Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008914.1 Hibiscus syriacus cultivar Beakdansim tig00112217_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1601432
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:662142 original size:46 final size:46
Alignment explanation
Indices: 662091--662195 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
662081 CTATATGACT
*
662091 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
662137 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
662183 ATATGAAAT-ACAT
1 ATATGAAATGACAT
662196 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:662395 original size:17 final size:17
Alignment explanation
Indices: 662373--662437 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
662363 ACAGATTACA
662373 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
* **
662390 TCCTTCGGGACACAGATGACA
1 TCCTTCGGG--A-TGAT-AGG
662411 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
*
662428 TCATTCGGGA
1 TCCTTCGGGA
662438 CATTTATACG
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 19 0.51
18 3 0.08
19 2 0.05
20 3 0.08
21 10 0.27
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (17 bp):
TCCTTCGGGATGATAGG
Found at i:662399 original size:38 final size:38
Alignment explanation
Indices: 662344--662439 Score: 165
Period size: 38 Copynumber: 2.5 Consensus size: 38
662334 TATAAGACAT
* *
662344 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
662382 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
662420 ATGATAGGTCATTCGGGACA
1 ATGATAGGTCCTTCGGGACA
662440 TTTATACGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:662415 original size:21 final size:20
Alignment explanation
Indices: 662352--662420 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
662342 ATATGATAGG
*
662352 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGA-TACA
* **
662373 TCCTTCGGG--A-TGATAGG
1 TCCTTCGGGACACAGATACA
662390 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGAT-ACA
662411 TCCTTCGGGA
1 TCCTTCGGGA
662421 TGATAGGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 11 0.30
18 2 0.05
19 2 0.05
20 3 0.08
21 19 0.51
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (20 bp):
TCCTTCGGGACACAGATACA
Found at i:666206 original size:23 final size:22
Alignment explanation
Indices: 666179--666253 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
666169 TGATATATGA
666179 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
666202 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
666224 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
666248 ATATGA
1 ATATGA
666254 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:666212 original size:46 final size:46
Alignment explanation
Indices: 666161--666265 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
666151 CTATATGACT
*
666161 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
666207 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
666253 ATATGAAAT-ACAT
1 ATATGAAATGACAT
666266 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:666469 original size:38 final size:38
Alignment explanation
Indices: 666414--666509 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
666404 TATAAGACAT
* *
666414 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
666452 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* *
666490 ATGATAGGTCATTCTGGACA
1 ATGATAGGTCCTTCGGGACA
666510 TTTATACGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:666485 original size:21 final size:20
Alignment explanation
Indices: 666422--666490 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
666412 ATATGATAGG
*
666422 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGA-TACA
* **
666443 TCCTTCGGG--A-TGATAGG
1 TCCTTCGGGACACAGATACA
666460 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGAT-ACA
666481 TCCTTCGGGA
1 TCCTTCGGGA
666491 TGATAGGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 11 0.30
18 2 0.05
19 2 0.05
20 3 0.08
21 19 0.51
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (20 bp):
TCCTTCGGGACACAGATACA
Found at i:670269 original size:23 final size:22
Alignment explanation
Indices: 670242--670316 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
670232 TGATATATGA
670242 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
670265 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
*
670287 AATATGTAATACGTGGTACATGTG
1 -ATATG-AATACGTGATACATGTG
670311 ATATGA
1 ATATGA
670317 TATGAAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 15 0.38
24 6 0.15
25 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:670275 original size:46 final size:46
Alignment explanation
Indices: 670224--670328 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
670214 CTATATGACT
*
670224 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
* *
670270 ATATGAAATGACATATGAATATGTAATACGTGGTACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
670316 ATATGAAAT-ACAT
1 ATATGAAATGACAT
670329 GGTTACATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.07
46 52 0.93
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:670528 original size:17 final size:17
Alignment explanation
Indices: 670506--670570 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
670496 ACAGATTACA
670506 TCCTTCGGGATGACAGG
1 TCCTTCGGGATGACAGG
*
670523 TCCTTCGGGA-CACAGATG
1 TCCTTCGGGATGACAG--G
*
670541 ACATCCTTCGGGATGATAGG
1 ---TCCTTCGGGATGACAGG
670561 TCCTTCGGGA
1 TCCTTCGGGA
670571 CATTTATACG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 4 0.10
17 20 0.51
18 1 0.03
20 1 0.03
21 10 0.26
22 3 0.08
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (17 bp):
TCCTTCGGGATGACAGG
Found at i:670533 original size:38 final size:38
Alignment explanation
Indices: 670477--670572 Score: 165
Period size: 38 Copynumber: 2.5 Consensus size: 38
670467 TATAAGACAT
* *
670477 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
670515 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
670553 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
670573 TTTATACGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:670549 original size:21 final size:21
Alignment explanation
Indices: 670485--670553 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
670475 ATATGATAGG
* *
670485 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGATGACA
*
670506 TCCTTCGGGATGACAG--G---
1 TCCTTCGGGA-CACAGATGACA
670523 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGATGACA
670544 TCCTTCGGGA
1 TCCTTCGGGA
670554 TGATAGGTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 1 0.03
21 19 0.50
22 4 0.11
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.22
Consensus pattern (21 bp):
TCCTTCGGGACACAGATGACA
Found at i:677183 original size:23 final size:22
Alignment explanation
Indices: 677156--677230 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
677146 TGATATATGA
677156 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
677179 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
*
677201 AATATGTAATACGTGCTACATGTG
1 -ATATG-AATACGTGATACATGTG
677225 ATATGA
1 ATATGA
677231 TATGAAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 15 0.38
24 6 0.15
25 5 0.13
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:677200 original size:46 final size:46
Alignment explanation
Indices: 677138--677242 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
677128 CTATATGACT
* *
677138 ATATCAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
* *
677184 ATATGAAATGACATATGAATATGTAATACGTGCTACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
677230 ATATGAAAT-ACAT
1 ATATGAAATGACAT
677243 GGTTACATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:677439 original size:38 final size:38
Alignment explanation
Indices: 677391--677486 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
677381 TATAAGACAT
* * *
677391 ATGATAGGTCCTACGGGACACATATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
677429 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
677467 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
677487 TTTATACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:677442 original size:17 final size:17
Alignment explanation
Indices: 677420--677484 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
677410 ACATATTACA
677420 TCCTTCGGGATGACAGG
1 TCCTTCGGGATGACAGG
*
677437 TCCTTCGGGA-CACAGATG
1 TCCTTCGGGATGACAG--G
*
677455 ACATCCTTCGGGATGATAGG
1 ---TCCTTCGGGATGACAGG
677475 TCCTTCGGGA
1 TCCTTCGGGA
677485 CATTTATACG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 4 0.10
17 20 0.51
18 1 0.03
20 1 0.03
21 10 0.26
22 3 0.08
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (17 bp):
TCCTTCGGGATGACAGG
Found at i:693144 original size:3 final size:3
Alignment explanation
Indices: 693136--693166 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
693126 TATTTATTTG
693136 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
693167 TTGGGTCGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:693152 original size:30 final size:30
Alignment explanation
Indices: 693096--693149 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 30
693086 GTGTGTTGGG
693096 TATTTAGTTTGTAAATAAATAATAATATTT
1 TATTTAGTTTGTAAATAAATAATAATATTT
