Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_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: 3924084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:724395 original size:20 final size:19
Alignment explanation
Indices: 724349--724398 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
724339 TTTTGGAAAC
724349 TGTGTTGCGATTTACAAAT
1 TGTGTTGCGATTTACAAAT
*
724368 TCGCGTTGCGTATTTGA-AAAT
1 T-GTGTTGCG-ATTT-ACAAAT
724389 TGTGTTGCGA
1 TGTGTTGCGA
724399 AATTGGAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 9 0.35
22 1 0.04
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (19 bp):
TGTGTTGCGATTTACAAAT
Found at i:728590 original size:21 final size:20
Alignment explanation
Indices: 728564--728602 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
728554 TTTATTTTAA
728564 TTTTTTAATAATAAAAATATT
1 TTTTTTAATAA-AAAAATATT
*
728585 TTTTTTAATTAAAAAATA
1 TTTTTTAATAAAAAAATA
728603 AAAAAAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTTAATAAAAAAATATT
Found at i:730199 original size:158 final size:158
Alignment explanation
Indices: 729800--730273 Score: 714
Period size: 158 Copynumber: 3.0 Consensus size: 158
729790 TTTTTTTTCT
*
729800 AATGATCATTTTCAATTCTTATTTTTTTGTACTTTACTCAAAATTATAAATATAACAATAATATA
1 AATGATCATTTTCAATTCTTA-TTTTTTGTACTTTACTTAAAATTATAAATAT---AATAATATA
* *
729865 CAAAGAGTTTAATTTAGTAAAATATTAATAAATTTGAGTATTTACATTATTTTATATTTTATATT
62 TAAAGAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTTA-A--A---T-TATTTTATATT
*
729930 TTTAATATTCAATATACTAATTATTTATAATCTTATAAG
120 TTTAATATTCAATATATTAATTATTTATAATCTTATAAG
729969 AATGATCATTTTC-A-----A---TTTGTACTTTACTTAAAATTATAAATATAATAATATATAAA
1 AATGATCATTTTCAATTCTTATTTTTTGTACTTTACTTAAAATTATAAATATAATAATATATAAA
730025 GAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTTAAATTATTTTATATTTTTAATATTCA
66 GAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTTAAATTATTTTATATTTTTAATATTCA
*
730090 ATAAATTAATTATTTATAATCTTATAAG
131 ATATATTAATTATTTATAATCTTATAAG
*
730118 AATGATAATTTTCAATTCTTATTTTTTGTACTTTACTTAAAATTATAAATATAATAATATATAAA
1 AATGATCATTTTCAATTCTTATTTTTTGTACTTTACTTAAAATTATAAATATAATAATATATAAA
730183 GAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTTAAAATTATTTTATATTTTTAATATTC
66 GAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTT-AAATTATTTTATATTTTTAATATTC
*
730248 AATATATTAATTATTTATAATTTTAT
130 AATATATTAATTATTTATAATCTTAT
730274 GAGATGAAAA
Statistics
Matches: 287, Mismatches: 8, Indels: 30
0.88 0.02 0.09
Matches are distributed among these distances:
149 60 0.21
150 2 0.01
153 1 0.00
155 2 0.01
156 51 0.18
158 80 0.28
159 76 0.26
163 1 0.00
168 1 0.00
169 13 0.05
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (158 bp):
AATGATCATTTTCAATTCTTATTTTTTGTACTTTACTTAAAATTATAAATATAATAATATATAAA
GAGTTTAATTTAATAAAATATTAATAAATTTGAGTATTTAAATTATTTTATATTTTTAATATTCA
ATATATTAATTATTTATAATCTTATAAG
Found at i:730730 original size:34 final size:34
Alignment explanation
Indices: 730691--730755 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
730681 CCAAATAAGG
* *
730691 TAATACAACATTTTCATAT-TAATTTTATATTCGA
1 TAATACAACATTTCCAT-TGTAATCTTATATTCGA
*
730725 TAATACAATATTTCCATTGTAATCTTATATT
1 TAATACAACATTTCCATTGTAATCTTATATT
730756 ATGATAATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (34 bp):
TAATACAACATTTCCATTGTAATCTTATATTCGA
Found at i:732086 original size:25 final size:25
Alignment explanation
Indices: 732052--732110 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
732042 AGTAAATTAC
732052 TAAAATGTTAAATTACTATACTATT
1 TAAAATGTTAAATTACTATACTATT
732077 TAAAATGTTAAATTACTATACTATT
1 TAAAATGTTAAATTACTATACTATT
*
732102 TTAAATGTT
1 TAAAATGTT
732111 TTCAATTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (25 bp):
TAAAATGTTAAATTACTATACTATT
Found at i:732793 original size:20 final size:20
Alignment explanation
Indices: 732768--732815 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
732758 AAGTATGAAA
732768 AATTAAATTCATA-TGGATCT
1 AATTAAATTCATATTGGAT-T
* *
732788 AATTAACTTTATATTGGATT
1 AATTAAATTCATATTGGATT
732808 AATTAAAT
1 AATTAAAT
732816 AAAAGTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (20 bp):
AATTAAATTCATATTGGATT
Found at i:735154 original size:23 final size:21
Alignment explanation
Indices: 735119--735172 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
735109 ATTCTTCTAC
* *
735119 TTTTTTTTGTTATATAATCTCTA
1 TTTTTTAT-TTATATAATC-CCA
*
735142 TTTTTATATTTATTTAATCCCA
1 TTTTT-TATTTATATAATCCCA
735164 TTTTTTATT
1 TTTTTTATT
735173 AAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 7 0.26
23 14 0.52
24 2 0.07
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTATTTATATAATCCCA
Found at i:739503 original size:112 final size:112
Alignment explanation
Indices: 739306--739977 Score: 1157
Period size: 112 Copynumber: 6.0 Consensus size: 112
739296 ATTTATATGG
* * *
739306 AATCTTCGTTGTTAGTGGGTGGA-AGTATATTCTAAGAACTAACAAAACACATGAGGATTGTATA
1 AATCTTCGTTGTTAGTGGGTGGACA-CATATTCTAAGAACTAGCGAAACACATGAGGATTGTATA
* *
739370 AAGACTGATGTTTGATATACTAAAATTCATGTTGATCAATATAAGAAT
65 AAGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
739418 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
1 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
739483 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
66 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
* *
739530 AATCTTCGTTGTTAGTGGGTGGACACATATTCTTAGAACTAGCGAAACACACGAGGATTGTATAA
1 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
* * *
739595 AGATTGGTGTTTGATATACTAGAATTCATGTTGATCAATATAAGAAT
66 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
*
739642 AATCTTCGTTGTTAGTGGGTGGACGCATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
1 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
* *
739707 AGACTGATGTTTGATATACTATAATTTATGTTGATCAATATAAGATT
66 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
*
739754 AATCTTCGTTGTTAGTGGGTGGACGCATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
1 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
739819 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
66 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
* * *
739866 AATCTTCGTTGTTAGTGGGTGGACGCATATTCTAAGAACTAGCGAAAAACACGAGGATTGTATAA
1 AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
* *
739931 AAACTTATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
66 AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
739978 TCTCTCTCCT
Statistics
Matches: 535, Mismatches: 24, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
112 534 1.00
113 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (112 bp):
AATCTTCGTTGTTAGTGGGTGGACACATATTCTAAGAACTAGCGAAACACATGAGGATTGTATAA
AGACTGATGTTTGATATACTAGAATTCATGTTGATCAATATAAGATT
Found at i:743566 original size:5 final size:5
Alignment explanation
Indices: 743556--743583 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
743546 AATTAAAATA
743556 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
743584 GGTATACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:747446 original size:18 final size:18
Alignment explanation
Indices: 747425--747463 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
747415 CAACCAGACA
747425 AACCA-TTCTCACCAGCCG
1 AACCAGTTCT-ACCAGCCG
*
747443 AACCAGTTCTACTAGCCG
1 AACCAGTTCTACCAGCCG
747461 AAC
1 AAC
747464 AAGACTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.31, C:0.38, G:0.13, T:0.18
Consensus pattern (18 bp):
AACCAGTTCTACCAGCCG
Found at i:754564 original size:126 final size:126
Alignment explanation
Indices: 754339--754593 Score: 474
Period size: 126 Copynumber: 2.0 Consensus size: 126
754329 AATATGAAAC
*
754339 ATTTACATGGTGCATTTAGATTCTATAGATATGACTAATTTATGCCTAGTTGCTAAGGATGAGCA
1 ATTTACATGGTGCATTTAGATTCTATAGATATGACAAATTTATGCCTAGTTGCTAAGGATGAGCA
*
754404 TGATAGTTGGTTATGGCAAAAGAGACTAGAGCATGCTAGTATGAGTGTTTTGCAACGGCTA
66 TGATAGATGGTTATGGCAAAAGAGACTAGAGCATGCTAGTATGAGTGTTTTGCAACGGCTA
*
754465 ATTTACATGGTGCATTTAGATTCTATAGATATGCCAAATTTATGCCTAGTTGCTAAGGATGAGCA
