* * *
8320678 ACCCTCTAAACACAACCAAT-T-T-ACCATCCGAACAT-AACCAAATGT
1 ACCCTCCAAACACAACCAATATATAACC-TCCGAAC-TCAAACAAATAT
* * * * *
8320723 A-CCTGCAAAACACCACCATATATATAACCTCTGAACACAACCAAATAT
1 ACCCT-CCAAACACAACCA-ATATATAACCTCCGAACTCAAACAAATAT
8320771 ACCCTCCAAACACAACCAATATA
1 ACCCTCCAAACACAACCAATATA
8320794 CCCTTTAACA
Statistics
Matches: 135, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
44 6 0.04
45 44 0.33
46 6 0.04
47 9 0.07
48 60 0.44
49 10 0.07
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (47 bp):
ACCCTCCAAACACAACCAATATATAACCTCCGAACTCAAACAAATAT
Found at i:8320745 original size:93 final size:93
Alignment explanation
Indices: 8320585--8320795 Score: 298
Period size: 93 Copynumber: 2.3 Consensus size: 93
8320575 TAAAGCTATC
* * *
8320585 ACCCACCAAACACAACCAATTTACCCTCCGAACAAAACAAAATGTACCCTCCAAACACAACCATA
1 ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCTCAAAACACAACCATA
* *
8320650 TATATAACCTCCGAACTCAAACAAGTAT
66 TATATAACCTCCGAACACAAACAAATAT
* * * *
8320678 ACCCTCTAAACACAACCAATTTACCATCCGAACATAACCAAATGTA-CCTGCAAAACACCACCAT
1 ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCT-CAAAACACAACCAT
* *
8320742 ATATATAACCTCTGAACACAACCAAATAT
65 ATATATAACCTCCGAACACAAACAAATAT
*
8320771 ACCCTCCAAACACAACCAATATACC
1 ACCCTCCAAACACAACCAATTTACC
8320796 CTTTAACATA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 3 0.03
93 101 0.97
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.17
Consensus pattern (93 bp):
ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCTCAAAACACAACCATA
TATATAACCTCCGAACACAAACAAATAT
Found at i:8320770 original size:23 final size:23
Alignment explanation
Indices: 8320590--8320793 Score: 121
Period size: 23 Copynumber: 8.8 Consensus size: 23
8320580 CTATCACCCA
* *
8320590 CCAAACACAACC-AATTTACCCT
1 CCAAACACAACCAAATATAACCT
* * * * *
8320612 CCGAACAAAACAAAATGTACCCT
1 CCAAACACAACCAAATATAACCT
8320635 CCAAACACAACCATATATATAACCT
1 CCAAACACAACCA-A-ATATAACCT
* * * * *
8320660 CCGAACTCAAACAAGTATACCCT
1 CCAAACACAACCAAATATAACCT
* *
8320683 CTAAACACAACC-AAT-TTACCAT
1 CCAAACACAACCAAATATAACC-T
* * *
8320705 CCGAACATAACCAAATGT-ACCT
1 CCAAACACAACCAAATATAACCT
* *
8320727 GCAAAACACCACCATATATATAACCT
1 -CCAAACACAACCA-A-ATATAACCT
** *
8320753 CTGAACACAACCAAATATACCCT
1 CCAAACACAACCAAATATAACCT
8320776 CCAAACACAACC-AATATA
1 CCAAACACAACCAAATATA
8320794 CCCTTTAACA
Statistics
Matches: 137, Mismatches: 35, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
21 3 0.02
22 28 0.20
23 67 0.49
24 5 0.04
25 30 0.22
26 4 0.03
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (23 bp):
CCAAACACAACCAAATATAACCT
Found at i:8322241 original size:57 final size:57
Alignment explanation
Indices: 8322143--8322260 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 57
8322133 ACCCTAATTC
* *
8322143 AGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
* * *
8322200 AGATCACCCATCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCCGGAGGGCTATATCA
8322257 AGAT
1 AGAT
8322261 AGGATCACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (57 bp):
AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
Found at i:8325862 original size:18 final size:18
Alignment explanation
Indices: 8325839--8325876 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8325829 TAGTAAAAAG
*
8325839 TTATTTTAAATACTTTCC
1 TTATTTTAAATACTCTCC
8325857 TTATTTTAAATACTCTCC
1 TTATTTTAAATACTCTCC
8325875 TT
1 TT
8325877 TGTTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTTTAAATACTCTCC
Found at i:8333127 original size:40 final size:40
Alignment explanation
Indices: 8333059--8333753 Score: 831
Period size: 40 Copynumber: 17.4 Consensus size: 40
8333049 GTTAATTATA
* * *
8333059 CCTGATTGCACATACGTACCCCTGTTTGTATTTCAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* **
8333099 CCTGATTGCACACACGTGCCCCAATTTGTAC-TCAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACC
* * *
8333139 CCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* ** *
8333179 CCTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
8333219 CCTGATTGCACATACGTGCCCCTATTTGTAC-TAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333258 CCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* ** *
8333298 CCTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333338 CCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333378 CCTGATTGCACATGCGTGCCCCTGTTTGTACTTCTGTTCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333418 CCTGATTTCACATATGTGCCCCTATTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333458 CC-GATTGCACATGCGTGCCCCTATTTGTACTTAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * * *
8333497 CCTAATTGCACATACATGCCGCTTTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * ** *
8333537 CTTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * *
8333577 CCTGATTGCACATATGTGCCCCTATTTGTACTTCAGTGCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
8333617 CCTAATTGCACATGCGTGCCCCTGTTTGTACTTTC-GTTCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTAC-TTCGGTACC
* * *
8333657 CCTGATTTCACATATGTGCCCCTGTTTGTACTTCAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
8333697 CCTGATTGCACATAGGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
*
8333737 CCTGATTGTACATACGT
1 CCTGATTGCACATACGT
8333754 TCCATATTTA
Statistics
Matches: 553, Mismatches: 96, Indels: 12
0.84 0.15 0.02
Matches are distributed among these distances:
39 75 0.14
40 474 0.86
41 4 0.01
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (40 bp):
CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
Found at i:8333495 original size:239 final size:240
Alignment explanation
Indices: 8333081--8333753 Score: 1050
Period size: 239 Copynumber: 2.8 Consensus size: 240
8333071 TACGTACCCC
* * * * *
8333081 TGTTTGTATTTCAGTACCCCTGATTGCACACACGTGCCCCAATTTGTAC-TCAGGTACCCCTAAT
1 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA-GTGCCCCTAAT
* * * * * * * *
8333145 TGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCAAATGTGTGCCCTTGTTTGTAC
65 TGCACATGCGTGCCCCTGTTTGTACTTTCGTTCCCCTGATTTCACATATGTGCCCCTGTTTGTAC
*
8333210 TTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTAC-TAGGTACCCCTAATTGCACATACG
130 TTCGGTACCCCTGATTGCACATGCGTGCCCCTATTTGTACTTAGGTACCCCTAATTGCACATACG
8333274 TGCCGCTGTTTGTACTTTGGTACCCCTGATTGCAAATGTGTGCCCT
195 TGCCGCTGTTTGTACTTTGGTACCCCTGATTGCAAATGTGTGCCCT
*
8333320 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCCCCTGATT
1 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCCCCTAATT
*
8333385 GCACATGCGTGCCCCTGTTTGTAC-TTCTGTTCCCCTGATTTCACATATGTGCCCCTATTTGTAC
66 GCACATGCGTGCCCCTGTTTGTACTTTC-GTTCCCCTGATTTCACATATGTGCCCCTGTTTGTAC
*
8333449 TTCGGTACCCC-GATTGCACATGCGTGCCCCTATTTGTACTTAGGTACCCCTAATTGCACATACA
130 TTCGGTACCCCTGATTGCACATGCGTGCCCCTATTTGTACTTAGGTACCCCTAATTGCACATACG
* *
8333513 TGCCGCTTTTTGTACTTTGGTACCCTTGATTGCAAATGTGTGCCCT
195 TGCCGCTGTTTGTACTTTGGTACCCCTGATTGCAAATGTGTGCCCT
*
8333559 TGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTTGTACTTCAGTGCCCCTAATT
1 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCCCCTAATT
8333624 GCACATGCGTGCCCCTGTTTGTACTTTCGTTCCCCTGATTTCACATATGTGCCCCTGTTTGTACT
66 GCACATGCGTGCCCCTGTTTGTACTTTCGTTCCCCTGATTTCACATATGTGCCCCTGTTTGTACT
* * * * * *
8333689 TCAGTACCCCTGATTGCACATAG-GTGCCCTTGTTTGTACTTCGGTACCCCTGATTGTACATACG
131 TCGGTACCCCTGATTGCACAT-GCGTGCCCCTATTTGTACTTAGGTACCCCTAATTGCACATACG
8333753 T
195 T
8333754 TCCATATTTA
Statistics
Matches: 399, Mismatches: 29, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
238 29 0.07
239 317 0.79
240 52 0.13
241 1 0.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (240 bp):
TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCCCCTAATT
GCACATGCGTGCCCCTGTTTGTACTTTCGTTCCCCTGATTTCACATATGTGCCCCTGTTTGTACT
TCGGTACCCCTGATTGCACATGCGTGCCCCTATTTGTACTTAGGTACCCCTAATTGCACATACGT
GCCGCTGTTTGTACTTTGGTACCCCTGATTGCAAATGTGTGCCCT
Found at i:8333700 original size:20 final size:20
Alignment explanation
Indices: 8333313--8333747 Score: 115
Period size: 20 Copynumber: 21.8 Consensus size: 20
8333303 TTGCAAATGT
* *
8333313 GTGCCCTTGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCA
* * * *
8333333 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
8333352 CGTGCCCCTATTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
* * *
8333373 GTGCCCCTGATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
*
8333393 GTGCCCCTGTTTGTACTTCT
1 GTGCCCCTGTTTGTACTTCA
* * *
8333413 GTTCCCCTGATTT-CACAT-A
1 GTGCCCCTG-TTTGTACTTCA
* *
8333432 TGTGCCCCTATTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
* * * *
8333453 GTACCCC-GATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
*
8333472 GTGCCCCTATTTGTACTT-A
1 GTGCCCCTGTTTGTACTTCA
* ** * *
8333491 GGTACCCCTAATTGCACATACA
1 -GTGCCCCTGTTTGTAC-TTCA
* * **
8333513 -TGCCGCTTTTTGTACTTTG
1 GTGCCCCTGTTTGTACTTCA
* * * * ** **
8333532 GTACCCTTGATTGCAAATGT
1 GTGCCCCTGTTTGTACTTCA
* *
8333552 GTGCCCTTGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCA
* * * *
8333572 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
8333591 TGTGCCCCTATTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
** * *
8333612 GTGCCCCTAATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
8333632 GTGCCCCTGTTTGTACTTTC-
1 GTGCCCCTGTTTGTAC-TTCA
* * *
8333652 GTTCCCCTGATTT-CACAT-A
1 GTGCCCCTG-TTTGTACTTCA
8333671 TGTGCCCCTGTTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
* * * *
8333692 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
* *
8333711 GGTGCCCTTGTTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
* *
8333732 GTACCCCTGATTGTAC
1 GTGCCCCTGTTTGTAC
8333748 ATACGTTCCA
Statistics
Matches: 286, Mismatches: 104, Indels: 50
0.65 0.24 0.11
Matches are distributed among these distances:
19 23 0.08
20 248 0.87
21 14 0.05
22 1 0.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACTTCA
Found at i:8334618 original size:12 final size:12
Alignment explanation
Indices: 8334601--8334627 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8334591 TCAGGCAGTT
8334601 ACATGGCCTAGC
1 ACATGGCCTAGC
8334613 ACATGGCCTAGC
1 ACATGGCCTAGC
8334625 ACA
1 ACA
8334628 CGGGCATGTG
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:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:8339975 original size:40 final size:40
Alignment explanation
Indices: 8339911--8340101 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
8339901 ATTATACCTG
8339911 ATTGCACATACGT-CCCTCTATTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCC-CTATTTGTACTTCGGTACCCCTA
* * * * * * *
8339951 ATTGCACATACCTACCCTTGTTTGTACTTCGATACTCCTG
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* *
8339991 ATTGCACATGCGTGCCCCTATTTGTACTTTGGTACCCCTA
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * *
8340031 ATTGCAAATACGTGCCCCTGTTTGTACATCAGTACCCCTT
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
8340071 ATTGTACATATGTGCCCCTATTTATACTTCG
1 ATTGCACATACGTGCCCCTATTTGTACTTCG
8340102 ATAATTTCAA
Statistics
Matches: 121, Mismatches: 29, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 118 0.98
41 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:8340053 original size:80 final size:80
Alignment explanation
Indices: 8339907--8340101 Score: 250
Period size: 80 Copynumber: 2.4 Consensus size: 80
8339897 GTTAATTATA
* *
8339907 CCTGATTGCACATACGT-CCCTCTATTTGTACTTCGGTACCCCTAATTGCACATACCTACCCTTG
1 CCTGATTGCACATACGTGCCC-CTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTG
* *
8339971 TTTGTACTTC-GATACT
65 TTTGTACATCAG-TACC
* * * *
8339987 CCTGATTGCACATGCGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCAAATACGTGCCCCTGT
1 CCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTGT
8340052 TTGTACATCAGTACC
66 TTGTACATCAGTACC
* * * *
8340067 CCTTATTGTACATATGTGCCCCTATTTATACTTCG
1 CCTGATTGCACATACGTGCCCCTATTTGTACTTCG
8340102 ATAATTTCAA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 95 0.96
81 4 0.04
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (80 bp):
CCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTGT
TTGTACATCAGTACC
Found at i:8340088 original size:20 final size:20
Alignment explanation
Indices: 8340042--8340089 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
8340032 TTGCAAATAC
8340042 GTGCCCCTGTTTGTACATCA
1 GTGCCCCTGTTTGTACATCA
*
8340062 GTACCCCT-TATTGTACAT-A
1 GTGCCCCTGT-TTGTACATCA
8340081 TGTGCCCCT
1 -GTGCCCCT
8340090 ATTTATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACATCA
Found at i:8341179 original size:17 final size:17
Alignment explanation
Indices: 8341154--8341193 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8341144 GTGTGAGTCA
*
8341154 CATGGGTGTGACTCAGC
1 CATGTGTGTGACTCAGC
* *
8341171 CATGTGTGTGTCTCATC
1 CATGTGTGTGACTCAGC
8341188 CATGTG
1 CATGTG
8341194 AGTCACACGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.33
Consensus pattern (17 bp):
CATGTGTGTGACTCAGC
Found at i:8341210 original size:30 final size:30
Alignment explanation
Indices: 8341176--8341269 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
8341166 TCAGCCATGT
8341176 GTGTGTCTCATCCATGTGAGTCACACGGGC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
* * *
8341206 GTGTGTCTCATTCGTGTGAGTCACACAGGC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
* * *
8341236 GTTTGTCTCAACCATGTGAGTCACACGGCC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
8341266 GTGT
1 GTGT
8341270 TACCCCTGCG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (30 bp):
GTGTGTCTCATCCATGTGAGTCACACGGGC
Found at i:8343512 original size:26 final size:25
Alignment explanation
Indices: 8343469--8343522 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 25
8343459 GGACGGTTGG
8343469 ATGCTTTAATTTGTTTTA-ATTAAA
1 ATGCTTTAATTTGTTTTATATTAAA
8343493 ATGCTTTACATGTTGTTTTATTATTAAA
1 ATGCTTTA-AT-TTGTTTTA-TATTAAA
8343521 AT
1 AT
8343523 ATAGATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 8 0.31
25 2 0.08
26 8 0.31
28 8 0.31
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (25 bp):
ATGCTTTAATTTGTTTTATATTAAA
