Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 41 of 214
Found at i:11359899 original size:222 final size:220
Alignment explanation
Indices: 11359509--11359927 Score: 637
Period size: 222 Copynumber: 1.9 Consensus size: 220
11359499 TGGATTAAGA
* * *
11359509 TTTAAGAGGATATTTGGTCATTTGGTCAAACGAGAAGTCGAAACCCAGCACATTAGGGCGCGTTT
1 TTTAAAAGGATATTTGGTCATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
* * * * * *
11359574 CTCGAATTTCCAAACGTAGAACATTGCCTTATTTTGAAATTTTTAAAAAGAATGTTTGACTATTT
66 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAAGAATATTTGACGATTC
* * *
11359639 GGTCAAATGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAA
131 GGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAACGCAA
11359704 AACATCACCTTATTTTGAAATTTTC
196 AACATCACCTTATTTTGAAATTTTC
*
11359729 TTTAAAAGGATATTTGG-CTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGGTC-ATTTGGTCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG
*
11359793 TTTTCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTTTTAAAAAG-ATATTTGAC
63 -TTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA-TTTTTAAAAAGAATATTTGAC
*
11359857 GATTCGGTCGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAA
126 GATTCGGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAA
11359921 CGCAAAA
191 CGCAAAA
11359928 TATTACCTCG
Statistics
Matches: 179, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
219 1 0.01
220 30 0.17
222 79 0.44
223 58 0.32
224 11 0.06
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (220 bp):
TTTAAAAGGATATTTGGTCATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAAGAATATTTGACGATTC
GGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAACGCAA
AACATCACCTTATTTTGAAATTTTC
Found at i:11360469 original size:23 final size:23
Alignment explanation
Indices: 11360443--11360491 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11360433 ATATAAGGTA
11360443 TAAAAG-TATGCATATATATAAAT
1 TAAAAGATATGCATATATAT-AAT
*
11360466 T-AAAGATATGTATATATATAAT
1 TAAAAGATATGCATATATATAAT
11360488 TAAA
1 TAAA
11360492 TCTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (23 bp):
TAAAAGATATGCATATATATAAT
Found at i:11360542 original size:18 final size:18
Alignment explanation
Indices: 11360521--11360567 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11360511 TAAATAAGCA
11360521 AATAATGATAACAATAAT
1 AATAATGATAACAATAAT
* *
11360539 AATAATGACAACAATGAT
1 AATAATGATAACAATAAT
*
11360557 AATAATAATAA
1 AATAATGATAA
11360568 AGATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AATAATGATAACAATAAT
Found at i:11362491 original size:148 final size:148
Alignment explanation
Indices: 11362243--11362572 Score: 448
Period size: 148 Copynumber: 2.2 Consensus size: 148
11362233 TCATAGTTTT
* * * * *
11362243 AATCCGCTCTACTGCAACTTCAGGGAGATAGGA-TTAGTAGTTACAGTAAAGTCTGATGCGATCT
1 AATCTGCTATACTGCAACTTCAGGGAGATAGGACTTAGTAATTACAATAAAGTCTAATGCGATCT
* * * *
11362307 GTTTTATTGCAATTTTAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGAA
66 GTTCTACTGCAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGAA
11362372 GATAGGACTAGTAACTTC
131 GATAGGACTAGTAACTTC
* * *
11362390 AATTTGCTATACTGCAACTTCAGGGAGATAGGACTT-GTAAATTTCAATAAAGTCTAATGTGATC
1 AATCTGCTATACTGCAACTTCAGGGAGATAGGACTTAGT-AATTACAATAAAGTCTAATGCGATC
* * *
11362454 TGTTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTGACCCGCTCCACTGCAACTTCAGGG
65 TGTTCTACTGCAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGA
*
11362519 AGATAGGATTAGTAACTTC
130 AGATAGGACTAGTAACTTC
* ** * *
11362538 AATCTGTTCCACTGCAACTTCAGAGAGATATGACT
1 AATCTGCTATACTGCAACTTCAGGGAGATAGGACT
11362573 GATTTCTTCA
Statistics
Matches: 159, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
147 32 0.20
148 127 0.80
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (148 bp):
AATCTGCTATACTGCAACTTCAGGGAGATAGGACTTAGTAATTACAATAAAGTCTAATGCGATCT
GTTCTACTGCAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGAA
GATAGGACTAGTAACTTC
Found at i:11370904 original size:23 final size:23
Alignment explanation
Indices: 11370870--11371524 Score: 445
Period size: 23 Copynumber: 28.7 Consensus size: 23
11370860 GAATGTTGTT
11370870 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11370893 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11370916 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11370939 AATTGAAGTGTTTGAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11370962 AATTGAAGTGCTT-AGTTGCTAG-A
1 AATTGAAGTGTTTAAG-TGCT-GCA
* *
11370985 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
11371007 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
11371030 AATTGATA-TCTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11371053 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11371076 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
11371099 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
11371122 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
11371145 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
11371167 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
11371190 AATTGATA-TGTTTAAGTGTTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * **
11371213 AATTTAAGTGTTTAAATGTTATA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11371236 AATTGAAGTGTTTAAGTGCTACA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11371259 AATTTAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
11371282 AATTTAAGTATTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
11371305 AATTGAAGTACTTT-A-TCGCTG-T
1 AATTGAAGT-GTTTAAGT-GCTGCA
* * * * **
11371327 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
11371350 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11371373 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11371396 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
**
11371419 AATTGAAGTGTTT-AGTTGCTAAA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
11371442 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
11371464 AATTGATGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
11371487 AATTGATA-TGTTAAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
*
11371510 AATTGAACTGTTTAA
1 AATTGAAGTGTTTAA
11371525 ATTTAACTTG
Statistics
Matches: 507, Mismatches: 88, Indels: 74
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.00
22 75 0.15
23 422 0.83
24 8 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:11371170 original size:137 final size:136
Alignment explanation
Indices: 11370903--11371524 Score: 445
Period size: 137 Copynumber: 4.5 Consensus size: 136
11370893 AATTTAAGTG
* *
11370903 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTGAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * * * ** *
11370968 AGTGCTT-AGTTGCTAG-AAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTG
66 AGTGTTTAAG-TGCT-GCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAGATGTATTTATGCTG
11371028 TTAATTGATATC
127 -TAATTGA-ATC
* * * *
11371040 TTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* *
11371105 AGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTGAGATGT-TTTATCGCTGTA
66 AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAGATGTATTTAT-GCTGTA
* *
11371168 ATTGAGGTG
129 ATTGA-ATC
* * * * * * * * **
11371177 TATAAATGTTGTTAATTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGTTATAAATTG
1 TTTAAATGCTGTAAATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTG
* * *
11371241 AAGTGTTTAAGTGCTACAAATTTAAGTGTTTAAGTGCTGCAAATTTA-A-GTATTTAGTTGCTGG
65 AAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTATTTA--TGCT-G
*
11371304 AAATTGAAGTAC
127 TAATTGAA-T-C
* * * **
11371316 TTT--ATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATT
1 TTTAAAT-GCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATT
* * * *
11371377 TAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-A-GTGTTTAGTTGCTA
64 GAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTATTTA--TGCT-
** *
11371440 AAAATTGAGATG
126 GTAATTGA-ATC
* * * * ** *
11371452 TTT-TATCGCTGT-AATTGATGTGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCAAATT
1 TTTAAAT-GCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATT
*
11371514 GAACTGTTTAA
64 GAAGTGTTTAA
11371525 ATTTAACTTG
Statistics
Matches: 401, Mismatches: 64, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
135 2 0.00
136 10 0.02
137 351 0.88
138 36 0.09
139 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (136 bp):
TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTATTTATGCTGTAAT
TGAATC
Found at i:11371524 original size:160 final size:160
Alignment explanation
Indices: 11370861--11371432 Score: 1013
Period size: 160 Copynumber: 3.6 Consensus size: 160
11370851 GGCAGCATCG
11370861 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* *
11370926 TTTAAGTGCTGCAAATTGAAGTGTTTGAGTGCTGCAAATTGAAGTGCTTAGTTGCTAGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
11370991 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
*
11371021 AATGTTGTTAATTGATATCTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
11371086 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
11371151 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
* * *
11371181 AATGTTGTTAATTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGTTATAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * * **
11371246 TTTAAGTGCTACAAATTTAAGTGTTTAAGTGCTGCAAATTTAAGTATTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
11371311 -A-GTACTTTATCGCTGTAATTGAGGTGTATA
131 GATGT--TTTATCGCTGTAATTGAGGTGTATA
11371341 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
11371406 TTTAAGTGCTGCAAATTGAAGTGTTTA
66 TTTAAGTGCTGCAAATTGAAGTGTTTA
11371433 GTTGCTAAAA
Statistics
Matches: 393, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
158 2 0.01
159 1 0.00
160 390 0.99
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
GATGTTTTATCGCTGTAATTGAGGTGTATA
Found at i:11372195 original size:43 final size:43
Alignment explanation
Indices: 11372141--11372260 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 43
11372131 TTTTTGTGAC
* * *
11372141 CTTTAGTGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCCTAGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