1 ATTTACATGGTGCATTTAGATTCTATAGATATGACAAATTTATGCCTAGTTGCTAAGGATGAGCA
*
754530 TGATAGATGGTTATGGCAAAGGAGACTAGAGCATGCTAGTATGAGTGTTTTGCAACGGCTA
66 TGATAGATGGTTATGGCAAAAGAGACTAGAGCATGCTAGTATGAGTGTTTTGCAACGGCTA
754591 ATT
1 ATT
754594 CAAGGAGACC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (126 bp):
ATTTACATGGTGCATTTAGATTCTATAGATATGACAAATTTATGCCTAGTTGCTAAGGATGAGCA
TGATAGATGGTTATGGCAAAAGAGACTAGAGCATGCTAGTATGAGTGTTTTGCAACGGCTA
Found at i:756787 original size:23 final size:23
Alignment explanation
Indices: 756712--756793 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
756702 ACACTTAACA
*
756712 GTGCATCAATGCA-TCCCTTTGAAT
1 GTGCATCGATGCACT-CC-TTGAAT
* * * *
756736 GTGCATCGAT--ACACCATAAAG
1 GTGCATCGATGCACTCCTTGAAT
756757 GTGCATCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
756780 GTGCATCGATGCAC
1 GTGCATCGATGCAC
756794 AAGGCCGTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 13 0.28
22 3 0.07
23 21 0.46
24 9 0.20
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:759420 original size:20 final size:20
Alignment explanation
Indices: 759397--759447 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
759387 GGGATGCACC
759397 GATGCACCAATCCATGCATT
1 GATGCACCAATCCATGCATT
759417 GATGCACCAATCCATGCATT
1 GATGCACCAATCCATGCATT
759437 GATGCACCAAT
1 GATGCACCAAT
759448 GAATAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (20 bp):
GATGCACCAATCCATGCATT
Found at i:759457 original size:20 final size:20
Alignment explanation
Indices: 759397--759458 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
759387 GGGATGCACC
* **
759397 GATGCACCAATCCATGCATT
1 GATGCACCAATCAATAAATT
* **
759417 GATGCACCAATCCATGCATT
1 GATGCACCAATCAATAAATT
*
759437 GATGCACCAATGAATAAATT
1 GATGCACCAATCAATAAATT
759457 GA
1 GA
759459 ACATCGAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
GATGCACCAATCAATAAATT
Found at i:759585 original size:45 final size:46
Alignment explanation
Indices: 759494--759596 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 46
759484 TGCACTCTCC
** * *
759494 ATGCATCGATGCACTCAGGTTTTAATGAAAATATCGAATGCATTTT
1 ATGCATCGATGCACTCAGGTCCTAATCAAAACATCGAATGCATTTT
* *
759540 ATGCATCGATGCACTTAGG-CCTATTCAAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCAGGTCCTAATCAAAACATCGAATGCATTTT
759585 ATGCATCGATGC
1 ATGCATCGATGC
759597 GCACTTAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGGTCCTAATCAAAACATCGAATGCATTTT
Found at i:761608 original size:39 final size:39
Alignment explanation
Indices: 761549--761623 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
761539 ATAGTGTGAG
* *
761549 TTATATTATGATTAAGATTAATTATTAGTATTTTATGAA
1 TTATATTACGATTAAGATTAATTATTAATATTTTATGAA
*
761588 TTATATTACGATTAATATTAATTATTAATATTTTAT
1 TTATATTACGATTAAGATTAATTATTAATATTTTAT
761624 TATTAGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (39 bp):
TTATATTACGATTAAGATTAATTATTAATATTTTATGAA
Found at i:761611 original size:21 final size:20
Alignment explanation
Indices: 761549--761612 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
761539 ATAGTGTGAG
*
761549 TTATATTATGATTAAGATTAA
1 TTATATTA-GATTAATATTAA
* *
761570 -T-TATTAGTATT-TTATGAA
1 TTATATTAG-ATTAATATTAA
761588 TTATATTACGATTAATATTAA
1 TTATATTA-GATTAATATTAA
761609 TTAT
1 TTAT
761613 TAATATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 9 0.27
21 10 0.30
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (20 bp):
TTATATTAGATTAATATTAA
Found at i:763453 original size:81 final size:81
Alignment explanation
Indices: 763353--763510 Score: 226
Period size: 81 Copynumber: 2.0 Consensus size: 81
763343 CCACTTAGTA
* * * * *
763353 CCACTATCGCACCTGACATTGAAAATATACACCAAACCATTAACCCATTAGACTCTCCAAAAACA
1 CCACTACCACACCTAACATTGAAAACATACACCAAACCATTAACCAATTAGACTCTCCAAAAACA
763418 CCAAATCCATCTAACG
66 CCAAATCCATCTAACG
* * *
763434 CCACTACCACACCTAACATTGAAAGCATACACCAAACCATTAACCAATTGGACTCTCCTAAAACA
1 CCACTACCACACCTAACATTGAAAACATACACCAAACCATTAACCAATTAGACTCTCCAAAAACA
**
763499 TTAAATCCATCT
66 CCAAATCCATCT
763511 GTGTCACCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.41, C:0.33, G:0.06, T:0.21
Consensus pattern (81 bp):
CCACTACCACACCTAACATTGAAAACATACACCAAACCATTAACCAATTAGACTCTCCAAAAACA
CCAAATCCATCTAACG
Found at i:767813 original size:20 final size:20
Alignment explanation
Indices: 767788--767862 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
767778 TAAAATCCAA
767788 GGGATCGATCCTTTTTCAAG
1 GGGATCGATCCTTTTTCAAG
* * **
767808 GGGATCAATCATTTAGGCAAAG
1 GGGATCGATCCTTT-TTC-AAG
* *
767830 AGG-TCGATCCTTTTTCAAA
1 GGGATCGATCCTTTTTCAAG
* *
767849 GAGATTGATCCTTT
1 GGGATCGATCCTTT
767863 AAGCTAGAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 9 0.23
22 5 0.13
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (20 bp):
GGGATCGATCCTTTTTCAAG
Found at i:771109 original size:15 final size:16
Alignment explanation
Indices: 771091--771123 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
771081 TTTTCAAATT
771091 AAAAATTTC-TTTTTC
1 AAAAATTTCATTTTTC
*
771106 AAAATTTTCATTTTTC
1 AAAAATTTCATTTTTC
771122 AA
1 AA
771124 TTTTGAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAAATTTCATTTTTC
Found at i:774359 original size:12 final size:12
Alignment explanation
Indices: 774339--774368 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
774329 AGAAGTATAT
774339 GAAAAATAGAGA
1 GAAAAATAGAGA
*
774351 GAAAGATAGAGA
1 GAAAAATAGAGA
774363 GAAAAA
1 GAAAAA
774369 GAAGATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:778395 original size:5 final size:5
Alignment explanation
Indices: 778385--778482 Score: 54
Period size: 5 Copynumber: 18.8 Consensus size: 5
778375 GTTTAGAGAA
* * ** ****
778385 AAAAT AAAAT AAATT AAAAT AAAAT -AAAT AGAAT GAAAAT AAGGT TTGCT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
* *
778435 AAAAAT AAAAT AAAAAAT AAAAC GAAAT AAAAT GAAAAT AAAAT AAAA
1 -AAAAT AAAAT --AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
778483 CCAAAATAGA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
4 4 0.06
5 51 0.73
6 10 0.14
7 5 0.07
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:778450 original size:11 final size:11
Alignment explanation
Indices: 778434--778482 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
778424 TAAGGTTTGC
778434 TAAAAATAAAA
1 TAAAAATAAAA
778445 TAAAAAATAAAA
1 T-AAAAATAAAA
**
778457 -CGAAATAAAA
1 TAAAAATAAAA
*
778467 TGAAAATAAAA
1 TAAAAATAAAA
778478 TAAAA
1 TAAAA
778483 CCAAAATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 8 0.26
11 13 0.42
12 10 0.32
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:778465 original size:22 final size:21
Alignment explanation
Indices: 778437--778477 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
778427 GGTTTGCTAA
778437 AAATAAAATAAAAAATAAAACG
1 AAATAAAAT-AAAAATAAAACG
*
778459 AAATAAAATGAAAATAAAA
1 AAATAAAATAAAAATAAAA
778478 TAAAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATAAAATAAAAATAAAACG
Found at i:787742 original size:15 final size:15
Alignment explanation
Indices: 787724--787756 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
787714 AACAAAACTT
787724 AAAAAAGAAAAAAGAA
1 AAAAAAG-AAAAAGAA
787740 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
787755 AA
1 AA
787757 CTCACTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:788522 original size:15 final size:14
Alignment explanation
Indices: 788502--788533 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
788492 AACAAAACTT
788502 AAAAAAGAAGAAAGA
1 AAAAAAGAA-AAAGA
788517 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
788531 AAA
1 AAA
788534 CTCACTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:788722 original size:389 final size:389
Alignment explanation
Indices: 787373--789322 Score: 3605
Period size: 389 Copynumber: 5.0 Consensus size: 389
787363 CGTGACTACC
787373 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
1 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
* *