693126 TATTTA-TTTGT-AAT-AATAATAATA
1 TATTTAGTTTGTAAATAAATAATAATA
693150 ATAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.42
28 3 0.12
29 5 0.21
30 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (30 bp):
TATTTAGTTTGTAAATAAATAATAATATTT
Found at i:695291 original size:3 final size:3
Alignment explanation
Indices: 695283--695323 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
695273 TTTATTGTAG
695283 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
695324 GTAAAAATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:700702 original size:10 final size:10
Alignment explanation
Indices: 700687--700726 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
700677 TTTATCACAC
700687 CAAATTCTCT
1 CAAATTCTCT
700697 CAAATTCTCT
1 CAAATTCTCT
700707 -AAATTTCTCT
1 CAAA-TTCTCT
*
700717 CAAATACTCT
1 CAAATTCTCT
700727 ATCTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:701047 original size:111 final size:111
Alignment explanation
Indices: 700853--701185 Score: 569
Period size: 111 Copynumber: 3.0 Consensus size: 111
700843 TGGAAATCAT
* *
700853 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGCAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
700918 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
700964 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
701029 TAATTAGTTGATTTATTTAATCCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
701075 ATATCTCGACACTTTGATGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
701140 TAATT-GATTGATTTATTTAATGTATGATTATTAGAGTAAGAATTAA
66 TAATTAG-TTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
701186 TTTTTGTAAT
Statistics
Matches: 210, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
110 1 0.00
111 209 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:705130 original size:51 final size:52
Alignment explanation
Indices: 705027--705161 Score: 132
Period size: 51 Copynumber: 2.6 Consensus size: 52
705017 CCCCTACGTG
* * * *
705027 GCGTATAGCGCGG-ATCAGGGGGCACGCTATAC-CACACGTGTAACCCAGTCA
1 GCGTATAGCGCGGTA-CAGGGGGCGCGCTATACTCACACGTGGAACCAAATCA
* **
705078 GCGTATAGCGCGGTACAGGGGACGCGCTATACTC-CACGTGGCGCCAAATCA
1 GCGTATAGCGCGGTACAGGGGGCGCGCTATACTCACACGTGGAACCAAATCA
* * * * *
705129 GCATATAACGAGGTTCAGGGGGCGCGCTTTACT
1 GCGTATAGCGCGGTACAGGGGGCGCGCTATACT
705162 GCTACGGGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 67 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (52 bp):
GCGTATAGCGCGGTACAGGGGGCGCGCTATACTCACACGTGGAACCAAATCA
Found at i:706220 original size:60 final size:60
Alignment explanation
Indices: 706120--706233 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
706110 TTAGGGATAA
* * * *
706120 ATTTAGAATAAAATACATAATTTGAATATAAAATTAAAATATTTAAAAGTTTAAGGTTTG
1 ATTTAAAATAAAATACATAATTTGAAGATAAAATTAAAATATTCAAAAATTTAAGGTTTG
* *
706180 ATTTAAAATAAAATTCATAATTT-AGAGATGAAA-TACAAATATTCAAAAATTTAA
1 ATTTAAAATAAAATACATAATTTGA-AGATAAAATTA-AAATATTCAAAAATTTAA
706234 AAACTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.07
60 43 0.93
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (60 bp):
ATTTAAAATAAAATACATAATTTGAAGATAAAATTAAAATATTCAAAAATTTAAGGTTTG
Found at i:707431 original size:82 final size:82
Alignment explanation
Indices: 707294--707540 Score: 467
Period size: 82 Copynumber: 3.0 Consensus size: 82
707284 ATCATGTTGT
*
707294 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCACACAAACATGAGAATCC
1 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCTCACAAACATGAGAATCC
707359 AAGAGAAATCGTGCACC
66 AAGAGAAATCGTGCACC
*
707376 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTATGGGTTTTCTCACAAACATGAGAATCC
1 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCTCACAAACATGAGAATCC
707441 AAGAGAAATCGTGCACC
66 AAGAGAAATCGTGCACC
707458 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCTCACAAACATGAGAATCC
1 TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCTCACAAACATGAGAATCC
*
707523 AAGAGAAATCATGCACC
66 AAGAGAAATCGTGCACC
707540 T
1 T
707541 TAAGATGTAA
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 161 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (82 bp):
TGATTAGTGCTAAACTTACTCTAAATTAATCAAAACTTTGGGTTTTCTCACAAACATGAGAATCC
AAGAGAAATCGTGCACC
Found at i:708116 original size:47 final size:47
Alignment explanation
Indices: 708042--708135 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
708032 TGCTCATATC
*
708042 CCTAATATTTTTAGTGCTCGAACCTGAAACCTCAAGAAATAACGTTA
1 CCTAATATTTTTAGTACTCGAACCTGAAACCTCAAGAAATAACGTTA
* * *
708089 CCTAGTATTTTTAGTACTCGAACCTGAAACTTCAAGAAATAGCGTTA
1 CCTAATATTTTTAGTACTCGAACCTGAAACCTCAAGAAATAACGTTA
708136 ATTCCTCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (47 bp):
CCTAATATTTTTAGTACTCGAACCTGAAACCTCAAGAAATAACGTTA
Found at i:708573 original size:2 final size:2
Alignment explanation
Indices: 708566--708613 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
708556 TTAGCTGTCA
708566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
708608 AT AT AT
1 AT AT AT
708614 TGCAAGCGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:719026 original size:146 final size:143
Alignment explanation
Indices: 718749--719010 Score: 336
Period size: 146 Copynumber: 1.8 Consensus size: 143
718739 CTATATAGAC
* * *
718749 CATCATTAAGTCCTCAATAATGACTTTGATCAACATAGGGAACATATAAACATAATCAAATTTTG
1 CATCATTAAGTCCTCAATAATAACTTTGATCAACATAGGGAACATAGAAACATAATCAAATTTCG
* * * * *
718814 GATGGACCCTACCCTCAACCAGTTTTTAAATGAAGGAAAAAGTTTTTTTTATAGAAAACATTATT
66 GATGGACCCTACCCTAAACCAGTTATTAAA-GAAGG-AAAAG-TTTTTTTAAAAAAAAAATTATT
718879 AATATTGTATTTATAT
128 AATATTGTATTTATAT
* *
718895 CATCATTAAGTTCTCAATAATAACTTTGATCAACAT-GGGAAACATAGAAACATAATCACATTTC
1 CATCATTAAGTCCTCAATAATAACTTTGATCAACATAGGG-AACATAGAAACATAATCAAATTTC
* *
718959 GGATGGACCCTTACCCTAAACCA-TTATTAAA-ATGG-ATA-TTTTTTTAAAAAAA
65 GGATGGACCC-TACCCTAAACCAGTTATTAAAGAAGGAAAAGTTTTTTTAAAAAAA
719011 TTATTAATAC
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
140 12 0.12
142 2 0.02
144 3 0.03
145 3 0.03
146 72 0.70
147 11 0.11
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (143 bp):
CATCATTAAGTCCTCAATAATAACTTTGATCAACATAGGGAACATAGAAACATAATCAAATTTCG
GATGGACCCTACCCTAAACCAGTTATTAAAGAAGGAAAAGTTTTTTTAAAAAAAAAATTATTAAT
ATTGTATTTATAT
Found at i:720045 original size:17 final size:17
Alignment explanation
Indices: 720025--720085 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
720015 TTTTTAAAAA
*
720025 TTATTTTTATATTATTT
1 TTATTTTAATATTATTT
720042 TTATTTTAATATTATTAT
1 TTATTTTAATATTATT-T
* *
720060 GGGTATTTTAATATTTTTT
1 --TTATTTTAATATTATTT
720079 TTATTTT
1 TTATTTT
720086 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 21 0.57
18 1 0.03
19 1 0.03
20 14 0.38
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TTATTTTAATATTATTT
Found at i:720059 original size:20 final size:20
Alignment explanation
Indices: 720034--720112 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
720024 ATTATTTTTA
720034 TATTATTTTTATTTTAATAT
1 TATTATTTTTATTTTAATAT
***
720054 TATTATGGGTATTTTAATAT
1 TATTATTTTTATTTTAATAT
* * *
720074 TTTTTTTATTTTTTTTAATAATT
1 TATTATT-TTTATTTTAAT-A-T
*
720097 TAATAATTTTTATTTT
1 T-ATTATTTTTATTTT
720113 TTAAAAGATT
Statistics
Matches: 42, Mismatches: 13, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
20 21 0.50
21 8 0.19
22 1 0.02
23 9 0.21
24 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TATTATTTTTATTTTAATAT
Found at i:725494 original size:23 final size:23
Alignment explanation
Indices: 725446--725506 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
725436 GTTCATGTTC
* * **
725446 GTTCATTTAACATTTGTGAATGT
1 GTTCGTTTAACGTTTGTGAACAT
*
725469 GTTCGTTTAATGTTTGTGAACAT
1 GTTCGTTTAACGTTTGTGAACAT
*
725492 GTTTGTTTAACGTTT
1 GTTCGTTTAACGTTT
725507 ATTTAATGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (23 bp):
GTTCGTTTAACGTTTGTGAACAT
Found at i:725511 original size:11 final size:11
Alignment explanation
Indices: 725492--725538 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
725482 TTGTGAACAT
725492 GTTTGTTTAAC
1 GTTTGTTTAAC
* *
725503 GTTTATTTAAT
1 GTTTGTTTAAC
*
725514 GTTTGTTTAGC
1 GTTTGTTTAAC
725525 GTTTGTTTAAC
1 GTTTGTTTAAC
725536 GTT
1 GTT
725539 CATTTAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.57
Consensus pattern (11 bp):
GTTTGTTTAAC
Found at i:725534 original size:33 final size:33
Alignment explanation
Indices: 725492--725560 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
725482 TTGTGAACAT
* *
725492 GTTTGTTTAACGTTTATTTAATGTTTGTTTAGC
1 GTTTGTTTAACGTTCATTTAATGTTCGTTTAGC
725525 GTTTGTTTAACGTTCATTTAATGTTCGTTTAGC
1 GTTTGTTTAACGTTCATTTAATGTTCGTTTAGC
725558 GTT
1 GTT
725561 CATGAACATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (33 bp):
GTTTGTTTAACGTTCATTTAATGTTCGTTTAGC
Found at i:725544 original size:22 final size:22
Alignment explanation
Indices: 725519--725563 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
725509 TTAATGTTTG
* *
725519 TTTAGCGTTTGTTTAACGTTCA
1 TTTAACGTTCGTTTAACGTTCA
* *
725541 TTTAATGTTCGTTTAGCGTTCA
1 TTTAACGTTCGTTTAACGTTCA
725563 T
1 T
725564 GAACATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (22 bp):
TTTAACGTTCGTTTAACGTTCA
Found at i:725872 original size:19 final size:22
Alignment explanation
Indices: 725829--725876 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