Found at i:8343587 original size:35 final size:35
Alignment explanation
Indices: 8343541--8343612 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
8343531 AAGGTTAAAA
* *
8343541 ATATAAGAAAACATAAAGCTTTCTTCTTCAAATTT
1 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
8343576 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
1 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
8343611 AT
1 AT
8343613 TTCTTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (35 bp):
ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
Found at i:8344642 original size:36 final size:36
Alignment explanation
Indices: 8344597--8344669 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
8344587 GTGTATTCTA
* * * * *
8344597 GAGGGATTGGCTCGTGTGAGCATTTGGTGTGTCTTG
1 GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
*
8344633 GAGGAATTGGCTCATATGAGCATCTGATGTGTTTTG
1 GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
8344669 G
1 G
8344670 TTGGACTGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.36
Consensus pattern (36 bp):
GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
Found at i:8345491 original size:20 final size:20
Alignment explanation
Indices: 8345468--8345508 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8345458 AAGTAGATAA
*
8345468 AATGGAAAGTAAGTAAATGG
1 AATGGAAAGAAAGTAAATGG
*
8345488 AATGGTAAGAAAGTAAATGG
1 AATGGAAAGAAAGTAAATGG
8345508 A
1 A
8345509 GTGGTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (20 bp):
AATGGAAAGAAAGTAAATGG
Found at i:8359098 original size:45 final size:45
Alignment explanation
Indices: 8359047--8359137 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
8359037 ATCCGATGAG
8359047 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
1 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
8359092 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
1 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
8359137 T
1 T
8359138 TCTTAAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (45 bp):
TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
Found at i:8359819 original size:28 final size:29
Alignment explanation
Indices: 8359763--8359819 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
8359753 GAATCCTGCC
* *
8359763 ATTGATGAACCTTGTGATTTTAGATGTTA
1 ATTGATGAACCTTGAGATATTAGATGTTA
* *
8359792 ATTGATGAA-TTTGAGATATTAGTTGTTA
1 ATTGATGAACCTTGAGATATTAGATGTTA
8359820 TTTATAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (29 bp):
ATTGATGAACCTTGAGATATTAGATGTTA
Found at i:8383779 original size:33 final size:27
Alignment explanation
Indices: 8383763--8383815 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
8383753 CACCAATGAG
8383763 TCGGGGAATCAGCACTTAGCAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
*
8383790 TGGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
8383816 CTTTATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (27 bp):
TCGGGGAATCAGCACTTAGCAACCCCT
Found at i:8390580 original size:27 final size:27
Alignment explanation
Indices: 8390542--8390622 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
8390532 ACAATGAGTC
8390542 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
8390569 GGGGAATTAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
* **
8390596 TGATAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAA-CCCCTT
8390623 TATATTCAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 42 0.88
28 6 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:8395161 original size:17 final size:18
Alignment explanation
Indices: 8395128--8395162 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8395118 GCCTCGCATT
*
8395128 CTAGAATAATAAAATTTG
1 CTAGAAAAATAAAATTTG
8395146 CTAGAAAAAT-AAATTTG
1 CTAGAAAAATAAAATTTG
8395163 TCAACTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
CTAGAAAAATAAAATTTG
Found at i:8397375 original size:16 final size:16
Alignment explanation
Indices: 8397325--8397382 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
8397315 CCTCGTCCCC
*
8397325 AATTCCTC-TCTCCCA
1 AATTCCTCATCTCTCA
*
8397340 AAATCCTCATCTCT--
1 AATTCCTCATCTCTCA
8397354 AATTCCTC-TCTCTGCA
1 AATTCCTCATCTCT-CA
8397370 AATTCCTCATCTC
1 AATTCCTCATCTC
8397383 CTTGCGTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.14
14 7 0.20
15 7 0.20
16 12 0.34
17 4 0.11
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.36
Consensus pattern (16 bp):
AATTCCTCATCTCTCA
Found at i:8397379 original size:30 final size:29
Alignment explanation
Indices: 8397301--8397382 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
8397291 CTCCACTTCT
* * * *
8397301 TCTCTCCTTAAAATCCTCGTCCCCAATTCC
1 TCTCTCC-CAAAATCCTCATCTCTAATTCC
8397331 TCTCTCCCAAAATCCTCATCTCTAATTCC
1 TCTCTCCCAAAATCCTCATCTCTAATTCC
* *
8397360 TCTCTCTGCAAATTCCTCATCTC
1 TCTCTC-CCAAAATCCTCATCTC
8397383 CTTGCGTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.21, C:0.41, G:0.02, T:0.35
Consensus pattern (29 bp):
TCTCTCCCAAAATCCTCATCTCTAATTCC
Found at i:8404707 original size:50 final size:50
Alignment explanation
Indices: 8404649--8404749 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
8404639 AAAACATAAA
** *
8404649 CTCATTCTTTTGATTATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
8404699 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
8404749 C
1 C
8404750 ACTTCTCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.44
Consensus pattern (50 bp):
CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
Found at i:8406763 original size:23 final size:24
Alignment explanation
Indices: 8406718--8406763 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8406708 ACCAACAAAG
**
8406718 AAATTAATTTTACTTTTGTCTTTT
1 AAATTAATTTTACTTTTCCCTTTT
*
8406742 AAATTATTTTTA-TTTTCCCTTT
1 AAATTAATTTTACTTTTCCCTTT
8406764 CAAAACATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (24 bp):
AAATTAATTTTACTTTTCCCTTTT
Found at i:8420269 original size:23 final size:23
Alignment explanation
Indices: 8420239--8420285 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
8420229 ATAGATGGCC
*
8420239 GAGATAGACTAATCTAAAAGCAT
1 GAGATAGACCAATCTAAAAGCAT
*
8420262 GAGATAGACCAATCTAAGAGCAT
1 GAGATAGACCAATCTAAAAGCAT
8420285 G
1 G
8420286 TTGTGCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (23 bp):
GAGATAGACCAATCTAAAAGCAT
Found at i:8432352 original size:25 final size:25
Alignment explanation
Indices: 8432323--8432372 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8432313 ATTTTTCTCC
*
8432323 TAAAATTT-AATTTAATTTAATTATT
1 TAAAATTTCAATTT-ATTGAATTATT
8432348 TAAAATTTCAATTTATTGAATTATT
1 TAAAATTTCAATTTATTGAATTATT
8432373 AATATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TAAAATTTCAATTTATTGAATTATT
Found at i:8433467 original size:16 final size:16
Alignment explanation
Indices: 8433446--8433483 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
8433436 CAAATATTTA
8433446 CATATCATCTTTTGGT
1 CATATCATCTTTTGGT
8433462 CATATCATCTTTTGGT
1 CATATCATCTTTTGGT