787438 TACCACAAATATCAACTTTTTATTGTTTTCTTGAACAGATTATCAATGTTTCGATCTCACGTGAC
66 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
*
787503 TAGATCATTTGCATGGACCTTGTCGATCCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
131 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
*
787568 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGTGTGTTTCATCGATTACA
196 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
*
787633 GCCTTAAGGGTAAGTTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
261 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
*
787698 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAAAAAGAAAAAAAAGAAAAAGAAAACTCACT
326 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAG-AAAAAAAGAAAAAGAAAACTCACT
787763 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
1 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
*
787828 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACATGAC
66 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
* *
787893 TAGATCATTTGCATGGACCTTGTCGAATCATTTTTTAGATATGGCCTAGGTAAGTGTGTTGAGTT
131 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
787958 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
196 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
*
788023 GCCTTAAGGGTAGGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
261 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
*
788088 AACACCACTCAAAGAAAACAAAATTTAAAAAAGAAGAAAGAAAAAAAG-AAAAGAAAACTCACT
326 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
*
788151 ATGATTTAGTTGTAATTCCTAGGCCCAATAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
1 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
*
788216 TACCACAAATATCAACTTTTTATTGCTTTCTTGAATAGATTATCATTGTTTCGATCTCACGTGAC
66 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
*
788281 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGACCTAGGTAAGTGTGTTGAGTT
131 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
* * *
788346 ATTACTAGAGTGTGAAAATTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTATA
196 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
*
788411 GCCTTAAGGATAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
261 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
788476 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
326 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
788540 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
1 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
788605 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
66 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
788670 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
131 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
* * * * *
788735 ATTATTGGAGTGCGAAAATTGTATCACAAAATTCCACGTGAACTATGTGTGTTTCATCGATTACA
196 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
788800 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
261 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
788865 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
326 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
*
788929 ATGATTTAGTTATAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
1 ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
* *
788994 TACCACAAATATCAATTTTTTATTGCTTTCTTGAACATATTATCATTGTTTCGATCTCACGTGAC
66 TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
* *
789059 TAGATCATTTGCATGGACATTGTCGATTCATTTTTTAGATATGGCCTAGGTAAGTGTGTTGAGTT
131 TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
* *
789124 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCATGTGAACTTTGCGTGTTTAATCGATTACA
196 ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
789189 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
261 GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
*
789254 AACACCAGTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
326 AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
789318 ATGAT
1 ATGAT
789323 GACTCTAACG
Statistics
Matches: 1513, Mismatches: 46, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
388 376 0.25
389 783 0.52
390 354 0.23
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (389 bp):
ATGATTTAGTTGTAATTCCTAGGCCCAAGAGTTATAATATCTAACAGAGTATGATATTTCAAGGT
TACCACAAATATCAACTTTTTATTGCTTTCTTGAACAGATTATCATTGTTTCGATCTCACGTGAC
TAGATCATTTGCATGGACCTTGTCGATTCATTTTTGAGATATGGCCTAGGTAAGTGTGTTGAGTT
ATTACTGGAGTGTGAAAACTGTATCACAAAATTCCACGTGAACTTTGCGTGTTTCATCGATTACA
GCCTTAAGGGTAAGCTTTGTTAGACCTTGTTTGACTCCACAAGATTCAGAATTAGACATCCTAAA
AACACCACTCAAAGAAAACAAAACTTAAAAAAGAAGAAAGAAAAAAAGAAAAAGAAAACTCACT
Found at i:788911 original size:15 final size:14
Alignment explanation
Indices: 788891--788922 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
788881 AACAAAACTT
788891 AAAAAAGAAGAAAGA
1 AAAAAAGAA-AAAGA
788906 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
788920 AAA
1 AAA
788923 CTCACTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:789300 original size:15 final size:14
Alignment explanation
Indices: 789280--789311 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
789270 AACAAAACTT
789280 AAAAAAGAAGAAAGA
1 AAAAAAGAA-AAAGA
789295 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
789309 AAA
1 AAA
789312 CTCACTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:790476 original size:13 final size:13
Alignment explanation
Indices: 790458--790491 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
790448 AATTATGGAA
790458 TTGATGAAGGATG
1 TTGATGAAGGATG
*
790471 TTGATGATGGATG
1 TTGATGAAGGATG
*
790484 ATGATGAA
1 TTGATGAA
790492 ATGGCAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (13 bp):
TTGATGAAGGATG
Found at i:790751 original size:5 final size:5
Alignment explanation
Indices: 790741--790770 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
790731 ATTTTTATAT
790741 ATGAG ATGAG ATGAG ATGAG ATGAG ATGAG
1 ATGAG ATGAG ATGAG ATGAG ATGAG ATGAG
790771 TACAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
ATGAG
Found at i:794817 original size:13 final size:13
Alignment explanation
Indices: 794799--794832 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
794789 AATTATGGAA
794799 TTGATGAAGGATG
1 TTGATGAAGGATG
*
794812 TTGATGATGGATG
1 TTGATGAAGGATG
*
794825 ATGATGAA
1 TTGATGAA
794833 ATAGCAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (13 bp):
TTGATGAAGGATG
Found at i:801873 original size:34 final size:34
Alignment explanation
Indices: 801830--801901 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
801820 AACATTAATG
801830 AATTTAACTAAATTATTATCTGGTAACAAATCCA
1 AATTTAACTAAATTATTATCTGGTAACAAATCCA
801864 AATTTAACTAAATTATTATCTGGTAACAAATCCA
1 AATTTAACTAAATTATTATCTGGTAACAAATCCA
801898 AATT
1 AATT
801902 GATTGGCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (34 bp):
AATTTAACTAAATTATTATCTGGTAACAAATCCA
Found at i:804767 original size:41 final size:40
Alignment explanation
Indices: 804721--804932 Score: 119
Period size: 41 Copynumber: 5.2 Consensus size: 40
804711 ATTTTTTTCA
* *
804721 ACAAACGCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTAT
1 ACAAACGTCGCAACAGAGTA-TACTTTAGAGGCGTTTTTAT
* * * * * *
804762 ACAAACGTCGTAATAGGGTCAT-CTATAGTGGTGTTTTT-T
1 ACAAACGTCGCAACAGAGT-ATACTTTAGAGGCGTTTTTAT
* *
804801 CAACAAACGTTGCAACAGAGTATTACTTTAGATGCGTTTTTAT
1 --ACAAACGTCGCAACAGAGTA-TACTTTAGAGGCGTTTTTAT
* * * * * * * * *
804844 ACAAATGTCGTAATAGGGTTTATCTATAGTGTCATTTTT-T
1 ACAAACGTCGCAACAGAGTATA-CTTTAGAGGCGTTTTTAT
* * *
804884 CAACAAACGTCGCAACCGAGTA-A-TTTAGCGGTGTTTTTAT
1 --ACAAACGTCGCAACAGAGTATACTTTAGAGGCGTTTTTAT
804924 ACAAACGTC
1 ACAAACGTC
804933 ATAATAGGGT
Statistics
Matches: 124, Mismatches: 37, Indels: 23
0.67 0.20 0.12
Matches are distributed among these distances:
38 9 0.07
39 11 0.09
40 18 0.15
41 58 0.47
42 27 0.22
43 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (40 bp):
ACAAACGTCGCAACAGAGTATACTTTAGAGGCGTTTTTAT
Found at i:804838 original size:82 final size:81
Alignment explanation
Indices: 804640--804973 Score: 349
