Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
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: 2456495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:1725 original size:59 final size:59
Alignment explanation
Indices: 1653--1826 Score: 235
Period size: 59 Copynumber: 2.9 Consensus size: 59
1643 ATTACCAAAT
* * *
1653 GGCACTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCATAT-G
1 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAG
* * * * * *
1711 GAGCATGTA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
1 G-GCAT-TATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAG
1771 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGA
1 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGA
1827 AAAAGCACTA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
58 3 0.03
59 90 0.93
60 4 0.04
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (59 bp):
GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAG
Found at i:1844 original size:59 final size:58
Alignment explanation
Indices: 1662--1880 Score: 219
Period size: 59 Copynumber: 3.7 Consensus size: 58
1652 TGGCACTATA
* * * * * *
1662 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCATATGGAGCATGTAG
1 TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCAT-AAG
* * * *
1721 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATA-
1 TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA-TA-AG
* * * *
1780 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAAG
1 TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA-TAAG
* *
1839 GGTGCTACAA-GGATAAGGAAATCATACT-AATAGTATGGATTT
1 TGTGCTAAAATGG-TAAGGAAATCATACTGAAT-GTATGGATTT
1881 TCATACTGAG
Statistics
Matches: 132, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
58 5 0.04
59 125 0.95
60 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (58 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCATAAG
Found at i:1876 original size:118 final size:118
Alignment explanation
Indices: 1653--1880 Score: 325
Period size: 118 Copynumber: 1.9 Consensus size: 118
1643 ATTACCAAAT
* ***
1653 GGCACTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCATATGGAGCATG
1 GGCACTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCAGAAAAAGCATG
* * * *
1718 TAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
66 AAGGGTGCTAAAAGGATAAGGAAATCATACTGAATATATGGATTTCCAGATAG
* *
1771 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACT
1 GGCACTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCAGAAAAAGCA-T
*
1836 -AAGGGTGCTACAAGGATAAGGAAATCATACT-AATAGTATGGATTT
65 GAAGGGTGCTAAAAGGATAAGGAAATCATACTGAATA-TATGGATTT
1881 TCATACTGAG
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
117 4 0.04
118 92 0.95
119 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (118 bp):
GGCACTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCAGAAAAAGCATG
AAGGGTGCTAAAAGGATAAGGAAATCATACTGAATATATGGATTTCCAGATAG
Found at i:1982 original size:59 final size:58
Alignment explanation
Indices: 1919--2211 Score: 220
Period size: 59 Copynumber: 4.9 Consensus size: 58
1909 GAGCATTGAG
* *
1919 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACT-AATATATGGATTTCCAGATAGGGCACTT-CA
* * * * * ** *
1978 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCAC-TAA
1 TGTGCTAAAATGATAAGGAAATCATACT-AATATATGGATTTCCAGATAGGGCACTTCA
* * * * * *
2036 GGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAGATTTTCATATAGGGCACTTCA
1 -TGTGCTAAAATGATAAGGAAATCATACTAATA-TATGGATTTCCAGATAGGGCACTTCA
* * * *
2096 TGTGCTAAAAATGGTAAACG-AATCATACTAATGGTATGGA-TTCTC-GTATAGGGCACTTCG
1 TGTGCT-AAAATGAT-AAGGAAATCATACTAAT-ATATGGATTTC-CAG-ATAGGGCACTTCA
** * *
2156 TGTGCTAAAATGAGGAGGAAATCATATTAAGTATAT-GATATTCCAGATAGAGCACT
1 TGTGCTAAAATGATAAGGAAATCATACTAA-TATATGGAT-TTCCAGATAGGGCACT
2212 GAGAGTGCTA
Statistics
Matches: 180, Mismatches: 40, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
58 7 0.04
59 122 0.68
60 48 0.27
61 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (58 bp):
TGTGCTAAAATGATAAGGAAATCATACTAATATATGGATTTCCAGATAGGGCACTTCA
Found at i:2021 original size:198 final size:198
Alignment explanation
Indices: 1683--2083 Score: 768
Period size: 198 Copynumber: 2.0 Consensus size: 198
1673 GGTAAGGGAA
*
1683 TCATACTGAGTGTATGAATTTCCATATGGAGCATGTAGTGTGCTAAAATGATAAGGAAATCATAT
1 TCATACTGAGTGTATAAATTTCCATATGGAGCATGTAGTGTGCTAAAATGATAAGGAAATCATAT
1748 TGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTG
66 TGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTG
*
1813 TATGGATTTCCAGAAAAAGCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATGGA
131 TATGGATTTCCAGAAAAAGCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAGA
1878 TTT
196 TTT
1881 TCATACTGAGTGTATAAATTTCCATATGGAGCAT-TGAGTGTGCTAAAATGATAAGGAAATCATA
1 TCATACTGAGTGTATAAATTTCCATATGGAGCATGT-AGTGTGCTAAAATGATAAGGAAATCATA
1945 TTGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGT
65 TTGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGT
2010 GTATGGATTTCCAGAAAAAGCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAG
130 GTATGGATTTCCAGAAAAAGCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAG
2075 ATTT
195 ATTT
2079 TCATA
1 TCATA
2084 TAGGGCACTT
Statistics
Matches: 200, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
197 1 0.00
198 199 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (198 bp):
TCATACTGAGTGTATAAATTTCCATATGGAGCATGTAGTGTGCTAAAATGATAAGGAAATCATAT
TGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTG
TATGGATTTCCAGAAAAAGCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAGA
TTT
Found at i:2089 original size:118 final size:119
Alignment explanation
Indices: 1920--2137 Score: 291
Period size: 118 Copynumber: 1.8 Consensus size: 119
1910 AGCATTGAGT
* * * *
1920 GTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA-TTATATGTGCT
1 GTGCTAAAAGGATAAGGAAATCATACTGAATATATAGATTTCCAGATAGGGCACTT-CATGTGCT
** *
1984 -AAAATGGTAAGGGAATCATACTGA-GTGTATGGATTTCCAGAAAAAGCACTAAGG
65 AAAAATGGTAAACGAATCATACTAATG-GTATGGATTTCCAGAAAAAGCACTAAGG
* * *
2038 GTGCTACAAGGATAAGGAAATCATACT-AATAGTATAGATTTTCATATAGGGCACTTCATGTGCT
1 GTGCTAAAAGGATAAGGAAATCATACTGAATA-TATAGATTTCCAGATAGGGCACTTCATGTGCT
2102 AAAAATGGTAAACGAATCATACTAATGGTATGGATT
65 AAAAATGGTAAACGAATCATACTAATGGTATGGATT
2138 CTCGTATAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
117 4 0.05
118 49 0.57
119 32 0.37
120 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (119 bp):
GTGCTAAAAGGATAAGGAAATCATACTGAATATATAGATTTCCAGATAGGGCACTTCATGTGCTA
AAAATGGTAAACGAATCATACTAATGGTATGGATTTCCAGAAAAAGCACTAAGG
Found at i:2211 original size:119 final size:118
Alignment explanation
Indices: 1917--2211 Score: 305
Period size: 119 Copynumber: 2.5 Consensus size: 118
1907 TGGAGCATTG
* *
1917 AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA-TTATATGT
1 AGTGTGCTAAAATGATAAGGAAATCATATT-AATATATAGATTTCCAGATAGGGCACTTACATGT
** *
1981 GCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTA
65 GCTAAAATGGTAAACGAATCATACTAAGTGTATGGATTTCCAGAAAAAGCACTA
* * * * * *
2035 AGGGTGCTACAAGGATAAGGAAATCATACTAATAGTATAGATTTTCATATAGGGCACTT-CATGT
1 AGTGTGCTAAAATGATAAGGAAATCATATTAATA-TATAGATTTCCAGATAGGGCACTTACATGT
* ** *
2099 GCTAAAAATGGTAAACGAATCATACTAA-TGGTATGGA-TTCTC-GTATAGGGCACTT
65 GCT-AAAATGGTAAACGAATCATACTAAGT-GTATGGATTTC-CAG-AAAAAGCACTA
* ** *
2154 CGTGTGCTAAAATGAGGAGGAAATCATATTAAGTATAT-GATATTCCAGATAGAGCACT
1 AGTGTGCTAAAATGATAAGGAAATCATATTAA-TATATAGAT-TTCCAGATAGGGCACT
2212 GAGAGTGCTA
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
117 4 0.03
118 59 0.41
119 79 0.55
120 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (118 bp):
AGTGTGCTAAAATGATAAGGAAATCATATTAATATATAGATTTCCAGATAGGGCACTTACATGTG
CTAAAATGGTAAACGAATCATACTAAGTGTATGGATTTCCAGAAAAAGCACTA
Found at i:2305 original size:44 final size:44
Alignment explanation
Indices: 2256--2458 Score: 282
Period size: 44 Copynumber: 4.6 Consensus size: 44
2246 ATACAAATTT
* * * * *
2256 CTTATGAAATTATAGTAAGTAGATCGATAAAATAAGCTTACGAG
1 CTTATGGAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
*
2300 CTTATGGAATAA-AGGTAAGTATATTGGTAAAATAAGCTTACGAA
1 CTTATGGAATAATA-GTAAGTATATTGGTAAAATAAGCTTACGAG
*
2344 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
1 CTTATGGAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
*
2388 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
1 CTTATGGAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
* * *
2432 CTTATGGATTAAATGGTATGTATATTG
1 CTTATGGAAT-AATAGTAAGTATATTG
2459 ATAAGAAATC
Statistics
Matches: 146, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
43 1 0.01
44 130 0.89
45 15 0.10
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (44 bp):
CTTATGGAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAG
Found at i:2405 original size:88 final size:88
Alignment explanation
Indices: 2256--2462 Score: 315
Period size: 88 Copynumber: 2.3 Consensus size: 88
2246 ATACAAATTT
* * * * *
2256 CTTATGAAATTATAGTAAGTAGATCGATAAAATAAGCTTACGAGCTTATGGAATAAAGGTAAGTA
1 CTTATGGAATAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGAATAAAGGTAAGTA
2321 TATTGGTAAAATAAGCTTACGAA
66 TATTGGTAAAATAAGCTTACGAA
* *
2344 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTA
1 CTTATGGAATAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGAATAAAGGTAAGTA
*
2409 TATTGGTAAAATAAGCTTACGAG
66 TATTGGTAAAATAAGCTTACGAA
* *
2432 CTTATGGATTAAATGGTATGTATATTGATAA
1 CTTATGGAAT-AATGGTAAGTATATTGATAA
2463 GAAATCTTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 89 0.83
89 18 0.17
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (88 bp):
CTTATGGAATAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGAATAAAGGTAAGTA
TATTGGTAAAATAAGCTTACGAA
Found at i:2952 original size:23 final size:23
Alignment explanation
Indices: 2924--2968 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2914 TACACTGTTC
2924 ACTGTTCACGGGTATTGTTCATA
1 ACTGTTCACGGGTATTGTTCATA
2947 ACTGTTCACGGGTATTGTTCAT
1 ACTGTTCACGGGTATTGTTCAT
2969 TAAAAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
ACTGTTCACGGGTATTGTTCATA
Found at i:17610 original size:20 final size:20
Alignment explanation
Indices: 17587--17644 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
17577 AAATAATATA
** *
17587 TTTATTAAAAAAATATTACT
1 TTTATTAAAAAAATAAGAAT
17607 TTTATTCAATAAAAATAAGAAT
1 TTTATT-AA-AAAAATAAGAAT
*
17629 TTAATTAAAAAAATAA
1 TTTATTAAAAAAATAA
17645 TATATAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.44
21 4 0.12
22 14 0.44
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTATTAAAAAAATAAGAAT
Found at i:22167 original size:132 final size:134
Alignment explanation
Indices: 21868--22171 Score: 323
Period size: 132 Copynumber: 2.3 Consensus size: 134
21858 ATCGATCTTG
* * *
21868 ATTTGCTTCGTTGCTCTTCAGGAATACCAAATCTGAAAGAAGAAGACTATGCTCCACTACTCTTT
1 ATTTGCTTCGCTGATCTTCAGGAATACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTT
* * *
21933 AGGGGATATCAAACTCGAGAAAATTTTGACCCACTTTGATGCTCTCCAGGGAAGATTGAATCGAA
66 AGGGGAGATCAAACTCGAGAAAATTTTGACCCACTCTGATGCTCTCCAGGAAAGATTGAATCGAA
* *
21998 CGTG
131 AGTA
* * * * * *
22002 ATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTTAAAGAAATAAGAATCTGCTCCACTATTCTT