725819 GATATCAAAT
725829 ATTAAATTGAATTGACAAAAAA
1 ATTAAATTGAATTGACAAAAAA
*
725851 ATTAAATTG-A-TG-CAAGAAA
1 ATTAAATTGAATTGACAAAAAA
725870 ATTAAAT
1 ATTAAAT
725877 ACCTTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
20 2 0.08
21 1 0.04
22 9 0.36
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29
Consensus pattern (22 bp):
ATTAAATTGAATTGACAAAAAA
Found at i:728281 original size:20 final size:20
Alignment explanation
Indices: 728251--728309 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
728241 CATGTGTTGG
728251 GGAAA-TCAGATTTTAGGTT
1 GGAAATTCAGATTTTAGGTT
728270 GGAAATTCAGATTTTAGGTT
1 GGAAATTCAGATTTTAGGTT
728290 GGAAATTCAGATTTTAGGTT
1 GGAAATTCAGATTTTAGGTT
728310 TGATAATCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
19 5 0.13
20 34 0.87
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (20 bp):
GGAAATTCAGATTTTAGGTT
Found at i:729808 original size:20 final size:20
Alignment explanation
Indices: 729783--729822 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
729773 GAACCTTATA
* *
729783 GAACTGATCTGAGTCAACTT
1 GAACTGAACTAAGTCAACTT
729803 GAACTGAACTAAGTCAACTT
1 GAACTGAACTAAGTCAACTT
729823 TGGTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (20 bp):
GAACTGAACTAAGTCAACTT
Found at i:733881 original size:37 final size:37
Alignment explanation
Indices: 733824--733916 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
733814 TTTTCACCCT
733824 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTTAAA
*
733862 AAACCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
*
733899 AAACCCGACCTGACCCGA
1 AAACCCGACCCGACCCGA
733917 ACAAAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 45 0.87
38 7 0.13
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.11
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
Found at i:735364 original size:114 final size:113
Alignment explanation
Indices: 735145--735781 Score: 958
Period size: 112 Copynumber: 5.7 Consensus size: 113
735135 AACTTTCAAC
* ** ** *
735145 AAAGTATCGATACATGTACA-AAAAGTATTTATACTTTCAACATATGAGGTAGCTCTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
* *
735209 TTTGTCATAATGAAACTGGATTTGTCATATTTTTACCTGTTATATTAT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * **
735257 AAAGTATCTATACATTTTTATAAAAATTATCGATACTTTCAACATATCAGGTAGCTCTTTATTGG
1 AAAGTATCGATACATTTTTAT-AAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
* *
735322 TTTTGCCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
735371 AAAGTATCGATACATTTTTATAAAAAGTATAGATACTTTCAACATATCAGGTAGCTTTTTACCGG
1 AAAGTATCGATACATTTTTAT-AAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
*
735436 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
735485 AAAGTATTGATACATTTTTAT-AAAGTGTTGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
*
735549 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
*
735597 AAAGTATCGATACATTTTTAT-AAAGTGTCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
* *
735661 TTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTATTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * * * *
735709 AAAGTATCAATACATTTTTAT-AAAGTATCAATACTTTAAACATATTAAGTAGCTCTTTACCAGT
1 AAAGTATCGATACATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
735773 TTTGTCATA
66 TTTGTCATA
735782 TTTTTACCTG
Statistics
Matches: 482, Mismatches: 41, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
112 275 0.57
114 207 0.43
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGT
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:736052 original size:72 final size:73
Alignment explanation
Indices: 735893--736062 Score: 272
Period size: 74 Copynumber: 2.3 Consensus size: 73
735883 TTCAACATAT
* * *
735893 CCGGTAGGTAGTTTAATGTAATAGGTAGCGCATATTTTTTTTACCGTTTACATTATTAGCAACCT
1 CCGGTAGGTATTTTAATGTAATAGGTAGCGCATATTTTTTTTACCATTTACATTATTAACAACCT
735958 TAAAAAAAA
66 T-AAAAAAA
*
735967 TCGGTAGGTATTTTAATGTAATAGGTAGCGTC-TATTTTTTTTACCATTTACATTATTAACAACC
1 CCGGTAGGTATTTTAATGTAATAGGTAGCG-CATATTTTTTTTACCATTTACATTATTAACAACC
736031 TT-AAAAAA
65 TTAAAAAAA
736039 CCGGTAGGTATTTTAATGTAATAG
1 CCGGTAGGTATTTTAATGTAATAG
736063 ATAGTTTAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
72 29 0.32
74 60 0.67
75 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (73 bp):
CCGGTAGGTATTTTAATGTAATAGGTAGCGCATATTTTTTTTACCATTTACATTATTAACAACCT
TAAAAAAA
Found at i:736307 original size:23 final size:23
Alignment explanation
Indices: 736281--736330 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
736271 ACCTATTTTA
*
736281 TTATATAAACACTACCTATTACG
1 TTATATAAACACTACCTAATACG
* * *
736304 TTATATAAGCGCTACCTAATATG
1 TTATATAAACACTACCTAATACG
736327 TTAT
1 TTAT
736331 TGTGCTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (23 bp):
TTATATAAACACTACCTAATACG
Found at i:736423 original size:158 final size:158
Alignment explanation
Indices: 736150--736630 Score: 827
Period size: 158 Copynumber: 3.0 Consensus size: 158
736140 ATTTTGTTGC
* * **
736150 ATAAGCGCTACCTAATATGTTATTATGCTTGATAACGTTTCCAACAATTAACCGGTTATGTTATC
1 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
*
736215 CTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTT
66 CTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTT
* *
736280 ATTATATAAACACTACCTATTACGTTAT
131 ATTATATAAGCGCTACCTATTACGTTAT
736308 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
1 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
* *
736373 CTTGGTAACATTTTAGGCGTTTCCCTAATATATTGTAATAACAAATTAAATAATTAACCTATTTT
66 CTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTT
736438 ATTATATAAGCGCTACCTATTACGTTAT
131 ATTATATAAGCGCTACCTATTACGTTAT
736466 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
1 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
* * * * *
736531 CTTAGTAACATTTTAGTCGTTTACCTAATACGTTGTAATAACAAATTAAGTAATTAACCTATTCT
66 CTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTT
*
736596 ATTATATAAGCGCTACCTATTACATTAT
131 ATTATATAAGCGCTACCTATTACGTTAT
736624 ATAAGCG
1 ATAAGCG
736631 TATGATGTGA
Statistics
Matches: 306, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 306 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (158 bp):
ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCGGTTATGTTATC
CTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTT
ATTATATAAGCGCTACCTATTACGTTAT
Found at i:736466 original size:21 final size:23
Alignment explanation
Indices: 736439--736488 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
736429 ACCTATTTTA
*
736439 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
736462 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
736485 TTAT
1 TTAT
736489 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:736613 original size:23 final size:23
Alignment explanation
Indices: 736587--736630 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
736577 TAAGTAATTA
736587 ACCTATT-CTATTATATAAGCGCT
1 ACCTATTAC-ATTATATAAGCGCT
736610 ACCTATTACATTATATAAGCG
1 ACCTATTACATTATATAAGCG
736631 TATGATGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:738409 original size:17 final size:17
Alignment explanation
Indices: 738377--738408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
738367 AAATTGGAGT
738377 ACAAAAAGAAAGAAAAG
1 ACAAAAAGAAAGAAAAG
738394 ACAAAAAG-AAGAAAA
1 ACAAAAAGAAAGAAAA
738409 AAAGAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
ACAAAAAGAAAGAAAAG
Found at i:741355 original size:2 final size:2
Alignment explanation
Indices: 741348--741402 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
741338 AGTTATTTTC
741348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
741390 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
741403 GTTCTTATGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:756559 original size:12 final size:12
Alignment explanation
Indices: 756542--756570 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
756532 TCTTTTTCCT
756542 TTGTCGTGGCAA
1 TTGTCGTGGCAA
756554 TTGTCGTGGCAA
1 TTGTCGTGGCAA
756566 TTGTC
1 TTGTC
756571 TTCAATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.38
Consensus pattern (12 bp):
TTGTCGTGGCAA
Found at i:757160 original size:653 final size:653
Alignment explanation
Indices: 755915--757191 Score: 2428
Period size: 653 Copynumber: 2.0 Consensus size: 653
755905 TAACCTTTAA
*
755915 GTCTTCAATAAGCCCAACATCAGGTCCCAGCTGAATGAAATTTTCCTGGCAAAAATGATATGTTG
1 GTCTTCAATAAGCCCAACATCAAGTCCCAGCTGAATGAAATTTTCCTGGCAAAAATGATATGTTG
755980 ATGTTGTTATTACTGTATCTACTTCAAATATGCTCTGGCATTCTTCAGAATCATCCATGTACTTG
66 ATGTTGTTATTACTGTATCTACTTCAAATATGCTCTGGCATTCTTCAGAATCATCCATGTACTTG
756045 AGAGATCGGAAGACATTCACAGTGACATGTTGATCGGTCACTCGCATGGTTAGCTCACCCCTCTC
131 AGAGATCGGAAGACATTCACAGTGACATGTTGATCGGTCACTCGCATGGTTAGCTCACCCCTCTC
*
756110 ACAGTCGATGAGAATTCGACCGGTAGCTAGGAAATGTCTCCCCAAGATGATGGGTGTTGTGGCGT
196 ACAGTCGATGAGAATTCGACCGGTAGCTAGGAAATGTCTCCCCAAGATGATGGGTGCTGTGGCGT
*
756175 CGACCTCACAGTCCAGAATCAGAAAATCGACAGGAAAAACGAACTTGTAGACCCGTACGATGACA
261 CGACCTCACAGTCCAGAATCAGAAAATCGACAGGAAAAACGAACCTGTAGACCCGTACGATGACA
* *
756240 TCTTCAATTCGCCCCTCTGGTCGAACATGCGAACGATCGACTAATTTCAGGATGACCGAGGTGGG
326 TCTTCAATTCGCCCCTCTGGTCGAACATGCGAACGATCGACTAATTACAGGATGACCAAGGTGGG
*
756305 TCTCACATTTCCTATCCCAAGCTTGACGAATATTGACTTAGGCATCAAGTTCATACTTGAACCAA