8433478 CATATC
1 CATATC
8433484 TTAAGAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (16 bp):
CATATCATCTTTTGGT
Found at i:8434110 original size:50 final size:50
Alignment explanation
Indices: 8434043--8434321 Score: 285
Period size: 50 Copynumber: 5.5 Consensus size: 50
8434033 ACTACCAATA
* * ** * * *
8434043 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
* ** * *
8434093 CCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
*
8434143 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
* * * * *
8434193 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCTACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
** *
8434243 CCATGTCCCAGACA---TCTTACATGAGACCTCTCATAATCTCAATTATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCT--A-GGTGCCAACG
*
8434296 CCATGTCCCAGAAATGGTCTTACATG
1 CCATGTCCCAGACATGGTCTTACATG
8434322 GGATCTCATC
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
47 17 0.09
50 145 0.76
53 19 0.10
56 9 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
Found at i:8434160 original size:100 final size:100
Alignment explanation
Indices: 8434043--8434277 Score: 314
Period size: 100 Copynumber: 2.4 Consensus size: 100
8434033 ACTACCAATA
* * ** * *
8434043 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAACAT
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
* *
8434108 GGTCTTACGGGGGACCTCTCATCTTGGTGCCAACG
66 GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
* * * *
8434143 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACAT
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
* * *
8434208 GGTCTTACATGGGACCTCTCGTCTCGGTGCCTACG
66 GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
8434243 CCATGTCCCAGACA---TCTTACATGAGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATA
8434278 ATCTCAATTA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
97 20 0.17
100 99 0.83
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (100 bp):
CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
Found at i:8436063 original size:12 final size:11
Alignment explanation
Indices: 8436037--8436063 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8436027 TTACCGTTTG
8436037 TTTTTATTCAA
1 TTTTTATTCAA
8436048 TTTTTATTCAA
1 TTTTTATTCAA
8436059 TTTTT
1 TTTTT
8436064 GATGATTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATTCAA
Found at i:8438630 original size:19 final size:20
Alignment explanation
Indices: 8438588--8438630 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8438578 TCATGCTTTC
*
8438588 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
8438608 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
8438626 TATTC
1 TATTC
8438631 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:8438875 original size:51 final size:50
Alignment explanation
Indices: 8438758--8438954 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 50
8438748 ATCAATGATG
* * * * * *
8438758 TCCAGTTCACATTGTAGCCTACACATAATACTACACATGTGACCATTACCA-
1 TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AACAT
* *
8438809 TCC-GATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-T
1 TCCAG-TACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT
* * * * * *
8438859 ATCCAGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCCATCAT
1 -TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACAT
* * *
8438910 TCCGGTACACGTAGTAGCCTGCACAAAGTACTACACACGTGACCA
1 TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
8438955 TCGCTTTCAG
Statistics
Matches: 116, Mismatches: 24, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
50 43 0.37
51 70 0.60
52 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.22
Consensus pattern (50 bp):
TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACAT
Found at i:8443636 original size:109 final size:109
Alignment explanation
Indices: 8443445--8443662 Score: 409
Period size: 109 Copynumber: 2.0 Consensus size: 109
8443435 GCATTTAGTT
8443445 TAATATATCTTAATCACCACTTCTCAACTATATTGTGTTTTTATTTACCAAATTGTTACTATAAT
1 TAATATATCTTAATCACCACTTCTCAACTATATTGTGTTTTTATTTACCAAATTGTTACTATAAT
*
8443510 TTTACAAATTAAGTGACTTAGCACAAATACAATCCCTGTGGAGA
66 TCTACAAATTAAGTGACTTAGCACAAATACAATCCCTGTGGAGA
* *
8443554 TAATATATTTTAATCACCACTTCTCAGCTATATTGTGTTTTTATTTACCAAATTGTTACTATAAT
1 TAATATATCTTAATCACCACTTCTCAACTATATTGTGTTTTTATTTACCAAATTGTTACTATAAT
8443619 TCTACAAATTAAGTGACTTAGCACAAATACAATCCCTGTGGAGA
66 TCTACAAATTAAGTGACTTAGCACAAATACAATCCCTGTGGAGA
8443663 CGATAACTCG
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (109 bp):
TAATATATCTTAATCACCACTTCTCAACTATATTGTGTTTTTATTTACCAAATTGTTACTATAAT
TCTACAAATTAAGTGACTTAGCACAAATACAATCCCTGTGGAGA
Found at i:8446904 original size:54 final size:54
Alignment explanation
Indices: 8446824--8446929 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
8446814 ATTTGTCAAG
8446824 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
1 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
8446878 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTC
1 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTC
8446930 CTTGATGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.24
Consensus pattern (54 bp):
AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
Found at i:8448418 original size:20 final size:22
Alignment explanation
Indices: 8448380--8448419 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8448370 ATACAATATT
8448380 AAAAATGCTAACTAAAATGTCC
1 AAAAATGCTAACTAAAATGTCC
8448402 AAAAATGC-AAC-AAAATGT
1 AAAAATGCTAACTAAAATGT
8448420 ACTTAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (22 bp):
AAAAATGCTAACTAAAATGTCC
Found at i:8456760 original size:265 final size:266
Alignment explanation
Indices: 8456276--8456806 Score: 1055
Period size: 265 Copynumber: 2.0 Consensus size: 266
8456266 ATCATTCAAC
8456276 CAAGTCTTATAGTTTTCATCATTTGTTCATCTCATTTAATTCACAATTCTCATGTTCACAATTCA
1 CAAGTCTTATAGTTTTCATCATTTGTTCATCTCATTTAATTCACAATTCTCATGTTCACAATTCA
8456341 AGCCAATTTCTCAATCCAGTGTACATTTCAGTACCACAATAATTCTTTTAATTCAAATAATTTCA
66 AGCCAATTTCTCAATCCAGTGTACATTTCAGTACCACAATAATTCTTTTAATTCAAATAATTTCA
8456406 TTAGCAATTTCCATATAATTCACGTACAATTCAATATTAGTAAGTTCAATACTAATACGTATTTA
131 TTAGCAATTTCCATATAATTCACGTACAATTCAATATTAGTAAGTTCAATACTAATACGTATTTA
8456471 CCATTTTACTCAACGTTTATCGATTATACCATTCATTAAAATATTTATGGACAGCCTTGTAATGT
196 CCATTTTACTCAACGTTTATCGATTATACCATTCATTAAAATATTTATGGACAGCCTTGTAATGT
8456536 AAAAGG
261 AAAAGG
8456542 CAAGTCTTAT-GTTTTCATCATTTGTTCATCTCATTTAATTCACAATTCTCATGTTCACAATTCA
1 CAAGTCTTATAGTTTTCATCATTTGTTCATCTCATTTAATTCACAATTCTCATGTTCACAATTCA
8456606 AGCCAATTTCTCAATCCAGTGTACATTTCAGTACCACAATAATTCTTTTAATTCAAATAATTTCA
66 AGCCAATTTCTCAATCCAGTGTACATTTCAGTACCACAATAATTCTTTTAATTCAAATAATTTCA
8456671 TTAGCAATTTCCATATAATTCACGTACAATTCAATATTAGTAAGTTCAATACTAATACGTATTTA
131 TTAGCAATTTCCATATAATTCACGTACAATTCAATATTAGTAAGTTCAATACTAATACGTATTTA
8456736 CCATTTTACTCAACGTTTATCGATTATACCATTCATTAAAATATTTATGGACAGCCTTGTAATGT
196 CCATTTTACTCAACGTTTATCGATTATACCATTCATTAAAATATTTATGGACAGCCTTGTAATGT