1 ATTTGCTTCGCTGATCTTCAGGAATACCAAATCTGAAAG-AAGAAGAATATGCTCCACTACTCTT
* ** *
22067 TA-GGGAGATCATACTCGAG-AAA-TTTGATTCACTCT-ACTGCTCTTCAGGAAATG-TTGAATC
65 TAGGGGAGATCAAACTCGAGAAAATTTTGACCCACTCTGA-TGCTCTCCAGGAAA-GATTGAATC
22127 -AAAGTCA
128 GAAAGT-A
* * * * *
22134 ATTTGCTTCTCTTATCTTCAAGAATATCGAATCTGAAA
1 ATTTGCTTCGCTGATCTTCAGGAATACCAAATCTGAAA
22172 ATTAACTCAA
Statistics
Matches: 142, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
131 5 0.04
132 59 0.42
133 4 0.03
134 51 0.36
135 23 0.16
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (134 bp):
ATTTGCTTCGCTGATCTTCAGGAATACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTT
AGGGGAGATCAAACTCGAGAAAATTTTGACCCACTCTGATGCTCTCCAGGAAAGATTGAATCGAA
AGTA
Found at i:23425 original size:257 final size:256
Alignment explanation
Indices: 22779--24622 Score: 2292
Period size: 257 Copynumber: 7.2 Consensus size: 256
22769 TTAAAATATT
* * * * * *
22779 TTAAATGAGAAACTTTAAAAATTGCTTTCTCATTTTCTTACAAATATCATATGAAAGCATCTTGT
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTT-TT--AAA-ATCATGTGAAAACATCCTGC
* * * * * *
22844 CCAAAGGTCTTATAGTTGGCCCGAATGACTTATCATCTTACTCGAAAGACTAACATATGACCCGA
62 CCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGA
* * * * *
22909 ATGATTTAATCATCATGCCCGAAAGGCTTACTGATGGTCTGAAGGACTTACCAATTTTGGAAATA
127 AAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATA
* * ***
22974 GTTTACTAGGTAAGAAACTTTGGAAACCGCTTTCTTACTTTTCAAAA---AAAAAT-TGAAAACA
192 GTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTCATTTTCTGAAAACA
* * * *
23035 TTAAATAAGAAACTTTAAAAATTGCTTTTCTCA--TTTGAAAATCATGTGAAAACATCCTGCCCG
1 TTAAATGAGAAACTTTGAAAATCGC-TTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCG
* * * * *
23098 AAGGTCTTATAGATGCCCCGAAGTACTTATCATCTTGCTTGAAAGGCTGACAGATGACCTGAAAG
65 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAG
* * * * *
23163 ATTTAATCATCTTGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTC
130 ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
* *
23228 TACTAGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAGATTTCATTTTCTGAAAACA
195 TACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA-ATTTCATTTTCTGAAAACA
*
23291 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTAAATCATGTGAAAACATCCTGCCCGA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
* ** *
23356 ATGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGTTGACAGATGACCCGAAGGA
66 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
* * * * *
23421 TTTAATCATTAAGTTCGAAAGATTTACT-ACTGGCCCGAAGGACTTACCAATTTTAGAAATAGTT
131 TTTAATCATCATGCTCGAAAGACTTACTGA-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
* * *
23485 TACTGGGTAAGAAACTTTGGAAATCGCTTT-TTACATTTCAAAATTTTCATTTTCTGAAAATA
195 TACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAA-TTTCATTTTCTGAAAACA
* * * *
23547 TTAAATGAGAAACTTTGAAAATTGCTTTCTCGTTTTTTTTTAAAATCATGTGAAAACATCATGCT
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTC---ATTTTTTAAAATCATGTGAAAACATCCTGCC
* * * *
23612 CGAAGGTCTTATAGATGGCCCGACGGACTTATCATCTTGCTCAAAAGACTGACAGATAACTCGAA
63 CGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
* * *
23677 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACTTACCAATCTTT-GAAATA
128 AGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT-TTTGGAAATA
* * * **
23741 GTTTA-TTGAGTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAATTTCATTTTCCAAAAA
192 GTTTACTAG-GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC-AAAATTTCATTTTCTGAAAA
*
23805 AA
255 CA
* * * * * *
23807 TTAAATGAGAAACTTTGAAAACCGCTTTCTCGTTTTTGAAAATCGTGTGAAAACATCATTCCCGA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
* * * * *
23872 AGGTCTTATAGATGGCTCGAAGGACTTATCATTTTGCTCAAAAGACTGACAGATGGCTC-AAAGG
66 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAA-G
* *
23936 ATTTAATCATCATGCTCGAAAGACTTACTTATGGCCCGAATGACTTACCAATTTTGGAAATAGTT
130 ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
* * ** **
24001 TACTGGGTAAGAAACTTTAGAAATCATTTTCTTACTTTTCAAAATTTTCATTTTCCAAAAACA
195 TACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAA-TTTCATTTTCTGAAAACA
* * *
24064 TTAAATGAGAAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAATATCCTGCCCGA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
* * * *
24129 AGGTTTTATAGATGGCCCGAAGGACTTATCATCTTACTCTAAAAACTGACAGATGACCCGAAAGA
66 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
**
24194 TTTAATCATCATGCTCGAAAGACTTACTGATGATCCGAAGGACTTACCAATTTTGGAAATAGTTT
131 TTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTT
* * * * *
24259 ACTAGGTAAGAAACTTTAGAAAT-GTTTTCTTGCTTTTCAAAAATTTCATTTTCTGAGAATA
196 ACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC-AAAATTTCATTTTCTGAAAACA
*
24320 CTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTTAAAATCATGTGAAAACATCCTGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCA--TTTTTTAAAATCATGTGAAAACATCCTGCCC
* * * *
24385 GAATGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGTCTGATAGATAACCCGAAA
64 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAA
* * * * * *
24450 GATTTAATCATCATGCTCGAAACACTTATTTAAGTCCAGAAGGACTTACCAATTTTGGAAATAGT
129 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * * * ** *
24515 TTATTGGGTAATAAACTTAGGAAATCGCTTTCTTATTTTTCAAAAAAAAAAT-ATTTTCCGAAAA
194 TTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC----AAAATTTCATTTTCTGAAAA
24579 CA
255 CA
* *
24581 TTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAA
24623 CAACTTAATG
Statistics
Matches: 1389, Mismatches: 169, Indels: 57
0.86 0.10 0.04
Matches are distributed among these distances:
251 168 0.12
252 4 0.00
254 1 0.00
255 12 0.01
256 179 0.13
257 562 0.40
258 171 0.12
259 187 0.13
260 54 0.04
261 45 0.03
262 6 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (256 bp):
TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
TTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTT
ACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTCATTTTCTGAAAACA
Found at i:23756 original size:516 final size:511
Alignment explanation
Indices: 22779--24622 Score: 2337
Period size: 516 Copynumber: 3.6 Consensus size: 511
22769 TTAAAATATT
* * * * * *
22779 TTAAATGAGAAACTTTAAAAATTGCTTTCTCATTTTCTTACAAATATCATATGAAAGCATCTTGT
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTT-TT--AAA-ATCATGTGAAAACATCCTGC
* * * * * *
22844 CCAAAGGTCTTATAGTTGGCCCGAATGACTTATCATCTTACTCGAAAGACTAACATATGACCCGA
62 CCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGA
* * * * *
22909 ATGATTTAATCATCATGCCCGAAAGGCTTACTGATGGTCTGAAGGACTTACCAATTTTGGAAATA
127 AGGATTTAATCATCATGCTCGAAAGACTTACT-ATGGCCCGAAGGACTTACCAATTTTGGAAATA
* * ** **
22974 GTTTACTAGGTAAGAAACTTTGGAAACCGCTTTCTTACTTTTCAAAA---AAAAATT--GAAAAC
191 GTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCCGAAAAC
* * * **
23034 ATTAAATAAGAAACTTTAAAAATTGCTTT-TCTCATTTGAAAATCATGTGAAAACATCCTGCCCG
256 ATTAAATGAGAAACTTTGAAAATCGCTTTCTCTTTTTTGAAAATCATGTGAAAACATCCTGCCCG
* * ** *
23098 AAGGTCTTATAGATGCCCCGAAGTACTTATCATCTTGCTTGAAAGGCTGACAGATGACCTGAAAG
321 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACC-GAAAG
* * * *
23163 ATTTAATCATCTTGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTC
385 ATTTAATCATCATGCTCGAAAGACTTACTGATGG-CCGAATGACTTACCAATTTTGGAAATAGTT
* * *
23228 TACTAGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAGATTTCATTTTCTGAAAACA
449 TACTAGGTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAAA
*
23291 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTAAATCATGTGAAAACATCCTGCCCGA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
* **
23356 ATGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGTTGACAGATGACCCGAAGGA
66 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
* * * * *
23421 TTTAATCATTAAGTTCGAAAGATTTACTACTGGCCCGAAGGACTTACCAATTTTAGAAATAGTTT
131 TTTAATCATCATGCTCGAAAGACTTACTA-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTTT
* * *
23486 ACTGGGTAAGAAACTTTGGAAATCGCTTT-TTACATTTCAAAATTTTCATTTTCTGAAAATATTA
195 ACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCCGAAAACATTA
* * * *
23550 AATGAGAAACTTTGAAAATTGCTTTCTCGTTTTTTTTTAAAATCATGTGAAAACATCATGCTCGA
260 AATGAGAAACTTTGAAAATCGCTTTCTC---TTTTTTGAAAATCATGTGAAAACATCCTGCCCGA
* * *
23615 AGGTCTTATAGATGGCCCGACGGACTTATCATCTTGCTCAAAAGACTGACAGATAACTCGAAGGA
322 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGAC-CGAAAGA
23680 TTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACTTACCAATCTTT-GAAATAGTT
386 TTTAATCATCATGCTCGAAAGACTTACTGATGGCC-GAATGACTTACCAAT-TTTGGAAATAGTT
* * * * **
23744 TA-TTGAGTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAATTTCATTTTCCAAAAAAA
449 TACTAG-GTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAAA
* * * * * *
23807 TTAAATGAGAAACTTTGAAAACCGCTTTCTCGTTTTTGAAAATCGTGTGAAAACATCATTCCCGA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
* * * * * *
23872 AGGTCTTATAGATGGCTCGAAGGACTTATCATTTTGCTCAAAAGACTGACAGATGGCTCAAAGGA
66 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
*
23937 TTTAATCATCATGCTCGAAAGACTTACTTATGGCCCGAATGACTTACCAATTTTGGAAATAGTTT
131 TTTAATCATCATGCTCGAAAGACTTAC-TATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTT
* ** *
24002 ACTGGGTAAGAAACTTTAGAAATCATTTTCTTACTTTTCAAAATTTTCATTTTCCAAAAACATTA
195 ACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCCGAAAACATTA
* * *
24067 AATGAGAAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAATATCCTGCCCGAAGG
260 AATGAGAAACTTTGAAAATCGCTTTCTCTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGG
* *
24132 TTTTATAGATGGCCCGAAGGACTTATCATCTTACTCTAAAA-ACTGACAGATGACCCGAAAGATT
325 TCTTATAGATGGCCCGAAGGACTTATCATCTTGCTC-AAAAGACTGACAGATGA-CCGAAAGATT
* *
24196 TAATCATCATGCTCGAAAGACTTACTGATGATCCGAAGGACTTACCAATTTTGGAAATAGTTTAC
388 TAATCATCATGCTCGAAAGACTTACTGATG-GCCGAATGACTTACCAATTTTGGAAATAGTTTAC
* * * *
24261 TAGGTAAGAAACTTT-AGAAAT-GTTTTCTTGCTTTTCAAAAATTTCATTTTCTGAGAATA
452 TAGGTAAGAAACTTTGA-AAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAAA
*
24320 CTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTTAAAATCATGTGAAAACATCCTGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCA--TTTTTTAAAATCATGTGAAAACATCCTGCCC
* * * * *
24385 GAATGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGTCTGATAGATAACCCGAAA
64 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
* * * * *
24450 GATTTAATCATCATGCTCGAAACACTTATTTAAGTCCAGAAGGACTTACCAATTTTGGAAATAGT
129 GATTTAATCATCATGCTCGAAAGACTTA-CTATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * * ***
24515 TTATTGGGTAATAAACTTAGGAAATCGCTTTCTTATTTTTCAAAAAAAAAAT-ATTTTCCGAAAA
193 TTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC---AAAATTTTCATTTTCCGAAAA
* * *
24579 CATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAA
255 CATTAAATGAGAAACTTTGAAAATCGCTTTCTCTTTTTTGAAAA
24623 CAACTTAATG
Statistics
Matches: 1151, Mismatches: 153, Indels: 51
0.85 0.11 0.04
Matches are distributed among these distances:
507 13 0.01
508 156 0.14
509 2 0.00
510 3 0.00
511 2 0.00
512 66 0.06
513 64 0.06
514 155 0.13
515 186 0.16
516 384 0.33
517 115 0.10
518 5 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (511 bp):
TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAAATCATGTGAAAACATCCTGCCCGA
AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
TTTAATCATCATGCTCGAAAGACTTACTATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTA
CTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCCGAAAACATTAA
ATGAGAAACTTTGAAAATCGCTTTCTCTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGT
CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCGAAAGATTTAA
TCATCATGCTCGAAAGACTTACTGATGGCCGAATGACTTACCAATTTTGGAAATAGTTTACTAGG
TAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAAA
Found at i:23927 original size:41 final size:42
Alignment explanation
Indices: 23881--23960 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
23871 AAGGTCTTAT
* **
23881 AGATGGCTCGAAGGACTT-ATCATTTTGCTCAAAAGACTGAC
1 AGATGGCTCAAAGGACTTAATCATCATGCTCAAAAGACTGAC
* *
23922 AGATGGCTCAAAGGATTTAATCATCATGCTCGAAAGACT
1 AGATGGCTCAAAGGACTTAATCATCATGCTCAAAAGACT
23961 TACTTATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 16 0.48
42 17 0.52
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (42 bp):
AGATGGCTCAAAGGACTTAATCATCATGCTCAAAAGACTGAC
Found at i:24327 original size:773 final size:768
Alignment explanation
Indices: 22780--24622 Score: 2466
Period size: 773 Copynumber: 2.4 Consensus size: 768
22770 TAAAATATTT
* * ** * * *
22780 TAAATGAGAAACTTTAAAAATTGCTTTCTCATTTTCTTACAAATATCATATGAAAGCATCTTG-T
1 TAAATGAGAAACTTTGAAAATTGCTTTCTC-TTTTTTTTTAAA-ATCATGTGAAAACATCATGCT
* * * * * * *
22844 CCAAAGGTCTTATAGTTGGCCCGAATGACTTATCATCTTACTCGAAAGACTAACATATGACCCGA
64 -CGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCCGA
* * * *
22909 ATGATTTAATCATCATGCCCGAAAGGCTTACTGATGGTCTGAAGGACTTACCAATTTTGGAAATA
128 AAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTGGAAATA
* * * * * **
22974 GTTTACT-AGGTAAGAAACTTTGGAAACCGCTTTCTTACTTTTCAAAAAAAAATT--GAAAACAT
193 GTTTATTGA-GTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAATATTTTCCGAAAACAT
* * * * *
23036 TAAATAAGAAACTTTAAAAATTGCTTT-TCTCATTTGAAAATCATGTGAAAACATCCTGCCCGAA
257 TAAATGAGAAACTTTGAAAATCGCTTTCTCT-TTTTGAAAATCATGTGAAAACATCATGCCCGAA
* ** * *
23100 GGTCTTATAGATGCCCCGAAGTACTTATCATCTTGCTTGAAAGGCTGACAGATGACCTGAAAGAT
321 GGTCTTATAGATGCCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCTCAAAGAT
*
23165 TTAATCATCTTGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTCTA
386 TTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTCTA
**
23230 CTAGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAGATTTCATTTTCTGAAAACATTAA
451 CTAGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAGATTTCATTTTCCAAAAACATTAA
* ** *
23295 ATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTAAATCATGTGAAAACATCCTGCCCGAATGT
516 ATGAGAAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGT
* *** *
23360 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGTTGACAGATGACCCGAAGGATTTA
581 CTTATAGATGGCCCGAAGGACTTATCATCTTACTCGAAAAACTGACAGATGACCCGAAAGATTTA
* * * * *
23425 ATCATTAAGTTCGAAAGATTTACTACTGGCCCGAAGGACTTACCAATTTTAGAAATAGTTTACTG
646 ATCATCAAGCTCGAAAGACTTACTACTGACCCGAAGGACTTACCAATTTTAGAAATAGTTTACTA
* * *
23490 GGTAAGAAACTTTGGAAATCGCTTTTTACATTTCAAAATTTTCATTTTCTGAAAATAT
711 GGTAAGAAACTTTAGAAATCGCTTTTTACATTTCAAAAATTTCATTTTCTGAAAATAC
23548 TAAATGAGAAACTTTGAAAATTGCTTTCTCGTTTTTTTTTAAAATCATGTGAAAACATCATGCTC
1 TAAATGAGAAACTTTGAAAATTGCTTTCTC-TTTTTTTTTAAAATCATGTGAAAACATCATGCTC
* * * *
23613 GAAGGTCTTATAGATGGCCCGACGGACTTATCATCTTGCTCAAAAGACTGACAGATAACTCGAAG
65 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCCGAAA
*
23678 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACTTACCAATCTTT-GAAATAG
130 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAAT-TTTGGAAATAG
* *
23742 TTTATTGAGTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAATTTCATTTTCCAAAAAAA
194 TTTATTGAGTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAA--T-ATTTTCCGAAAACA
* * *
23807 TTAAATGAGAAACTTTGAAAACCGCTTTCTCGTTTTTGAAAATCGTGTGAAAACATCATTCCCGA
256 TTAAATGAGAAACTTTGAAAATCGCTTTCTC-TTTTTGAAAATCATGTGAAAACATCATGCCCGA
* * * *
23872 AGGTCTTATAGATGGCTCGAAGGACTTATCATTTTGCTCAAAAGACTGACAGATG-GCTCAAAGG
320 AGGTCTTATAGATGCCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCTCAAA-G
* * * *
23936 ATTTAATCATCATGCTCGAAAGACTTACTTATGGCCCGAATGACTTACCAATTTTGGAAATAGTT
384 ATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTC
* *
24001 TACTGGGTAAGAAACTTT-AGAAATCATTTTCTTACTTTTCAAA-ATTTTCATTTTCCAAAAACA
449 TACTAGGTAAGAAACTTTGA-AAATCACTTTCTTACTTTTCAAAGA-TTTCATTTTCCAAAAACA
*
24064 TTAAATGAGAAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAATATCCTGCCCGA
512 TTAAATGAGAAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCCGA
* *
24129 AGGTTTTATAGATGGCCCGAAGGACTTATCATCTTACTCTAAAAACTGACAGATGACCCGAAAGA
577 AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTACTCGAAAAACTGACAGATGACCCGAAAGA
* * *
24194 TTTAATCATCATGCTCGAAAGACTTACTGA-TGATCCGAAGGACTTACCAATTTTGGAAATAGTT
642 TTTAATCATCAAGCTCGAAAGACTTACT-ACTGACCCGAAGGACTTACCAATTTTAGAAATAGTT
* * * *
24258 TACTAGGTAAGAAACTTTAGAAAT-GTTTTCTTGCTTTTCAAAAATTTCATTTTCTGAGAATAC
706 TACTAGGTAAGAAACTTTAGAAATCGCTTT-TTACATTTCAAAAATTTCATTTTCTGAAAATAC
* * * *
24321 TAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTTAAAATCATGTGAAAACATCCTGCCCG
1 TAAATGAGAAACTTTGAAAATTGCTTTCTCTTTTTTTTTAAAATCATGTGAAAACATCATGCTCG
* * *
24386 AATGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGTCTGATAGATAACCCGAAAG
66 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCCGAAAG
* * * * * *
24451 ATTTAATCATCATGCTCGAAACACTTATTTAAGTCCAGAAGGACTTACCAATTTTGGAAATAGTT
131 ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTGGAAATAGTT
* * * * *
24516 TATTGGGTAATAAACTTAGGAAATCGCTTTCTTATTTTTCAAAAAAAAAATATTTTCCGAAAACA
196 TATTGAGTAAGAAACTTTGGAAATCGCTTTCTTA-ATTT----ACAAAAATATTTTCCGAAAACA
* *
24581 TTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAA
256 TTAAATGAGAAACTTTGAAAATCGCTTTCTC-TTTTTGAAAA
24623 CAACTTAATG
Statistics
Matches: 940, Mismatches: 114, Indels: 36
0.86 0.10 0.03
Matches are distributed among these distances:
767 168 0.18
768 43 0.05
770 3 0.00
771 3 0.00
772 215 0.23
773 449 0.48
774 52 0.06
775 1 0.00
777 6 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (768 bp):
TAAATGAGAAACTTTGAAAATTGCTTTCTCTTTTTTTTTAAAATCATGTGAAAACATCATGCTCG
AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCCGAAAG
ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTGGAAATAGTT
TATTGAGTAAGAAACTTTGGAAATCGCTTTCTTAATTTACAAAAATATTTTCCGAAAACATTAAA
TGAGAAACTTTGAAAATCGCTTTCTCTTTTTGAAAATCATGTGAAAACATCATGCCCGAAGGTCT
TATAGATGCCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCTCAAAGATTTAAT
CATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTCTACTAGG
TAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAGATTTCATTTTCCAAAAACATTAAATGAG
AAACATTGAAAATCGCTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTAT
AGATGGCCCGAAGGACTTATCATCTTACTCGAAAAACTGACAGATGACCCGAAAGATTTAATCAT
CAAGCTCGAAAGACTTACTACTGACCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAA
GAAACTTTAGAAATCGCTTTTTACATTTCAAAAATTTCATTTTCTGAAAATAC
Found at i:35597 original size:3 final size:3
Alignment explanation
Indices: 35584--35683 Score: 119
Period size: 3 Copynumber: 32.3 Consensus size: 3
35574 GTCCGTTTCC
* * * **
35584 ATT ATTT ATT ATT ATT ATT ATT ACT ACT ACT ATT GCT ATT ATT ATAT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
35631 ATAT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35677 ATT ATT A
1 ATT ATT A
35684 CATAACACGA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
3 78 0.90
4 9 0.10
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:39123 original size:28 final size:27
Alignment explanation
Indices: 39049--39129 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
39039 AGGAATCAAG
*
39049 GGGTGATGGG-GTTGGTGTTGAAAAAAT
1 GGGTGGTGGGTGTTGGTGTTG-AAAAAT
* **
39076 GGAATGGTGGGTGTAAGTGTTGAAAAAT
1 GG-GTGGTGGGTGTTGGTGTTGAAAAAT
*
39104 GCGGTGGTGGGTGTTGGTGTTTAAAA
1 G-GGTGGTGGGTGTTGGTGTTGAAAA
39130 TAGTGTTTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.05
28 32 0.74
29 9 0.21
ACGTcount: A:0.25, C:0.01, G:0.43, T:0.31
Consensus pattern (27 bp):
GGGTGGTGGGTGTTGGTGTTGAAAAAT
Found at i:39608 original size:34 final size:33
Alignment explanation
Indices: 39532--40524 Score: 1399
Period size: 33 Copynumber: 30.3 Consensus size: 33
39522 CAAAAAGTTG
* * **
39532 ATGTCGATCCAACTCCTTCTGTGATGGATTAAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* * *
39565 ATGTTGATCCATCTCTTTATGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
39599 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
39632 ATGTCGAT-CACCTTTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* * *
39664 ACGTCGATTCACCTCTTTCTGTGATGGATTTAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
39697 ACGTCGATCCACCTCTTTCTGTGATAGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
39730 ATGTCGTTCCACCT-TTTCTATGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
39762 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
39795 ATGTCGATCCACCTCATTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
39829 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
39862 ACGTCGATCCACCTATTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
39895 ATGTTGATCCACCTCTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
39928 ATGTCGATCCACTTCCTTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
*
39962 ATGTCGATCCA--TCTTTTTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
*
39994 ATGTCGATCCACCTCTTTTTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* **
40027 ATGTCGATCCACCTCTTTCTGTGATAGATTCAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
40060 ATATC-ATCCACCTCTTTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
40093 ATGTCGATCCACCTCTTTCTGTGATGGATTTGTA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
40127 ATGTCGATCCACCTCTTTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
* *
40161 ATTTCAATCCACCTCTTTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
* * *
40195 ATGTCGATCCACCTCCTTCTATAATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
40228 ATGTCGATCCACCTCTTTCTATGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
40261 ACGTCGATCCACCTC-TTCTGTGATGGATTTCA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
*
40293 ATGTCGATCCACCTCTTTCTGTGATAGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* * *
40326 ATGTCGATCCACCTCCTTCTGTGATGTATTTCAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTT-GA
40360 ATGTCGATCCACCTCTTTCTGTGATGGATTTGAA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTG-A
*
40394 ATATCGATCCACCTCTTTCTGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
40427 ATGTCGATCCACCTCTTT-TGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
40459 ATGTCGATCCA-C-C--T-TGTGATGGA--TGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
* *
40485 ATGTCGAT---CCTTTTTATGTGATGGATTTGA
1 ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
40515 ATGTCGATCC
1 ATGTCGATCC
40525 TGATCTACCT
Statistics
Matches: 869, Mismatches: 70, Indels: 43
0.88 0.07 0.04
Matches are distributed among these distances:
24 1 0.00
26 11 0.01
27 1 0.00
28 19 0.02
30 12 0.01
31 1 0.00
32 166 0.19
33 384 0.44
34 274 0.32