391 TCTCACATTTCCTATCCCAAGCTTGACGAATATTGACTTAGGCATCAAGTTCACACTTGAACCAA
756370 GGTCACATAATGCCTTCCCAACAAATTTGTCTCATATCGAATATGGGATGATGAAGCTGCCTGGA
456 GGTCACATAATGCCTTCCCAACAAATTTGTCTCATATCGAATATGGGATGATGAAGCTGCCTGGA
756435 TCATGTCTCTTTGGTGGCAGCTTACTTAAGGAAGAGAAAAATTCTTTTGTAGTGGAAATTGTTTC
521 TCATGTCTCTTTGGTGGCAGCTTACTTAAGGAAGAGAAAAATTCTTTTGTAGTGGAAATTGTTTC
756500 ATACTGCTCAACCTTTATCTTTTTGGTAACAATCTTTTTCCTTTGTCGTGGCAATTGTCGTGGCA
586 ATACTGCTCAACCTTTATCTTTTTGGTAACAATCTTTTTCCTTTGTCGTGGCAATTGTCGTGGCA
756565 ATT
651 ATT
756568 GTCTTCAATAAGCCCAACATCAAGTCCCAGCTGAATGAAATTTTCCTGGCAAAAATGATATGTTG
1 GTCTTCAATAAGCCCAACATCAAGTCCCAGCTGAATGAAATTTTCCTGGCAAAAATGATATGTTG
756633 ATGTTGTTATTACTGTATCTACTTCAAATATGCTCTGGCATTCTTCAGAATCATCCATGTACTTG
66 ATGTTGTTATTACTGTATCTACTTCAAATATGCTCTGGCATTCTTCAGAATCATCCATGTACTTG
756698 AGAGATCGGAAGACATTCACAGTGACATGTTGATCGGTCACTCGCATGGTTAGCTCACCCCTCTC
131 AGAGATCGGAAGACATTCACAGTGACATGTTGATCGGTCACTCGCATGGTTAGCTCACCCCTCTC
756763 ACAGTCGATGAGAATTCGACCGGTAGCTAGGAAATGTCTCCCCAAGATGATGGGTGCTGTGGCGT
196 ACAGTCGATGAGAATTCGACCGGTAGCTAGGAAATGTCTCCCCAAGATGATGGGTGCTGTGGCGT
*
756828 CGACCTCACAGTCCAGAATCAGAAAATCGATAGGAAAAACGAACCTGTAGACCCGTACGATGACA
261 CGACCTCACAGTCCAGAATCAGAAAATCGACAGGAAAAACGAACCTGTAGACCCGTACGATGACA
* * * *
756893 TCTTCAATTCGCCCCTCTGGTCGAACGTGCGAACGATTGGCTAATTACAGGATGACCAATGTGGG
326 TCTTCAATTCGCCCCTCTGGTCGAACATGCGAACGATCGACTAATTACAGGATGACCAAGGTGGG
756958 TCTCACATTTCCTATCCCAAGCTTGACGAATATTGACTTAGGCATCAAGTTCACACTTGAACCAA
391 TCTCACATTTCCTATCCCAAGCTTGACGAATATTGACTTAGGCATCAAGTTCACACTTGAACCAA
757023 GGTCACATAATGCCTTCCCAACAAATTTGTCTCATATCGAATATGGGATGATGAAGCTGCCTGGA
456 GGTCACATAATGCCTTCCCAACAAATTTGTCTCATATCGAATATGGGATGATGAAGCTGCCTGGA
* * *
757088 TCATGTCTCTTTGGTGGCAGCTTACTTAAGGAAGAGCAAAATTCTTTTGTCGTGGCAATTGTTTC
521 TCATGTCTCTTTGGTGGCAGCTTACTTAAGGAAGAGAAAAATTCTTTTGTAGTGGAAATTGTTTC
757153 ATACTGCTCAACCTTTATCTTTTTGGTAACAATCTTTTT
586 ATACTGCTCAACCTTTATCTTTTTGGTAACAATCTTTTT
757192 GAGGAATTTG
Statistics
Matches: 610, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
653 610 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (653 bp):
GTCTTCAATAAGCCCAACATCAAGTCCCAGCTGAATGAAATTTTCCTGGCAAAAATGATATGTTG
ATGTTGTTATTACTGTATCTACTTCAAATATGCTCTGGCATTCTTCAGAATCATCCATGTACTTG
AGAGATCGGAAGACATTCACAGTGACATGTTGATCGGTCACTCGCATGGTTAGCTCACCCCTCTC
ACAGTCGATGAGAATTCGACCGGTAGCTAGGAAATGTCTCCCCAAGATGATGGGTGCTGTGGCGT
CGACCTCACAGTCCAGAATCAGAAAATCGACAGGAAAAACGAACCTGTAGACCCGTACGATGACA
TCTTCAATTCGCCCCTCTGGTCGAACATGCGAACGATCGACTAATTACAGGATGACCAAGGTGGG
TCTCACATTTCCTATCCCAAGCTTGACGAATATTGACTTAGGCATCAAGTTCACACTTGAACCAA
GGTCACATAATGCCTTCCCAACAAATTTGTCTCATATCGAATATGGGATGATGAAGCTGCCTGGA
TCATGTCTCTTTGGTGGCAGCTTACTTAAGGAAGAGAAAAATTCTTTTGTAGTGGAAATTGTTTC
ATACTGCTCAACCTTTATCTTTTTGGTAACAATCTTTTTCCTTTGTCGTGGCAATTGTCGTGGCA
ATT
Found at i:768866 original size:20 final size:20
Alignment explanation
Indices: 768837--768874 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
768827 TTTCAAAGGA
768837 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
768857 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
768875 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:769046 original size:64 final size:65
Alignment explanation
Indices: 768885--769046 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
768875 GAATAAATTG
* * * ** * *
768885 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATGTATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
* * *
768950 AACATCGATTGCATTTTATGCATCGATGCACACACCATACATCGATGCACTTAGG-CTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
* *
769014 AACATCGAATGCATTTTATGCATTGATACACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
769047 TTAGTGCACC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
Found at i:777219 original size:20 final size:20
Alignment explanation
Indices: 777190--777227 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
777180 TTTCAAAGGA
777190 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
777210 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
777228 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:777398 original size:64 final size:65
Alignment explanation
Indices: 777238--777399 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
777228 GAATAAATTG
* * * * * *
777238 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATGTATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATAGATGCACTCAGGTCTTAATGAA
* * * * * *
777303 AATATCGATTGCATTTAATGCATCGATGCACACACCATGCATAGATGCACTTAGG-CTTATTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATAGATGCACTCAGGTCTTAATGAA
*
777367 AACATCGAATGCATTTTATGTATCGATGCACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
777400 TTAGTGCACC
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
64 35 0.43
65 46 0.57
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATAGATGCACTCAGGTCTTAATGAA
Found at i:777414 original size:64 final size:64
Alignment explanation
Indices: 777238--777417 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 64
777228 GAATAAATTG
* * * *
777238 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATGTATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACT-CATGCATCGATGCACTCAGGTCTTAATGAA
* * * * * * * *
777303 AATATCGATTGCATTTAATGCATCGATGCACACACCATGCATAGATGCACTTAGG-CTTATTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACAC-TCATGCATCGATGCACTCAGGTCTTAATGAA
* * *
777367 AACATCGAATGCATTTTATGTATCGATGCACACTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTTATGCATCGATGCACACTCA-TGCATCGATGCACT
777418 AAGTATTCCA
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
63 1 0.01
64 47 0.51
65 45 0.48
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACTCATGCATCGATGCACTCAGGTCTTAATGAA
Found at i:778378 original size:18 final size:18
Alignment explanation
Indices: 778337--778372 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
778327 GTCAAAAAAT
778337 GTCATGGTTCACTAAGAA
1 GTCATGGTTCACTAAGAA
778355 GTCATGGTTCACTAAGAA
1 GTCATGGTTCACTAAGAA
778373 AGCATGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GTCATGGTTCACTAAGAA
Found at i:778625 original size:77 final size:77
Alignment explanation
Indices: 778542--778839 Score: 280
Period size: 78 Copynumber: 3.8 Consensus size: 77
778532 CCTAAAAATG
* * * *
778542 TCATGATTCATTAAGAAATATGTTACGATCT-AGAATATTAATATTTTTATTAATAAAATAGGTT
1 TCATGATTCACTAAGAAATATGTTAAGATATGA-AATGTTAATATTTTTATTAATAAAATAGGTT
778606 ACGCTCAAGAATA
65 ACGCTCAAGAATA
* ** * *
778619 TCATGATTTACTAAGAAATGGGTTAAGATATGAAATGTTAATTTCTTTTATTAATAAAATGGGTT
1 TCATGATTCACTAAGAAATATGTTAAGATATGAAATGTTAATAT-TTTTATTAATAAAATAGGTT
* *
778684 ACGCCCAAGAATG
65 ACGCTCAAGAATA
* * * * *
778697 TCATGGTTCGCTAAGAAATATGTTGTA-ATATGTAATGTTAATATTTTTATTAATAAAATATGTT
1 TCATGATTCACTAAGAAATATGTT-AAGATATGAAATGTTAATATTTTTATTAATAAAATAGGTT
* *
778761 GCG-TCCAAAAATA
65 ACGCT-CAAGAATA
* * * * * * *
778774 TTATGGTTCACTAAGAAAGAATGTTGCA-ATATGAAATCTTAATATTTTTTAATAATAAAATGGG
1 TCATGATTCACTAAGAAA-TATGTT-AAGATATGAAATGTTAATA-TTTTTATTAATAAAATAGG
778838 TT
63 TT
778840 GCACCTAAAA
Statistics
Matches: 181, Mismatches: 34, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
77 76 0.42
78 86 0.48
79 19 0.10
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (77 bp):
TCATGATTCACTAAGAAATATGTTAAGATATGAAATGTTAATATTTTTATTAATAAAATAGGTTA
CGCTCAAGAATA
Found at i:780074 original size:21 final size:22
Alignment explanation
Indices: 780026--780077 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
780016 CCAAAATAAT
* *
780026 AAAAAATATTTATTTTTATTCA
1 AAAAAATAGTTATTTTAATTCA
*
780048 ATAAAAATAGTTA-TTTAATTGA
1 A-AAAAATAGTTATTTTAATTCA
780070 AAAAAATA
1 AAAAAATA
780078 ATATATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 9 0.35
23 10 0.38
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAAATAGTTATTTTAATTCA
Found at i:780536 original size:77 final size:75
Alignment explanation
Indices: 780354--780541 Score: 254
Period size: 75 Copynumber: 2.5 Consensus size: 75
780344 AACATTTTAG
* * *
780354 GCGCAACCCATTGTATTAATAAAAATATTAACA-TTCTATATCATAACCTATTACTTAGTGAACC
1 GCGCAA-CCATTTTATTAATAAAAATATTAACATTTCTATACCACAACCTATTACTTAGTGAACC
780418 ATGATTCTTGA
65 ATGATTCTTGA
* * *
780429 GCGCAACTCATTTTATTAATAAAAATATTAACATTTC-ATACCACAACTTATTTCTTAGTGAATC
1 GCGCAAC-CATTTTATTAATAAAAATATTAACATTTCTATACCACAACCTATTACTTAGTGAACC
780493 ATGATATTCTTGA
65 ATG--ATTCTTGA
*
780506 GCGCAACCAATTTTATTAATAAAAATATTAATATTT
1 GCGCAACC-ATTTTATTAATAAAAATATTAACATTT
780542 TAGATTGCAA
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
74 1 0.01
75 55 0.54
76 4 0.04
77 41 0.41
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (75 bp):
GCGCAACCATTTTATTAATAAAAATATTAACATTTCTATACCACAACCTATTACTTAGTGAACCA
TGATTCTTGA
Found at i:780558 original size:77 final size:76
Alignment explanation
Indices: 780354--780651 Score: 302
Period size: 77 Copynumber: 3.9 Consensus size: 76
780344 AACATTTTAG
* * * * * *
780354 GCGCAACCCATTGTATTAATAAAAATATTAACATTCTATATCATAACCTATTACTTAGTGAACCA
1 GCGCAACCAATTTTATTAATAAAAATATTAACATTCTAGATCACAATCTATTTCTTAGTGAACCA
780419 TG-ATTCTTGA
66 TGAATTCTTGA
* *
780429 GCGCAACTC-ATTTTATTAATAAAAATATTAACATT-TCATACCACAA-CTTATTTCTTAGTGAA
1 GCGCAAC-CAATTTTATTAATAAAAATATTAACATTCT-AGATCACAATC-TATTTCTTAGTGAA
*
780491 TCATGATATTCTTGA