8456801 AAAAGG
261 AAAAGG
8456807 AATGTGCAGA
Statistics
Matches: 265, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
265 255 0.96
266 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (266 bp):
CAAGTCTTATAGTTTTCATCATTTGTTCATCTCATTTAATTCACAATTCTCATGTTCACAATTCA
AGCCAATTTCTCAATCCAGTGTACATTTCAGTACCACAATAATTCTTTTAATTCAAATAATTTCA
TTAGCAATTTCCATATAATTCACGTACAATTCAATATTAGTAAGTTCAATACTAATACGTATTTA
CCATTTTACTCAACGTTTATCGATTATACCATTCATTAAAATATTTATGGACAGCCTTGTAATGT
AAAAGG
Found at i:8457291 original size:21 final size:22
Alignment explanation
Indices: 8457265--8457310 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
8457255 TTAAAAACAA
8457265 ATTAAACACTTAAA-TAAATTT
1 ATTAAACACTTAAACTAAATTT
* *
8457286 ATTAAATACTTAAACTAATTTT
1 ATTAAACACTTAAACTAAATTT
8457308 ATT
1 ATT
8457311 CCAGCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAAACACTTAAACTAAATTT
Found at i:8457527 original size:23 final size:22
Alignment explanation
Indices: 8457484--8457527 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
8457474 ATCAAAGTCA
8457484 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
8457507 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
8457528 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:8457676 original size:45 final size:45
Alignment explanation
Indices: 8457603--8457784 Score: 287
Period size: 45 Copynumber: 4.1 Consensus size: 45
8457593 AATAGATACA
* * * *
8457603 CGGTGG-ATCAGCACACAGC-ACCACCTTTATAGTCAATGATACT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
* *
8457646 CAGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
8457691 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
*
8457736 CGGTGGAATCAGCGCATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
8457781 CGGT
1 CGGT
8457785 ACACGTAGTA
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
43 5 0.04
44 11 0.09
45 112 0.88
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
Found at i:8464264 original size:56 final size:56
Alignment explanation
Indices: 8464179--8464285 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 56
8464169 TTAATTAATT
* *
8464179 AATTAAATTGGATAAATCTAATTCTTTGGTCCTCTAACTTGTTGACTTATTCTGGA
1 AATTAAATTGGATAAATCTAATTCTTTGGTCATCTAAATTGTTGACTTATTCTGGA
* *
8464235 AATTAAATTGGATAAATTTAATTCTTTGGTCATCTAAATTGTTGATTTATT
1 AATTAAATTGGATAAATCTAATTCTTTGGTCATCTAAATTGTTGACTTATT
8464286 TTGGGCAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (56 bp):
AATTAAATTGGATAAATCTAATTCTTTGGTCATCTAAATTGTTGACTTATTCTGGA
Found at i:8476973 original size:15 final size:16
Alignment explanation
Indices: 8476939--8476980 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
8476929 AGCAACCGTT
8476939 TCTTTTCTTCTCTTTC
1 TCTTTTCTTCTCTTTC
8476955 TCTTTTCTT-T-TTCTC
1 TCTTTTCTTCTCTT-TC
8476970 TCTTTTCTTCT
1 TCTTTTCTTCT
8476981 TAAATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTCTTCTCTTTC
Found at i:8476976 original size:22 final size:21
Alignment explanation
Indices: 8476937--8476978 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8476927 CCAGCAACCG
8476937 TTTCTTTTCTTCTCTTTCTCT
1 TTTCTTTTCTTCTCTTTCTCT
8476958 TTTCTTTT-TCTCTCTTT-TCT
1 TTTCTTTTCT-TCTCTTTCTCT
8476978 T
1 T
8476979 CTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTTTTCTTCTCTTTCTCT
Found at i:8485431 original size:27 final size:27
Alignment explanation
Indices: 8485403--8485743 Score: 418
Period size: 27 Copynumber: 12.6 Consensus size: 27
8485393 TACCCTATGG
*
8485403 GGGTATTTCGATAATTTTACCCATCGG
1 GGGTATTTCGATAATTTTACCCATCGA
* *
8485430 GGGTATTTCGATAATTTTACCCTTCGG
1 GGGTATTTCGATAATTTTACCCATCGA
*
8485457 GGGCATTTC-AGTAATTTTACCCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* * **
8485484 AGGTATTTCGGTAATTTTACCCATTAA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
8485511 GGGTATTTCGACAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCCATCGA
*
8485538 AGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
8485565 GGGTATTTC-AGTAATTTTACCCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
8485592 GGGTATTTCAATAGTTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* * *
8485619 GGGTATTTTGGTAACTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* * *
8485646 GGGTATTT-TAGTAATTTGACCCATTGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
8485673 GGGCATTTCAATAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
8485700 GGGTATTTCGGTAATTTTACCTATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
*
8485727 GGGCATTTCGATAATTT
1 GGGTATTTCGATAATTT
8485744 AGGCTCATTA
Statistics
Matches: 270, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 266 0.99
28 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:8490361 original size:31 final size:31
Alignment explanation
Indices: 8490326--8490384 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8490316 CAACCAAGCC
8490326 ACTTAAATAAAAACTTTCAAATAATTCAGTG
1 ACTTAAATAAAAACTTTCAAATAATTCAGTG
* * *
8490357 ACTTAAATGAAAACTTTCGAATAGTTCA
1 ACTTAAATAAAAACTTTCAAATAATTCA
8490385 ATGGTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAGTG
Found at i:8492454 original size:5 final size:6
Alignment explanation
Indices: 8492440--8492464 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8492430 TTCACCGAAA
8492440 TTTTGT TTTTGT TTTTGT TTTTGT T
1 TTTTGT TTTTGT TTTTGT TTTTGT T
8492465 AAAACAAATA
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:8492523 original size:9 final size:9
Alignment explanation
Indices: 8492509--8492563 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 9
8492499 TAATGTTCAT
8492509 TTAACCAAA
1 TTAACCAAA
8492518 TTAACCAAA
1 TTAACCAAA
8492527 TT-A--AAA
1 TTAACCAAA
8492533 TTAACCGAAA
1 TTAACC-AAA
8492543 TTAACCAAAA
1 TTAACC-AAA
*
8492553 TTAACCGAA
1 TTAACCAAA
8492562 TT
1 TT
8492564 GGTAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 5 0.12
7 1 0.03
8 1 0.03
9 15 0.38
10 18 0.45
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (9 bp):
TTAACCAAA
Found at i:8492535 original size:15 final size:16
Alignment explanation
Indices: 8492515--8492546 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8492505 TCATTTAACC
8492515 AAATTAACC-AAATTA
1 AAATTAACCGAAATTA
8492530 AAATTAACCGAAATTA
1 AAATTAACCGAAATTA
8492546 A
1 A
8492547 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATTAACCGAAATTA
Found at i:8492545 original size:25 final size:25
Alignment explanation
Indices: 8492509--8492556 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8492499 TAATGTTCAT
8492509 TTAACCAAATTAACC-AAATTAAAA
1 TTAACCAAATTAACCAAAATTAAAA
8492533 TTAACCGAAATTAACCAAAATTAA
1 TTAACC-AAATTAACCAAAATTAA
8492557 CCGAATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.25
Consensus pattern (25 bp):
TTAACCAAATTAACCAAAATTAAAA
Found at i:8505564 original size:28 final size:28
Alignment explanation
Indices: 8505507--8505564 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
8505497 GTCGAGTCCT
* *
8505507 AAGGTTTCAATCTCCTTTTGATGAATTG