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
ATGTCGATCCACCTCTTTCTGTGATGGATTTGA
Found at i:42698 original size:14 final size:14
Alignment explanation
Indices: 42681--42715 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42671 TGAAGCTCAA
*
42681 TGATTGACCCAACT
1 TGATTCACCCAACT
42695 TGATTCACCCAACT
1 TGATTCACCCAACT
42709 TGATTCA
1 TGATTCA
42716 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (14 bp):
TGATTCACCCAACT
Found at i:42729 original size:7 final size:7
Alignment explanation
Indices: 42717--42851 Score: 199
Period size: 7 Copynumber: 19.7 Consensus size: 7
42707 CTTGATTCAA
42717 TTTCTTT
1 TTTCTTT
42724 TTTCTTCT
1 TTTCTT-T
42732 TTTCTTT
1 TTTCTTT
42739 TTTCTTT
1 TTTCTTT
42746 TTTCTTT
1 TTTCTTT
42753 TTTCTTT
1 TTTCTTT
42760 TTTCTTT
1 TTTCTTT
42767 TTTCTTT
1 TTTCTTT
*
42774 TTTATTT
1 TTTCTTT
42781 TTTCTTT
1 TTTCTTT
42788 TTTCTTT
1 TTTCTTT
42795 TTTCTTT
1 TTTCTTT
42802 TTT-TCTT
1 TTTCT-TT
42809 TTT-TTT
1 TTTCTTT
42815 TTT-TTT
1 TTTCTTT
*
42821 TCTCTTT
1 TTTCTTT
42828 TTTC-TT
1 TTTCTTT
42834 TTT-TTT
1 TTTCTTT
42840 TTTCTTT
1 TTTCTTT
42847 TTTCT
1 TTTCT
42852 GATGGATGAG
Statistics
Matches: 119, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
6 21 0.18
7 91 0.76
8 7 0.06
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:42740 original size:1 final size:1
Alignment explanation
Indices: 42721--42849 Score: 105
Period size: 1 Copynumber: 129.0 Consensus size: 1
42711 ATTCAATTTC
* * * * * * * * * *
42721 TTTTTTCTTCTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTATTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
42786 TTTTTCTTTTTTCTTTTTTTCTTTTTTTTTTTTTTTCTCTTTTTTCTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42850 CTGATGGATG
Statistics
Matches: 94, Mismatches: 34, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 94 1.00
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:43151 original size:2 final size:2
Alignment explanation
Indices: 43144--43172 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43134 ATAACAATGG
43144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43173 AAAGGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46913 original size:17 final size:19
Alignment explanation
Indices: 46875--46913 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
46865 AGGCAAAAAG
46875 AAAACAAGTTAAGACGTATA
1 AAAACAAGTTAAGAC-TATA
46895 AAAACAAG-TAAGA-TATA
1 AAAACAAGTTAAGACTATA
46912 AA
1 AA
46914 GGTAAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (19 bp):
AAAACAAGTTAAGACTATA
Found at i:49586 original size:2 final size:2
Alignment explanation
Indices: 49579--49617 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
49569 TGTTTTACTT
49579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49618 TTTCTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50825 original size:29 final size:29
Alignment explanation
Indices: 50754--50825 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
50744 GGGTGATGTG
50754 GTTGGTGTTGAAAAAATGAGATGGTGGGT
1 GTTGGTGTTGAAAAAATGAGATGGTGGGT
** * * *
50783 GTAAGTATTG-AAAAATGGGGTGGTGGGT
1 GTTGGTGTTGAAAAAATGAGATGGTGGGT
50811 GTTGGTGTTGAAAAA
1 GTTGGTGTTGAAAAA
50826 TGGTGTTTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (29 bp):
GTTGGTGTTGAAAAAATGAGATGGTGGGT
Found at i:56129 original size:3 final size:3
Alignment explanation
Indices: 56109--56146 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
56099 AACATTAAAA
* *
56109 AAG AAA AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
56147 TATGAACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:57670 original size:39 final size:39
Alignment explanation
Indices: 57613--57693 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
57603 TGCAACTTAG
* *
57613 AATGTTGGGACATCTTG-AAGACTTATATCA-ACATGAAAT
1 AATGTTGGGACATATTGAAAG-CTCATATCAGACAT-AAAT
*
57652 AATGTTGGGGCATATTGAAAGCTCATATCAGACATAAAT
1 AATGTTGGGACATATTGAAAGCTCATATCAGACATAAAT
57691 AAT
1 AAT
57694 CCATATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (39 bp):
AATGTTGGGACATATTGAAAGCTCATATCAGACATAAAT
Found at i:58971 original size:35 final size:36
Alignment explanation
Indices: 58889--59061 Score: 233
Period size: 35 Copynumber: 4.9 Consensus size: 36
58879 AAGTCATTCG
**
58889 AATCCAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
1 AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGCA
58925 AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGC-
1 AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGCA
**
58960 AATCCAGCCTTCATAGAAGAGTAGTGAAGCAATGC-
1 AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGCA
** * * *
58995 AATTTAGCCTTCACGGAAGAGTAGTTAAGCGATACA
1 AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGCA
**
59031 AATCCAATCTTCACGGAAGAGTAGTGAAGCA
1 AATCCAGCCTTCACGGAAGAGTAGTGAAGCA
59062 GGAACATATC
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
35 61 0.51
36 58 0.49
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (36 bp):
AATCCAGCCTTCACGGAAGAGTAGTGAAGCAATGCA
Found at i:58982 original size:71 final size:71
Alignment explanation
Indices: 58889--59061 Score: 240
Period size: 71 Copynumber: 2.4 Consensus size: 71
58879 AAGTCATTCG
*
58889 AATCCAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATCCAGCCTTCACGGAAGAGTAGTGAAG
1 AATCCAGCCTTCACAGAAGAGTAGTGAAGCAATGC-AATCCAGCCTTCACGGAAGAGTAGTGAAG
*
58954 CAATGC-
65 CAATACA
* ** *
58960 AATCCAGCCTTCATAGAAGAGTAGTGAAGCAATGCAATTTAGCCTTCACGGAAGAGTAGTTAAGC
1 AATCCAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAGCCTTCACGGAAGAGTAGTGAAGC
*
59025 GATACA
66 AATACA
** *
59031 AATCCAATCTTCACGGAAGAGTAGTGAAGCA
1 AATCCAGCCTTCACAGAAGAGTAGTGAAGCA
59062 GGAACATATC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 30 0.33
71 60 0.67
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (71 bp):
AATCCAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAGCCTTCACGGAAGAGTAGTGAAGC
AATACA
Found at i:61490 original size:7 final size:7
Alignment explanation
Indices: 61478--61524 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
61468 AAAATAGCAC
61478 CGGTCAA
1 CGGTCAA
61485 CGGTCAA
1 CGGTCAA
61492 CGGTCAA
1 CGGTCAA
61499 CGGTCAA
1 CGGTCAA
61506 CGGTCAA
1 CGGTCAA
61513 CGGTCAA
1 CGGTCAA
61520 CGGTC
1 CGGTC
61525 GGGTCGGGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:61536 original size:17 final size:15
Alignment explanation
Indices: 61523--61594 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 15
61513 CGGTCAACGG
61523 TCGGGTCGGGTCAA-
1 TCGGGTCGGGTCAAC
*
61537 -CGGGTCGGGTTAA-
1 TCGGGTCGGGTCAAC
61550 -CGGGTCGGGTCAAC
1 TCGGGTCGGGTCAAC
61564 GGTCGGGTCGGGTCAAC
1 --TCGGGTCGGGTCAAC
61581 TATCGGGTCGGGTC
1 --TCGGGTCGGGTC
61595 GTGACCGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
13 24 0.48
17 26 0.52
ACGTcount: A:0.12, C:0.22, G:0.44, T:0.21
Consensus pattern (15 bp):
TCGGGTCGGGTCAAC
Found at i:61542 original size:13 final size:13
Alignment explanation
Indices: 61524--61572 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
61514 GGTCAACGGT
61524 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
61537 CGGGTCGGGTTAA
1 CGGGTCGGGTCAA
61550 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
61563 C-GGTCGGGTC
1 CGGGTCGGGTC
61573 GGGTCAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:68759 original size:7 final size:7
Alignment explanation
Indices: 68747--68793 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
68737 AAAATAGCAC
68747 CGGTCAA
1 CGGTCAA
68754 CGGTCAA
1 CGGTCAA
68761 CGGTCAA
1 CGGTCAA
68768 CGGTCAA
1 CGGTCAA
68775 CGGTCAA
1 CGGTCAA
68782 CGGTCAA
1 CGGTCAA
68789 CGGTC
1 CGGTC
68794 GGGTCGGGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:68805 original size:17 final size:15
Alignment explanation
Indices: 68792--68863 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 15
68782 CGGTCAACGG
68792 TCGGGTCGGGTCAA-
1 TCGGGTCGGGTCAAC
*
68806 -CGGGTCGGGTTAA-
1 TCGGGTCGGGTCAAC
68819 -CGGGTCGGGTCAAC
1 TCGGGTCGGGTCAAC
68833 GGTCGGGTCGGGTCAAC
1 --TCGGGTCGGGTCAAC
68850 TATCGGGTCGGGTC
1 --TCGGGTCGGGTC
68864 GTGACCGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
13 24 0.48
17 26 0.52
ACGTcount: A:0.12, C:0.22, G:0.44, T:0.21
Consensus pattern (15 bp):
TCGGGTCGGGTCAAC
Found at i:68811 original size:13 final size:13
Alignment explanation
Indices: 68793--68841 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
68783 GGTCAACGGT
68793 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
68806 CGGGTCGGGTTAA
1 CGGGTCGGGTCAA
68819 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
68832 C-GGTCGGGTC
1 CGGGTCGGGTC
68842 GGGTCAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:72856 original size:19 final size:20
Alignment explanation
Indices: 72826--72863 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
72816 ATTACTTCTA
72826 TTAAAAATAAATAAATAATT
1 TTAAAAATAAATAAATAATT
*
72846 TTAAAAA-AAATAATTAAT
1 TTAAAAATAAATAAATAAT
72864 ATTTTTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAAAATAAATAAATAATT
Found at i:72864 original size:22 final size:23
Alignment explanation
Indices: 72828--72871 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
72818 TACTTCTATT
72828 AAAAATAAATAAATAATTTTAAA
1 AAAAATAAATAAATAATTTTAAA
* *
72851 AAAAAT-AATTAATATTTTTAA
1 AAAAATAAATAAATAATTTTAA
72872 TCATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATAAATAAATAATTTTAAA
Found at i:77780 original size:60 final size:60
Alignment explanation
Indices: 77673--77847 Score: 171
Period size: 60 Copynumber: 2.9 Consensus size: 60
77663 GTATATACAT
* ** * * * * *
77673 ATAGTTT-GGGATGAAATTTGAATGTTCAAAAAGTTCAGAGACCAATTTAGAATGA-AGTTC
1 ATAGTTTAGAGATGAAATTAAAATGTT-TAAAAGTTTAGAGACTAATTTAAAATAATAG-TC
77733 ATAGTTTAGAGATGAAATTAAAATGTTTAAAAGTTT-GAGGACTAATTTAAAATAATAGTC
1 ATAGTTTAGAGATGAAATTAAAATGTTTAAAAGTTTAGA-GACTAATTTAAAATAATAGTC
* * *
77793 ATTA-TCTA-AGGATGAAATTAAAATATTTGAAAGTTTAGAGACTAATTTAAAATAA
1 A-TAGTTTAGA-GATGAAATTAAAATGTTTAAAAGTTTAGAGACTAATTTAAAATAA
77848 AAAACGTACT
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 3 0.03
60 73 0.74
61 22 0.22
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (60 bp):
ATAGTTTAGAGATGAAATTAAAATGTTTAAAAGTTTAGAGACTAATTTAAAATAATAGTC
Found at i:89173 original size:16 final size:16
Alignment explanation
Indices: 89154--89187 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89144 CAATATACGA
89154 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
89170 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
89186 AT
1 AT
89188 TTAATGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:89195 original size:17 final size:16
Alignment explanation
Indices: 89161--89197 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
89151 CGAATAAAAA
89161 TATATTTATATAAATG
1 TATATTTATATAAATG
*
89177 TATATTTATATTTAATG
1 TATATTTATA-TAAATG
89194 TATA
1 TATA
89198 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TATATTTATATAAATG
Found at i:89257 original size:16 final size:18
Alignment explanation
Indices: 89225--89258 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
89215 TATTAATGTA
89225 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