*
11372184 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTAAT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
* *
11372227 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAA
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAA
11372261 AGCCTGTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
Found at i:11375251 original size:8 final size:9
Alignment explanation
Indices: 11375219--11375344 Score: 107
Period size: 9 Copynumber: 14.0 Consensus size: 9
11375209 TATATCATAT
*
11375219 CATAATTTA
1 CATAACTTA
11375228 CATAACTTA
1 CATAACTTA
11375237 CATAACTTA
1 CATAACTTA
11375246 -ATAACTTA
1 CATAACTTA
* *
11375254 TATATATCATA
1 CATA-A-CTTA
11375265 TCATAACTTA
1 -CATAACTTA
*
11375275 CATAACTCA
1 CATAACTTA
11375284 CATAACTTA
1 CATAACTTA
*
11375293 CATAACCTA
1 CATAACTTA
11375302 CATAA--TA
1 CATAACTTA
*
11375309 CATAA-ATA
1 CATAACTTA
* * *
11375317 TATATCATA
1 CATAACTTA
11375326 TCATAACTTA
1 -CATAACTTA
11375336 CATAACTTA
1 CATAACTTA
11375345 ATTATACTTG
Statistics
Matches: 98, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
7 7 0.07
8 13 0.13
9 61 0.62
10 10 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:11375262 original size:47 final size:47
Alignment explanation
Indices: 11375204--11375346 Score: 164
Period size: 47 Copynumber: 2.9 Consensus size: 47
11375194 TTCAGTAAAA
11375204 TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
1 TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
* *
11375251 TTATATATATCATATCATAACTTACATAACTCACATAACTTACATAAC
1 TTATATATATCATATCATAATTTACATAACTTACATAACTTA-ATAAC
* * *
11375299 CTACATA-ATACATAAAT-ATATATCATATCATAACTTACATAACTTAAT
1 TTATATATAT-CAT--ATCATA-AT-TTA-CATAACTTACATAACTTAAT
11375347 TATACTTGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
47 42 0.51
48 13 0.16
49 3 0.04
50 3 0.04
51 4 0.05
52 17 0.21
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.37
Consensus pattern (47 bp):
TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
Found at i:11379543 original size:43 final size:43
Alignment explanation
Indices: 11379493--11379604 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
11379483 ATTTGTAAAA
* *
11379493 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGAGATTGTGAT
1 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
* * *
11379536 AAAAGCGTCACTAAATGTCATGTTCTTTATCGGCGATTGCGAT
1 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
* *
11379579 AAAAGCATCACTAAAGGTCATCTTCT
1 AAAAGCGTCACTAAAGGTCATGTTCT
11379605 CTTTAGATGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
Found at i:11390929 original size:27 final size:27
Alignment explanation
Indices: 11390888--11390939 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
11390878 TGTGTCGAGG
*
11390888 TCCTAATTCAAACTTGTCATTTGACCT
1 TCCTAATTCAAACTTGTCATCTGACCT
*
11390915 TCCTAATTCAGACTTGTCATCTGAC
1 TCCTAATTCAAACTTGTCATCTGAC
11390940 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (27 bp):
TCCTAATTCAAACTTGTCATCTGACCT
Found at i:11402364 original size:10 final size:10
Alignment explanation
Indices: 11402349--11402384 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
11402339 AGGAGAGGAC
11402349 TTTTTTGTTT
1 TTTTTTGTTT
11402359 TTTTTTGTTTT
1 TTTTTTG-TTT
11402370 TTTTTTGTTT
1 TTTTTTGTTT
11402380 TTTTT
1 TTTTT
11402385 GTTGTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:11402370 original size:11 final size:11
Alignment explanation
Indices: 11402349--11402391 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
11402339 AGGAGAGGAC
11402349 TTTTTTG-TTT
1 TTTTTTGTTTT
11402359 TTTTTTGTTTT
1 TTTTTTGTTTT
11402370 TTTTTTGTTTT
1 TTTTTTGTTTT
11402381 TTTTGTTGTTT
1 TTTT-TTGTTT
11402392 ATAGAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:11402371 original size:12 final size:12
Alignment explanation
Indices: 11402356--11402391 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
11402346 GACTTTTTTG
11402356 TTTTTTTTTG-T
1 TTTTTTTTTGTT
11402367 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
11402379 TTTTTTGTTGTT
1 TTTTTTTTTGTT
11402391 T
1 T
11402392 ATAGAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:11403415 original size:15 final size:15
Alignment explanation
Indices: 11403395--11403428 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11403385 TTTATTTTTG
*
11403395 TTATTTTTGCTCGTA
1 TTATTTTTGCTCGCA
11403410 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
11403425 TTAT
1 TTAT
11403429 CGTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:11405447 original size:266 final size:266
Alignment explanation
Indices: 11404973--11405504 Score: 1028
Period size: 266 Copynumber: 2.0 Consensus size: 266
11404963 CGTGATAAGA
*
11404973 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCTGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
11405038 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
11405103 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTAAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTAAAGAGTT
*
11405168 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
11405233 CCGTAT
261 CCGTAT
11405239 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
*
11405304 AAGGATTATTCGAGGGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
*
11405369 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTAAAGAGTT
11405434 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
11405499 CCGTAT
261 CCGTAT
11405505 ATGTATCCGC
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 262 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTAAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
CCGTAT
Found at i:11405694 original size:62 final size:62
Alignment explanation
Indices: 11405622--11405805 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
11405612 CACGTATCTC
*
11405622 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
*
11405684 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * *
11405746 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
11405806 TCGAGTTTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:11407093 original size:23 final size:23
Alignment explanation
Indices: 11407040--11407093 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
11407030 GTGGAGGCCA
*
11407040 AAAAAAAAGAACAAATAAAAACC
1 AAAAAAAAGAACAAATAAAAAAC
11407063 AAATAAAAA-AACAAA-AGCAAAAAC
1 AAA-AAAAAGAACAAATA--AAAAAC
11407087 AAAAAAA
1 AAAAAAA
11407094 CTCTACCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
23 13 0.48
24 13 0.48
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAAAAAAGAACAAATAAAAAAC
Found at i:11408072 original size:108 final size:108
Alignment explanation
Indices: 11407883--11408078 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 108
11407873 TTTGTATTCT
*
11407883 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
11407948 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** *
11407991 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
11408056 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGATAATCTTTTTCA
11408079 AGCATTTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 81 1.00
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:11408545 original size:46 final size:46
Alignment explanation
Indices: 11408462--11408683 Score: 136
Period size: 46 Copynumber: 4.9 Consensus size: 46
11408452 TAGGTCCTAT
* * *
11408462 CTTCCTATA-TTGGTAG-GAAGTGGATCGAAGATTGCAGATCTTGC
1 CTTCCTATATTTGGCAGCGAAGTAGATCGAAGATGGCAGATCTTGC
* * *
11408506 CTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTTCCTATATTTGGCAGCGAAGTAGATCGAAGATGGCAGATCTTGC
* * * * * * * ** **
11408552 CTCCCTGTGA-CT-ACAGTGGAGTAGATTGAAGCCGATA-ACTCTAT--
1 CTTCCTAT-ATTTGGCAGCGAAGTAGATCGAAGATGGCAGA-TCT-TGC
* * * *
11408596 CTCCCTATATTTGGCAGTAGAA-TAGATTGAAGATTGCAGATCTTGC
1 CTTCCTATATTTGGCAG-CGAAGTAGATCGAAGATGGCAGATCTTGC
* *
11408642 CTTCCTATATTTGGCAGCGAAGCAGATCAAAAGATGGCAGAT
1 CTTCCTATATTTGGCAGCGAAGTAGATC-GAAGATGGCAGAT
11408684 TTTACTTCCC
Statistics
Matches: 130, Mismatches: 35, Indels: 23
0.69 0.19 0.12
Matches are distributed among these distances:
43 1 0.01
44 19 0.15
45 44 0.34
46 54 0.42
47 12 0.09
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (46 bp):
CTTCCTATATTTGGCAGCGAAGTAGATCGAAGATGGCAGATCTTGC
Found at i:11408763 original size:54 final size:54
Alignment explanation
Indices: 11408699--11408806 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
11408689 TTCCCTGACT
11408699 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
11408753 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
11408807 TAGATTGAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (54 bp):
ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
Found at i:11408863 original size:95 final size:95
Alignment explanation
Indices: 11408753--11409200 Score: 833
Period size: 95 Copynumber: 4.7 Consensus size: 95
11408743 GGCAGTGGAA
11408753 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
11408818 TCAAAGATGGCAGATTTTACCTCCCTGACT
66 TCAAAGATGGCAGATTTTACCTCCCTGACT
11408848 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
11408913 TCAAAGATGGCAGATTTTACCTCCCTGACT
66 TCAAAGATGGCAGATTTTACCTCCCTGACT
*
11408943 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGACAGTGGAATAGATTGAAGA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
11409008 TCAAAGATGGCAGATTTTACCTCCCTGACT
66 TCAAAGATGGCAGATTTTACCTCCCTGACT
*
11409038 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
*
11409103 TCAAAGATGGCAGATTTTACCTCCATGTGACT
66 TCAAAGATGGCAGATTTTACCTCC--CTGACT
* *
11409135 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGA
1 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
11409200 T
66 T
11409201 TGCAGATCTT
Statistics
Matches: 346, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
95 276 0.80
97 70 0.20
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGA
TCAAAGATGGCAGATTTTACCTCCCTGACT
Found at i:11409222 original size:46 final size:46
Alignment explanation
Indices: 11409170--11409498 Score: 153
Period size: 46 Copynumber: 7.3 Consensus size: 46
11409160 ACTCTATCTC
* *
11409170 CCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
** * ** * * *
11409216 CCTGTATTTGGCAG-CCAAGCAGATCAAAAGATGGCAGATTTTACCTC