Period size: 83 Copynumber: 4.1 Consensus size: 81
804630 CTTTTATACA
* * * * ** * *
804640 AAACGTCGCGACATACTAGTACTTTAGCAGTTTTTTTATACAAACAGT-GCAATA-GGTTCATCC
1 AAACGTCGCAACAGAGTA-TACTTTAGCGGCGTTTTTATACAAAC-GTCGTAATAGGGTTCATCT
*
804703 ATAGTGACATTTTTTTCAAC
64 ATAGTG--GTTTTTTTCAAC
*
804723 AAACGCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGG-TCATCTA
1 AAACGTCGCAACAGAGTA-TACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTTCATCTA
804787 TAGTGGTGTTTTTTCAAC
65 TAGTGGT-TTTTTTCAAC
* ** * *
804805 AAACGTTGCAACAGAGTATTACTTTAGATGCGTTTTTATACAAATGTCGTAATAGGGTTTATCTA
1 AAACGTCGCAACAGAGTA-TACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTTCATCTA
804870 TAGT-GTCATTTTTTCAAC
65 TAGTGGT--TTTTTTCAAC
* * *
804888 AAACGTCGCAACCGAGTA-A-TTTAGCGGTGTTTTTATACAAACGTCATAATAGGGTTCATCTAT
1 AAACGTCGCAACAGAGTATACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTTCATCTAT
**
804951 -GTGGCATTTTTCAAC
66 AGTGGTTTTTTTCAAC
*
804966 AATCGTCG
1 AAACGTCG
804974 TAATTTATAA
Statistics
Matches: 216, Mismatches: 29, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
78 16 0.07
79 2 0.01
80 39 0.18
81 2 0.01
82 65 0.30
83 90 0.42
84 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (81 bp):
AAACGTCGCAACAGAGTATACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTTCATCTAT
AGTGGTTTTTTTCAAC
Found at i:805034 original size:41 final size:41
Alignment explanation
Indices: 804984--805170 Score: 196
Period size: 41 Copynumber: 4.5 Consensus size: 41
804974 TAATTTATAA
*
804984 GTACATTAGTGGCGTTTGTATACAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTGTATACAAACGCCGCTAAAGACTC
* * * * *
805025 GTACTTTAGTTGTGTTTTTATACAAACAG-CACTATAGACTC
1 GTACTTTAGTGGCGTTTGTATACAAAC-GCCGCTAAAGACTC
* ** * *
805066 GTACTTTACTGGTATTTTTATACAAACGCCGCTACAGACTC
1 GTACTTTAGTGGCGTTTGTATACAAACGCCGCTAAAGACTC
* * * **
805107 ATACTTTAGTGGCGTTTATGTTTACAAATGATGCTAAAGACTC
1 GTACTTTAGTGGCG-TT-TGTATACAAACGCCGCTAAAGACTC
805150 GTACTTTAGTGGCGTTTGTAT
1 GTACTTTAGTGGCGTTTGTAT
805171 TGAATACACA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
40 1 0.01
41 81 0.68
42 5 0.04
43 32 0.27
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTGTATACAAACGCCGCTAAAGACTC
Found at i:811796 original size:25 final size:28
Alignment explanation
Indices: 811767--811818 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
811757 TGATTTAAGA
*
811767 TTTTAAT-ATTTTA-AT-TAAAATTATT
1 TTTTAATAATTGTATATATAAAATTATT
811792 TTTTAATAATTGTATATATAAAATTAT
1 TTTTAATAATTGTATATATAAAATTAT
811819 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 5 0.22
27 2 0.09
28 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTTAATAATTGTATATATAAAATTATT
Found at i:811946 original size:2 final size:2
Alignment explanation
Indices: 811935--811977 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
811925 TATCATTAAC
*
811935 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
811975 TA T
1 TA T
811978 TGTAACTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:812345 original size:20 final size:20
Alignment explanation
Indices: 812320--812365 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
812310 AATTATGTGT
812320 TCATATTGAAAGTATGATGA
1 TCATATTGAAAGTATGATGA
812340 TCATATTGAAAGTATGATGA
1 TCATATTGAAAGTATGATGA
*
812360 TTATAT
1 TCATAT
812366 CGACATTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (20 bp):
TCATATTGAAAGTATGATGA
Found at i:812716 original size:25 final size:25
Alignment explanation
Indices: 812688--812735 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
812678 ATATATTTTA
* *
812688 AAAATTAAAATTTAAGTACTAAAAT
1 AAAATAAAAATTTAAATACTAAAAT
812713 AAAATAAAAATTTAAATACTAAA
1 AAAATAAAAATTTAAATACTAAA
812736 CGTGTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATAAAAATTTAAATACTAAAAT
Found at i:813225 original size:25 final size:24
Alignment explanation
Indices: 813195--813261 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
813185 TTTAATTTAA
813195 TAAAATATTAATAAATTTGAATATT
1 TAAAATATTAAT-AATTTGAATATT
* * *
813220 TAAAATTATTTATATTTTTAATATT
1 TAAAA-TATTAATAATTTGAATATT
* * *
813245 CAATATATTAATTATTT
1 TAAAATATTAATAATTT
813262 ATAATTTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 9 0.27
25 18 0.55
26 6 0.18
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
TAAAATATTAATAATTTGAATATT
Found at i:813372 original size:22 final size:22
Alignment explanation
Indices: 813336--813378 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
813326 TTTAAGTTAT
813336 TAAAAAAATAGATC-TTATACG
1 TAAAAAAATAGATCTTTATACG
*
813357 TAAAAAAATAATATCTTTATAC
1 TAAAAAAAT-AGATCTTTATAC
813379 AAACGAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAAAAAATAGATCTTTATACG
Found at i:813982 original size:16 final size:16
Alignment explanation
Indices: 813961--814003 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
813951 ATACAGAATC
813961 TTTGAATTATTTAACA
1 TTTGAATTATTTAACA
813977 TTTGAATTATTTAACA
1 TTTGAATTATTTAACA
813993 TTTGAATTATT
1 TTTGAATTATT
814004 AAACGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTGAATTATTTAACA
Found at i:818929 original size:9 final size:8
Alignment explanation
Indices: 818912--818971 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
818902 GTGTAAATTC
818912 TTAATATT
1 TTAATATT
818920 TTATATATT
1 TTA-ATATT
818929 TTAATATT
1 TTAATATT
**
818937 AAAATATT
1 TTAATATT
**
818945 TTTTTATT
1 TTAATATT
818953 TTAAT-TT
1 TTAATATT
818960 ATTAATTATT
1 -TTAA-TATT
818970 TT
1 TT
818972 TTAATTTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
7 2 0.05
8 25 0.62
9 11 0.28
10 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATATT
Found at i:818969 original size:25 final size:24
Alignment explanation
Indices: 818912--818984 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
818902 GTGTAAATTC
*
818912 TTAATATTTTATATATTTTAATATTA
1 TTAATATTTT-TTTATTTTAAT-TTA
*
818938 -AAATATTTTTTTATTTTAATTTA
1 TTAATATTTTTTTATTTTAATTTA
* *
818961 TTAATTATTTTTTAATTTTTATTT
1 TTAA-TATTTTTTTATTTTAATTT
818985 TAACTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.08
24 12 0.30
25 25 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTAATATTTTTTTATTTTAATTTA
Found at i:819062 original size:23 final size:21
Alignment explanation
Indices: 819029--819072 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
819019 CTTTTAAAAC
819029 TATATCTTAAATTAAAATAAA
1 TATATCTTAAATTAAAATAAA
*
819050 TATATCTCATAAATTAAGATAAA
1 TATATCT--TAAATTAAAATAAA
819073 AATAAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
TATATCTTAAATTAAAATAAA
Found at i:819127 original size:30 final size:29
Alignment explanation
Indices: 819089--819326 Score: 155
Period size: 30 Copynumber: 8.0 Consensus size: 29
819079 ATGTTTCAAG
819089 TTAAAATAAGAATAAAATATATTTTTTAAA
1 TTAAAATAAGAATAAAATATA-TTTTTAAA
* * * *
819119 TAAAAATAA-AA-ATAATATATATGT-AA
1 TTAAAATAAGAATAAAATATATTTTTAAA
**
819145 -TAAGTTAAG-ATAAAATATATTTTTAAA
1 TTAAAATAAGAATAAAATATATTTTTAAA
* *
819172 TTTTAATATGTGAATTTAATTAAAAATATATTTTTAAA
1 --TTAA-A-AT-AA--GAA-T-AAAATATATTTTTAAA
* * *
819210 TTTAAGATAATAATAAAATATATTTTTAAG
1 -TTAAAATAAGAATAAAATATATTTTTAAA
* *
819240 TTAAAATAAGATTAAAATATAATTTTAAA
1 TTAAAATAAGAATAAAATATATTTTTAAA
* * *
819269 GTTAAAATAAAAATAAAATATATTTAATAAT
1 -TTAAAATAAGAATAAAATATATTT-TTAAA
* *
819300 TTAAGATAAAAATAAAATAT-TTTTTAA
1 TTAAAATAAGAATAAAATATATTTTTAA
819327 TTTTAAGATA
Statistics
Matches: 164, Mismatches: 28, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
25 6 0.04
26 12 0.07
27 5 0.03
28 10 0.06
29 29 0.18
30 66 0.40
31 4 0.02
32 4 0.02
33 2 0.01
34 2 0.01
35 1 0.01
36 1 0.01
37 6 0.04
38 16 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (29 bp):
TTAAAATAAGAATAAAATATATTTTTAAA
Found at i:819325 original size:59 final size:59
Alignment explanation
Indices: 819194--819326 Score: 169
Period size: 59 Copynumber: 2.3 Consensus size: 59
819184 AATTTAATTA
* * * * * *
819194 AAAATATATTTTTAAATTTAAGATAATAATAAAATATATTTTTAAGTTAAAATAAGATT
1 AAAATATATTTTTAAAGTTAAAATAAAAATAAAATATATTTATAAGTTAAAATAAAAAT