89243 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
89259 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:89920 original size:129 final size:128
Alignment explanation
Indices: 89719--89963 Score: 420
Period size: 129 Copynumber: 1.9 Consensus size: 128
89709 AATTTTCTTC
* *
89719 TAATTAGGTGGTGACATGTGTCACCAATAACATATCATGATCATGTGTTAACATATGTCAGATCC
1 TAATTAGGTGGTGACATGTGTCACCAATAACATATCATGATCATGTGCTAACACATGTCAGATCC
**
89784 TGGTTAAATGATTAATTTATTAAATT-TATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 TAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
*
89846 TAATTAGGTGGTGACATGTGTCACCAATGACACATGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAAT-A-ACATATCATGATCATGTGCTAACACATGTCAGAT
89911 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
64 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
89964 TATATAAATA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
127 28 0.25
128 1 0.01
129 57 0.52
130 24 0.22
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (128 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACATATCATGATCATGTGCTAACACATGTCAGATCC
TAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:90002 original size:129 final size:125
Alignment explanation
Indices: 89729--89992 Score: 340
Period size: 129 Copynumber: 2.1 Consensus size: 125
89719 TAATTAGGTG
* * * * **
89729 GTGACATGTGTCACCAAT-A-ACATATCATGATCATGTGTTAACATATGTCAGATCCTGGTTAAA
1 GTGACATGTATAACCAATGACACATATCATGATCATGTGCTAACACATGTCAGATCCTAATTAAA
* *
89792 TGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATAGCATATATAAATAATTAGGT
66 TGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT---ATATATAAATAATAAGAT
* * *
89855 GGTGACATGTGTCACCAATGACACATGTCATGATCATGTGCTAACACATGTCAGATCCTAATTAA
1 -GTGACATGTATAACCAATGACACATATCATGATCATGTGCTAACACATGTCAGATCCTAATTAA
89920 ATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT-TATATAAATAATAAAGAT
65 ATGATTAATTTATTAAATT-TATTTAATTTAGGACCAAATTGATATATATAAATAAT-AAGAT
89982 -TGA-ATGTATAA
1 GTGACATGTATAA
89993 TAATGCCAAT
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
124 6 0.05
125 3 0.02
126 12 0.10
127 21 0.17
128 1 0.01
129 57 0.46
130 24 0.19
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (125 bp):
GTGACATGTATAACCAATGACACATATCATGATCATGTGCTAACACATGTCAGATCCTAATTAAA
TGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATATATATAAATAATAAGAT
Found at i:90425 original size:33 final size:35
Alignment explanation
Indices: 90360--90433 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 35
90350 AATTGAATTT
*
90360 AATTGAATTATTTTGGAATTTAGGGTTGAGAATGA
1 AATTGAATTACTTTGGAATTTAGGGTTGAGAATGA
* *
90395 AATTGAATTACTTTGG-A-TTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAATTTAGGGTTGAGAATGA
90428 AATTGA
1 AATTGA
90434 GGACTGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
34 1 0.03
35 15 0.42
ACGTcount: A:0.34, C:0.01, G:0.26, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAATTTAGGGTTGAGAATGA
Found at i:92540 original size:33 final size:30
Alignment explanation
Indices: 92459--92544 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 30
92449 CTAAAATTCT
* *
92459 AGGACTAGATTTAAATAAATT-AAAATTAA
1 AGGACTAAATTAAAATAAATTAAAAATTAA
* *
92488 A-GACAAAATTAAAAGAAATTAATAAATATAA
1 AGGACTAAATTAAAATAAATTAA-AAAT-TAA
*
92519 AGGGACTAAATTGAAATAAATTAAAA
1 A-GGACTAAATTAAAATAAATTAAAA
92545 TGCAATGTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 15 0.33
29 2 0.04
30 4 0.09
31 4 0.09
32 2 0.04
33 18 0.40
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.26
Consensus pattern (30 bp):
AGGACTAAATTAAAATAAATTAAAAATTAA
Found at i:98194 original size:22 final size:22
Alignment explanation
Indices: 98166--98221 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
98156 GTTTCATCTT
98166 TAGAGTAGAGATAGAGATACTG
1 TAGAGTAGAGATAGAGATACTG
*
98188 TAGAGTATAGATAGAGATACTG
1 TAGAGTAGAGATAGAGATACTG
* *
98210 TATAGTTGAGAT
1 TAGAGTAGAGAT
98222 GAGGGCTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.29
Consensus pattern (22 bp):
TAGAGTAGAGATAGAGATACTG
Found at i:98379 original size:20 final size:19
Alignment explanation
Indices: 98353--98399 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
98343 AAATAGATGT
98353 TATTTTTAAAAAATTAAGTAC
1 TATTTTTAAAAAA-TAA-TAC
*
98374 TATTTTTATAAAAATAATAT
1 TATTTTTA-AAAAATAATAC
98394 TATTTT
1 TATTTT
98400 AATAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTTTAAAAAATAATAC
Found at i:98404 original size:20 final size:20
Alignment explanation
Indices: 98339--98404 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
98329 GTCTTATATG
*
98339 ATAAAAATAGATGTTATTTTTA
1 ATAAAAATA-ATATTA-TTTTA
* * *
98361 A-AAAATTAAGTACTATTTTT
1 ATAAAAATAA-TATTATTTTA
98381 ATAAAAATAATATTATTTTA
1 ATAAAAATAATATTATTTTA
98401 ATAA
1 ATAA
98405 TTTAACTGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 18 0.51
21 16 0.46
22 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAAAAATAATATTATTTTA
Found at i:99440 original size:2 final size:2
Alignment explanation
Indices: 99433--99665 Score: 104
Period size: 2 Copynumber: 119.5 Consensus size: 2
99423 ACACTATACT
99433 TA TA TA TA -A GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
99475 TA TA TA TA CA CA CA TA TA TA T- TA TA -A GTA TA TA CT- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
99516 AA TA TA -A TA TA TA -A AA CCA TA CA TA -A TA CT- TA TA -A GTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
* *
99554 TA TA -A TA CA -A GTA TA TG TA TA GT- TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * * *
99594 AA T- TA TT TA TA TA TA TG TG TG TA TA TA AA TA TA TA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
99635 TA AA GTA TA -A TA TA TA -A GTA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA T
99666 CATTAAACAT
Statistics
Matches: 183, Mismatches: 20, Indels: 56
0.71 0.08 0.22
Matches are distributed among these distances:
1 17 0.09
2 155 0.85
3 11 0.06
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:102129 original size:25 final size:25
Alignment explanation
Indices: 102101--102153 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
102091 CTCTGAAAAA
102101 GTTAGTTTAATATACATTTATAGAT
1 GTTAGTTTAATATACATTTATAGAT
102126 GTTAGTTTAATATACATTTATAGAT
1 GTTAGTTTAATATACATTTATAGAT
102151 GTT
1 GTT
102154 CTCCTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (25 bp):
GTTAGTTTAATATACATTTATAGAT
Found at i:103330 original size:23 final size:23
Alignment explanation
Indices: 103297--103354 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
103287 GAATCGACAA
103297 TCGGAACGGTTTGCAAAGAGGGG
1 TCGGAACGGTTTGCAAAGAGGGG
*
103320 TCGGAATGGTTTGCAAAGAGGGG
1 TCGGAACGGTTTGCAAAGAGGGG
103343 TCGGAACGGTTT
1 TCGGAACGGTTT
103355 TGTGTTTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.22
Consensus pattern (23 bp):
TCGGAACGGTTTGCAAAGAGGGG
Found at i:103820 original size:20 final size:22
Alignment explanation
Indices: 103795--103834 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
103785 TGTTGTATAT
103795 AGCCG-TTGGGGATG-TTTTGA
1 AGCCGTTTGGGGATGATTTTGA
103815 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
103835 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGA
Found at i:103889 original size:21 final size:21
Alignment explanation
Indices: 103863--103904 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
103853 CTACGATATG
103863 GGGTATCGATACCCCTTCATA
1 GGGTATCGATACCCCTTCATA
*
103884 GGGTATCGATACTCCTTCATA
1 GGGTATCGATACCCCTTCATA
103905 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
GGGTATCGATACCCCTTCATA
Found at i:104137 original size:29 final size:31
Alignment explanation
Indices: 104105--104163 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
104095 AAACTTTGAA
104105 TAAATTTAATT-AAGTCCAAAAA-CATTTTT
1 TAAATTTAATTCAAGTCCAAAAACCATTTTT
104134 TAAATTTAATTCAAGTCCAAAAACCATTTT
1 TAAATTTAATTCAAGTCCAAAAACCATTTT
104164 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATTTAATTCAAGTCCAAAAACCATTTTT
Found at i:104329 original size:19 final size:19
Alignment explanation
Indices: 104275--104330 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
104265 TGTTTAATGA
104275 AAAAGATACCAATTGTTAC
1 AAAAGATACCAATTGTTAC
*
104294 AAAAGGATACTAATTGTTA-
1 AAAA-GATACCAATTGTTAC
*
104313 AGAAGATAACCAATTGTT
1 AAAAGAT-ACCAATTGTT
104331 GGAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 13 0.41
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (19 bp):
AAAAGATACCAATTGTTAC
Found at i:107293 original size:20 final size:22
Alignment explanation
Indices: 107268--107307 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
107258 TGTTGTATAT
107268 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
107288 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
107308 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:107362 original size:21 final size:21
Alignment explanation
Indices: 107336--107377 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
107326 CTACGATATG
*
107336 GGGTATCGGTACCCCTTCATA
1 GGGTATCAGTACCCCTTCATA
*
107357 GGGTATCAGTACTCCTTCATA
1 GGGTATCAGTACCCCTTCATA
107378 AAATCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (21 bp):
GGGTATCAGTACCCCTTCATA
Found at i:107610 original size:28 final size:30
Alignment explanation
Indices: 107579--107636 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
107569 AAACTTTGAA
107579 TAAATTCAATT-AAGT-CAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACATTTTG
* *
107607 TAAATTTAATTCAAGTCCAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACATTTTG
107637 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.38
29 4 0.15
30 12 0.46
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAAAACATTTTG
Found at i:107629 original size:29 final size:29
Alignment explanation
Indices: 107579--107636 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
107569 AAACTTTGAA
107579 TAAATTCAATTAAGTCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCAAAAACCATTTTG
* *
107607 TAAATTTAATTCAAGTCCAAAACCATTTTG
1 TAAATTCAATT-AAGTCAAAAACCATTTTG
107637 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.38
29 9 0.35
30 7 0.27
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTCAATTAAGTCAAAAACCATTTTG
Found at i:112212 original size:3 final size:3
Alignment explanation
Indices: 112204--112232 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
112194 GTCACACCCA
112204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
112233 AACAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:115239 original size:42 final size:41
Alignment explanation
Indices: 115187--115336 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 41
115177 GGTTAAACAA
115187 TAGCGGCGTTTATAGTAAAAACGCCACAATAGAGTAG-ACATT
1 TAGCGGCGTTTATAGTAAAAACGCCACAATAGAGT-GTA-ATT
* * *
115229 TAGCGGCGTTT-TAGCT-AAAACGCCGCAATATAGTGTTAATG
1 TAGCGGCGTTTATAG-TAAAAACGCCACAATAGAGTG-TAATT
* ** * * *
115270 TAGTGGCGTTTATACCACAAACGCCATAATAGAGTGGTAAAT
1 TAGCGGCGTTTATAGTAAAAACGCCACAATAGAGT-GTAATT
* * *
115312 TAGCGGCGTTTTTTGTATAAACGCC
1 TAGCGGCGTTTATAGTAAAAACGCC
115337 GCAAAAAACA
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 31 0.37
42 51 0.61