1 CCTGTATTTGGCAGTGGAA-TAGAT-TGAAGATTGCAGATCTTACCTT
** * * * ** * * * *
11409263 CCTG-A--TCACAGTGGAGTACACTGAAG-CCG-ATAACTCTATCTC
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTT
*
11409305 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
* * ** * * *
11409351 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTC
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTT
*** * * * * * *
11409397 CCTG-A--CCACAGTGGAGTACATTGAAG-TCG-ATAACTCTATC-T
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTT
* *
11409438 CCTTTTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CC-TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
11409485 CCTGTATTTGGCAG
1 CCTGTATTTGGCAG
11409499 CGAAGCAGAT
Statistics
Matches: 193, Mismatches: 71, Indels: 38
0.64 0.24 0.13
Matches are distributed among these distances:
41 8 0.04
42 16 0.08
43 14 0.07
44 8 0.04
45 39 0.20
46 76 0.39
47 32 0.17
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
Found at i:11409482 original size:134 final size:135
Alignment explanation
Indices: 11409100--11409605 Score: 872
Period size: 134 Copynumber: 3.7 Consensus size: 135
11409090 AATAGATTGA
* *
11409100 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
*
11409165 ATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
11409230 CCAAGC
130 CGAAGC
* *
11409236 AGATCAAAAGATGGCAGATTTTACCTCC-CTGATCACAGTGGAGTACACTGAAGCCGATAACTCT
1 AGATC-AAAGATGGCAGATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
11409300 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
11409365 CGAAGC
130 CGAAGC
*
11409371 AGATCAAAGATGGCAGATTTTACCTCC-CTGACCACAGTGGAGTACATTGAAGTCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
11409435 TCTCCTTTTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
11409500 GAAGC
131 GAAGC
* *
11409505 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
11409570 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
11409606 CGAAGATGGC
Statistics
Matches: 351, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
134 151 0.43
135 106 0.30
136 72 0.21
137 22 0.06
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (135 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
GAAGC
Found at i:11409621 original size:97 final size:96
Alignment explanation
Indices: 11409505--11409797 Score: 507
Period size: 97 Copynumber: 3.0 Consensus size: 96
11409495 GCAGCGAAGC
*
11409505 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCC-TGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
11409570 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
11409602 AGATCGAAGATGGCAGATTTTACCTCC-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCGAAGATGGCAGATTTTACCTCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
11409666 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
11409697 AGATCGAAGATGGCAGAGTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCT-CCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
11409762 ATCTCCCTGTATTTGACAGTGGAATAGATCGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
11409794 AGAT
1 AGAT
11409798 TACAGATCTT
Statistics
Matches: 187, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
95 91 0.49
96 2 0.01
97 94 0.50
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
AGATCGAAGATGGCAGATTTTACCTCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:11409655 original size:95 final size:95
Alignment explanation
Indices: 11409505--11409797 Score: 496
Period size: 95 Copynumber: 3.0 Consensus size: 95
11409495 GCAGCGAAGC
* *
11409505 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
11409570 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
11409602 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
11409667 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
11409697 AGATCGAAGATGGCAGAGTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
11409762 ATCTCCCTGTATTTGACAGTGGAATAGATCGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
11409794 AGAT
1 AGAT
11409798 TACAGATCTT
Statistics
Matches: 188, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
95 94 0.50
97 94 0.50
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:11409687 original size:45 final size:45
Alignment explanation
Indices: 11409635--11409784 Score: 124
Period size: 45 Copynumber: 3.2 Consensus size: 45
11409625 CTCCCTGACT
*
11409635 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
* * * * * * *
11409680 GCAGTGGAATAGATTGAAGATCGAAGATGGCAGAGTTTACCTCCCTGTGA-CT-
1 ACAGTGGAGTACATTGAAG--C--AGAT---A-ACTCTATCTCCCTGT-ATTTG
*
11409732 ACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
11409777 ACAGTGGA
1 ACAGTGGA
11409785 ATAGATCGAA
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
43 1 0.01
44 13 0.17
45 25 0.32
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.22
53 13 0.17
54 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
Found at i:11409898 original size:42 final size:42
Alignment explanation
Indices: 11409799--11410082 Score: 325
Period size: 40 Copynumber: 6.9 Consensus size: 42
11409789 ATCGAAGATT
* * ** *
11409799 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACC
11409841 A-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAACC
* * ** *
11409881 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACC
*
11409923 A-AG-TCTTATCTCCCTAAGCAGTAGTGGAGAAGA-CAAAACC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAACC
* ** *
11409963 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACC
*
11410005 A-AG-TCTTATCTCCCTAAGCAGTAGCGGAGCAGA-CGAAACC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAACC
*
11410045 ACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
11410083 CATGTAACAC
Statistics
Matches: 202, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.01
40 92 0.46
41 12 0.06
42 92 0.46
43 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACC
Found at i:11409902 original size:82 final size:82
Alignment explanation
Indices: 11409799--11410081 Score: 521
Period size: 82 Copynumber: 3.5 Consensus size: 82
11409789 ATCGAAGATT
11409799 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
11409864 GTGGAGCAGACAAAACC
66 GTGGAGCAGACAAAACC
11409881 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
11409946 GTGGAGAAGACAAAACC
66 GTGGAGCAGACAAAACC
*
11409963 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
11410028 GCGGAGCAGACGAAACC
66 GTGGAGCAGACAAAACC
*
11410045 ACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATC
11410082 ACATGTAACA
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 194 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (82 bp):
ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
GTGGAGCAGACAAAACC
Found at i:11411515 original size:39 final size:40
Alignment explanation
Indices: 11411470--11411641 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
11411460 GCTCCTCGTT
* * *
11411470 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11411510 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11411549 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
11411589 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
11411629 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11411642 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11411570 original size:40 final size:39
Alignment explanation
Indices: 11411472--11411694 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
11411462 TCCTCGTTCA
* * * *
11411472 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11411511 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11411550 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11411590 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11411630 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11411671 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11411695 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11411654 original size:80 final size:79
Alignment explanation
Indices: 11411470--11411694 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
11411460 GCTCCTCGTT
* * * * *
11411470 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
11411534 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
11411549 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
11411614 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
11411629 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
11411693 GA
63 GA
11411695 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:11411703 original size:41 final size:41
Alignment explanation
Indices: 11411626--11411703 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11411616 TTTGTATCTC
* * *
11411626 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11411667 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11411704 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11417590 original size:69 final size:69
Alignment explanation
Indices: 11417479--11417615 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
11417469 TTCATATGAT
11417479 TGTTTCGTTACTTTCATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTT
1 TGTTTCGTTACTTTCATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTT
11417544 AATA
66 AATA
11417548 TGTTTCGTTACTTTCATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTT
1 TGTTTCGTTACTTTCATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTT
11417613 AAT
66 AAT
11417616 TCCACTCCTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (69 bp):
TGTTTCGTTACTTTCATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTT
AATA
Found at i:11418478 original size:39 final size:40
Alignment explanation
Indices: 11418433--11418604 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
11418423 GCTCCTCGTT
* * *
11418433 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11418473 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11418512 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
11418552 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
11418592 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11418605 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11418533 original size:40 final size:39
Alignment explanation