* * *
819253 AAAATATAATTTTAAAGTTAAAATAAAAATAAAATATATTTAATAATTTAAGATAAAAAT
1 AAAATATATTTTTAAAGTTAAAATAAAAATAAAATATATTT-ATAAGTTAAAATAAAAAT
819313 AAAATAT-TTTTTAA
1 AAAATATATTTTTAA
819327 TTTTAAGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 43 0.68
60 20 0.32
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (59 bp):
AAAATATATTTTTAAAGTTAAAATAAAAATAAAATATATTTATAAGTTAAAATAAAAAT
Found at i:819341 original size:29 final size:30
Alignment explanation
Indices: 819194--819341 Score: 167
Period size: 30 Copynumber: 5.0 Consensus size: 30
819184 AATTTAATTA
*
819194 AAAATATATTTTTAAATTTAAGATAATAAT
1 AAAATATATTTTTAAATTTAAGATAAAAAT
* * * *
819224 AAAATATATTTTT-AAGTTAAAATAAGATT
1 AAAATATATTTTTAAATTTAAGATAAAAAT
* * *
819253 AAAATATAATTTTAAAGTTAAAATAAAAAT
1 AAAATATATTTTTAAATTTAAGATAAAAAT
*
819283 AAAATATA-TTTAATAATTTAAGATAAAAAT
1 AAAATATATTTTTA-AATTTAAGATAAAAAT
* *
819313 AAAATAT-TTTTTAATTTTAAGATATAAAT
1 AAAATATATTTTTAAATTTAAGATAAAAAT
819342 TTAATTTAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
29 42 0.41
30 60 0.59
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (30 bp):
AAAATATATTTTTAAATTTAAGATAAAAAT
Found at i:820931 original size:13 final size:13
Alignment explanation
Indices: 820902--820936 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
820892 ATAACTAATA
*
820902 ATATTAAAT-ATT
1 ATATTAAATAAAT
820914 ATATTAAATAAAT
1 ATATTAAATAAAT
820927 ATATTAAATA
1 ATATTAAATA
820937 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:822571 original size:126 final size:126
Alignment explanation
Indices: 822346--822606 Score: 486
Period size: 126 Copynumber: 2.1 Consensus size: 126
822336 GTTTACAGTA
822346 CCTCGGGGACACTAGATATATCAGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGG
1 CCTCGGGGACACTAGATATATCAGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGG
* *
822411 GGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTC
66 GACGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTC
* *
822472 CCTCGGGGTCACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCGCGTTCCCGGG
1 CCTCGGGGACACTAGATATATCAGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGG
822537 GACGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTC
66 GACGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTC
822598 CCTCGGGGA
1 CCTCGGGGA
822607 ATAACTTAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 130 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (126 bp):
CCTCGGGGACACTAGATATATCAGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGG
GACGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTC
Found at i:823055 original size:33 final size:34
Alignment explanation
Indices: 822994--823093 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
822984 AAATTTAATG
*
822994 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
823028 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
823061 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
823094 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:823702 original size:21 final size:21
Alignment explanation
Indices: 823614--823707 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
823604 TATGGTATAA
*
823614 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
823635 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
823656 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
823677 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
823698 AACCCTGCGG
1 AACCCTGCGG
823708 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:823737 original size:21 final size:21
Alignment explanation
Indices: 823711--823758 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
823701 CCTGCGGAGA
*
823711 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
823732 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
823753 GGGCAT
1 TGGCAT
823759 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:825533 original size:23 final size:23
Alignment explanation
Indices: 825481--825541 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
825471 ATAATTCTAA
* *
825481 ATAAATAATAATTATAATATTAT
1 ATAAATAATAATAATAATATTAC
* *
825504 TTTAATAATAA-AATAATATTTAC
1 ATAAATAATAATAATAATA-TTAC
*
825527 ATAAAT-ATATTAATA
1 ATAAATAATAATAATA
825542 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAAATAATAATAATAATATTAC
Found at i:828375 original size:3 final size:3
Alignment explanation
Indices: 828369--828405 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
828359 TTTTTTTTTC
828369 TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
828406 AATAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:828414 original size:22 final size:22
Alignment explanation
Indices: 828370--828416 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
828360 TTTTTTTTCT
* *
828370 TATTATTATTATTATTATTATA
1 TATTATTATTATTAATATAATA
828392 TATTATTATTATTAA-ATAAATA
1 TATTATTATTATTAATAT-AATA
828414 TAT
1 TAT
828417 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTATTATTATTAATATAATA
Found at i:830681 original size:17 final size:16
Alignment explanation
Indices: 830659--830700 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
830649 AAAAAAATCA
830659 TTTATTTAATTTTTTCT
1 TTTATTTAATTTTTT-T
830676 TTTATTTCAATTTTTTT
1 TTTATTT-AATTTTTTT
*
830693 ATTATTTA
1 TTTATTTA
830701 TTATTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 14 0.61
18 8 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTAATTTTTTT
Found at i:830706 original size:18 final size:18
Alignment explanation
Indices: 830685--830732 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
830675 TTTTATTTCA
*
830685 ATTTTTTTATTATTTATT
1 ATTTTATTATTATTTATT
*
830703 ATTTTCA-TAATATTTATT
1 ATTTT-ATTATTATTTATT
830721 ATATTTATTATT
1 AT-TTTATTATT
830733 TTATTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTATTATTATTTATT
Found at i:830726 original size:9 final size:9
Alignment explanation
Indices: 830695--830737 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
830685 ATTTTTTTAT
830695 TATTTATTA
1 TATTTATTA
*
830704 T-TTTCATAA
1 TATTT-ATTA
830713 TATTTATTA
1 TATTTATTA
830722 TATTTATTA
1 TATTTATTA
830731 T-TTTATT
1 TATTTATT
830738 TTCAAGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 9 0.30
9 18 0.60
10 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTATTA
Found at i:835352 original size:18 final size:19
Alignment explanation
Indices: 835318--835359 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
835308 CTCATCCAGC
*
835318 AAAAAAAAAATAGAAAA-G
1 AAAAAAAAAACAGAAAAGG
835336 AAAAAAAACAACA-AAAAGG
1 AAAAAAAA-AACAGAAAAGG
835355 AAAAA
1 AAAAA
835360 GAAGAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAACAGAAAAGG
Found at i:837825 original size:114 final size:114
Alignment explanation
Indices: 837622--837847 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
837612 AAGTGCCACG
*
837622 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
* * *
837687 TGGTTTGGTATGAACTCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTAGGAACTACAAAACCAATCATTGGAATTAAAAGATGAATT
* *
837736 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
*
837801 TGGTTTGGTAGGAACTACAGAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTAGGAACTACAAAACCAATCATTGGAATTAAAAGATGAA
837848 CTGCATGATC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
TGGTTTGGTAGGAACTACAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:839094 original size:54 final size:54
Alignment explanation
Indices: 839030--839134 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
839020 ATTCAATGAT
***
839030 TGAGAAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATC
1 TGAGAAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTACGAACATC
* ** *
839084 TGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTTAAATGTTTTACGAAC
1 TGAGAAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTACGAAC
839135 CTGCTATTCG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (54 bp):
TGAGAAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTACGAACATC
Found at i:840331 original size:76 final size:76
Alignment explanation
Indices: 840205--840890 Score: 1286
Period size: 76 Copynumber: 9.0 Consensus size: 76
840195 CTATTTCTCA
840205 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
840270 AGCCTTCGGGT
66 ATCCTTCGGGT
840281 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
840346 AGCCTTCGGGT
66 ATCCTTCGGGT
840357 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840422 ATCCTTCGGGT
66 ATCCTTCGGGT
*
840433 CATCTGTAATTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840498 ATCCTTCGGGT
66 ATCCTTCGGGT
840509 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840573 ATCCTTCGGGT
66 ATCCTTCGGGT
840584 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
840649 AGCCTTCGGGT
66 ATCCTTCGGGT
840660 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840725 ATCCTTCGGGT
66 ATCCTTCGGGT
840736 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840801 ATCCTTCGGGT
66 ATCCTTCGGGT
* *
840812 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
840877 A-CCCTCAGGGT
66 ATCCTTC-GGGT
840888 CAT
1 CAT
840891 TCTTAAGACC
Statistics
Matches: 600, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
75 79 0.13
76 521 0.87
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTCGGGT
Found at i:840753 original size:303 final size:303
Alignment explanation
Indices: 840205--840890 Score: 1302
Period size: 303 Copynumber: 2.3 Consensus size: 303
840195 CTATTTCTCA
840205 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840270 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 A-CCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
840335 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
130 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
840400 GGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAATTCCTTCAGTGCATGATGTTTCC
195 GGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
840465 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
260 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
840509 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
840573 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 A-CCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
840638 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
130 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
840703 GGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
195 GGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
840768 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
260 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
* *
840812 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
840877 ACCCTCAGGGTCAT
66 ACCTTC-GGGTCAT
840891 TCTTAAGACC
Statistics
Matches: 375, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
303 303 0.81
304 72 0.19
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (303 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
Found at i:841047 original size:3 final size:3
Alignment explanation
Indices: 841041--841081 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
841031 AATTTTTTTC
841041 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
841082 AATAAATAAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:843978 original size:2 final size:2
Alignment explanation
Indices: 843971--844027 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
843961 ATTAACTTCT
843971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
844013 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
844028 CTTTAGGCTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:852426 original size:20 final size:20
Alignment explanation
Indices: 852401--852451 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
852391 AAAGTAGCTG
852401 AATAAATAAATAAAAGATAA
1 AATAAATAAATAAAAGATAA
852421 AATAAA-ATAATAAAAGATAA
1 AATAAATA-AATAAAAGATAA
852441 AA-AAATAAATA
1 AATAAATAAATA
852452 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
AATAAATAAATAAAAGATAA
Found at i:852430 original size:21 final size:21
Alignment explanation
Indices: 852404--852479 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 21
852394 GTAGCTGAAT
852404 AAATAAATAAAAGATAAAATA
1 AAATAAATAAAAGATAAAATA
852425 AAAT-AATAAAAGAT-AAA-A
1 AAATAAATAAAAGATAAAATA
*
852443 AAATAAAT-ATA-A-AAAATA
1 AAATAAATAAAAGATAAAATA
* *
852461 AAACAAAAAAAAGATAAAA
1 AAATAAATAAAAGATAAAA
852480 AAACAAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
17 4 0.09
18 14 0.31
19 8 0.18
20 11 0.24
21 8 0.18
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAAATAAAAGATAAAATA
Found at i:852434 original size:28 final size:26
Alignment explanation
Indices: 852401--852493 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 26
852391 AAAGTAGCTG
852401 AATAAATAAATAAAAGATAAAATAAAA
1 AATAAA-AAATAAAAGATAAAATAAAA
* *
852428 TAATAAAAGATAAAAAAATAAATATAAAA
1 -AATAAAAAAT-AAAAGATAAA-ATAAAA
* *
852457 AATAAAACAAAAAAAAGATAAAAAAACAA
1 AAT-AAA-AAATAAAAGATAAAATAA-AA
*
852486 AACAAAAA
1 AATAAAAA
852494 CAAAACAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.09
28 24 0.45
29 22 0.42
30 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (26 bp):
AATAAAAAATAAAAGATAAAATAAAA
Found at i:852435 original size:13 final size:12
Alignment explanation
Indices: 852404--852481 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 12
852394 GTAGCTGAAT
852404 AAAT-AAATAAA
1 AAATAAAATAAA
*
852415 AGATAAAATAAA
1 AAATAAAATAAA
852427 ATAATAAAAGATAAAA
1 A-AAT-AAA-AT-AAA
852443 AAATAAATATAAA
1 AAATAAA-ATAAA
*
852456 AAATAAAACAAA
1 AAATAAAATAAA
*
852468 AAA-AAGATAAA
1 AAATAAAATAAA
852479 AAA
1 AAA
852482 ACAAAACAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
11 12 0.21
12 15 0.27
13 12 0.21
14 8 0.14
15 5 0.09
16 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:852440 original size:15 final size:14
Alignment explanation
Indices: 852410--852463 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
852400 GAATAAATAA
*
852410 ATAAAAGAT-AAA-
1 ATAAAAAATAAAAG
852422 ATAAAATAATAAAAG
1 ATAAAA-AATAAAAG
*
852437 ATAAAAAA-ATAAAT
1 ATAAAAAATA-AAAG
852451 ATAAAAAATAAAA
1 ATAAAAAATAAAA
852464 CAAAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 6 0.17
13 3 0.09
14 19 0.54
15 7 0.20
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (14 bp):
ATAAAAAATAAAAG
Found at i:852468 original size:24 final size:23
Alignment explanation
Indices: 852401--852503 Score: 84
Period size: 24 Copynumber: 4.3 Consensus size: 23
852391 AAAGTAGCTG
*
852401 AATAAATAAATAAAAGATAAAATAA
1 AATAAA-AAATAAAACA-AAAATAA
* *
852426 AATAATAAAAGATAA-AAAAATAA
1 AATAA-AAAATAAAACAAAAATAA
852449 ATATAAAAAATAAAACAAAAA-AA
1 A-ATAAAAAATAAAACAAAAATAA
* *
852472 AGATAAAAAAACAAAACAAAAACAA
1 A-AT-AAAAAATAAAACAAAAATAA
*
852497 AACAAAA
1 AATAAAA
852504 TTAAATTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
23 24 0.36
24 27 0.41
25 14 0.21
26 1 0.02
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.13
Consensus pattern (23 bp):
AATAAAAAATAAAACAAAAATAA
Found at i:852492 original size:10 final size:10
Alignment explanation
Indices: 852455--852538 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
852445 ATAAATATAA
*
852455 AAAATAAAAC
1 AAAACAAAAC
*
852465 AAAA-AAAAG
1 AAAACAAAAC
852474 ATAAA-AAAAC
1 A-AAACAAAAC
852484 AAAACAAAAAC
1 AAAAC-AAAAC
*
852495 AAAACAAAAT
1 AAAACAAAAC
* ** *
852505 TAAATTAAAT
1 AAAACAAAAC
*
852515 AAAACAAAAA
1 AAAACAAAAC
852525 AAAACAAAAAC
1 AAAAC-AAAAC
852536 AAA
1 AAA
852539 GGAAAAAGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
9 8 0.14
10 34 0.58
11 17 0.29
ACGTcount: A:0.81, C:0.10, G:0.01, T:0.08
Consensus pattern (10 bp):
AAAACAAAAC
Found at i:852493 original size:36 final size:35
Alignment explanation
Indices: 852419--852538 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 35
852409 AATAAAAGAT
* * *
852419 AAAATAAAA-TAATAAAAGATAAAAAAATAAATATAA
1 AAAATAAAACAAAAAAAAGATAAAAAAACAAA-A-AA
*