43 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTATAGTAAAAACGCCACAATAGAGTGTAATT
Found at i:116785 original size:41 final size:41
Alignment explanation
Indices: 116739--116833 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
116729 ATATTTGTAT
* * *
116739 TTTAGTGACGTTTGTATGAAAACGCCGCTATAGACTTATAC
1 TTTAGTGGCGTTTGTATGAAAACGCCACTATAGACTCATAC
* * *
116780 TTTAGTGGCGTTCGTATGAAAATGCCACTATAGACTCGTAC
1 TTTAGTGGCGTTTGTATGAAAACGCCACTATAGACTCATAC
116821 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
116834 TTGTTAAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTATGAAAACGCCACTATAGACTCATAC
Found at i:116919 original size:43 final size:42
Alignment explanation
Indices: 116850--116933 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 42
116840 AAACGCTATA
* * *
116850 ATAGTAATGTAATTTAGTGGCATTTTTAGTAATAAATGCCGCC
1 ATAGTAATGTAATTTAGCGGCATTTTTAAT-ATAAACGCCGCC
* *
116893 ATAGTCATGTACA-TTAGCGGCGTTTTTAATATAAACGCCGC
1 ATAGTAATGTA-ATTTAGCGGCATTTTTAATATAAACGCCGC
116934 GATTGTCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 10 0.29
43 24 0.69
44 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (42 bp):
ATAGTAATGTAATTTAGCGGCATTTTTAATATAAACGCCGCC
Found at i:124748 original size:21 final size:21
Alignment explanation
Indices: 124724--124847 Score: 160
Period size: 21 Copynumber: 5.9 Consensus size: 21
124714 ATGAAACAAG
* *
124724 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCACAGAGAGAAGCAGC
* * *
124745 GGAAGCAGAGAAAGAAGCAAC
1 GGAAGCACAGAGAGAAGCAGC
124766 GGCAA-CACAGAGAGAAGCAGC
1 GG-AAGCACAGAGAGAAGCAGC
*
124787 GGTAGCACAGAGAGAAGCAGC
1 GGAAGCACAGAGAGAAGCAGC
*
124808 GGCAGCACAGAGAGAAGCAGC
1 GGAAGCACAGAGAGAAGCAGC
*
124829 GGCAGCACAGAGAGAAGCA
1 GGAAGCACAGAGAGAAGCA
124848 ACATATCAGT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
20 1 0.01
21 90 0.97
22 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.37, T:0.01
Consensus pattern (21 bp):
GGAAGCACAGAGAGAAGCAGC
Found at i:124832 original size:63 final size:63
Alignment explanation
Indices: 124727--124847 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
124717 AAACAAGGGA
* * *
124727 AGCAGAGAGAGCAGCAGCGGAAGCAGAGAAAGAAGCAACGGCAACACAGAGAGAAGCAGCGGT
1 AGCACAGAGAGAAGCAGCGGAAGCACAGAAAGAAGCAACGGCAACACAGAGAGAAGCAGCGGT
* * * *
124790 AGCACAGAGAGAAGCAGCGGCAGCACAGAGAGAAGCAGCGGCAGCACAGAGAGAAGCA
1 AGCACAGAGAGAAGCAGCGGAAGCACAGAAAGAAGCAACGGCAACACAGAGAGAAGCA
124848 ACATATCAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.42, C:0.21, G:0.36, T:0.01
Consensus pattern (63 bp):
AGCACAGAGAGAAGCAGCGGAAGCACAGAAAGAAGCAACGGCAACACAGAGAGAAGCAGCGGT
Found at i:125507 original size:43 final size:42
Alignment explanation
Indices: 125384--125511 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
125374 TACTACGACA
* * *
125384 TTTGTGGGAGAAACGCCGCTAAACATC--ATCATATTGCGGCA
1 TTTGTGGGA-AAACGCCGCTAAACATCAAAACCTATTGCGGCG
* * * * * * *
125425 TTTTTTGAAAAACGCCGCAAAATATCAACA-CTACTGCGGCG
1 TTTGTGGGAAAACGCCGCTAAACATCAAAACCTATTGCGGCG
125466 TTTGTAGGGAAAACGCCGCTAAACATCAAAACCTATTGCGGCG
1 TTTGT-GGGAAAACGCCGCTAAACATCAAAACCTATTGCGGCG
125509 TTT
1 TTT
125512 TTTTAACAAA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
40 15 0.23
41 18 0.27
42 20 0.30
43 13 0.20
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
TTTGTGGGAAAACGCCGCTAAACATCAAAACCTATTGCGGCG
Found at i:125715 original size:45 final size:45
Alignment explanation
Indices: 125647--125834 Score: 277
Period size: 45 Copynumber: 4.2 Consensus size: 45
125637 TGCTGTAGTG
** *
125647 TATGCATTTCAATTATGGTATCCTTTCATGCCGATAATGCACCCA
1 TATGCATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCA
* * *
125692 TATGCATTTCAGTTATGACATCCTTTTATGCCAACAATGCACCCA
1 TATGCATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCA
* *
125737 TATGCATTTCAATTATGGCATCCTTTCATGCTAATAATGCACCCA
1 TATGCATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCA
** *
125782 TATATATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCT
1 TATGCATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCA
125827 TATGCATT
1 TATGCATT
125835 ATTTTATTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (45 bp):
TATGCATTTCAATTATGACATCCTTTCATGCCAATAATGCACCCA
Found at i:130620 original size:19 final size:20
Alignment explanation
Indices: 130598--130639 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
130588 ACCCAATTCA
*
130598 AATTTTTAAAATAAAG-TTG
1 AATTTATAAAATAAAGTTTG
*
130617 AA-TTATAAAATAAGGTTTG
1 AATTTATAAAATAAAGTTTG
130636 AATT
1 AATT
130640 ATTCAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 11 0.58
19 7 0.37
20 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AATTTATAAAATAAAGTTTG
Found at i:130627 original size:18 final size:19
Alignment explanation
Indices: 130604--130641 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
130594 TTCAAATTTT
130604 TAAAATAAAG-TTGAATTA
1 TAAAATAAAGTTTGAATTA
*
130622 TAAAATAAGGTTTGAATTA
1 TAAAATAAAGTTTGAATTA
130641 T
1 T
130642 TCAAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (19 bp):
TAAAATAAAGTTTGAATTA
Found at i:137273 original size:23 final size:22
Alignment explanation
Indices: 137229--137274 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
137219 TATTCGTGAA
* * *
137229 ACAATATGTATATGTATGATAT
1 ACAAAATGTATAAGTATAATAT
137251 ACAAAATGTAATAAGTATAATAT
1 ACAAAATGT-ATAAGTATAATAT
137274 A
1 A
137275 TATATTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (22 bp):
ACAAAATGTATAAGTATAATAT
Found at i:138783 original size:30 final size:29
Alignment explanation
Indices: 138746--138810 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
138736 ACATATTGTC
138746 AAAAAAAATATAACTAACTTCCCTTAAAATT
1 AAAAAAAA-ATAA-TAACTTCCCTTAAAATT
* * *
138777 AAAAAAAAATCATTACTTCCCTTAATATT
1 AAAAAAAAATAATAACTTCCCTTAAAATT
*
138806 TAAAA
1 AAAAA
138811 TAGATGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 19 0.63
30 3 0.10
31 8 0.27
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAAAAAATAATAACTTCCCTTAAAATT
Found at i:143469 original size:2 final size:2
Alignment explanation
Indices: 143462--143490 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
143452 CAATTTGTGA
143462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
143491 ATTTAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:147363 original size:20 final size:21
Alignment explanation
Indices: 147337--147390 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
147327 AAAGCGTTAC
147337 CGATTTTGTTATTTTT-CTA-
1 CGATTTTGTTATTTTTCCTAT
147356 CTGATTTTGTTATTTTTCCTAT
1 C-GATTTTGTTATTTTTCCTAT
147378 CGATTTTGTTATT
1 CGATTTTGTTATT
147391 ATTAACACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.03
20 15 0.47
21 15 0.47
22 1 0.03
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (21 bp):
CGATTTTGTTATTTTTCCTAT
Found at i:147439 original size:21 final size:21
Alignment explanation
Indices: 147415--147458 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
147405 AGAAATATTA
*
147415 AAAAACATTAATGTTTTAAGT
1 AAAAACAATAATGTTTTAAGT
* *
147436 AAAAATAATAATGTTTTAGGT
1 AAAAACAATAATGTTTTAAGT
147457 AA
1 AA
147459 TTTTTACCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (21 bp):
AAAAACAATAATGTTTTAAGT
Found at i:148085 original size:21 final size:21
Alignment explanation
Indices: 147949--148085 Score: 95
Period size: 20 Copynumber: 6.8 Consensus size: 21
147939 AAATGACCAA
* *
147949 CAAATTCGCAACACGATCTT-
1 CAAATTCGCAACGCGATTTTC
**
147969 -AAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGCGATTTTC
* *
147988 CAAATTCGCAAC-CCAATTTC
1 CAAATTCGCAACGCGATTTTC
* * *
148008 CAAATTCGCAACGCGAATATG
1 CAAATTCGCAACGCGATTTTC
* ***
148029 TAAATT-GCATTTCGATTTTC
1 CAAATTCGCAACGCGATTTTC
***
148049 CAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
148070 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
148086 ATCTGTAAAT
Statistics
Matches: 90, Mismatches: 22, Indels: 9
0.74 0.18 0.07
Matches are distributed among these distances:
18 1 0.01
19 16 0.18
20 38 0.42
21 35 0.39
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:148100 original size:20 final size:20
Alignment explanation
Indices: 148075--148121 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
148065 TTTTCCAAAT
148075 TCGCAACGCGAA-TCTGTAAA
1 TCGCAACGC-AACTCTGTAAA
* *
148095 TCGCAACGCAACTTTGTAAT
1 TCGCAACGCAACTCTGTAAA
148115 TCGCAAC
1 TCGCAAC
148122 ACAAAAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (20 bp):
TCGCAACGCAACTCTGTAAA
Found at i:148135 original size:20 final size:20
Alignment explanation
Indices: 148112--148280 Score: 161
Period size: 20 Copynumber: 8.8 Consensus size: 20
148102 GCAACTTTGT
148112 AATTCGCAACACAAAAGTCA
1 AATTCGCAACACAAAAGTCA
*
148132 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAAAAGTCA
*
148152 AATTCGCAACACATAAGTCA
1 AATTCGCAACACAAAAGTCA
* * *
148172 AATTCGCAACCCGATAGTCA
1 AATTCGCAACACAAAAGTCA
* *
148192 AATTTGCAACAC-----T-G
1 AATTCGCAACACAAAAGTCA
148206 AATTCGCAACACAAAAGTCA
1 AATTCGCAACACAAAAGTCA
* * *
148226 AATTCACAACGCGAAAGTCA
1 AATTCGCAACACAAAAGTCA
* * * *
148246 AATTCGCAACGCGATAGTCG
1 AATTCGCAACACAAAAGTCA
*
148266 AATTCGCAACGCAAA
1 AATTCGCAACACAAA
148281 TTTTATTTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
14 11 0.09
15 1 0.01
19 1 0.01
20 111 0.90
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (20 bp):
AATTCGCAACACAAAAGTCA
Found at i:148215 original size:54 final size:54
Alignment explanation
Indices: 148152--148255 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
148142 ACAGAAGTCA
* * * *
148152 AATTCGCAACACATAAGTCAAATTCGCAACCCGATAGTCAAATTTGCAACACTG
1 AATTCGCAACACAAAAGTCAAATTCACAACCCGAAAGTCAAATTCGCAACACTG
*
148206 AATTCGCAACACAAAAGTCAAATTCACAACGCGAAAGTCAAATTCGCAAC
1 AATTCGCAACACAAAAGTCAAATTCACAACCCGAAAGTCAAATTCGCAAC
148256 GCGATAGTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.19
Consensus pattern (54 bp):
AATTCGCAACACAAAAGTCAAATTCACAACCCGAAAGTCAAATTCGCAACACTG
Found at i:148244 original size:74 final size:74
Alignment explanation
Indices: 148132--148275 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 74
148122 ACAAAAGTCA
* * *
148132 AATTCGCAACACAGAAGTCAAATTCGCAACACATAAGTCAAATTCGCAACCCGATAGTCAAATTT
1 AATTCGCAACACAAAAGTCAAATTCACAACACATAAGTCAAATTCGCAACCCGATAGTCAAATTC
148197 GCAACACTG
66 GCAACACTG
* * *
148206 AATTCGCAACACAAAAGTCAAATTCACAACGCGA-AAGTCAAATTCGCAACGCGATAGTCGAATT
1 AATTCGCAACACAAAAGTCAAATTCACAACAC-ATAAGTCAAATTCGCAACCCGATAGTCAAATT
148270 CGCAAC
65 CGCAAC
148276 GCAAATTTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 62 0.98
75 1 0.02
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.19
Consensus pattern (74 bp):
AATTCGCAACACAAAAGTCAAATTCACAACACATAAGTCAAATTCGCAACCCGATAGTCAAATTC
GCAACACTG
Found at i:150535 original size:42 final size:42
Alignment explanation
Indices: 150486--150595 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
150476 AGGCGGCTTT
*
150486 GCGTCATGAGGTCGGTACTTTACGTGAAGATAATGGTGCATG
1 GCGTCATGAGGTCGGTACTTTACGTGAAGATAATGGTACATG
*
150528 GCGTCATGAGGTCAGTACTTTACGTGAAGATAATGGTACATG
1 GCGTCATGAGGTCGGTACTTTACGTGAAGATAATGGTACATG
* *
150570 GCATGATGAGGTACGGT-CTTTACGTG
1 GCGTCATGAGGT-CGGTACTTTACGTG