Indices: 11418435--11418657 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
11418425 TCCTCGTTCA
* * * *
11418435 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11418474 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11418513 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11418553 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11418593 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11418634 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11418658 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11418617 original size:80 final size:79
Alignment explanation
Indices: 11418433--11418657 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
11418423 GCTCCTCGTT
* * * * *
11418433 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
11418497 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
11418512 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
11418577 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
11418592 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
11418656 GA
63 GA
11418658 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:11418666 original size:41 final size:41
Alignment explanation
Indices: 11418589--11418666 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11418579 TTTGTATCTC
* * *
11418589 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11418630 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11418667 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11425377 original size:39 final size:40
Alignment explanation
Indices: 11425332--11425503 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
11425322 GCTCCTCGTT
* * *
11425332 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11425372 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11425411 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
11425451 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
11425491 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11425504 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11425432 original size:40 final size:39
Alignment explanation
Indices: 11425334--11425556 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
11425324 TCCTCGTTCA
* * * *
11425334 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11425373 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11425412 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11425452 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11425492 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11425533 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11425557 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11425516 original size:80 final size:79
Alignment explanation
Indices: 11425332--11425556 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
11425322 GCTCCTCGTT
* * * * *
11425332 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
11425396 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
11425411 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
11425476 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
11425491 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
11425555 GA
63 GA
11425557 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:11425565 original size:41 final size:41
Alignment explanation
Indices: 11425488--11425565 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11425478 TTTGTATCTC
* * *
11425488 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11425529 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11425566 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11428176 original size:12 final size:12
Alignment explanation
Indices: 11428159--11428192 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11428149 AGGAGAGGAC
11428159 TTTTTTGTTTTT
1 TTTTTTGTTTTT
11428171 TTTTTTGTTTTT
1 TTTTTTGTTTTT
*
11428183 TTTGTTGTTT
1 TTTTTTGTTT
11428193 ATAGAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:11429216 original size:15 final size:15
Alignment explanation
Indices: 11429196--11429229 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11429186 TTTATTTTTG
*
11429196 TTATTTTTGCTCGTA
1 TTATTTTTGCTCGCA
11429211 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
11429226 TTAT
1 TTAT
11429230 CGTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:11432644 original size:15 final size:15
Alignment explanation
Indices: 11432599--11432706 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
11432589 CCAATATCTC
11432599 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11432614 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11432629 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11432644 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11432659 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11432674 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
11432689 GATACCCATATCTTT
1 GATACCCATATCTTT
11432704 GAT
1 GAT
11432707 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11432713 original size:30 final size:30
Alignment explanation
Indices: 11432589--11432712 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
11432579 TTTTATTATG
*
11432589 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11432620 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11432650 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
11432680 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11432710 CCA
1 CCA
11432713 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11437329 original size:30 final size:30
Alignment explanation
Indices: 11437283--11437376 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
11437273 TTTTATTATG
*
11437283 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11437314 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
11437344 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11437374 CCA
1 CCA
11437377 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11437338 original size:15 final size:15
Alignment explanation
Indices: 11437293--11437370 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
11437283 CCAATATCTC
11437293 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11437308 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11437323 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11437338 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
11437353 GATACCCATATCTTT
1 GATACCCATATCTTT
11437368 GAT
1 GAT
11437371 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11446704 original size:15 final size:15
Alignment explanation
Indices: 11446684--11446745 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
11446674 TGATTAATTA
*
11446684 TAATTAACTTTTAAT
1 TAATTAACATTTAAT
*
11446699 TAATTAAGATTTAAT
1 TAATTAACATTTAAT
* **
11446714 TAAATAA-AGGATAAT
1 TAATTAACA-TTTAAT
11446729 TAATTAA-ATTTAAT
1 TAATTAACATTTAAT
11446743 TAA
1 TAA
11446746 ACTATATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 8 0.21
15 30 0.79
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (15 bp):
TAATTAACATTTAAT
Found at i:11457728 original size:34 final size:34
Alignment explanation
Indices: 11457690--11457761 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
11457680 CTATAGAAAG
11457690 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
*
11457724 AAAGTATTTGAAATCTTCTCCCTCTACAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
11457758 AAAG
1 AAAG
11457762 GTAATTCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.38
Consensus pattern (34 bp):
AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
Found at i:11463501 original size:18 final size:19
Alignment explanation
Indices: 11463472--11463508 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11463462 TCAACAATTA
11463472 TTTATTTGTATTTATAAAT
1 TTTATTTGTATTTATAAAT
*
11463491 TTTATTT-TATTTTTAAAT
1 TTTATTTGTATTTATAAAT
11463509 GGTAGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATTTGTATTTATAAAT
Found at i:11468382 original size:27 final size:27
Alignment explanation
Indices: 11468344--11468426 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
11468334 ATACAAAATA
* *
11468344 GTGGCGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* * *
11468371 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
11468398 GTTGTGCCATAT-TGAGAGGCGCTAATG
1 GTGGTGCC-TATCTGAGAGGCGCCAATG
11468425 GT
1 GT
11468427 CTTATTTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 42 0.93
28 3 0.07
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:11471982 original size:6 final size:6
Alignment explanation
Indices: 11471973--11472025 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
11471963 CTCTGCCTCT
* * *
11471973 GGCTCC GGCTCT AGCTCT GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC
1 GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC
11472021 GGCTC
1 GGCTC
11472026 TTGCTCTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.02, C:0.45, G:0.32, T:0.21
Consensus pattern (6 bp):
GGCTCC
Found at i:11471984 original size:18 final size:17
Alignment explanation
Indices: 11471958--11472019 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
11471948 AGAATGTAGT
*
11471958 TCCGTCTCTGCCTCTGGC
1 TCCGGCTCTG-CTCTGGC
11471976 TCCGGCTCTAGCTCTGGC
1 TCCGGCTCT-GCTCTGGC
* *
11471994 TCCGGCTCCGGCTCCGGC
1 TCCGGCT-CTGCTCTGGC
11472012 TCCGGCTC
1 TCCGGCTC
11472020 CGGCTCTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 1 0.03
18 36 0.92
19 2 0.05
ACGTcount: A:0.02, C:0.45, G:0.27, T:0.26
Consensus pattern (17 bp):
TCCGGCTCTGCTCTGGC
Found at i:11472031 original size:18 final size:18
Alignment explanation
Indices: 11471969--11472031 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
11471959 CCGTCTCTGC
**
11471969 CTCTGGCTCCGGCTCTAG
1 CTCTGGCTCCGGCTCCGG
11471987 CTCTGGCTCCGGCTCCGG
1 CTCTGGCTCCGGCTCCGG
*
11472005 CTCCGGCTCCGGCTCCGG
1 CTCTGGCTCCGGCTCCGG
*
11472023 CTCTTGCTC
1 CTCTGGCTC
11472032 TGGTGCATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.02, C:0.44, G:0.29, T:0.25
Consensus pattern (18 bp):
CTCTGGCTCCGGCTCCGG
Found at i:11473675 original size:16 final size:16
Alignment explanation