852455 AAAATAAAACAAAAAAAAGATAAAAAAACAAAACA
1 AAAATAAAACAAAAAAAAGATAAAAAAACAAAAAA
* * *
852490 AAAACAAAACAAAATTAAA-TTAAATAAAACAAAAAA
1 AAAATAAAACAAAA-AAAAGATAAA-AAAACAAAAAA
852526 AAACA-AAAACAAA
1 AAA-ATAAAACAAA
852539 GGAAAAAGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
35 18 0.25
36 34 0.47
37 20 0.28
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.12
Consensus pattern (35 bp):
AAAATAAAACAAAAAAAAGATAAAAAAACAAAAAA
Found at i:852496 original size:30 final size:31
Alignment explanation
Indices: 852439--852539 Score: 75
Period size: 31 Copynumber: 3.2 Consensus size: 31
852429 AATAAAAGAT
* *
852439 AAAAAA-A-TAAATATAA-AAAATAAAACAA
1 AAAAAAGATTAAATAAAACAAAAAAAAACAA
* *
852467 AAAAAAGATAAAAAAACAAAACAAAAACAAAACAA
1 AAAAAAGAT---TAAATAAAACAAAAA-AAAACAA
**
852502 AATTAA-ATTAAATAAAACAAAAAAAAACAA
1 AAAAAAGATTAAATAAAACAAAAAAAAACAA
852532 AAACAAAG
1 AAA-AAAG
852540 GAAAAAGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
28 6 0.11
29 1 0.02
30 9 0.17
31 15 0.28
33 6 0.11
34 6 0.11
35 11 0.20
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.10
Consensus pattern (31 bp):
AAAAAAGATTAAATAAAACAAAAAAAAACAA
Found at i:852498 original size:19 final size:19
Alignment explanation
Indices: 852460--852498 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
852450 TATAAAAAAT
*
852460 AAAACAAAAAAAAGATAAA
1 AAAACAAAAAAAAGACAAA
852479 AAAACAAAACAAAA-ACAAA
1 AAAACAAAA-AAAAGACAAA
852498 A
1 A
852499 CAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAACAAAAAAAAGACAAA
Found at i:852584 original size:23 final size:21
Alignment explanation
Indices: 852558--852607 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
852548 AATATAATTA
852558 AATAAAAAAAAGGAAACAAAAAT
1 AATAAAAAAAA--AAACAAAAAT
* *
852581 AAT-AAGAAAAATACAAAAAT
1 AATAAAAAAAAAAACAAAAAT
852601 AATAAAA
1 AATAAAA
852608 CAATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 6 0.26
23 3 0.13
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (21 bp):
AATAAAAAAAAAAACAAAAAT
Found at i:852612 original size:11 final size:11
Alignment explanation
Indices: 852454--852610 Score: 65
Period size: 11 Copynumber: 14.2 Consensus size: 11
852444 AATAAATATA
852454 AAAAATAAAAC
1 AAAAATAAAAC
* *
852465 AAAAAAAAGATAA
1 AAAAATAA-A-AC
*
852478 AAAAACAAAAC
1 AAAAATAAAAC
*
852489 AAAAACAAAAC
1 AAAAATAAAAC
*
852500 -AAAATTAAA-
1 AAAAATAAAAC
**
852509 TTAAATAAAAC
1 AAAAATAAAAC
852520 AAAAA-AAAAC
1 AAAAATAAAAC
* **
852530 AAAAACAAAGG
1 AAAAATAAAAC
* *
852541 AAAAAGTAATAT
1 AAAAA-TAAAAC
852553 AATTAAAT-AAA-
1 AA--AAATAAAAC
**
852564 AAAAAGGAAAC
1 AAAAATAAAAC
*
852575 AAAAATAATAAG
1 AAAAATAA-AAC
852587 AAAAATACAAA-
1 AAAAATA-AAAC
*
852598 AATAATAAAAC
1 AAAAATAAAAC
852609 AA
1 AA
852611 TATATTTATA
Statistics
Matches: 111, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
9 3 0.03
10 30 0.27
11 46 0.41
12 19 0.17
13 10 0.09
14 3 0.03
ACGTcount: A:0.77, C:0.07, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:852680 original size:17 final size:18
Alignment explanation
Indices: 852648--852684 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
852638 TTAAATAAAT
*
852648 AAAATAAATAAGAAATAA
1 AAAATAAATAAAAAATAA
852666 AAAATAAA-AAAAAATAA
1 AAAATAAATAAAAAATAA
852683 AA
1 AA
852685 CGTGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAATAAATAAAAAATAA
Found at i:865159 original size:23 final size:20
Alignment explanation
Indices: 865108--865167 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
865098 TTTTGGTGCA
*
865108 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
865127 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
*
865148 GAAGGGGAACCGTTTCCCCC
1 G-A-GGGAACCGATTCCCCC
865168 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.29
20 6 0.17
21 3 0.09
22 1 0.03
23 15 0.43
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:872749 original size:7 final size:7
Alignment explanation
Indices: 872739--872764 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
872729 ATCCTAAACC
872739 TTAAAAT
1 TTAAAAT
872746 TTAAAAT
1 TTAAAAT
872753 TTAAAAT
1 TTAAAAT
872760 TTAAA
1 TTAAA
872765 TCTTAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:872750 original size:14 final size:14
Alignment explanation
Indices: 872733--872771 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
872723 TCCTAAATCC
*
872733 TAAACCTTAAAATT
1 TAAAACTTAAAATT
*
872747 TAAAATTTAAAATT
1 TAAAACTTAAAATT
*
872761 TAAATCTTAAA
1 TAAAACTTAAA
872772 CCCTAAATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAACTTAAAATT
Found at i:874918 original size:28 final size:28
Alignment explanation
Indices: 874887--874969 Score: 157
Period size: 28 Copynumber: 3.0 Consensus size: 28
874877 TAAAATGTTA
*
874887 ATTTTATGTATTATCAATAAATTAGATT
1 ATTTTACGTATTATCAATAAATTAGATT
874915 ATTTTACGTATTATCAATAAATTAGATT
1 ATTTTACGTATTATCAATAAATTAGATT
874943 ATTTTACGTATTATCAATAAATTAGAT
1 ATTTTACGTATTATCAATAAATTAGAT
874970 AACGGCACAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (28 bp):
ATTTTACGTATTATCAATAAATTAGATT
Found at i:875166 original size:21 final size:22
Alignment explanation
Indices: 875103--875179 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 22
875093 ATAACCAACG
* *
875103 AATTCGTAACAC-GAA-CTCCA
1 AATTCGCAACACAGAATTTCCA
*
875123 ATTTCGCAACACAG--TTTCCA
1 AATTCGCAACACAGAATTTCCA
*
875143 AATTCGCAACACAGAATTT-GA
1 AATTCGCAACACAGAATTTCCA
875164 AATTCGCAACACAGAA
1 AATTCGCAACACAGAA
875180 GTCAAATTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
20 27 0.56
21 18 0.38
22 3 0.06
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (22 bp):
AATTCGCAACACAGAATTTCCA
Found at i:875192 original size:20 final size:21
Alignment explanation
Indices: 875125--875193 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
875115 GAACTCCAAT
*
875125 TTCGCAACACAG--TTTCCAAA
1 TTCGCAACACAGAATGT-CAAA
* *
875145 TTCGCAACACAGAATTTGAAA
1 TTCGCAACACAGAATGTCAAA
875166 TTCGCAACACAGAA-GTCAAA
1 TTCGCAACACAGAATGTCAAA
*
875186 TTTGCAAC
1 TTCGCAAC
875194 TCGATTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 23 0.53
21 17 0.40
22 3 0.07
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (21 bp):
TTCGCAACACAGAATGTCAAA
Found at i:875269 original size:20 final size:20
Alignment explanation
Indices: 875246--875292 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
875236 GATTTTTTAA
* *
875246 TTCGCAAAGTGCGTTTCAAT
1 TTCGCAAAGCGCGTTACAAT
875266 TTCGCAAAGCGCGTTACAAT
1 TTCGCAAAGCGCGTTACAAT
875286 TTCGCAA
1 TTCGCAA
875293 CGCGAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (20 bp):
TTCGCAAAGCGCGTTACAAT
Found at i:875351 original size:20 final size:20
Alignment explanation
Indices: 875326--875377 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
875316 GATTTCCGAA
875326 TTCGTAACACGAA-TTTTAAT
1 TTCGTAACAC-AACTTTTAAT
* *
875346 TTCGTAAAACAACTTTTATT
1 TTCGTAACACAACTTTTAAT
*
875366 TTCGCAACACAA
1 TTCGTAACACAA
875378 ATGTTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (20 bp):
TTCGTAACACAACTTTTAAT
Found at i:875676 original size:27 final size:27
Alignment explanation
Indices: 875638--875737 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
875628 AGATGGAGAT
*
875638 GAGAATGAGTTGCGATTTAAGGGTTTA
1 GAGAATGAGTTGCAATTTAAGGGTTTA
*
875665 GAGAAAGAGTTGCAATTTAAGGGTTTA
1 GAGAATGAGTTGCAATTTAAGGGTTTA
*
875692 GAGAATGAGTTGTAATTTAAGGGTTTA
1 GAGAATGAGTTGCAATTTAAGGGTTTA
** *
875719 GATTATGAGTTGCGATTTA
1 GAGAATGAGTTGCAATTTA
875738 CGGGATATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (27 bp):
GAGAATGAGTTGCAATTTAAGGGTTTA
Found at i:875948 original size:20 final size:20
Alignment explanation
Indices: 875923--875973 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
875913 TCAAATTCGA
*
875923 GTTGCGAATTTTACTTCTGT
1 GTTGCGAATTTTACTTATGT
875943 GTTGCGAATTTTACTTATGT
1 GTTGCGAATTTTACTTATGT
875963 GTTGCGAATTT
1 GTTGCGAATTT
875974 GGAAACTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.49
Consensus pattern (20 bp):
GTTGCGAATTTTACTTATGT
Found at i:880943 original size:35 final size:36