150596 GTGAGGTGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 59 0.95
43 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.29
Consensus pattern (42 bp):
GCGTCATGAGGTCGGTACTTTACGTGAAGATAATGGTACATG
Found at i:150963 original size:21 final size:20
Alignment explanation
Indices: 150937--151052 Score: 90
Period size: 21 Copynumber: 5.6 Consensus size: 20
150927 TTCACCTGTC
150937 ATCGTTCAAGAGGTGCCTCCT
1 ATCGTTCAAGAGGT-CCTCCT
* *
150958 ATCGTTCAAGAGGCTCTTCTT
1 ATCGTTCAAGAGG-TCCTCCT
* *
150979 ATCGTTCAAGAGGCCCTCCC
1 ATCGTTCAAGAGGTCCTCCT
* * **
150999 ACCGTTCAAGAGGCCCATGTT
1 ATCGTTCAAGAGGTCC-TCCT
*
151020 ATCGTTCAATG-GGTCCCTCCC
1 ATCGTTCAA-GAGGT-CCTCCT
*
151041 ACCGTTCAAGAG
1 ATCGTTCAAGAG
151053 CCCAATTCAC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
20 19 0.26
21 51 0.69
22 4 0.05
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.27
Consensus pattern (20 bp):
ATCGTTCAAGAGGTCCTCCT
Found at i:151051 original size:42 final size:42
Alignment explanation
Indices: 150937--151056 Score: 156
Period size: 41 Copynumber: 2.9 Consensus size: 42
150927 TTCACCTGTC
* * * * *
150937 ATCGTTCAAGAGGTGCCTCCTATCGTTCAAGAGGCTCTTCTT
1 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCATCTT
*
150979 ATCGTTCAAGAGG-CCCTCCCACCGTTCAAGAGGCCCATGTT
1 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCATCTT
151020 ATCGTTCAATG-GGTCCCTCCCACCGTTCAAGA-GCCCA
1 ATCGTTCAA-GAGGTCCCTCCCACCGTTCAAGAGGCCCA
151057 ATTCACAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
41 38 0.54
42 32 0.46
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (42 bp):
ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCATCTT
Found at i:152507 original size:64 final size:65
Alignment explanation
Indices: 152374--152547 Score: 221
Period size: 64 Copynumber: 2.6 Consensus size: 65
152364 TGGGGTACAT
152374 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAGGAAATAA
152438 GAATTA
60 GAATTA
* *
152444 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAA-AATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
152507 A
65 A
* *
152508 TTTTTTTGTTTGTTTAATT-ATTTGTAAAAGTTAATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
152548 GTTTTAAATT
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
64 42 0.43
65 30 0.31
67 1 0.01
68 4 0.04
69 20 0.21
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:152649 original size:40 final size:39
Alignment explanation
Indices: 152601--152688 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 39
152591 GTTGAAGGTA
*
152601 CAAATTCGCAACTCAAAAGGT-AAATTCACAACGCGAAAGT
1 CAAATTCGCAACACAAAA-GTCAAATT-ACAACGCGAAAGT
* *
152641 TAAATTCGCAACACGAAAGTCAAATTACAACGCGAAAGT
1 CAAATTCGCAACACAAAAGTCAAATTACAACGCGAAAGT
152680 CAAATTCGC
1 CAAATTCGC
152689 GTTGCGATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 23 0.53
40 20 0.47
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (39 bp):
CAAATTCGCAACACAAAAGTCAAATTACAACGCGAAAGT
Found at i:152657 original size:20 final size:20
Alignment explanation
Indices: 152601--152737 Score: 143
Period size: 20 Copynumber: 6.9 Consensus size: 20
152591 GTTGAAGGTA
* *
152601 CAAATTCGCAACTCAAAAGGT
1 CAAATTCGCAACGCGAAA-GT
*
152622 -AAATTCACAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
152641 TAAATTCGCAACACGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
152661 CAAATT-ACAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*** *
152680 CAAATTCGCGTTGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
152700 CAAATTCGCAACGCGAATGT
1 CAAATTCGCAACGCGAAAGT
*
152720 CAAATTTGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
152738 TAAGCGTTGC
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
19 19 0.20
20 75 0.80
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:152759 original size:54 final size:56
Alignment explanation
Indices: 152633--152766 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 56
152623 AATTCACAAC
* * *
152633 GCGAAAGTTAAATTCGCAACACGAAAGTCAAATTACAACGCGAAAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCAACGCGAAAGTCAAATTACAACGCGAAAGT-AAA-T-GCGTT
* *
152692 GCGATAGTCAAATTCGCAACGCGAATGTCAAATTTGCAACGCGAAA-T-AA-GCGTT
1 GCGATAGTCAAATTCGCAACGCGAAAGTCAAA-TTACAACGCGAAAGTAAATGCGTT
152746 GCGATAGTCAAATTCGCAACG
1 GCGATAGTCAAATTCGCAACG
152767 TGATTTTCAG
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
54 26 0.38
57 2 0.03
59 29 0.42
60 12 0.17
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (56 bp):
GCGATAGTCAAATTCGCAACGCGAAAGTCAAATTACAACGCGAAAGTAAATGCGTT
Found at i:155355 original size:24 final size:24
Alignment explanation
Indices: 155304--155355 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
155294 ATCTGAGTAT
** *
155304 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
155328 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
155352 TGAC
1 TGAC
155356 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:155488 original size:12 final size:12
Alignment explanation
Indices: 155467--155500 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
155457 GGTTGTGGGT
*
155467 TTTGAGATTGTG
1 TTTGATATTGTG
155479 TTTGATATTGTG
1 TTTGATATTGTG
*
155491 TTTGGTATTG
1 TTTGATATTG
155501 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:156131 original size:14 final size:15
Alignment explanation
Indices: 156095--156132 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
156085 GAAATCATTG
156095 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
156110 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
156125 AAAAATTA
1 AAAAATTA
156133 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:156313 original size:20 final size:19
Alignment explanation
Indices: 156288--156336 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
156278 ACTAAAACCT
156288 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATC-A
* *
156308 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTCGAAAATCA
156327 GTTGCGAATT
1 GTTGCGAATT
156337 TAAAATTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (19 bp):
GTTGCGAATTCGAAAATCA
Found at i:156329 original size:19 final size:19
Alignment explanation
Indices: 156288--156347 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
156278 ACTAAAACCT
* *
156288 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-A
156308 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
156327 GTTGCGAATTTAAAATTCA
1 GTTGCGAATTTGAAATTCA
156346 GT
1 GT
156348 GTTGCGTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:156373 original size:20 final size:20
Alignment explanation
Indices: 156348--156539 Score: 123
Period size: 20 Copynumber: 9.6 Consensus size: 20
156338 AAAATTCAGT
*
156348 GTTGCGTATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
156368 GTTGCGAATTTGACTTAT-GT
1 GTTGCGAATTTGAC-TATCGC
*
156388 GTTGCG-ATTT-ACAAATTCGC
1 GTTGCGAATTTGAC-TA-TCGC
* *
156408 ATTGCG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGAC-TA-TCGC
* * *
156428 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGC
* *
156448 GTTGCGAATATGACT-TCAGT
1 GTTGCGAATTTGACTATC-GC
*
156468 GTTGCGAATTTCACTATCGC
1 GTTGCGAATTTGACTATCGC
*
156488 GTTGCGAATTTGACT-TCAGT
1 GTTGCGAATTTGACTATC-GC
*
156508 GTTTCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGAC-TA-TCGC
156528 GTTGCGAATTTG
1 GTTGCGAATTTG
156540 GAAACTAGGT
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
18 5 0.04
19 13 0.09
20 102 0.74
21 15 0.11
22 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:156373 original size:60 final size:58
Alignment explanation
Indices: 156303--156500 Score: 186
Period size: 60 Copynumber: 3.3 Consensus size: 58
156293 GAATTCGAAA
* * **
156303 ATCGAGTTGCGAATTTGAAATTCAGTTGCGAATTTAAAATTCAGTGTTGCGTATTTGACT
1 ATCGCGTTGCGAATTTGAATTTGTGTTGCGAATTTAAAATTCAGTGTTGCG-ATTT-ACT
* ** *
156363 ATCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTTACAAATTC-GCATTGCGATTTACAG
1 ATCGCGTTGCGAATTTGAATT-TGTGTTGCGAATTTA-AAATTCAGTGTTGCGATTTAC-T
* * * *
156422 ATTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATAT-GACTTCAGTGTTGCGAATTTCACT
1 A-TCGCGTTGCGAATTTGA-ATTTGTGTTGCGAATTTAAAATTCAGTGTTGCG-ATTT-ACT
156483 ATCGCGTTGCGAATTTGA
1 ATCGCGTTGCGAATTTGA
156501 CTTCAGTGTT
Statistics
Matches: 114, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
58 2 0.02
59 9 0.08
60 78 0.68
61 23 0.20
62 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (58 bp):
ATCGCGTTGCGAATTTGAATTTGTGTTGCGAATTTAAAATTCAGTGTTGCGATTTACT
Found at i:156390 original size:40 final size:38
Alignment explanation
Indices: 156327--156539 Score: 173
Period size: 40 Copynumber: 5.3 Consensus size: 38
156317 TTGAAATTCA
* *
156327 GTTGCGAATTTAAAATTCAGTGTTGCGTATTTGACTATCGC
1 GTTGCGAATTT-GACTTCAGTGTTGCG-ATTT-ACTATCGC
*
156368 GTTGCGAATTTGACTT-ATGTGTTGCGATTTACAAATTCGC
1 GTTGCGAATTTGACTTCA-GTGTTGCGATTTAC-TA-TCGC
* * * * *
156408 ATTGCG-ATTT-ACAGATTC-GCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAC---TTCAGTGTTGCG-ATTT-ACTATCGC
*
156448 GTTGCGAATATGACTTCAGTGTTGCGAATTTCACTATCGC
1 GTTGCGAATTTGACTTCAGTGTTGCG-ATTT-ACTATCGC
*
156488 GTTGCGAATTTGACTTCAGTGTTTCGATTTACATATTCGC
1 GTTGCGAATTTGACTTCAGTGTTGCGATTTAC-TA-TCGC
156528 GTTGCGAATTTG
1 GTTGCGAATTTG
156540 GAAACTAGGT
Statistics
Matches: 140, Mismatches: 18, Indels: 29
0.75 0.10 0.16
Matches are distributed among these distances:
38 6 0.04
39 19 0.14
40 91 0.65
41 20 0.14
42 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.40
Consensus pattern (38 bp):
GTTGCGAATTTGACTTCAGTGTTGCGATTTACTATCGC
Found at i:156501 original size:60 final size:59
Alignment explanation
Indices: 156339--156534 Score: 193
Period size: 60 Copynumber: 3.3 Consensus size: 59
156329 TGCGAATTTA
*
156339 AAATTCAGTGTTGCGTATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTAC
1 AAATTCAGTGTTGCG-ATTT-ACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATATAC
** * * *
156400 AAATTC-GCATTGCGATTTACAGATTCGCGTTGCGAATTTGACTTTTGTGTTGCGA-ATAT
1 AAATTCAGTGTTGCGATTTAC-TA-TCGCGTTGCGAATTTGACTTATGTGTTGCGATATAC
* * * *
156459 GACTTCAGTGTTGCGAATTTCACTATCGCGTTGCGAATTTGACTTCA-GTGTTTCGATTTAC
1 AAATTCAGTGTTGCG-ATTT-ACTATCGCGTTGCGAATTTGACTT-ATGTGTTGCGATATAC
* *
156520 ATATTC-GCGTTGCGA
1 AAATTCAGTGTTGCGA
156535 ATTTGGAAAC
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
58 2 0.02
59 12 0.11
60 77 0.71
61 16 0.15
62 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (59 bp):
AAATTCAGTGTTGCGATTTACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATATAC
Found at i:158722 original size:17 final size:18
Alignment explanation
Indices: 158685--158724 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
158675 TAATAGTGCG
*
158685 TTATTATAAAATATGTTT
1 TTATTATAAAATATATTT
*
158703 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
158720 TTATT
1 TTATT
158725 TCTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:177980 original size:48 final size:48
Alignment explanation
Indices: 177928--178039 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
177918 ACCTCACCAT
* * * * *
177928 CTTGTTCACTAAGCTCCACATGACATTGTTTACTGGACTCTCCATCAC
1 CTTGTCCACTGAGCTCCACATGACATTGCTCACTGAACTCTCCATCAC
* *** *
177976 CTTGTCCACTGAGTTGTTCATGACTTTGCTCACTGAACTCTCCATCAC
1 CTTGTCCACTGAGCTCCACATGACATTGCTCACTGAACTCTCCATCAC