Indices: 11473656--11473694 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
11473646 AAAATCAAAT
11473656 AAAATTACATTATATA
1 AAAATTACATTATATA
11473672 AAAATTACATTATATA
1 AAAATTACATTATATA
11473688 AAAATTA
1 AAAATTA
11473695 AATGAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:11473901 original size:60 final size:60
Alignment explanation
Indices: 11473808--11473929 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
11473798 ATACTAAACT
* * * *
11473808 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
11473868 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
11473928 AA
1 AA
11473930 TATTCATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:11473948 original size:21 final size:22
Alignment explanation
Indices: 11473917--11473965 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
11473907 AATTAATTAT
11473917 AAAATAATTACAATATTCATAC
1 AAAATAATTACAATATTCATAC
11473939 AAAA-AATTACAATATTCATAC
1 AAAATAATTACAATATTCATAC
11473960 AAAATA
1 AAAATA
11473966 CTAATCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAATTACAATATTCATAC
Found at i:11474335 original size:27 final size:27
Alignment explanation
Indices: 11474281--11474339 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
11474271 ATGCCATTGA
**
11474281 CGCCTCCCTATGAGGCACTTTTAATGG
1 CGCCTCCCTATGAGGCACAATTAATGG
* *
11474308 CGCCTCCCTATGAGGCTCAATTAGTGG
1 CGCCTCCCTATGAGGCACAATTAATGG
11474335 CGCCT
1 CGCCT
11474340 ACCTGACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.27
Consensus pattern (27 bp):
CGCCTCCCTATGAGGCACAATTAATGG
Found at i:11477803 original size:21 final size:21
Alignment explanation
Indices: 11477763--11477811 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11477753 ATAAATAAAA
*
11477763 TCATTCA-TGTCAGTTCCCTG
1 TCATTCACTGTCAATTCCCTG
*
11477783 TCATTCACTGTCAATTTCCTG
1 TCATTCACTGTCAATTCCCTG
*
11477804 TCACTCAC
1 TCATTCAC
11477812 AACTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (21 bp):
TCATTCACTGTCAATTCCCTG
Found at i:11481930 original size:44 final size:44
Alignment explanation
Indices: 11481857--11481941 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11481847 TTTTTTCGAA
* * *
11481857 TATAATGCCTTGATATCTTTGAATCATGGTATTTCCTTTTTTAG
1 TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTTTAG
* * * *
11481901 TATAATGTCATGATATCTTTCAGTTATGGTCTTTCCCTTTT
1 TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTT
11481942 CTCAAATCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (44 bp):
TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTTTAG
Found at i:11483991 original size:43 final size:43
Alignment explanation
Indices: 11483925--11484053 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
11483915 ATAGGATTTC
* * *
11483925 CGATATGTGTTTTCGTGTAAGACCACGTTTGGGACTTTGGCAT
1 CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
* * *
11483968 CGA-CTTGTGTTTACGTGTAAGACC-CTATTTAGGACAGTGGCAT
1 CGATC-TGTGTTTACGTGTAAGACCAC-GTTTGGGACATTGGCAT
* * * * *
11484011 CGATCTGTGATTGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
11484054 TGTACAAGCC
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
42 1 0.01
43 65 0.96
44 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
Found at i:11488541 original size:34 final size:34
Alignment explanation
Indices: 11488503--11488571 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11488493 TCCTGGAGAG
11488503 TGTGATTTCTGGTGTTGATCTAATCCTCTAAACT
1 TGTGATTTCTGGTGTTGATCTAATCCTCTAAACT
11488537 TGTGATTTCTGGTGTTGATCTAATCCTCTAAACT
1 TGTGATTTCTGGTGTTGATCTAATCCTCTAAACT
11488571 T
1 T
11488572 TCAAAACGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (34 bp):
TGTGATTTCTGGTGTTGATCTAATCCTCTAAACT
Found at i:11495245 original size:6 final size:6
Alignment explanation
Indices: 11495214--11495262 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
11495204 TTTAGAAATT
*
11495214 ATAAAA ACTAAAA A-AATAG ATCAAAA ATAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA A-TAAAA ATAA-AA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAA
11495263 GCATGGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 24 0.65
7 9 0.24
8 2 0.05
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:11501569 original size:39 final size:39
Alignment explanation
Indices: 11501479--11501585 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
11501469 TAGAAGTATT
* *
11501479 ATCTAAAGTTTAAAATTTAAATTTAAAAATAACAATTCC
1 ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
*
11501518 ATCTAAAATTTAAACTTTAAATTTAAAAATAATAA-TCC
1 ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
* * *
11501556 -TTTCAAAACTTTAAACTTTAAGTTAAAAAA
1 ATCT-AAAA-TTTAAACTTTAAATTTAAAAA
11501586 AAATCTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
37 2 0.03
38 7 0.12
39 51 0.85
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.36
Consensus pattern (39 bp):
ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
Found at i:11507136 original size:17 final size:16
Alignment explanation
Indices: 11507114--11507146 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
11507104 AAAGTCAAAG
11507114 ATATGGGTATCAGAAAT
1 ATATGGGTATCA-AAAT
11507131 ATATGGGTATCAAAAT
1 ATATGGGTATCAAAAT
11507147 CTGGGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (16 bp):
ATATGGGTATCAAAAT
Found at i:11513262 original size:18 final size:17
Alignment explanation
Indices: 11513229--11513262 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11513219 AATTCTTCAT
*
11513229 CAAATTAACTCTAAAAC
1 CAAATTAAATCTAAAAC
11513246 CAAATTAAATACTAAAA
1 CAAATTAAAT-CTAAAA
11513263 GTTAATAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAATTAAATCTAAAAC
Found at i:11522309 original size:18 final size:18
Alignment explanation
Indices: 11522286--11522375 Score: 144
Period size: 18 Copynumber: 5.0 Consensus size: 18
11522276 CCCAACTATT
*
11522286 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
11522304 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
11522322 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
11522340 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
11522358 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
11522376 ATAAACGGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:11528999 original size:23 final size:22
Alignment explanation
Indices: 11528965--11529036 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
11528955 TTTGACACAC
*
11528965 TTCTGTTCGGCCTTTGTAGCGCA
1 TTCTGTTTGGCCTTTGTAG-GCA
*
11528988 TTTTGTTTGGCCTTTGT-GGCA
1 TTCTGTTTGGCCTTTGTAGGCA
* *
11529009 TTCTG-TTAGCCTTTGTAGTGTA
1 TTCTGTTTGGCCTTTGTAG-GCA
11529031 TTCTGT
1 TTCTGT
11529037 ATGTTTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 10 0.24
21 8 0.20
22 8 0.20
23 15 0.37
ACGTcount: A:0.08, C:0.18, G:0.25, T:0.49
Consensus pattern (22 bp):
TTCTGTTTGGCCTTTGTAGGCA
Found at i:11538038 original size:19 final size:20
Alignment explanation
Indices: 11538001--11538041 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11537991 TACAACACAA
*
11538001 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
11538021 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
11538040 TT
1 TT
11538042 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:11538477 original size:26 final size:28
Alignment explanation
Indices: 11538448--11538513 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
11538438 CCGTGGGTTC
*
11538448 TTCTTTCTTTCTC-TTTTTCTTTT-TCG
1 TTCTTTCTTTCTCGTTTTGCTTTTGTCG
*
11538474 TTCTTTCTATT-TCGTTTTGCTTTTGTCT
1 TTCTTTCT-TTCTCGTTTTGCTTTTGTCG
*
11538502 TTCTTTATTTCT
1 TTCTTTCTTTCT
11538514 TTTATTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.30
27 13 0.39
28 10 0.30
ACGTcount: A:0.03, C:0.20, G:0.06, T:0.71
Consensus pattern (28 bp):
TTCTTTCTTTCTCGTTTTGCTTTTGTCG
Found at i:11538609 original size:43 final size:39
Alignment explanation
Indices: 11538523--11538609 Score: 95
Period size: 43 Copynumber: 2.1 Consensus size: 39
11538513 TTTTATTACT
* *
11538523 ATAATATATGTATTTACTTAATTATTAAGTAAACATATT
1 ATAATATATATATTTACTTAATTATTAAGTAAACATATC
*
11538562 ATAATATATATATTTTAACTTTAATTTATTAA-TAATATATATC
1 ATAATATATATA-TTT-AC-TTAA-TTATTAAGTAA-ACATATC
11538605 ATAAT
1 ATAAT
11538610 TTTACACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 11 0.28
40 3 0.08
41 2 0.05
42 7 0.17
43 17 0.43
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (39 bp):
ATAATATATATATTTACTTAATTATTAAGTAAACATATC
Found at i:11544823 original size:13 final size:14
Alignment explanation
Indices: 11544799--11544847 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
11544789 TAAATTGAAT
11544799 TTTTTTTATTAT-A
1 TTTTTTTATTATGA
11544812 TATTTTTT-TTATGA
1 T-TTTTTTATTATGA
11544826 TTTTTTTA--ATGA
1 TTTTTTTATTATGA
11544838 TTTATTTTAT
1 TTT-TTTTAT
11544848 CAAATTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 7 0.23
13 16 0.52
14 8 0.26
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTTTTTATTATGA
Found at i:11544828 original size:12 final size:12
Alignment explanation
Indices: 11544813--11544847 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11544803 TTTATTATAT
11544813 ATTTTTTTTATG
1 ATTTTTTTTATG
*
11544825 ATTTTTTTAATG
1 ATTTTTTTTATG
*
11544837 ATTTATTTTAT
1 ATTTTTTTTAT
11544848 CAAATTGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
ATTTTTTTTATG
Found at i:11544829 original size:24 final size:24
Alignment explanation
Indices: 11544802--11544847 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11544792 ATTGAATTTT
*
11544802 TTTTATTATAT-ATTTTTTTTATGA
1 TTTTATTA-ATGATTTATTTTATGA
*
11544826 TTTTTTTAATGATTTATTTTAT
1 TTTTATTAATGATTTATTTTAT
11544848 CAAATTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTAATGATTTATTTTATGA
Found at i:11546439 original size:16 final size:16
Alignment explanation
Indices: 11546398--11546448 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
11546388 GGGTGAGAAG
*
11546398 TAAAAGTTAGGGGGAAAA
1 TAAAAGTTTGGGGG--AA
11546416 TAAAAAGTTTGGGGGAA
1 T-AAAAGTTTGGGGGAA
*
11546433 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGGGGGAA
11546449 AGTAAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.47
17 3 0.10
18 1 0.03
19 12 0.40
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:11546824 original size:9 final size:9