63 CCATGA-ATTCTTGA
* * ** * *
780506 GCGCAACCAATTTTATTAATAAAAATATTAATATTTTAGATTGCAATCTATTTCTGAATGAACCA
1 GCGCAACCAATTTTATTAATAAAAATATTAACATTCTAGATCACAATCTATTTCTTAGTGAACCA
780571 TGACATTCTT-A
66 TGA-ATTCTTGA
* * ** * *
780582 GGAGTAA-CATATTTTATTAATAAAAATATTAACGCTCTAGATCGCAATATATTTCTTAGTGAAC
1 -GCGCAACCA-ATTTTATTAATAAAAATATTAACATTCTAGATCACAATCTATTTCTTAGTGAAC
780646 CATGAA
64 CATGAA
780652 AATTTTAGGC
Statistics
Matches: 189, Mismatches: 24, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
74 2 0.01
75 56 0.30
76 6 0.03
77 123 0.65
78 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (76 bp):
GCGCAACCAATTTTATTAATAAAAATATTAACATTCTAGATCACAATCTATTTCTTAGTGAACCA
TGAATTCTTGA
Found at i:781969 original size:31 final size:31
Alignment explanation
Indices: 781913--781993 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
781903 CTTTTAAAAC
* *
781913 TTGCAATATAGTCCTCCAA-TATTTAGT-TCGT
1 TTGCAATATGGTCC-CCAACTATTTAGTCT-AT
781944 TTGCAATATGGTCTCCCAACT-TTTAGTCTAT
1 TTGCAATATGGTC-CCCAACTATTTAGTCTAT
*
781975 TTACAATATGGTCCCCAAC
1 TTGCAATATGGTCCCCAAC
781994 CGTTTGTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 6 0.14
31 35 0.80
32 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
TTGCAATATGGTCCCCAACTATTTAGTCTAT
Found at i:788403 original size:61 final size:61
Alignment explanation
Indices: 788323--788449 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
788313 TGGGTTCGGG
*
788323 TTCGAGTCGAGCTTCAATTTTTGATTCCGAGT-GAAGCTTGAAAATTTTAAG-TTCGCGAGCT
1 TTCGAGTAGAGCTTCAATTTTTGATTCCGAGTCG-AGCTTGAAAATTTTAAGCTT-GCGAGCT
* * * * *
788384 TTCGAGTAGAGTTTCAATTTTTTATTTCGAGTCGAGCTTGACAATTTTAAGCTTGCGAGTT
1 TTCGAGTAGAGCTTCAATTTTTGATTCCGAGTCGAGCTTGAAAATTTTAAGCTTGCGAGCT
788445 TTCGA
1 TTCGA
788450 ATCAAGTCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 55 0.95
62 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (61 bp):
TTCGAGTAGAGCTTCAATTTTTGATTCCGAGTCGAGCTTGAAAATTTTAAGCTTGCGAGCT
Found at i:797634 original size:13 final size:13
Alignment explanation
Indices: 797616--797645 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
797606 GTCACAACCC
797616 GACCCGACCCGTT
1 GACCCGACCCGTT
797629 GACCCGACCCGTT
1 GACCCGACCCGTT
797642 GACC
1 GACC
797646 GTTGGCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:800176 original size:24 final size:24
Alignment explanation
Indices: 800145--800222 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
800135 ATTTTCGATT
* *
800145 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
800169 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
800193 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
800217 TGATTT
1 TGATTT
800223 ATGTTTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:802418 original size:8 final size:8
Alignment explanation
Indices: 802405--802451 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
802395 AACCCGACCC
802405 GACCCGTT
1 GACCCGTT
802413 GACCC---
1 GACCCGTT
802418 GACCCGTT
1 GACCCGTT
802426 GA-CCGTT
1 GACCCGTT
*
802433 G-GCCGTT
1 GACCCGTT
802440 GACCCGTT
1 GACCCGTT
802448 GACC
1 GACC
802452 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 5 0.15
7 12 0.36
8 16 0.48
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:802418 original size:13 final size:13
Alignment explanation
Indices: 802400--802429 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
802390 TTCACAACCC
802400 GACCCGACCCGTT
1 GACCCGACCCGTT
802413 GACCCGACCCGTT
1 GACCCGACCCGTT
802426 GACC
1 GACC
802430 GTTGGCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:803774 original size:18 final size:18
Alignment explanation
Indices: 803748--803783 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
803738 TCGAAAGGAC
*
803748 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
803766 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
803784 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:804953 original size:24 final size:24
Alignment explanation
Indices: 804922--804999 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
804912 ATTTTCGATT
* *
804922 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
804946 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
804970 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
804994 TGATTT
1 TGATTT
805000 ATGTTTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:810881 original size:31 final size:31
Alignment explanation
Indices: 810840--810898 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
810830 AACTTAAAAG
* *
810840 AGTTTTACAATACTGAGATTTAAATAATTTT
1 AGTTTGACAATACTGAAATTTAAATAATTTT
810871 AGTTTGACAATACTGAAATTTAAATAAT
1 AGTTTGACAATACTGAAATTTAAATAAT
810899 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTTTGACAATACTGAAATTTAAATAATTTT
Found at i:810949 original size:22 final size:22
Alignment explanation
Indices: 810923--810965 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
810913 TAATGAATTA
810923 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
810945 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
810966 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:810974 original size:22 final size:22
Alignment explanation
Indices: 810925--810973 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
810915 ATGAATTATT
**
810925 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
810947 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
810970 TAAA
1 TAAA
810974 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:811018 original size:80 final size:80
Alignment explanation
Indices: 810928--811078 Score: 277
Period size: 80 Copynumber: 1.9 Consensus size: 80
810918 AATTATTTAA
*
810928 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACAAATAAATTATTTAAAATAAATCAA
810992 TCCATACAACTACAAT
65 TCCATACAACTACAAT
811008 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
811073 CCATAC
66 CCATAC
811079 TAATAAATTA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
80 68 0.99
81 1 0.01
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:811064 original size:32 final size:32
Alignment explanation
Indices: 811025--811678 Score: 336
Period size: 32 Copynumber: 22.4 Consensus size: 32
811015 CAATCCATAT
* *
811025 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
811057 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
811089 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
811121 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811143 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
811175 TTTAAAATAAATCAATCAATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
811205 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811223 TTTAAAATAAATCAATCCATACTAATAATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811255 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
811285 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811303 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
811335 TTTAAAATAAATCAATTCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
811365 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
811383 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
811415 TTTAAAATAAA-CGAATCCATACTAATAAATTA
1 TTTAAAATAAATC-AATCCATACTAATAAATTA
811447 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811469 TTTAAAATAAATCAATCCATAGTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
811501 TTTAAAATAAATCAATACATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* *
811531 --T--AATAAATCAA-CTCATATTTTAAAGTAAATCAA
1 TTTAAAATAAATCAATC-CATA--CT-AA-TAAAT-TA
* * ** * * *
811564 TCTATAGTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T-T-TA-AAATAAATCAATCCATACT-AATAAAT---TA
*
811602 TTTTAAAATAAATCAATTCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
811635 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
811667 TTTTAAATAAAT
1 TTTAAAATAAAT
811679 TATTTTAAAA
Statistics
Matches: 492, Mismatches: 39, Indels: 182
0.69 0.05 0.26
Matches are distributed among these distances:
20 3 0.01
22 72 0.15
23 7 0.01
24 8 0.02
25 2 0.00
26 62 0.13
28 10 0.02
30 11 0.02
31 13 0.03
32 257 0.52
33 4 0.01
36 17 0.03
37 13 0.03
38 2 0.00
39 4 0.01
40 7 0.01
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:811147 original size:22 final size:22
Alignment explanation
Indices: 811121--811163 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
811111 TAATAAATTA
811121 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
811143 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
811164 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:811172 original size:22 final size:22
Alignment explanation
Indices: 811123--811171 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
811113 ATAAATTATT
**
811123 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
811145 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
811168 TAAA
1 TAAA
811172 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:811244 original size:80 final size:80
Alignment explanation
Indices: 811057--811678 Score: 758
Period size: 80 Copynumber: 7.5 Consensus size: 80
811047 AAATAAATTA
* *
811057 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATAC-AACTACA--A
811121 TTTAAAATAAATCAATCCATAT
63 --T--AATAAATCAATCCATAT
*