178024 CTTGTCCACTGAGCTC
1 CTTGTCCACTGAGCTC
178040 ACCATTGGAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (48 bp):
CTTGTCCACTGAGCTCCACATGACATTGCTCACTGAACTCTCCATCAC
Found at i:178044 original size:24 final size:24
Alignment explanation
Indices: 177965--178044 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
177955 GTTTACTGGA
177965 CTCTCCATCACCTTGTCCACTGAG
1 CTCTCCATCACCTTGTCCACTGAG
* * * * * *
177989 TTGTTCATGACTTTG-CTCACTGAA
1 CTCTCCATCACCTTGTC-CACTGAG
178013 CTCTCCATCACCTTGTCCACTGAG
1 CTCTCCATCACCTTGTCCACTGAG
*
178037 CTCACCAT
1 CTCTCCAT
178045 TGGAATGTCC
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.12, T:0.33
Consensus pattern (24 bp):
CTCTCCATCACCTTGTCCACTGAG
Found at i:180154 original size:23 final size:25
Alignment explanation
Indices: 180117--180162 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
180107 ATAACTGCCT
180117 AACCACTCAGCTATAACA-ACTAAC
1 AACCACTCAGCTATAACAGACTAAC
*
180141 AACCA-TCAGTTATAACAGACTA
1 AACCACTCAGCTATAACAGACTA
180163 TAACTGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.20
Consensus pattern (25 bp):
AACCACTCAGCTATAACAGACTAAC
Found at i:185361 original size:18 final size:17
Alignment explanation
Indices: 185328--185361 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
185318 TTCTAAACTT
*
185328 TTAATTTTTTTTAAATA
1 TTAATTTTTTTAAAATA
185345 TTAATTTTTTTCAAAAT
1 TTAATTTTTTT-AAAAT
185362 CATACCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATTTTTTTAAAATA
Found at i:188089 original size:157 final size:157
Alignment explanation
Indices: 187790--188075 Score: 545
Period size: 157 Copynumber: 1.8 Consensus size: 157
187780 CTTAAAAGTT
187790 TAGAATGAAGGATATCATAAAGTTAATATAATTTTTTACACTAGTTCACAATAACTTCTAAAAGA
1 TAGAATGAAGGATATCATAAAGTTAATATAATTTTTTACACTAGTTCACAATAACTTCTAAAAGA
187855 TGCAATTCCATTCAGAGAACCCAATATAAGCTTAAAAATCATGTATTTAAAGTCAAAAACTCACT
66 TGCAATTCCATTCAGAGAACCCAATATAAGCTTAAAAATCATGTATTTAAAGTCAAAAACTCACT
* * *
187920 AGGCATGCATGAAATAGCTTCATATGG
131 AAGAATGAATGAAATAGCTTCATATGG
187947 TAGAATGAAGGATATCATAAAGTTAATATAATTTTTTACACTAGTTCACAATAACTTCTAAAAGA
1 TAGAATGAAGGATATCATAAAGTTAATATAATTTTTTACACTAGTTCACAATAACTTCTAAAAGA
188012 TGCAATTCCATTCAGAGAACCCAATATAAGCTTAAAAATCATGTATTTAAAGTCAAAAACTCAC
66 TGCAATTCCATTCAGAGAACCCAATATAAGCTTAAAAATCATGTATTTAAAGTCAAAAACTCAC
188076 ACCAGAATAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 129 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (157 bp):
TAGAATGAAGGATATCATAAAGTTAATATAATTTTTTACACTAGTTCACAATAACTTCTAAAAGA
TGCAATTCCATTCAGAGAACCCAATATAAGCTTAAAAATCATGTATTTAAAGTCAAAAACTCACT
AAGAATGAATGAAATAGCTTCATATGG
Found at i:189160 original size:25 final size:25
Alignment explanation
Indices: 189126--189184 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
189116 TTTGAAACAA
189126 ATCCTTCTCGCTTAGAAGCAGCTAT
1 ATCCTTCTCGCTTAGAAGCAGCTAT
*
189151 ATCCTTCTCGCTTAGCAGCAGCTAT
1 ATCCTTCTCGCTTAGAAGCAGCTAT
189176 ATCCTTCTC
1 ATCCTTCTC
189185 AATGGTTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (25 bp):
ATCCTTCTCGCTTAGAAGCAGCTAT
Found at i:191983 original size:20 final size:20
Alignment explanation
Indices: 191919--191988 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
191909 AAATTTTTTT
* *
191919 TATGAATAGTATTG-TACTG
1 TATGAACAGTATCGATACTG
* * *
191938 TATGAATAATATCGATACTA
1 TATGAACAGTATCGATACTG
191958 TATGAACAGTATCGATACTG
1 TATGAACAGTATCGATACTG
*
191978 TGTGAACAGTA
1 TATGAACAGTA
191989 ATGAACAGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGAACAGTATCGATACTG
Found at i:196606 original size:35 final size:35
Alignment explanation
Indices: 196566--196634 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
196556 TTCATTTTCA
196566 AAATTTCAAAACACGTCAATTACATTATAAACCCC
1 AAATTTCAAAACACGTCAATTACATTATAAACCCC
* * * * *
196601 AAATTTCAAAATACTTTAATTATATTCTAAACCC
1 AAATTTCAAAACACGTCAATTACATTATAAACCC
196635 TAAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (35 bp):
AAATTTCAAAACACGTCAATTACATTATAAACCCC
Found at i:196685 original size:35 final size:35
Alignment explanation
Indices: 196637--196713 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
196627 CTAAACCCTA
* *
196637 AAATTAAAGTATTTTAAAATTTAGGGTTTAAAATG
1 AAATTGAATTATTTTAAAATTTAGGGTTTAAAATG
* ** *
196672 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAAAATTTAGGGTTTAAAATG
196707 AAATTGA
1 AAATTGA
196714 GGATCGTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTAAAATTTAGGGTTTAAAATG
Found at i:197576 original size:20 final size:20
Alignment explanation
Indices: 197551--197593 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
197541 TATAAAAGCC
*
197551 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
197571 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
197591 CAT
1 CAT
197594 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:203390 original size:20 final size:20
Alignment explanation
Indices: 203365--203402 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
203355 CACATGTTAA
203365 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
203385 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
203403 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:204186 original size:18 final size:18
Alignment explanation
Indices: 204163--204232 Score: 122
Period size: 18 Copynumber: 3.9 Consensus size: 18
204153 TGTCAAGAAT
204163 GTGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACACA
204181 GTGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACACA
*
204199 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACACA
*
204217 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
204233 ATTTCTACGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (18 bp):
GTGGTCCTTCGGGACACA
Found at i:204487 original size:2 final size:2
Alignment explanation
Indices: 204480--204519 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
204470 ATGTACATGA
*
204480 AT AT AT AT GT -T A- AT 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 AT AT AT AT AT AT AT AT
204520 GAATGAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207813 original size:20 final size:22
Alignment explanation
Indices: 207768--207825 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
207758 GCATGGGTAG
207768 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
207792 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
207812 TGCATCGATGCACT
1 TGCATCGATGCACT
207826 TCTAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:208394 original size:18 final size:18
Alignment explanation
Indices: 208371--208464 Score: 100
Period size: 18 Copynumber: 5.2 Consensus size: 18
208361 CTATGTTGCC
* *
208371 CTTCGGGACATAGTAGTT
1 CTTCGGGACACAGTGGTT
* *
208389 CTTCGGGACACAATGGTG
1 CTTCGGGACACAGTGGTT
*
208407 CTTCGGGACACAGTGGTC
1 CTTCGGGACACAGTGGTT
* *
208425 CTTCGGGATATAGTGG-T
1 CTTCGGGACACAGTGGTT
*
208442 CTTTCGGGACACAGTGGTC
1 C-TTCGGGACACAGTGGTT
208461 CTTC
1 CTTC
208465 AGGATGTAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
17 1 0.02
18 60 0.97
19 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (18 bp):
CTTCGGGACACAGTGGTT
Found at i:208429 original size:36 final size:35
Alignment explanation
Indices: 208371--208464 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 35
208361 CTATGTTGCC
* * *
208371 CTTCGGGACATAGTAGTTCTTCGGGACACAATGGT
1 CTTCGGGACACAGTGGTCCTTCGGGACACAATGGT
* * *
208406 GCTTCGGGACACAGTGGTCCTTCGGGATATAGTGGT
1 -CTTCGGGACACAGTGGTCCTTCGGGACACAATGGT
208442 CTTTCGGGACACAGTGGTCCTTC
1 C-TTCGGGACACAGTGGTCCTTC
208465 AGGATGTAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
35 1 0.02
36 50 0.98
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (35 bp):
CTTCGGGACACAGTGGTCCTTCGGGACACAATGGT
Found at i:208475 original size:18 final size:18
Alignment explanation
Indices: 208370--208478 Score: 92
Period size: 18 Copynumber: 6.1 Consensus size: 18
208360 TCTATGTTGC
* *
208370 CCTTCGGGACATAGTAGT
1 CCTTCGGGATATAGTGGT
* * * *
208388 TCTTCGGGACACAATGGT
1 CCTTCGGGATATAGTGGT
* * *
208406 GCTTCGGGACACAGTGGT
1 CCTTCGGGATATAGTGGT
208424 CCTTCGGGATATAGTGGT
1 CCTTCGGGATATAGTGGT
* * *
208442 CTTTCGGGACACAGTGGT
1 CCTTCGGGATATAGTGGT
* *
208460 CCTTCAGGATGTAGTGGT
1 CCTTCGGGATATAGTGGT
208478 C
1 C
208479 TTACGGGACA
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 74 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.28
Consensus pattern (18 bp):
CCTTCGGGATATAGTGGT
Found at i:208475 original size:36 final size:36
Alignment explanation
Indices: 208408--208488 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
208398 ACAATGGTGC
*
208408 TTCGGGACACAGTGGTCCTTCGGGATATAGTGGTCT
1 TTCGGGACACAGTGGTCCTTCAGGATATAGTGGTCT
*
208444 TTCGGGACACAGTGGTCCTTCAGGATGTAGTGGTCT
1 TTCGGGACACAGTGGTCCTTCAGGATATAGTGGTCT
*
208480 TACGGGACA
1 TTCGGGACA
208489 AATTATACGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (36 bp):
TTCGGGACACAGTGGTCCTTCAGGATATAGTGGTCT
Found at i:213903 original size:55 final size:55
Alignment explanation
Indices: 213810--213917 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
213800 GTTTAAGGTG
* *
213810 CATCGATGCACATGAAGTGCATCGATGCATTAATTTAAA-AGAAAACATCGAATGC
1 CATCGATGCACAAGAAGTGCATCGATGCACTAATTTAAATA-AAAACATCGAATGC
* * *
213865 CATCGATGCATAAGGAGTGCATCGATGCACCCT-A-TTAAATACAAACATCGAAT
1 CATCGATGCACAAGAAGTGCATCGATGCA--CTAATTTAAATAAAAACATCGAAT
213918 AGGATTTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
55 42 0.93
56 2 0.04
57 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (55 bp):
CATCGATGCACAAGAAGTGCATCGATGCACTAATTTAAATAAAAACATCGAATGC
Found at i:214576 original size:23 final size:23
Alignment explanation
Indices: 214550--214617 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
214540 ATTATTATAT
214550 GGCACTACGGTGTAATTCTATGC
1 GGCACTACGGTGTAATTCTATGC
* * *
214573 GGCACTCCGGTGCAATTCTATGT
1 GGCACTACGGTGTAATTCTATGC
* *
214596 GGCACTTCGGTGTAATTATATG
1 GGCACTACGGTGTAATTCTATG
214618 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTACGGTGTAATTCTATGC
Found at i:218381 original size:2 final size:2
Alignment explanation
Indices: 218374--218451 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
218364 TTATAAGTTA
218374 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
218416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
218452 GATAAAAATA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:218489 original size:30 final size:28
Alignment explanation
Indices: 218453--218514 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 28
218443 TATAATATAG
*
218453 ATAAAAATA-AACATTTATTATGATAAAAAT
1 ATAAAAA-AGAACATTTATTA--AAAAAAAT
*
218483 ATAAAAAAGGACATTTATTAAAAAAAAT
1 ATAAAAAAGAACATTTATTAAAAAAAAT
218511 ATAA
1 ATAA
218515 TAATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.38
29 1 0.03
30 17 0.59
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
ATAAAAAAGAACATTTATTAAAAAAAAT
Found at i:219338 original size:2 final size:2
Alignment explanation
Indices: 219283--219322 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
219273 TTTGTTTTAA
219283 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
219323 GTGAAATCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.