Alignment explanation
Indices: 11546810--11546846 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11546800 TATAGTTTGA
11546810 TATTCGAAT
1 TATTCGAAT
11546819 TATTCGAAT
1 TATTCGAAT
*
11546828 TATTCGAGT
1 TATTCGAAT
11546837 TATTCGAAT
1 TATTCGAAT
11546846 T
1 T
11546847 CGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11547271 original size:43 final size:43
Alignment explanation
Indices: 11547168--11547412 Score: 298
Period size: 43 Copynumber: 5.8 Consensus size: 43
11547158 GAAATAACCA
* * *
11547168 CCGCTAAAGACCATGACCTTTAGCGGTGCTTTT-CCAAAAACG
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
11547210 CCGCTATAGACCACGACCTTTAGCGGCGCTTTACCCACAAACG
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
11547253 CCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAC-AACA
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
11547295 CCGCTAAAGACCAGGA-CTTTAGCGGCGTTTTTCCTACAAACG
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * *** *
11547337 CCGCTATAGACCACGACCTTTAACGGTATTTTTCCCACAAATG
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
*
11547380 CCGCTATAGACCAGGACCTTTAGCGGCGCTTTT
1 CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTT
11547413 TTTACAAATG
Statistics
Matches: 173, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
41 19 0.11
42 64 0.37
43 90 0.52
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
CCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:11547271 original size:85 final size:85
Alignment explanation
Indices: 11547171--11547411 Score: 313
Period size: 85 Copynumber: 2.8 Consensus size: 85
11547161 ATAACCACCG
* *
11547171 CTAAAGACCATGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTTAGCGG
1 CTAAAGACCACGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCAGGACCTTTAGCGG
11547236 CGCTTTACCCACAAACGCCA
66 CGCTTTACCCACAAACGCCA
* * * * *
11547256 CTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAACACCGCTAAAGACCAGGA-CTTTAGCGG
1 CTAAAGACCACGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCAGGACCTTTAGCGG
* * * *
11547320 CGTTTTTCCTACAAACGCCG
66 CGCTTTACCCACAAACGCCA
* * ** * *
11547340 CTATAGACCACGACCTTTAACGGTATTTTTCCCACAAATGCCGCTATAGACCAGGACCTTTAGCG
1 CTAAAGACCACGACCTTTAGCGGTGCTTTT-CCAAAAACGCCGCTATAGACCAGGACCTTTAGCG
11547405 GCGCTTT
65 GCGCTTT
11547412 TTTTACAAAT
Statistics
Matches: 132, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 49 0.37
85 69 0.52
86 14 0.11
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (85 bp):
CTAAAGACCACGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCAGGACCTTTAGCGG
CGCTTTACCCACAAACGCCA
Found at i:11547392 original size:127 final size:127
Alignment explanation
Indices: 11547166--11547412 Score: 370
Period size: 127 Copynumber: 1.9 Consensus size: 127
11547156 TAGAAATAAC
* *
11547166 CACCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTT
1 CACCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTT
* *
11547231 AGCGGCGCTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
66 AACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
* *
11547293 CACCGCTAAAGACCAGGA-CTTTAGCGGCGTTTTTCCTACAAACGCCGCTATAGACCACGACCTT
1 CACCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC-AAAAACGCCGCTATAGACCACGACCTT
* * * * * *
11547357 TAACGGTATTTTTCCCACAAATGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTT
65 TAACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTT
11547413 TTTACAAATG
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
126 16 0.15
127 91 0.85
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (127 bp):
CACCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTT
AACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
Found at i:11547441 original size:127 final size:126
Alignment explanation
Indices: 11547166--11547470 Score: 326
Period size: 127 Copynumber: 2.4 Consensus size: 126
11547156 TAGAAATAAC
* * * *
11547166 CACCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTT
1 CACCACTAAAGAACA-GAACTTTAGCGGCGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTT
* *
11547231 AGCGGCGCTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
65 AACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
* * * * *
11547293 CACCGCTAAAGACCAGGACTTTAGCGGCGTTTTTCCTACAAACGCCGCTATAGACCACGACCTTT
1 CACCACTAAAGAACAGAACTTTAGCGGCGCTTTTCC-AAAAACGCCGCTATAGACCACGACCTTT
* * * * * * ***
11547358 AACGGTATTTTTCCCACAAATGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTTTACAA
65 AACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
* * * *
11547420 -ATGCCACTATAGAACA-AACTTTTAGCGACACTTCTCGCAAAAACGCCGCTA
1 CA--CCACTAAAGAACAGAAC-TTTAGCGGCGCTTTTC-CAAAAACGCCGCTA
11547471 AAAAATATCA
Statistics
Matches: 148, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
126 18 0.12
127 95 0.64
128 34 0.23
129 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (126 bp):
CACCACTAAAGAACAGAACTTTAGCGGCGCTTTTCCAAAAACGCCGCTATAGACCACGACCTTTA
ACGGCACTTTACCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAA
Found at i:11552380 original size:21 final size:22
Alignment explanation
Indices: 11552330--11552382 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
11552320 AACGTATAAT
11552330 CCTTAAACCCCTAAACATCTAAC
1 CCTTAAA-CCCTAAACATCTAAC
* * *
11552353 CCCTAAACCTTAAATATC-AAC
1 CCTTAAACCCTAAACATCTAAC
11552374 CCTTAAACC
1 CCTTAAACC
11552383 ATAATCCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 11 0.42
22 9 0.35
23 6 0.23
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (22 bp):
CCTTAAACCCTAAACATCTAAC
Found at i:11552410 original size:15 final size:15
Alignment explanation
Indices: 11552377--11552419 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
11552367 TATCAACCCT
11552377 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
11552391 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
11552405 TAAATCCATACTCCC
1 TAAATCCATAATCCC
11552420 CAAACCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 12 0.46
15 12 0.46
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:11552687 original size:14 final size:14
Alignment explanation
Indices: 11552670--11552711 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
11552660 AACCCTTAAA
*
11552670 CCATAATCCCTAAT
1 CCATAATCCCTAAC
11552684 CCATAATCCCTAAAC
1 CCATAATCCCT-AAC
*
11552699 CCATACTCCCTAA
1 CCATAATCCCTAA
11552712 ACCTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (14 bp):
CCATAATCCCTAAC
Found at i:11552708 original size:15 final size:15
Alignment explanation
Indices: 11552666--11552714 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
11552656 TCCCAACCCT
11552666 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
*
11552680 T-AATCCATAATCCC
1 TAAACCCATAATCCC
*
11552694 TAAACCCATACTCCC
1 TAAACCCATAATCCC
11552709 TAAACC
1 TAAACC
11552715 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 17 0.55
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:11553027 original size:41 final size:41
Alignment explanation
Indices: 11552982--11553265 Score: 352
Period size: 41 Copynumber: 6.9 Consensus size: 41
11552972 AAAAATAGAT
* * *
11552982 CATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCACCTAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11553023 CATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * * *
11553064 CATTAGCGGCGCTTCTTCAAAAGCGCCACTAAATCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11553105 CATTAGCGGCGCTTCTTAAAAAACGCCACTAAAGCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11553146 CATCAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11553187 TATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
** * * *
11553228 CATTAGCGGCGCTTTTTTATAAACGCCGCAAAAGCCCC
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
11553266 CGAAAACTCA
Statistics
Matches: 211, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 211 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (41 bp):
CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
Found at i:11553076 original size:82 final size:82
Alignment explanation
Indices: 11552943--11553265 Score: 371
Period size: 82 Copynumber: 4.0 Consensus size: 82
11552933 AAACCTAAGT
* * *** * **
11552943 ATTAGCGGCACTTTCC-AAAAAACGCCGCTAAAA-ATAGATCATTAGCGGCGCTTCCCCAAAAAC
1 ATTAGCGGCGC-TTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAAC
* *
11553006 GCCGCTAAAGCACCTAGC
65 GCCGCTAAAGCCCCGAGC
* * * *
11553024 ATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGGAGCATTAGCGGCGCTTCTTCAAAAGCG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
* *
11553089 CCACTAAATCCCCGAGC
66 CCGCTAAAGCCCCGAGC
* * * * * *
11553106 ATTAGCGGCGCTTCTTAAAAAACGCCACTAAAGCCCCGAGCATCAGCGGCGCTTCTTCAAAAATG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
11553171 CCGCTAAAGCCCCGAGT
66 CCGCTAAAGCCCCGAGC
* * * *
11553188 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTTATAAACG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
11553253 CCGCAAAAGCCCC
66 CCGCTAAAGCCCC
11553266 CGAAAACTCA
Statistics
Matches: 202, Mismatches: 38, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
80 3 0.01
81 25 0.12
82 174 0.86
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.18
Consensus pattern (82 bp):
ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
CCGCTAAAGCCCCGAGC
Found at i:11553252 original size:123 final size:123
Alignment explanation
Indices: 11552940--11553265 Score: 379
Period size: 123 Copynumber: 2.7 Consensus size: 123
11552930 GATAAACCTA
* * * * ***
11552940 AGTATTAGCGGCACTTTCC-AAAAAACGCCGCTAAAA--ATAGATCATTAGCGGCGCTTCCCCAA
1 AGTATTAGCGGCGC-TTCCTCAAAAACGCCGCTAAAACCCT-GAGCATTAGCGGCGCTTCTTAAA
* * * * *
11553002 AAACGCCGCTAAAGCACCTAGCATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGG
64 AAACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
* * * * * *
11553062 AGCATTAGCGGCGCTTCTTCAAAAGCGCCACTAAATCCCCGAGCATTAGCGGCGCTTCTTAAAAA
1 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
* * * *
11553127 ACGCCACTAAAGCCCCGAGCATCAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCG
66 ACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
* * *
11553185 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTTATAA
1 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
*
11553250 ACGCCGCAAAAGCCCC
66 ACGCCGCTAAAGCCCC
11553266 CGAAAACTCA
Statistics
Matches: 168, Mismatches: 33, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
121 3 0.02
122 25 0.15
123 140 0.83
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (123 bp):
AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
ACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
Found at i:11556683 original size:39 final size:39
Alignment explanation
Indices: 11556623--11556702 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
11556613 CATATGCATC
*
11556623 TGGTGATAAGATCGTGAGTGAAGATCTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
* *
11556662 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
11556701 TG
1 TG
11556703 AGGCTTTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.34
Consensus pattern (39 bp):
TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
Found at i:11556879 original size:180 final size:177
Alignment explanation
Indices: 11556662--11556987 Score: 483
Period size: 180 Copynumber: 1.8 Consensus size: 177
11556652 TGGCTAAGTT
* * *
11556662 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTTTGAGGCTTTGACAGAGAAGGCT-TCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGG-TGTCC
* * * * *
11556726 CATATTATAGCTGATGGTGTAGCTAGGATCCTTAAAGGTAAGGCTGCAGAATCAATCTCGCGTGG
65 CATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGG
11556791 AAGAAATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
130 -AG--ATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
* *
11556842 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGACGGTGTGCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
* * *
11556907 ATGTTATAGCTAATGATGTAGCTAGGATTATTAAAGATAAGGCTGCAGAATTAATCTCGCATGGA
66 ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
*
11556972 GATGAAGTTTCGCATG
131 GATGAAGTTTCCCATG
11556988 CCACATATGC
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
177 14 0.11
179 3 0.02
180 114 0.87
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (177 bp):
TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
GATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
Found at i:11561098 original size:26 final size:27
Alignment explanation
Indices: 11561048--11561108 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
11561038 AAAAATAATT
11561048 AAAATATTATAACTTTTTTTTATTTACC
1 AAAATATTATAAC-TTTTTTTATTTACC
11561076 AAAATATTATAA-TTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
11561102 AAAATAT
1 AAAATAT
11561109 ACCAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 21 0.64
28 12 0.36
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:11561193 original size:26 final size:27
Alignment explanation
Indices: 11561164--11561214 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11561154 CACCCTGGTC
*
11561164 GTGCCAAGGTG-TTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
11561190 GTGCCAAAGTGATTGGCGGGACCAA
1 GTGCCAAAGTGATTGGCGGCACCAA
11561215 TGTTATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.25, C:0.22, G:0.37, T:0.16
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:11561674 original size:24 final size:24
Alignment explanation
Indices: 11561647--11561698 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11561637 TTAGTAAGTC
*
11561647 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11561671 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11561695 AAAT
1 AAAT
11561699 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11563593 original size:24 final size:24
Alignment explanation
Indices: 11563566--11563617 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11563556 TTAGTAAGTC
*
11563566 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11563590 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11563614 AAAT
1 AAAT
11563618 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11563751 original size:18 final size:19
Alignment explanation
Indices: 11563695--11563784 Score: 57
Period size: 18 Copynumber: 4.8 Consensus size: 19
11563685 CAATTCTAAC
11563695 AGAAA-AAAAAGAAGA-AGA
1 AGAAAGAAAAAGAAGAGA-A
* * *
11563713 GGAAAGGAGAAGAA-A-AA
1 AGAAAGAAAAAGAAGAGAA
11563730 AGAAAGAAAAAGAAG-GAA
1 AGAAAGAAAAAGAAGAGAA
*
11563748 AGAAAAGGAAAGGAGAAGAGAA
1 AG-AAA-GAAA-AAGAAGAGAA
*
11563770 A-AAAGAAGAAGAAGA
1 AGAAAGAAAAAGAAGA
11563785 AGAGGGAAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
17 12 0.21
18 16 0.29
19 12 0.21
20 7 0.12
21 5 0.09
22 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AGAAAGAAAAAGAAGAGAA
Found at i:11563757 original size:41 final size:42
Alignment explanation
Indices: 11563706--11563786 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
11563696 GAAAAAAAAG
*
11563706 AAGAAGAGGAAAGGAG-A-AGAAAAAAGAAAGAAAAAGAAGGA
1 AAGAAAAGGAAAGGAGAAGAGAAAAAAG-AAGAAAAAGAAGGA
*
11563747 AAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAGAAGAAG
1 AAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAAAAGAAG
11563787 AGGGAAGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 15 0.42
42 12 0.33
43 9 0.25
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (42 bp):
AAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAAAAGAAGGA
Found at i:11563787 original size:21 final size:21
Alignment explanation
Indices: 11563723--11563788 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
11563713 GGAAAGGAGA
*
11563723 AGAAAAAAGAAAGAAAAAGAAG
1 AGAAAAAAG-AAGAAGAAGAAG
* *
11563745 -GAAAGAAA-AGGAAAGGAGAAG
1 AGAAA-AAAGAAG-AAGAAGAAG
11563766 AGAAAAAAGAAGAAGAAGAAG
1 AGAAAAAAGAAGAAGAAGAAG
11563787 AG
1 AG
11563789 GGAAGGAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
20 2 0.06
21 24 0.69
22 9 0.26
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AGAAAAAAGAAGAAGAAGAAG
Found at i:11568177 original size:14 final size:13
Alignment explanation
Indices: 11568142--11568206 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
11568132 ACACTCAAAT
11568142 TTTTCAAAAGCA-
1 TTTTCAAAAGCAC
* *
11568154 TTCTCAAAAAAGTAC
1 TTTTC--AAAAGCAC
11568169 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
11568182 TTTTCTATAGCAC
1 TTTTCAAAAGCAC
*
11568195 TTCTCAAAAGCA
1 TTTTCAAAAGCA
11568207 ATGAAGAACT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 4 0.10
13 27 0.66
14 6 0.15
15 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11574033 original size:19 final size:21
Alignment explanation
Indices: 11574006--11574044 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11573996 ACTAAAACAA
*
11574006 AAAATAAT-ACAA-AATATAC
1 AAAACAATAACAACAATATAC
11574025 AAAACAATAACAACAATATA
1 AAAACAATAACAACAATATA
11574045 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAACAACAATATAC
Found at i:11574306 original size:26 final size:27
Alignment explanation
Indices: 11574276--11574338 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
11574266 TTATTTTTGT
11574276 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
11574302 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
11574329 ATATTTTGGT
1 ATATTTTGGT
11574339 TATTTTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:11582873 original size:209 final size:209
Alignment explanation
Indices: 11582502--11583128 Score: 1020
Period size: 209 Copynumber: 3.0 Consensus size: 209
11582492 CTTGAGCCAG
* * * * * *
11582502 CTAATATTTGGTAGTGACTAGATAATTAGTATAACAATCGTTCCCTTTTGATTCAAAAGCTAGTT
1 CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTCCCTTTTGATTCGAAGGCTAGTT
* * * * *
11582567 ATAAAATAACCAAACGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAAATAATTTAAAA
66 ATAAAGTAGCCAAATGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAGATAATCTAAAA
11582632 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
*
11582697 TCATCAATTAGATT
196 TCATCAGTTAGATT
*
11582711 CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
1 CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTCCCTTTTGATTCGAAGGCTAGTT
*
11582776 ATAAAGTAGCCAAATGAGGACCTAAAATTATGGGTTAGAAGCGCTGGAGATGAGATAATCTAAAA
66 ATAAAGTAGCCAAATGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAGATAATCTAAAA
*
11582841 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGAGTGTTCTTATGGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
11582906 TCATCAGTTAGATT
196 TCATCAGTTAGATT
* * *
11582920 CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTTCCTTTTAATTCGGAGGCTAGTT
1 CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTCCCTTTTGATTCGAAGGCTAGTT
* * *
11582985 ATAAAGTAGCCAAATGAGTACCTAAAATTATGGGTTAGAAACGTTGGAGATGAGATAATCTAAAA
66 ATAAAGTAGCCAAATGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAGATAATCTAAAA
* * * * *
11583050 AGTAAAATTTATTGGCTATTTTAGCTTCGACCTCTAAAGGGGTGTCCTTATAGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
11583115 TCATCAGTTAGATT
196 TCATCAGTTAGATT
11583129 GACACAATGG
Statistics
Matches: 390, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
209 390 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (209 bp):
CTAATGTTTGATAGTGACTAGTTAATAAGTATAACAATCGTTCCCTTTTGATTCGAAGGCTAGTT
ATAAAGTAGCCAAATGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAGATAATCTAAAA
AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
TCATCAGTTAGATT
Found at i:11584669 original size:13 final size:13
Alignment explanation
Indices: 11584636--11584685 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
11584626 TCTTCATTGT
11584636 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
* * *
11584649 TATGGAAAAGTGC
1 TTTTGAAAAGTAC
*
11584662 TTTTGAAAATTAC
1 TTTTGAAAAGTAC
11584675 TTTTGAAAAGT
1 TTTTGAAAAGT
11584686 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:11584675 original size:26 final size:26
Alignment explanation
Indices: 11584636--11584685 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
11584626 TCTTCATTGT
11584636 TTTTGAAAAGTACTATGGAAAAGTGC
1 TTTTGAAAAGTACTATGGAAAAGTGC
* * *
11584662 TTTTGAAAATTACTTTTGAAAAGT
1 TTTTGAAAAGTACTATGGAAAAGT
11584686 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (26 bp):
TTTTGAAAAGTACTATGGAAAAGTGC
Found at i:11592290 original size:26 final size:27
Alignment explanation