1 AAGGTTTCAATCTCCTTTTAATGAACTG
* *
8505535 AAGGTTTCAGTCT-CTTTTCAATGAGCTG
1 AAGGTTTCAATCTCCTTTT-AATGAACTG
8505563 AA
1 AA
8505565 TCAATCCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (28 bp):
AAGGTTTCAATCTCCTTTTAATGAACTG
Found at i:8514595 original size:25 final size:24
Alignment explanation
Indices: 8514549--8514595 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
8514539 TATACATAGA
*
8514549 TTTTTTTTTATTTTCCATTTGAGT
1 TTTTTTTTTATTTTCCAGTTGAGT
8514573 TTTTTGTTTTATTTAT-CAGTTGA
1 TTTTT-TTTTATTT-TCCAGTTGA
8514596 AAACCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 14 0.70
26 1 0.05
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (24 bp):
TTTTTTTTTATTTTCCAGTTGAGT
Found at i:8527150 original size:49 final size:49
Alignment explanation
Indices: 8527076--8527258 Score: 165
Period size: 51 Copynumber: 3.7 Consensus size: 49
8527066 GATAACAATA
*
8527076 TGCCAAAGCCATATCCCAGACATGGTTTTACATGGGATGTT-TCATGTAC
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATGTAC
* * *
8527125 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-C
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATGTAC
* * * ** ** *
8527173 GATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGACCTCTCATCT-C
1 --TGCCAAAGCCATATCCCAGACATGGTCTTAC-ATGGGAGTTCTCATGTAC
* *
8527224 GGTGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 --TGCCAAAGCCATATCCCAGACATGGTCTTACAT
8527259 AGGACCTCTC
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.04
49 39 0.35
50 27 0.24
51 42 0.38
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATGTAC
Found at i:8527241 original size:51 final size:50
Alignment explanation
Indices: 8527076--8527373 Score: 294
Period size: 50 Copynumber: 5.8 Consensus size: 50
8527066 GATAACAATA
* * * ** * *
8527076 TGCCAAAGCCATATCCCAGACATGGTTTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * *
8527125 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
8527175 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* * *
8527226 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
8527276 TGCCAATGTCATGTCCCAAACATGGTCGTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
*
8527331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8527374 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 40 0.19
50 80 0.39
51 42 0.20
53 4 0.02
55 2 0.01
56 38 0.18
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:8527251 original size:101 final size:103
Alignment explanation
Indices: 8527125--8527373 Score: 297
Period size: 101 Copynumber: 2.4 Consensus size: 103
8527115 TTTCATGTAC
* * ** *
8527125 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
* * *
8527190 CCAGACATGGTCTTACGGGGGGACCTCTC-ATCTC-GG-
66 CCAAACATGGTCGTAC-AGGGGACCTCTCAATCTCAGGA
* * * * *
8527226 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGGTGCCAATGTCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
*
8527291 CCAAACATGGTCGTACATGGGACCTCTCATGATCTCAAGGA
66 CCAAACATGGTCGTACAGGGGACCTCTCA--ATCTC-AGGA
* *
8527332 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8527374 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
100 10 0.08
101 69 0.55
103 5 0.04
105 2 0.02
106 39 0.31
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (103 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
CCAAACATGGTCGTACAGGGGACCTCTCAATCTCAGGA
Found at i:8530722 original size:24 final size:23
Alignment explanation
Indices: 8530694--8530739 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8530684 ATATTATTAC
8530694 TTTATATATTACCTATT-TTTATTT
1 TTTATATA-TA-CTATTATTTATTT
8530718 TTTATATATACTATTATTTATT
1 TTTATATATACTATTATTTATT
8530740 CCAAACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATATATACTATTATTTATTT
Found at i:8537271 original size:44 final size:44
Alignment explanation
Indices: 8537211--8537657 Score: 321
Period size: 44 Copynumber: 10.1 Consensus size: 44
8537201 CCACAAATCC
*
8537211 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * * * ** *
8537255 TATCTGCCTAAAGTTGCAGTGGAGCAGACTGAAGAAAGTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* * * * * *
8537300 TAT-TCCCTTGAAGTTGCAGTTGAGTAGACTGAAGATGGA-AAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAAG-T-TACAAGTCT
* * * *
8537345 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* *
8537389 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * * * * **
8537433 TATCTCCCTGAAGTTGTAGTAGAGTAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* * * * *
8537478 TATCCCCCTGATGTTGCAGTGG-GACAGACTAAAGATGATGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAG-TTA-CAAGTCT
* * * * * ** * *
8537523 TATCTTCCTAAAGTTGCAATGAAGTAGATTAAAGCCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* * * * *
8537567 TATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
** *
8537611 TATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
8537655 TAT
1 TAT
8537658 TGAAGAAAAC
Statistics
Matches: 315, Mismatches: 74, Indels: 28
0.76 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 178 0.57
45 124 0.39
46 8 0.03
47 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
Found at i:8537524 original size:178 final size:178
Alignment explanation
Indices: 8537206--8537635 Score: 542
Period size: 178 Copynumber: 2.4 Consensus size: 178
8537196 TGAAACCACA
* * *
8537206 AATCCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTGCCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * * * * *
8537271 CAGTGGAGCAGACTGAAGAAAGTAAGTCTTATTCCCTTGAAGTTGCAGTTGAGTAGACTGAAGAT
66 CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
* * *
8537336 GGAAAATCTTATCTCCCTGAAGTTGCAGT-AGAGCAGATTAAAGATAAT
131 GGAAAATCTTATCTCCCTAAAGTTGCAATGA-AGCAGATTAAAGACAAT
* *
8537384 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * *
8537449 TAGTAGAGTAGACTGAAGAAAGCAAGTCTTATCCCCCTGATGTTGCAGTGG-GACAGACTAAAGA
66 CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAG-CAGACTAAAGA
* * * *
8537513 T-GATGAATCTTATCTTCCTAAAGTTGCAATGAAGTAGATTAAAGCCAAT
130 TGGA-AAATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAGACAAT
* * * * * **
8537562 AATCCTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAATCCTATCTCTTTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
*
8537627 CAGTGGAGC
66 CAGTAGAGC
8537636 GGATTAAAGT
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
177 3 0.01
178 211 0.98
179 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (178 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
GGAAAATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAGACAAT
Found at i:8537917 original size:42 final size:44
Alignment explanation
Indices: 8537806--8537924 Score: 143
Period size: 44 Copynumber: 2.8 Consensus size: 44
8537796 GATCATGGCA
*
8537806 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * * **
8537850 AATCCTATCTACCTGAAGTTGTAGTGGAGCGGATTAAAG-TGA-
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * *
8537892 AGTCTTATCTCCCTAAAGTTATAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