811143 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAA
811208 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* *
811223 TTTAAAATAAATCAATCCATACTAATAATTTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAA
811288 TAAATCAATCCATAT
66 TAAATCAATCCATAT
*
811303 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTC-ATACAACTACAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-TCAATACAACTACAATA
811367 ATAAATCAATCCATAT
65 ATAAATCAATCCATAT
* * * *
811383 TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAA-CGAATCCATACTAA-TAAATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC-AATCAATAC-AACTACA--
811446 ATTTAAAATAAATCAATCCATAT
62 A--T--AATAAATCAATCCATAT
*
811469 TTTAAAATAAATCAATCCATAGTAATAAATTATTTAAAATAAATCAAT-ACATACAACTACAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCA-ATACAACTACAATA
811533 ATAAATCAA-CTCATAT
65 ATAAATCAATC-CATAT
* * * *
811549 TTTAAAGTAAATCAATCTATAGTAATAAATTATTTAAAATAAATCAATCCATATTTTA-AAATA-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CA-A---TACAACTAC
** **
811612 AATCAATTCATACTAATAAAT-T
61 AAT-AATAAAT-C-AATCCATAT
*
811634 ATTTAAAATAAATCAATCCATACTAATAAATTATTTTAAATAAAT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
811679 TATTTTAAAA
Statistics
Matches: 482, Mismatches: 29, Indels: 50
0.86 0.05 0.09
Matches are distributed among these distances:
79 4 0.01
80 279 0.58
81 4 0.01
82 5 0.01
83 3 0.01
84 12 0.02
85 8 0.02
86 166 0.34
87 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAA
TAAATCAATCCATAT
Found at i:811329 original size:18 final size:18
Alignment explanation
Indices: 811307--811358 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
811297 CCATATTTTA
811307 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
811325 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
811339 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
811357 AA
1 AA
811359 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:811473 original size:22 final size:22
Alignment explanation
Indices: 811447--811489 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
811437 TAATAAATTA
811447 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
811469 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
811490 GTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:811473 original size:134 final size:133
Alignment explanation
Indices: 811335--811730 Score: 373
Period size: 134 Copynumber: 2.9 Consensus size: 133
811325 TAATAAATTA
* * **
811335 TTTAAAATAAATCAATTCATACAACTACAA-TA-AT-AAATCAATCCATATTTTA-AAATA-AAT
1 TTTAAAATAAATCAATTCATACAA-TA-AATTATATAAAATAAATCAATA-CATACAAATACAAT
**
811395 CAATCTATACAAATAA-ATTATTTAAAATAAA-CGAATCCATACTAATAAATTATTTAAAATAAA
63 -AATAAAT-CAAATAATA-T-TTTAAAATAAATC-AATCCATACTAATAAATTATTTAAAATAAA
811458 TCAATCCATAT
123 TCAATCCATAT
* * * *
811469 TTTAAAATAAATCAATCCATAGTAATAAATTATTTAAAATAAATCAATACATACAACTACAATAA
1 TTTAAAATAAATCAATTCATA-CAATAAATTATATAAAATAAATCAATACATACAAATACAATAA
* * * * *
811534 TAAATCAACTCATATTTTAAAGTAAATCAATCTATAGTAATAAATTATTTAAAATAAATCAATCC
65 TAAATCAAATAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
811599 ATAT
130 ATAT
* * *
811603 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATA-AATTA
1 TTTAAAATAAATCAATTCATAC-AATAAATTATATAAAATAAATCAATACATACAAATACAA-TA
* *
811667 TTTTAAAT-AAAT--TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAA
64 --ATAAATCAAATAATATTTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAAATAA
811729 AT
122 AT
811731 AACCTTATTA
Statistics
Matches: 220, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
133 26 0.12
134 128 0.58
135 15 0.07
136 26 0.12
137 13 0.06
138 12 0.05
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (133 bp):
TTTAAAATAAATCAATTCATACAATAAATTATATAAAATAAATCAATACATACAAATACAATAAT
AAATCAAATAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
TAT
Found at i:811498 original size:22 final size:22
Alignment explanation
Indices: 811449--811497 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
811439 ATAAATTATT
**
811449 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
811471 TAAAATAAATCAATCCATAGTAA
1 TAAAATAAATCAATCCATA-TAA
811494 TAAA
1 TAAA
811498 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:811528 original size:166 final size:165
Alignment explanation
Indices: 811057--811678 Score: 894
Period size: 166 Copynumber: 3.8 Consensus size: 165
811047 AAATAAATTA
811057 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
*
811122 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
66 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
811187 CAATCAATACAACTACAATAATAAATCAATCCATAT
131 CAATC-ATACAACTACAATAATAAATCAATCCATAT
* *
811223 TTTAAAATAAATCAATCCATACTAATAATTTATTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTA
*
811285 --T--AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
65 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
811346 TCAATTCATACAACTACAATAATAAATCAATCCATAT
130 TCAA-TCATACAACTACAATAATAAATCAATCCATAT
* *
811383 TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAA-CGAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC-AATCCATACTAATAAATTA
*
811447 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAGTAATAAATTATTTAAAATAAA
65 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
811512 TCAATACATACAACTACAATAATAAATCAA-CTCATAT
130 TCAAT-CATACAACTACAATAATAAATCAATC-CATAT
* * * *
811549 TTTAAAGTAAATCAATCTATAGTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA--CT--AATAAA
* * * * * *
811614 TCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATACTAATAAATTATTTTAAA
62 T-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
811674 TAAAT
126 TAAAT
811679 TATTTTAAAA
Statistics
Matches: 419, Mismatches: 19, Indels: 36
0.88 0.04 0.08
Matches are distributed among these distances:
159 1 0.00
160 146 0.35
161 4 0.01
162 2 0.00
164 2 0.00
165 4 0.01
166 237 0.57
167 3 0.01
168 1 0.00
170 13 0.03
171 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (165 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
CAATCATACAACTACAATAATAAATCAATCCATAT
Found at i:811607 original size:22 final size:22
Alignment explanation
Indices: 811581--811623 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
811571 TAATAAATTA
811581 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
811603 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
811624 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:811629 original size:18 final size:18
Alignment explanation
Indices: 811608--811664 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
811598 CATATTTTAA
811608 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* *
811626 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
811640 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
811658 AATAAAT
1 AATAAAT
811665 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
17 5 0.17
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:811632 original size:22 final size:22
Alignment explanation
Indices: 811583--811631 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
811573 ATAAATTATT
**
811583 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
811605 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
811628 TAAA
1 TAAA
811632 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:811643 original size:14 final size:14
Alignment explanation
Indices: 811626--811693 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
811616 AATTCATACT
811626 AATAAATTATTTAA
1 AATAAATTATTTAA
* * *
811640 AATAAATCAATCCATACT
1 AATAAAT-TAT--TTA-A
*
811658 AATAAATTATTTTA
1 AATAAATTATTTAA
811672 AATAAATTATTTTAA
1 AATAAATTA-TTTAA
811687 AATAAAT
1 AATAAAT
811694 CAATCCATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
14 16 0.39
15 14 0.34
17 4 0.10
18 7 0.17
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:811691 original size:15 final size:15
Alignment explanation
Indices: 811658--811730 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 15
811648 AATCCATACT
811658 AATAAATTATTTT-A
1 AATAAATTATTTTAA
811672 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
811687 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
811709 AATAAATTATTTTAA
1 AATAAATTATTTTAA
811724 AATAAAT
1 AATAAAT
811731 AACCTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 13 0.27
15 18 0.37
17 1 0.02
18 3 0.06
19 3 0.06
20 1 0.02
22 10 0.20
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:811693 original size:47 final size:48
Alignment explanation
Indices: 811572--811730 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 48
811562 AATCTATAGT
* * * *
811572 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACT
1 AATAAATTATTTAAAATAAATCAATCCATA---TATAATAAAT-TATT-TTA-A
*
811626 AATAAATTATTTAAAATAAATCAATCCATA-CTAATAAATTATTTT-A
1 AATAAATTATTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
811672 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAA
1 AATAAATTA-TTTAAAATAAATCAATCCATA---TATAATAAATTATTTTAA
811724 AATAAAT
1 AATAAAT
811731 AACCTTATTA
Statistics
Matches: 93, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
46 9 0.10
47 21 0.23
48 1 0.01
49 3 0.03
50 7 0.08
51 14 0.15
52 8 0.09
54 30 0.32
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (48 bp):
AATAAATTATTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
Found at i:812174 original size:3 final size:3
Alignment explanation
Indices: 812168--812209 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
812158 TAATTCCCCC
*
812168 CCT CCT CCT CCT CCT CCT CCT CCT CCT CAT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
812210 TCTTCATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.64, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:813433 original size:2 final size:2
Alignment explanation
Indices: 813426--813478 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
813416 CTAAATGATG
813426 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
813468 CT CT CT CT CT C
1 CT CT CT CT CT C
813479 GGCATGCTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:814212 original size:21 final size:21
Alignment explanation
Indices: 814188--814235 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
814178 AAATCCAACC
*
814188 TTAAAAAAACAA-AAAAAATGA
1 TTAAAAAAACAATAAAAAA-AA
* *
814209 TTAAACAATCAATAAAAAAAA
1 TTAAAAAAACAATAAAAAAAA
814230 TTAAAA
1 TTAAAA
814236 TGTGTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (21 bp):
TTAAAAAAACAATAAAAAAAA
Found at i:816965 original size:18 final size:20
Alignment explanation
Indices: 816925--816969 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
816915 TTTGGTTCAC
* *
816925 GGAATATAAGATTATCAGTG
1 GGAATAAAAAATTATCAGTG
816945 GGAATAAAAAATTATC-G-G
1 GGAATAAAAAATTATCAGTG
816963 GGAATAA
1 GGAATAA
816970 GATTACTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 14 0.61
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (20 bp):
GGAATAAAAAATTATCAGTG
Found at i:820072 original size:21 final size:21
Alignment explanation
Indices: 820046--820102 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
820036 AGGGTGTCAA
820046 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
820067 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
820088 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
820103 ATGCCACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.19
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:826497 original size:11 final size:11
Alignment explanation
Indices: 826481--826505 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
826471 ATAACTATAA
826481 TAATATTTTTT
1 TAATATTTTTT
826492 TAATATTTTTT
1 TAATATTTTTT
826503 TAA
1 TAA
826506 AAATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATATTTTTT
Found at i:831131 original size:2 final size:2
Alignment explanation
Indices: 831124--831201 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
831114 TATAAGTATG
831124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
831166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
831202 TGTGCTTGAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:834141 original size:64 final size:64
Alignment explanation
Indices: 834061--834186 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
834051 CGTAAGTTTC
*
834061 TGAAAAGTCTAGGACAATTTCTGAAATCCTTGAAAGCTCAAGGACTCATCCCCGAATTTGATAA
1 TGAAAAGTCTAGGACAATTTCTGAAATCCTTGAAAGCTCAAGAACTCATCCCCGAATTTGATAA
* * * *
834125 TGAAAAGTTTAGGACAATTTTTGAAATTCTTGAAAGCTCAAGAACTCATCCTCGAATTTGAT
1 TGAAAAGTCTAGGACAATTTCTGAAATCCTTGAAAGCTCAAGAACTCATCCCCGAATTTGAT
834187 CCTCTATGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (64 bp):
TGAAAAGTCTAGGACAATTTCTGAAATCCTTGAAAGCTCAAGAACTCATCCCCGAATTTGATAA
Found at i:838402 original size:22 final size:20
Alignment explanation
Indices: 838353--838468 Score: 74
Period size: 20 Copynumber: 5.7 Consensus size: 20
838343 CAACGCGAAC
* *
838353 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAATT
838373 TCCAAATTCGCAACACGAATT
1 TCCAAATTCGCAACAC-AATT
* * *
838394 TCCCAAATTCGTAACTCAGTT
1 T-CCAAATTCGCAACACAATT
** *
838415 TTGAAATTCGCAACTCGAATT
1 TCCAAATTCGCAACAC-AATT
** * *
838436 T-C-TTTTCGCAACGCGATTT
1 TCCAAATTCGCAACAC-AATT
838455 TCCAAATTCGCAAC
1 TCCAAATTCGCAAC
838469 TCAGTTTCTG
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
19 14 0.19
20 28 0.37
21 20 0.27
22 13 0.17
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAACACAATT
Found at i:838495 original size:60 final size:61
Alignment explanation
Indices: 838379--838509 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 61
838369 AGTTTCCAAA
* *
838379 TTCGCAACACGAATTTCCCAAATTCGTAACTCAGTTTTGAAATTCGCAACTCGAATTTCTT
1 TTCGCAACACGAATTTCCCAAATTCGCAACTCAGTTTTGAAATTCGCAACTCGAATTTATT
* * * *
838440 TTCGCAACGCG-ATTTTCCAAATTCGCAACTCAGTTTCTGTAA-TCGTAACGT-GAATTTATT
1 TTCGCAACACGAATTTCCCAAATTCGCAACTCAGTTT-TGAAATTCGCAAC-TCGAATTTATT
838500 TCTCGCAACA
1 T-TCGCAACA
838510 TGGGCGATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 38 0.63
61 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (61 bp):
TTCGCAACACGAATTTCCCAAATTCGCAACTCAGTTTTGAAATTCGCAACTCGAATTTATT
Found at i:838570 original size:105 final size:104
Alignment explanation
Indices: 838413--838614 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 104
838403 CGTAACTCAG
* * * ** * *
838413 TTTTGAAATTCGCAACTCGAATTTCTTTTCGCAACGCGATTTTCCAAATTCGCAACTC-AGTTTC
1 TTTTAAAATTCGCAACACGAATTCCAATTCGCAACACGAATTTCCAAATTCGCAACTCGA-TTTC
*
838477 TGTAA-TCGTAACGTGAATTTATTTCTCGCAACATGGGCGA
65 TG-AATTCGCAACGTGAATTTATTTCTCGCAACATGGGCGA
838517 TTTTAAAATTCGCAACACGAATTCCAAATTCGCAACACGGAATTT-CAAATTCGCAACTCGATTT
1 TTTTAAAATTCGCAACACGAATTCC-AATTCGCAACAC-GAATTTCCAAATTCGCAACTCGATTT
* *
838581 CTGAATTCGCAACGTGAATTTCTTTTTCGCAACA
64 CTGAATTCGCAACGTGAATTTATTTCTCGCAACA
838615 CAAGTTTCCT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
104 24 0.29
105 54 0.64
106 6 0.07
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (104 bp):
TTTTAAAATTCGCAACACGAATTCCAATTCGCAACACGAATTTCCAAATTCGCAACTCGATTTCT
GAATTCGCAACGTGAATTTATTTCTCGCAACATGGGCGA
Found at i:838630 original size:40 final size:40
Alignment explanation
Indices: 838523--838701 Score: 125
Period size: 40 Copynumber: 4.5 Consensus size: 40
838513 GCGATTTTAA
** * *
838523 AATTCGCAACACGAA-TTCCAAATTCGCAACACGGAATTTCA
1 AATTCGCAACACGAATTTCC-TTTTCGCAACA-AGAATTTCT
* * **
838564 AATTCGCAACTCG-ATTT-CTGAATTCGCAACGTGAATTTCT
1 AATTCGCAACACGAATTTCCT--TTTCGCAACAAGAATTTCT
** *
838604 TTTTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTCT
1 AATTCGCAACACGAA-TTTCCTTTTCGCAACAAGAATTTCT
** ** *
838644 AATTCGCAACACGAATTTTGTTTTCGCAACTCG-ATTTTT
1 AATTCGCAACACGAATTTCCTTTTCGCAACAAGAATTTCT
838683 GAATTCGCAACACGAATTT
1 -AATTCGCAACACGAATTT
838702 TAATTTCACA
Statistics
Matches: 110, Mismatches: 20, Indels: 17
0.75 0.14 0.12
Matches are distributed among these distances:
39 4 0.04
40 76 0.69
41 28 0.25
42 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (40 bp):
AATTCGCAACACGAATTTCCTTTTCGCAACAAGAATTTCT
Found at i:838702 original size:40 final size:40
Alignment explanation
Indices: 838606--838702 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
838596 GAATTTCTTT
*
838606 TTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTCTAA
1 TTCGCAACACGAA-TTTTCTTTTCGCAACAAGATTTTCTAA
* **
838646 TTCGCAACACGAATTTTGTTTTCGCAACTCGATTTT-TGAA
1 TTCGCAACACGAATTTTCTTTTCGCAACAAGATTTTCT-AA
838686 TTCGCAACACGAATTTT
1 TTCGCAACACGAATTTT
838703 AATTTCACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 48 0.94
41 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (40 bp):
TTCGCAACACGAATTTTCTTTTCGCAACAAGATTTTCTAA
Found at i:838713 original size:20 final size:20
Alignment explanation
Indices: 838525--838733 Score: 110
Period size: 20 Copynumber: 10.5 Consensus size: 20
838515 GATTTTAAAA
** *
838525 TTCGCAACACGAATTCCAAA
1 TTCGCAACACGAATTTTAAT
* *
838545 TTCGCAACACGGAATTTCAAA
1 TTCGCAACAC-GAATTTTAAT
*
838566 TTCGCAACTCG-ATTTCTGAA-
1 TTCGCAACACGAATTT-T-AAT
** *
838586 TTCGCAACGTGAATTTCT-TT
1 TTCGCAACACGAATTT-TAAT
***
838606 TTCGCAACAC-AAGTTTCCTT
1 TTCGCAACACGAA-TTTTAAT
* *
838626 TTCGCAACAAGATTTTCTAA-
1 TTCGCAACACGAATTT-TAAT
**
838646 TTCGCAACACGAATTTTGTT
1 TTCGCAACACGAATTTTAAT
* *
838666 TTCGCAACTCGATTTTTGAA-
1 TTCGCAACACGAATTTT-AAT
838686 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
* * *
838706 TTCACAACA-G-CTTTTATT
1 TTCGCAACACGAATTTTAAT
838724 TTCGCAACAC
1 TTCGCAACAC
838734 AAATGTTTTA
Statistics
Matches: 148, Mismatches: 28, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
18 14 0.09
19 10 0.07
20 97 0.66
21 27 0.18
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:838903 original size:16 final size:15
Alignment explanation
Indices: 838868--838911 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
838858 TCCCCATCTC
*
838868 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
838883 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
*
838899 TAATTTTTCTCTA
1 TAATTTTTTTCTA
838912 ATGATTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:839848 original size:21 final size:21
Alignment explanation
Indices: 839818--839857 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
839808 GAAGAAAATA
839818 CCACGAGAGTATAACTGGATG
1 CCACGAGAGTATAACTGGATG
*
839839 CCACGGGAGTATAACTGGA
1 CCACGAGAGTATAACTGGA
839858 ATATGTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (21 bp):
CCACGAGAGTATAACTGGATG
Found at i:841887 original size:6 final size:6
Alignment explanation
Indices: 841876--841910 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