Indices: 11592210--11592293 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 27
11592200 GCGAATCAAT
* *
11592210 ATCGGAAAGCTC-CGGAGAGCCAT-TA
1 ATCGGGAAGCTCACGAAGAGCCATATA
* * *
11592235 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACGAAGAGCCATATA
11592261 ATCGGGAAGCTCACGAAGAGCCATAT-
1 ATCGGGAAGCTCACGAAGAGCCATATA
11592287 ATCGGGA
1 ATCGGGA
11592294 CGTTCATAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
25 11 0.22
26 36 0.73
27 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (27 bp):
ATCGGGAAGCTCACGAAGAGCCATATA
Found at i:11596092 original size:34 final size:34
Alignment explanation
Indices: 11596049--11596118 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
11596039 AAAATACATA
*
11596049 TTGGTGCCGCCAACAAAAATGGCGACACCGATTT
1 TTGGTGCCGCCAACAAAAATGGCAACACCGATTT
11596083 TTGGTGCCGCCAACAAAAATGGCAACACCGATTT
1 TTGGTGCCGCCAACAAAAATGGCAACACCGATTT
11596117 TT
1 TT
11596119 TTTTAAATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (34 bp):
TTGGTGCCGCCAACAAAAATGGCAACACCGATTT
Found at i:11597882 original size:38 final size:43
Alignment explanation
Indices: 11597840--11597930 Score: 102
Period size: 45 Copynumber: 2.2 Consensus size: 43
11597830 TTAATTTATG
*
11597840 TATTTTTT-TAAATA-TCT-TA-TTTAAATTTT-AGGATTTTT
1 TATTTTTTCAAAATATTCTATATTTTAAATTTTGAGGATTTTT
**
11597878 TATTTTTTCAAAATATTCTAATATTTTTAAATTTTGATTATTTTT
1 TATTTTTTCAAAATATTCT-ATA-TTTTAAATTTTGAGGATTTTT
11597923 TATTTTTT
1 TATTTTTT
11597931 AATTCTCCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 8 0.19
39 5 0.12
40 3 0.07
42 2 0.05
44 10 0.23
45 15 0.35
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (43 bp):
TATTTTTTCAAAATATTCTATATTTTAAATTTTGAGGATTTTT
Found at i:11598280 original size:17 final size:18
Alignment explanation
Indices: 11598253--11598292 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11598243 ACTTCAGGTG
11598253 TCATATTAAATAAAAAAA
1 TCATATTAAATAAAAAAA
**
11598271 TCAT-TTAAATACCAAAA
1 TCATATTAAATAAAAAAA
11598288 TCATA
1 TCATA
11598293 ATACGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (18 bp):
TCATATTAAATAAAAAAA
Found at i:11599245 original size:51 final size:49
Alignment explanation
Indices: 11599142--11599260 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 49
11599132 TCAAACACTG
* * *
11599142 ATGGCCGGCACCAGTGTA-TTTTAAAAAAAAAATTGGTGTTGGCCATGTA
1 ATGGCCGGCACCA-AGTACATTTAAAAAAAAAATTGGTGCTGGCCATGTA
*
11599191 ATGGTCGGCACCAAGTACATTTAATAAAAAAAATTGGGTGCTGGCCA-GTAA
1 ATGGCCGGCACCAAGTACATTTAA-AAAAAAAATT-GGTGCTGGCCATGT-A
*
11599242 ATGGCCGGCACCAGGTACA
1 ATGGCCGGCACCAAGTACA
11599261 ATTTTCGGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
48 3 0.05
49 17 0.28
50 12 0.20
51 28 0.47
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
ATGGCCGGCACCAAGTACATTTAAAAAAAAAATTGGTGCTGGCCATGTA
Found at i:11599447 original size:118 final size:118
Alignment explanation
Indices: 11599216--11599448 Score: 308
Period size: 118 Copynumber: 2.0 Consensus size: 118
11599206 TACATTTAAT
* * *
11599216 AAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAGGTACAATTTTCGGTTCTCAAGGCAA
1 AAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTACAATTTTCGGCTCCCAAGGCAA
* * * *
11599281 TTTGTTTTTACTTTGAGACATTGATGATCGGCACCAGTGTATTTAAAAAAAGA
66 TTTGTTTTTACTTTGAGACACTGATGACCAGCACCAATGTATTTAAAAAAAGA
* * * *
11599334 AAAAAAAATTGGGTGCTGGCCAGTAGATGGCTGGCACCAAGTACAATTTTCGGCTCCCAATG-TA
1 AAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTACAATTTTCGGCTCCCAAGGCAA
* * * *
11599398 TTT-TTTTTATTTTGGGACACTGATGGCCAGTACCAATGTCATTTAAAAAAA
66 TTTGTTTTTACTTTGAGACACTGATGACCAGCACCAATGT-ATTTAAAAAAA
11599449 TTGTCTTCCA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
116 28 0.28
117 15 0.15
118 56 0.57
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (118 bp):
AAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTACAATTTTCGGCTCCCAAGGCAA
TTTGTTTTTACTTTGAGACACTGATGACCAGCACCAATGTATTTAAAAAAAGA
Found at i:11599515 original size:12 final size:12
Alignment explanation
Indices: 11599500--11599525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11599490 TCCATTTGAG
11599500 TTTTTGTTTGCT
1 TTTTTGTTTGCT
11599512 TTTTTGTTTGCT
1 TTTTTGTTTGCT
11599524 TT
1 TT
11599526 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:11602504 original size:15 final size:15
Alignment explanation
Indices: 11602486--11602542 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
11602476 TTTAAAACAC
*
11602486 ATTAAAATGAAATAA
1 ATTAAAATGAAAAAA
*
11602501 ATTACAATGAGAGAAAA
1 ATTAAAATGA-A-AAAA
*
11602518 ATTAATATGAAAAAAA
1 ATTAAAATG-AAAAAA
11602534 ATTAAAATG
1 ATTAAAATG
11602543 GAAAGAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.26
16 13 0.38
17 11 0.32
18 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.25
Consensus pattern (15 bp):
ATTAAAATGAAAAAA
Found at i:11602562 original size:21 final size:21
Alignment explanation
Indices: 11602528--11602583 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
11602518 ATTAATATGA
* *
11602528 AAAAAAATTAAAATGGAAAGA-
1 AAAATAATT-AAATGAAAAGAG
*
11602549 AAGATAACTTAAATGAAAAGAG
1 AAAATAA-TTAAATGAAAAGAG
11602571 AAAATAATTAAAT
1 AAAATAATTAAAT
11602584 TTAAATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAATAATTAAATGAAAAGAG
Found at i:11602573 original size:27 final size:26
Alignment explanation
Indices: 11602543--11602693 Score: 95
Period size: 27 Copynumber: 5.9 Consensus size: 26
11602533 AATTAAAATG
*
11602543 GAAAGAAAGATAACTTAAATGAAAAGA
1 GAAA-AAAGATAATTTAAATGAAAAGA
* *
11602570 GAAAATAA-TTAAATTTAAATGAAATGA
1 GAAAA-AAGAT-AATTTAAATGAAAAGA
*
11602597 G--AAAA-A-AA-TTAAATTAAAATG-
1 GAAAAAAGATAATTTAAATGAAAA-GA
* *
11602618 GAAAGAAAGATAACTTAAATGAAATGA
1 GAAA-AAAGATAATTTAAATGAAAAGA
* *
11602645 GAAAAAAAATTAAATTTAAATGGAAA-A
1 GAAAAAAGA-T-AATTTAAATGAAAAGA
*
11602672 -AAAAGAGATAATTTAAATGAAA
1 GAAAAAAGATAATTTAAATGAAA
11602694 TGGAAATGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
21 10 0.10
22 3 0.03
23 1 0.01
24 17 0.18
25 4 0.04
26 15 0.15
27 36 0.37
28 11 0.11
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.22
Consensus pattern (26 bp):
GAAAAAAGATAATTTAAATGAAAAGA
Found at i:11602605 original size:22 final size:22
Alignment explanation
Indices: 11602580--11602674 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 22
11602570 GAAAATAATT
11602580 AAATTTAAA-TGAAATGAGAAAA
1 AAATTTAAATTGAAATG-GAAAA
*
11602602 AAA-TTAAATTAAAATGGAAAGA
1 AAATTTAAATTGAAATGGAAA-A
11602624 AAGATAACTTAAA-TGAAATGAGAAAA
1 AA-AT---TTAAATTGAAATG-GAAAA
* *
11602650 AAAATTAAATTTAAATGGAAAA
1 AAATTTAAATTGAAATGGAAAA
11602672 AAA
1 AAA
11602675 AGAGATAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
21 9 0.15
22 25 0.42
23 7 0.12
25 1 0.02
26 9 0.15
27 9 0.15
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (22 bp):
AAATTTAAATTGAAATGGAAAA
Found at i:11602609 original size:48 final size:49
Alignment explanation
Indices: 11602584--11602763 Score: 156
Period size: 48 Copynumber: 3.7 Consensus size: 49
11602574 ATAATTAAAT
*
11602584 TTAAATGAAATGAG-AAAAAAATTAAATTAAAATGGAAAGAAAGATAAC
1 TTAAATGAAATGAGAAAAAAAATTAAATGAAAATGGAAAGAAAGATAAC
** * *
11602632 TTAAATGAAATGAGAAAAAAAATTAAATTTAAATGGAAAAAAAAGAGATAAT
1 TTAAATGAAATGAGAAAAAAAATTAAATGAAAATGG--AAAGAA-AGATAAC
** * *
11602684 TTAAATGAAATG-GAAATGAAATGAAATG-AAATGGAATGGAAATGA-AA-
1 TTAAATGAAATGAGAAAAAAAATTAAATGAAAATGGAA-AGAAA-GATAAC
* * *
11602731 TGAAATGAAAT-AGAAATAGAAATGAAATGAAAA
1 TTAAATGAAATGAGAAA-AAAAATTAAATGAAAA
11602764 AAAAAGGACA
Statistics
Matches: 112, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
47 14 0.12
48 30 0.27
49 27 0.24
50 6 0.05
51 17 0.15
52 18 0.16
ACGTcount: A:0.61, C:0.01, G:0.17, T:0.21
Consensus pattern (49 bp):
TTAAATGAAATGAGAAAAAAAATTAAATGAAAATGGAAAGAAAGATAAC
Found at i:11602668 original size:49 final size:51
Alignment explanation
Indices: 11602584--11602699 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 51
11602574 ATAATTAAAT
*
11602584 TTAAATGAAATGAG-AAAAAAATTAAATTAAAATGG-AAAGAA-AGATAAC
1 TTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAAAAAGAGATAAC
* *
11602632 TTAAATGAAATGAGAAAAAAAATTAAATTTAAATGGAAAAAAAAGAGATAAT
1 TTAAATGAAATGAGAAAAAAAATTAAATTAAAATGG-AAAAAAAGAGATAAC
11602684 TTAAATGAAATG-GAAA
1 TTAAATGAAATGAGAAA
11602700 TGAAATGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
48 14 0.23
49 20 0.33
51 9 0.15
52 18 0.30
ACGTcount: A:0.62, C:0.01, G:0.15, T:0.22
Consensus pattern (51 bp):
TTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAAAAAGAGATAAC
Found at i:11602704 original size:5 final size:5
Alignment explanation
Indices: 11602686--11602762 Score: 109
Period size: 5 Copynumber: 14.6 Consensus size: 5
11602676 GAGATAATTT
*
11602686 AAATG AAATGG AAATG AAATG AAATG AAATG GAATGG AAATG AAATG AAATG
1 AAATG AAAT-G AAATG AAATG AAATG AAATG AAAT-G AAATG AAATG AAATG
11602738 AAATAG AAATAG AAATG AAATG AAA
1 AAAT-G AAAT-G AAATG AAATG AAA
11602763 AAAAAAGGAC
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
5 47 0.70
6 20 0.30
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:11602712 original size:21 final size:20
Alignment explanation
Indices: 11602686--11602762 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 20
11602676 GAGATAATTT
11602686 AAATGAAATGGAAATGAAATG
1 AAATGAAAT-GAAATGAAATG
*
11602707 AAATGAAATGGAATGGAAATG
1 AAATGAAATGAAAT-GAAATG
11602728 AAATGAAATGAAATAGAAATAG
1 AAATGAAATGAAAT-GAAAT-G
11602750 AAATGAAATGAAA
1 AAATGAAATGAAA
11602763 AAAAAAGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.08
21 33 0.65
22 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGAAATGAAATGAAATG
Found at i:11602762 original size:16 final size:15
Alignment explanation
Indices: 11602686--11602762 Score: 109
Period size: 16 Copynumber: 4.9 Consensus size: 15
11602676 GAGATAATTT
11602686 AAATGAAATGGAAATG
1 AAATGAAAT-GAAATG
11602702 AAATGAAATGAAATG
1 AAATGAAATGAAATG
*
11602717 GAATGGAAATGAAATG
1 AAAT-GAAATGAAATG
11602733 AAATGAAATAGAAATAG
1 AAATGAAAT-GAAAT-G
11602750 AAATGAAATGAAA
1 AAATGAAATGAAA
11602763 AAAAAAGGAC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
15 14 0.25
16 32 0.57
17 10 0.18
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (15 bp):
AAATGAAATGAAATG
Done.