8537925 CTGAAGATAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 27 0.43
43 1 0.02
44 35 0.56
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
Found at i:8538092 original size:225 final size:221
Alignment explanation
Indices: 8537668--8538097 Score: 540
Period size: 225 Copynumber: 1.9 Consensus size: 221
8537658 TGAAGAAAAC
* * * ** *
8537668 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGAAGACTAAAGATAGTGAATCTCATTTTCCTGAAGC
1 AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAGC
* * * *
8537733 TGCAATGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGA
66 TGCAATGGAACAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
*
8537798 TCATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTACC
131 TCACGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--CAATAATCCTATCTACC
8537863 TGAAGTTGTAGTGGAGCGGATTAAAGTG
194 TGAAGTTGTAGTGGAGCGGATTAAAGTG
* * * * *
8537891 AAGTCTTATCTCCCTAAAGTTATAGTGGAGCAGACTGAAGATAGCAAATCTCGTTTCCCTGAAGA
1 AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAG-
* * * * *
8537956 TTGCAGTGTAATAGATCAAAGCTATAAATCATAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
65 CTGCAATGGAACAGATCAAAGCTATAAATCA-AAAATCTTATCTCTCTAAAGTTGCAGTAGAGCA
* * * *
8538021 GATCACGTCAAA-CTTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAA-ATATCAATCTTATC
129 GATCACGGCAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAACA-AT-AATCCTATC
*
8538084 TCCCTGAAGTTGTA
190 TACCTGAAGTTGTA
8538098 ATGAATCAGA
Statistics
Matches: 175, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
223 54 0.31
224 29 0.17
225 89 0.51
226 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (221 bp):
AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAGC
TGCAATGGAACAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
TCACGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACAATAATCCTATCTACCTG
AAGTTGTAGTGGAGCGGATTAAAGTG
Found at i:8538112 original size:44 final size:44
Alignment explanation
Indices: 8538035--8538138 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
8538025 ACGTCAAACT
* * * *
8538035 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAAATA-TCAATC
1 TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACT-AATC
* * **
8538079 TTATCTCCCTGAAGTTGTAATGAATCAGATTGAAGCTACTAATC
1 TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACTAATC
*
8538123 CTATCTCCCTGAAGTT
1 TTATCTCCCTGAAGTT
8538139 TCAGTGGAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 49 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACTAATC
Found at i:8538380 original size:89 final size:89
Alignment explanation
Indices: 8538236--8538507 Score: 343
Period size: 89 Copynumber: 3.1 Consensus size: 89
8538226 AAAGTTGCAT
* * *
8538236 CGGAGCAGACTAAAGATAACATATATTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGACACC
1 CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
8538301 AGCCTTGCCTCCCTGGGTTTGTAG
66 AGCCTTGCCTCCCTGGGTTTGTAG
* * *
8538325 CGGAGCAGACTAAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACC
1 CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
*
8538390 AGCCTTGCCTCCCTGAGTTTGTAG
66 AGCCTTGCCTCCCTGGGTTTGTAG
* * * * * * *
8538414 CGGAGTC-GACCGAAA-ATAGCAGATCTTGTCTTCTTGTACTAGCAGTGAAGCAGATCAAAAACA
1 CGGAG-CAGA-CTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACA
* *
8538477 CTAGCCTTGCCTCTCTGAGG-TTGTAG
64 CCAGCCTTGCCTCCCTG-GGTTTGTAG
*
8538503 TGGAG
1 CGGAG
8538508 TAGGTTGAAG
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
89 154 0.96
90 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (89 bp):
CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
AGCCTTGCCTCCCTGGGTTTGTAG
Found at i:8538655 original size:132 final size:131
Alignment explanation
Indices: 8538501--8538912 Score: 529
Period size: 131 Copynumber: 3.1 Consensus size: 131
8538491 CTGAGGTTGT
*
8538501 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
* * *
8538566 CAAATCTTTTCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCA
66 CGAATCTTATCTTCCCGAGGTAGTAGG-AAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCA
8538631 GC
130 GC
* * * * *
8538633 AGTGGAGTAGGTTGAAGATTGTAGGTCCTGTCTCCCTAAGTAGTAGTGAAGTAGATTGAAGACGA
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
* * * * *
8538698 TGAATCTTATCTTCCCGAGATAGTAGGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTGAGCAG
66 CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCAG
*
8538763 T
131 C
* **
8538764 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAACAGATTAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
** * ** * *
8538829 CGAGGCGTATCTTCTTGAGGTAGTAGGGAAGCAAATTTAAGCCACCAG-CCTTATCTCCCTGAAG
66 CGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAGTCC-TATCT-CCTTAAG
**
8538893 TTGC
128 CAGC
*
8538897 AGTGGAGCAGGTTGAA
1 AGTGGAGTAGGTTGAA
8538913 ATTACCAATT
Statistics
Matches: 238, Mismatches: 39, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 112 0.47
132 106 0.45
133 20 0.08
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (131 bp):
AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCAG
C
Found at i:8538793 original size:131 final size:131
Alignment explanation
Indices: 8538499--8538890 Score: 527
Period size: 132 Copynumber: 3.0 Consensus size: 131
8538489 CTCTGAGGTT
* *
8538499 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAC
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
* * * * *
8538564 GGCAAATCTTTTCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGG-AAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
8538629 CA
130 CA
* * * *
8538631 GCAGTGGAGTAGGTTGAAGATTGTAGGTCCTGTCTCCCTAAGTAGTAGTGAAGTAGATTGAAGAC
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
** * *
8538696 GATGAATCTTATCTTCCCGAGATAGTAGGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTGAGC
66 GGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGC
8538761 A
131 A
* *
8538762 GTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAA-CAGATTAAAGA
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGT-GAAGTAGATTAAAGA
** * ** *
8538826 CGGCGAGGCGTATCTTCTTGAGGTAGTAGGGAAGCAAATTTAAGCCACCAG-CCTTATCTCCCTG
65 CGGCGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCTG
8538890 A
128 A
8538891 AGTTGCAGTG
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
131 110 0.49
132 116 0.51
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (131 bp):
GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
GGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGC
A
Found at i:8539349 original size:17 final size:17
Alignment explanation
Indices: 8539327--8539378 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
8539317 ATGGAAACAT
8539327 AATCTT-GAAGGATATGC
1 AATCTTAGAA-GATATGC
8539344 AATCTTAGATATGATATGC
1 AATCTTAGA-A-GATATGC
*
8539363 AATATTAGAAGATATG
1 AATCTTAGAAGATATG
8539379 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.39
18 3 0.10
19 16 0.52