841866 AAGCAAAAGG
* *
841876 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
841911 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:841900 original size:18 final size:18
Alignment explanation
Indices: 841877--841917 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
841867 AGCAAAAGGA
*
841877 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
841895 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
841913 AATCA
1 AATCA
841918 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:843678 original size:21 final size:21
Alignment explanation
Indices: 843652--843706 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
843642 GTGAATTGGG
*
843652 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGAC
* *
843673 CTCTTGAATGATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGAC
843694 CTCTTGAACGATG
1 CTCTTGAACGATG
843707 ACAGGTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGAC
Found at i:844132 original size:21 final size:21
Alignment explanation
Indices: 843997--844157 Score: 78
Period size: 21 Copynumber: 7.7 Consensus size: 21
843987 TAGAGCGGCT
* ***
843997 ACCTCATCACGTAAAGTAGAT
1 ACCTCATCACGTAAAGCACCG
* *
844018 ACCTCACCACGTAAAACACC-
1 ACCTCATCACGTAAAGCACCG
** * * * *
844038 ATTGTCATCGCGTAAAACATCT
1 A-CCTCATCACGTAAAGCACCG
*
844060 ACCTCACCACGTAAAG-ACCG
1 ACCTCATCACGTAAAGCACCG
*
844080 ATCCTCATCACGCT-ATGCACC-
1 A-CCTCATCACG-TAAAGCACCG
** * *
844101 ATTGTCGTCACGTAAAGTACCG
1 A-CCTCATCACGTAAAGCACCG
* *
844123 ACCTCATCACGCAAAGCACTG
1 ACCTCATCACGTAAAGCACCG
844144 ACCTCATCACGTAA
1 ACCTCATCACGTAA
844158 CTCTCCTAAC
Statistics
Matches: 102, Mismatches: 31, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
20 5 0.05
21 91 0.89
22 6 0.06
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (21 bp):
ACCTCATCACGTAAAGCACCG
Found at i:844154 original size:42 final size:41
Alignment explanation
Indices: 844060--844157 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 41
844050 TAAAACATCT
* * *
844060 ACCTCACCACGTAAAGACCGATCCTCATCACGCTATGCACC
1 ACCTCATCACGTAAAGACCGATCCTCATCACGCAAAGCACC
** * *
844101 ATTGTCGTCACGTAAAGTACCGA-CCTCATCACGCAAAGCACTG
1 A-CCTCATCACGTAAAG-ACCGATCCTCATCACGCAAAGCAC-C
844144 ACCTCATCACGTAA
1 ACCTCATCACGTAA
844158 CTCTCCTAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.02
42 37 0.84
43 6 0.14
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.19
Consensus pattern (41 bp):
ACCTCATCACGTAAAGACCGATCCTCATCACGCAAAGCACC
Found at i:844317 original size:21 final size:21
Alignment explanation
Indices: 844293--844360 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
844283 CTCGGTGTGG
844293 AGGTGTATAATCGGCTCGATC
1 AGGTGTATAATCGGCTCGATC
* *
844314 AGGTG-ATGACTCTCGG-T-G-TAG
1 AGGTGTAT-A--ATCGGCTCGAT-C
844335 AGGTGTATAATCGGCTCGATC
1 AGGTGTATAATCGGCTCGATC
844356 AGGTG
1 AGGTG
844361 ATGGCTCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 19 0.54
22 4 0.11
23 4 0.11
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (21 bp):
AGGTGTATAATCGGCTCGATC
Found at i:844331 original size:42 final size:42
Alignment explanation
Indices: 844272--844412 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 42
844262 GTGATGGAAT
*
844272 AGGTGATGGCTCTCGGTGTGGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTAGAGGTGTATAATCGGCTCGATC
*
844314 AGGTGATGACTCTCGGTGTAGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTAGAGGTGTATAATCGGCTCGATC
* * * *
844356 AGGTGATGGCTCTCGATGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTAGAGGTGTATAATCGGCTCGATC
844398 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
844413 AAGTAGGGGG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTAGAGGTGTATAATCGGCTCGATC
Found at i:845925 original size:20 final size:19
Alignment explanation
Indices: 845901--845948 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
845891 TTTTGAAACT
845901 TAAATTCGCAACACGAAAA
1 TAAATTCGCAACACGAAAA
* * *
845920 TGAAATTCACAACGCGAAAC
1 T-AAATTCGCAACACGAAAA
845940 TAAATTCGC
1 TAAATTCGC
845949 GTTACGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (19 bp):
TAAATTCGCAACACGAAAA
Found at i:845946 original size:19 final size:19
Alignment explanation
Indices: 845895--845946 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
845885 AGTAGTTTTT
*
845895 GAAACTTAAATTCGCAACAC
1 GAAAC-TAAATTCACAACAC
* *
845915 GAAAATGAAATTCACAACGC
1 GAAACT-AAATTCACAACAC
845935 GAAACTAAATTC
1 GAAACTAAATTC
845947 GCGTTACGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (19 bp):
GAAACTAAATTCACAACAC
Found at i:845969 original size:20 final size:20
Alignment explanation
Indices: 845944--845999 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
845934 CGAAACTAAA
*
845944 TTCGCGTTACGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
845964 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
845984 TTCGCGTTGCGATTTT
1 TTCGCGTTGCGATTTT
846000 TGTGTTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.50
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:846644 original size:42 final size:41
Alignment explanation
Indices: 846584--846685 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 41
846574 TTGCGGAAAA
*
846584 GAAATTCGA-GTTGTGAATTTCAAAATTGAGTTGC-AAATCTG
1 GAAATTC-ACGTTGCGAATTTCAAAATTGAGTTGCGAAAT-TG
** *
846625 GAAAATTCACGTTGCGAATTTGGAAATTGTGTTGCGAAATTG
1 G-AAATTCACGTTGCGAATTTCAAAATTGAGTTGCGAAATTG
* *
846667 G-AGTTCGCGTTGCGAATTT
1 GAAATTCACGTTGCGAATTT
846686 GTTGATCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 16 0.31
41 2 0.04
42 30 0.58
43 4 0.08
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.34
Consensus pattern (41 bp):
GAAATTCACGTTGCGAATTTCAAAATTGAGTTGCGAAATTG
Found at i:846648 original size:22 final size:21
Alignment explanation
Indices: 846605--846650 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
846595 TGTGAATTTC
*
846605 AAAATTGAGTTGCAAATCTGG
1 AAAATTCAGTTGCAAATCTGG
* *
846626 AAAATTCACGTTGCGAATTTGG
1 AAAATTCA-GTTGCAAATCTGG
846648 AAA
1 AAA
846651 TTGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (21 bp):
AAAATTCAGTTGCAAATCTGG
Found at i:846660 original size:20 final size:20
Alignment explanation
Indices: 846628--846686 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
846618 AAATCTGGAA
*
846628 AATTCACGTTGCGAATTTGG
1 AATTCGCGTTGCGAATTTGG
* *
846648 AAATT-GTGTTGCGAAATTGG
1 -AATTCGCGTTGCGAATTTGG
*
846668 AGTTCGCGTTGCGAATTTG
1 AATTCGCGTTGCGAATTTG
846687 TTGATCATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (20 bp):
AATTCGCGTTGCGAATTTGG
Found at i:859532 original size:14 final size:14
Alignment explanation
Indices: 859513--859551 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
859503 CGTTCGGTAA
*
859513 TATATTTGTTCATT
1 TATATTCGTTCATT
*
859527 TATATTCGTTCGTT
1 TATATTCGTTCATT
*
859541 TATGTTCGTTC
1 TATATTCGTTC
859552 GTTTGTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (14 bp):
TATATTCGTTCATT
Found at i:859552 original size:14 final size:14
Alignment explanation
Indices: 859520--859574 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
859510 TAATATATTT
* *
859520 GTTCATTTATATTC
1 GTTCGTTTATGTTC
859534 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
859548 GTTCGTTTGTGCTT-
1 GTTCGTTTATG-TTC
*
859562 GTTTGTTTATGTT
1 GTTCGTTTATGTT
859575 TAGCCCTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 2 0.06
14 31 0.89
15 2 0.06
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:859789 original size:23 final size:24
Alignment explanation
Indices: 859759--859815 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
859749 GTTCGGTTAC
* *
859759 GTTCGTTTATGTTCATTTA-TTGT
1 GTTCGTTTATGTTCATTCATTTAT
* *
859782 GTTCGTTTACGTTCGTTCATTTAT
1 GTTCGTTTATGTTCATTCATTTAT
859806 GTTCGTTTAT
1 GTTCGTTTAT
859816 TATGTTTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCATTTAT
Found at i:859790 original size:13 final size:13
Alignment explanation
Indices: 859765--859828 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
859755 TTACGTTCGT
*
859765 TTATGTTCATTTA
1 TTATGTTCGTTTA
*
859778 TTGTGTTCG--T-
1 TTATGTTCGTTTA
* *
859788 TTACGTTCGTTCA
1 TTATGTTCGTTTA
859801 TTTATGTTCGTTTA
1 -TTATGTTCGTTTA
*
859815 TTATGTTTGTTTA
1 TTATGTTCGTTTA
859828 T
1 T
859829 ATTAGTTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
13 20 0.51
14 11 0.28
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.61
Consensus pattern (13 bp):
TTATGTTCGTTTA
Found at i:861451 original size:28 final size:28
Alignment explanation
Indices: 861409--861467 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
861399 ATAGTGCTTG
*
861409 ACTGCTCTCCATGAAAAATGCAAAATGA
1 ACTGCTCGCCATGAAAAATGCAAAATGA
*
861437 ACTGCTCGCCCTGAAAAATGCAAAATGA
1 ACTGCTCGCCATGAAAAATGCAAAATGA
861465 ACT
1 ACT
861468 TTAATTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (28 bp):
ACTGCTCGCCATGAAAAATGCAAAATGA
Found at i:863250 original size:14 final size:14
Alignment explanation
Indices: 863231--863268 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
863221 GTCTTTACAC
863231 AGAGGGAGAGAGGG
1 AGAGGGAGAGAGGG
863245 AGA-GG-GAGAGGG
1 AGAGGGAGAGAGGG
*
863257 AGAGAGAGAGAG
1 AGAGGGAGAGAG
863269 ATTGTTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.48
13 3 0.14
14 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (14 bp):
AGAGGGAGAGAGGG
Done.