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:8539642 original size:23 final size:23
Alignment explanation
Indices: 8539594--8539642 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8539584 TTGTTCTTAT
* * *
8539594 TTTATTGATTTGTGTATAATTTA
1 TTTATGGATTTGTATATAATTGA
*
8539617 TTTATGGATTTGTATATTATTGA
1 TTTATGGATTTGTATATAATTGA
8539640 TTT
1 TTT
8539643 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTATGGATTTGTATATAATTGA
Found at i:8539689 original size:15 final size:16
Alignment explanation
Indices: 8539662--8539694 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8539652 TTTTCCTTTT
8539662 TTCATTCATTTTCAAA
1 TTCATTCATTTTCAAA
8539678 TTCATT-ATTTTCAAA
1 TTCATTCATTTTCAAA
8539693 TT
1 TT
8539695 TGTTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCATTCATTTTCAAA
Found at i:8539846 original size:23 final size:23
Alignment explanation
Indices: 8539798--8539847 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8539788 ATTTGTTATT
** *
8539798 TTATTTTTTTATTATTAAATTAA
1 TTATTTTAATATTATTAAACTAA
8539821 TTATTTTAATATTATTAATACT-A
1 TTATTTTAATATTATTAA-ACTAA
8539844 TTAT
1 TTAT
8539848 CTGGCATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTTAATATTATTAAACTAA
Found at i:8540208 original size:35 final size:35
Alignment explanation
Indices: 8540164--8540231 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
8540154 TTGCCTTATA
8540164 TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
1 TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
*
8540199 TTTTTTATTTTATACTATTTGTTTTAAATTCAT
1 TTTTTTATTTTATACTATTTGTTTGAAATTCAT
8540232 TGGTCTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (35 bp):
TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
Found at i:8541807 original size:12 final size:12
Alignment explanation
Indices: 8541790--8541814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8541780 AGTAATTTCG
8541790 GGTCGGTTAACC
1 GGTCGGTTAACC
8541802 GGTCGGTTAACC
1 GGTCGGTTAACC
8541814 G
1 G
8541815 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:8545747 original size:14 final size:14
Alignment explanation
Indices: 8545728--8545765 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
8545718 GTTTGCCAAT
*
8545728 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
8545742 AAAATGATTTCTGG
1 AAAATGATTTCCGG
8545756 AAAATGATTT
1 AAAATGATTT
8545766 ACATTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:8545773 original size:20 final size:20
Alignment explanation
Indices: 8545748--8545787 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8545738 CCGGAAAATG
8545748 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
8545768 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
8545788 TGAAAATATT
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:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:8545783 original size:34 final size:33
Alignment explanation
Indices: 8545735--8545798 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
8545725 AATAAAATGT
8545735 TTTCCGGAAAATGATTT-CTGGAAAATGATTTACA
1 TTTCCGGAAAATGATTTACT-GAAAAT-ATTTACA
*
8545769 TTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTCCGGAAAATGATTTACTGAAAATATTT
8545799 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTCCGGAAAATGATTTACTGAAAATATTTACA
Found at i:8545985 original size:18 final size:18
Alignment explanation
Indices: 8545962--8545997 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8545952 AATTTATTTA
8545962 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
8545980 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
8545998 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:8548318 original size:21 final size:20
Alignment explanation
Indices: 8548272--8548318 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
8548262 GACGGTTGAC
* *
8548272 GGAGATGACGGACGGAGATG
1 GGAGGTGACGAACGGAGATG
8548292 GTGAGGTGACGAACGGAGATG
1 G-GAGGTGACGAACGGAGATG
8548313 AGGAGG
1 -GGAGG
8548319 CAGAGGATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.51, T:0.11
Consensus pattern (20 bp):
GGAGGTGACGAACGGAGATG
Found at i:8549108 original size:22 final size:22
Alignment explanation
Indices: 8549039--8549140 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 22
8549029 AGAACAGTAG
* *
8549039 GCACCGAAGTGCAAATC-ACTAA
1 GCACCAAAGTGCAAAACGA-TAA
* * *
8549061 GTACCAAAGAGCAAAAC-AGTAG
1 GCACCAAAGTGCAAAACGA-TAA
*
8549083 GCACTAAAGTGCAAAACGATAA
1 GCACCAAAGTGCAAAACGATAA
* * *
8549105 GCACCGAAGTGCGAAACGGTAA
1 GCACCAAAGTGCAAAACGATAA
*
8549127 GCACCAAAGCGCAA
1 GCACCAAAGTGCAA
8549141 GATGATAAAC
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
22 61 0.98
23 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.10
Consensus pattern (22 bp):
GCACCAAAGTGCAAAACGATAA
Found at i:8551986 original size:84 final size:84
Alignment explanation
Indices: 8551898--8552136 Score: 338
Period size: 84 Copynumber: 2.8 Consensus size: 84
8551888 TACGTCTTTG
* *
8551898 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATC-AATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
8551963 TTATTTAATTCAATTC-AAA
65 TTATTTAATTCAATTCTAAA
* * * * *
8551982 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTGAATCGGCAGGAATAAATCCCAAAACATATT
1 TTTGGAAACAAAATAAAATC-AATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
*
8552047 TTATTTAATTCTATTCTAAA
65 TTATTTAATTCAATTCTAAA
* * *
8552067 -TTGGAAACAAAATAAAATCAAGTAAAATCTTGTTAAATGGCGGGAATTAATCCCGAAAAAGATT
1 TTTGGAAACAAAATAAAATCAA-TAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
8552131 TTATTT
65 TTATTT
8552137 TACTTGTTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
83 2 0.01
84 131 0.96
85 3 0.02
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (84 bp):
TTTGGAAACAAAATAAAATCAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATTT
TATTTAATTCAATTCTAAA
Found at i:8552766 original size:134 final size:135
Alignment explanation
Indices: 8552607--8552876 Score: 524
Period size: 134 Copynumber: 2.0 Consensus size: 135
8552597 ATTATAAATA
*
8552607 AATACATATGAAATAAAATATAAATAAAATGATTTATAAATAATTTATCAAAGACGAAAATCAAA
1 AATACAGATGAAATAAAATATAAATAAAATGATTTATAAATAATTTATCAAAGACGAAAATCAAA
8552672 TAAAACCATAATAAATAGTTGAAATAAAGGAGAATTGAGATTTTACAAAACGTTGAGGCATGTGG
66 TAAAACCATAATAAATAGTTGAAATAAAGGAGAATTGAGATTTTACAAAACGTTGAGGCATGTGG
8552737 AACAT
131 AACAT
8552742 AATACAGATG-AATAAAATATAAATAAAATGATTTATAAATAATTTATCAAAGACGAAAATCAAA
1 AATACAGATGAAATAAAATATAAATAAAATGATTTATAAATAATTTATCAAAGACGAAAATCAAA
8552806 TAAAACCATAATAAATAGTTGAAATAAAGGAGAATTGAGATTTTACAAAACGTTGAGGCATGTGG
66 TAAAACCATAATAAATAGTTGAAATAAAGGAGAATTGAGATTTTACAAAACGTTGAGGCATGTGG
8552871 AACAT
131 AACAT
8552876 A
1 A
8552877 GTTTACTTAA
Statistics
Matches: 134, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
134 125 0.93
135 9 0.07
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (135 bp):
AATACAGATGAAATAAAATATAAATAAAATGATTTATAAATAATTTATCAAAGACGAAAATCAAA
TAAAACCATAATAAATAGTTGAAATAAAGGAGAATTGAGATTTTACAAAACGTTGAGGCATGTGG
AACAT
Done.