Alignment explanation
Indices: 880764--881065 Score: 241
Period size: 36 Copynumber: 7.9 Consensus size: 36
880754 TATATAATAA
* *
880764 TTTTAAATATAGTTTTCGAAAATATATAATATATAGT
1 TTTTAAAAATAGTTTT-GAAAACATATAATATATAGT
* *
880801 TTTTGAAAACATATTTTTTAAAACATATATATAATATAGT
1 TTTT-AAAA-ATAGTTTTGAAAACATATA-AT-ATATAGT
* * *
880841 TTTTAAAAAATAAGCTTTT-AAATCGTATAATATATGGT
1 TTTT-AAAAAT-AG-TTTTGAAAACATATAATATATAGT
* ***
880879 TTTTGAAAGCGGTTTTGAAAACATATAATATATAGT
1 TTTTAAAAATAGTTTTGAAAACATATAATATATAGT
* *
880915 TTTT-AAAATAGTTTTGAAAACGTTTAATATATAGT
1 TTTTAAAAATAGTTTTGAAAACATATAATATATAGT
*
880950 TTTTAAAAA-ACGATTTTGAAAACGTATAATATATAGTTT
1 TTTTAAAAATA-G-TTTTGAAAACATATAATATATAG--T
* *
880989 TTTTAAAAGAAAAAAACAGTTTTGAAAACGTATAATATATAGT
1 TTTT-------AAAAATAGTTTTGAAAACATATAATATATAGT
* **
881032 TTTAAAAAACGGTTTTGAAAACATATAATATATA
1 TTTTAAAAATAGTTTTGAAAACATATAATATATA
881066 CGATTTTGGA
Statistics
Matches: 220, Mismatches: 25, Indels: 41
0.77 0.09 0.14
Matches are distributed among these distances:
35 35 0.16
36 54 0.25
37 29 0.13
38 22 0.10
39 18 0.08
40 24 0.11
41 4 0.02
43 4 0.02
45 23 0.10
46 6 0.03
47 1 0.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (36 bp):
TTTTAAAAATAGTTTTGAAAACATATAATATATAGT
Found at i:881034 original size:153 final size:151
Alignment explanation
Indices: 880764--881065 Score: 364
Period size: 153 Copynumber: 2.0 Consensus size: 151
880754 TATATAATAA
* * * *
880764 TTTTAAATATAGTTTTCGAAAATATATAATATATAGTTTTTGAAAACATATTTTTTAAAACATAT
1 TTTTAAATATAGTTTTCGAAAACATATAATATATAGTTTTTAAAAACAGATTTTTGAAAACATAT
* * * * ** *
880829 ATATAATATAGTTTTTAAAAAATAAGCTTTTAAATCGTATAATATATGGTTTTTGAAAGCGGTTT
66 ATATAATATAGTTTTTAAAAAAAAAACTTTTAAAACGTATAATATATAGTTTTAAAAAACGGTTT
880894 TGAAAACATATAATATATAGT
131 TGAAAACATATAATATATAGT
* * *
880915 TTTTAAA-ATAGTTTT-GAAAACGTTTAATATATAGTTTTTAAAAA-ACGA-TTTTGAAAACGTA
1 TTTTAAATATAGTTTTCGAAAACATATAATATATAGTTTTTAAAAACA-GATTTTTGAAAACATA
880976 TA-AT-ATATAGTTTTTTTAAAAGAAAAAAACAGTTTTGAAAACGTATAATATATAGTTTTAAAA
65 TATATAATATAG--TTTTT-AAA-AAAAAAAC--TTTT-AAAACGTATAATATATAGTTTTAAAA
881039 AACGGTTTTGAAAACATATAATATATA
123 AACGGTTTTGAAAACATATAATATATA
881066 CGATTTTGGA
Statistics
Matches: 129, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
146 6 0.05
147 2 0.02
148 19 0.15
149 29 0.22
150 14 0.11
151 7 0.05
152 4 0.03
153 48 0.37
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (151 bp):
TTTTAAATATAGTTTTCGAAAACATATAATATATAGTTTTTAAAAACAGATTTTTGAAAACATAT
ATATAATATAGTTTTTAAAAAAAAAACTTTTAAAACGTATAATATATAGTTTTAAAAAACGGTTT
TGAAAACATATAATATATAGT
Found at i:881109 original size:14 final size:15
Alignment explanation
Indices: 881084--881114 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
881074 GAAAACATAT
881084 AACATAATTTTTGAA
1 AACATAATTTTTGAA
881099 AACAT-ATTTTTGAA
1 AACATAATTTTTGAA
881113 AA
1 AA
881115 TATAGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AACATAATTTTTGAA
Found at i:882620 original size:31 final size:31
Alignment explanation
Indices: 882582--882654 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
882572 TGCCGGGTCA
882582 ACAACCCAATTGCTTCAATTTTTGGTTTTTT
1 ACAACCCAATTGCTTCAATTTTTGGTTTTTT
882613 ACAACCCAATTGCTTCAATTTTTGGTTTTTT
1 ACAACCCAATTGCTTCAATTTTTGGTTTTTT
882644 ACAACCCAATT
1 ACAACCCAATT
882655 ACTTGAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (31 bp):
ACAACCCAATTGCTTCAATTTTTGGTTTTTT
Found at i:882876 original size:17 final size:16
Alignment explanation
Indices: 882849--882899 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
882839 AAAATATTAT
*
882849 TATTTTATATATTTAA
1 TATTATATATATTTAA
882865 TATTAATATATATTTTTAA
1 TATT-ATATATA--TTTAA
882884 TATTAT-TAT-TTTAA
1 TATTATATATATTTAA
882898 TA
1 TA
882900 AAAAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 7 0.23
16 4 0.13
17 9 0.29
18 2 0.06
19 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATATATATTTAA
Found at i:883021 original size:18 final size:18
Alignment explanation
Indices: 882998--883032 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
882988 TGCTATAATT
*
882998 ATATTATATTATATTATC
1 ATATTATATAATATTATC
883016 ATATTATATAATATTAT
1 ATATTATATAATATTAT
883033 AATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTATATAATATTATC
Found at i:883040 original size:18 final size:18
Alignment explanation
Indices: 882998--883040 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
882988 TGCTATAATT
* *
882998 ATATTATATTATATTATC
1 ATATTATATAATATTATA
883016 ATATTATATAATATTATA
1 ATATTATATAATATTATA
*
883034 ATTTTAT
1 ATATTAT
883041 TTTAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTATATAATATTATA
Found at i:883191 original size:21 final size:19
Alignment explanation
Indices: 883151--883212 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
883141 TAATATAATA
883151 TAATATAATATTTTTATTT
1 TAATATAATATTTTTATTT
*
883170 TAATATTATATTTTTATATT
1 TAATATAATATTTTTAT-TT
* *
883190 TTA-ATAATATTATTATTT
1 TAATATAATATTTTTATTT
883208 TAATA
1 TAATA
883213 AGTAATCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 28 0.78
20 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATATAATATTTTTATTT
Found at i:883251 original size:42 final size:42
Alignment explanation
Indices: 883197--883285 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
883187 ATTTTAATAA
*
883197 TATTATTATTTTAATAAGTAATCAATATAATTAATAATATAT
1 TATTATTATTTTAATAAATAATCAATATAATTAATAATATAT
* * *
883239 TATTCTTATTTTAATAAATAATTAATATAATTTATAATA-AT
1 TATTATTATTTTAATAAATAATCAATATAATTAATAATATAT
883280 T-TTATT
1 TATTATT
883286 TTGATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 4 0.10
41 3 0.07
42 35 0.83
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (42 bp):
TATTATTATTTTAATAAATAATCAATATAATTAATAATATAT
Found at i:883439 original size:25 final size:24
Alignment explanation
Indices: 883389--883439 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
883379 TTTTAATACT
*
883389 TTAAAAATAATATTATTATTTTTA
1 TTAAAAATAATATTATTATTTGTA
883413 TTAATAAATAATATTACTTA-TTGTA
1 TTAA-AAATAATATTA-TTATTTGTA
883438 TT
1 TT
883440 TGATGTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.71
26 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAAAAATAATATTATTATTTGTA
Found at i:885601 original size:12 final size:12
Alignment explanation
Indices: 885584--885608 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
885574 TCTTCGAGGA
885584 CTTTTTCTTCTT
1 CTTTTTCTTCTT
885596 CTTTTTCTTCTT
1 CTTTTTCTTCTT
885608 C
1 C
885609 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:885817 original size:24 final size:24
Alignment explanation
Indices: 885785--885836 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
885775 GAAACATCAC
* *
885785 CAAAATCCGTGTATTGACCAATAT
1 CAAAATCCGGGTATTGACCAAGAT
*
885809 CAAAGTCCGGGTATTGACCAAGAT
1 CAAAATCCGGGTATTGACCAAGAT
885833 CAAA
1 CAAA
885837 TTTCGAATAC
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:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
CAAAATCCGGGTATTGACCAAGAT
Found at i:886918 original size:20 final size:20
Alignment explanation
Indices: 886893--886930 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
886883 ATTCATTTGA
*
886893 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
886913 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
886931 CGCAATGCGA
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:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:886973 original size:14 final size:16
Alignment explanation
Indices: 886953--887026 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
886943 TGAAAATCGC
886953 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
886968 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
886985 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
887004 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
887020 -TTGCGAT
1 ATTGCGAT
887027 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:886990 original size:19 final size:19
Alignment explanation
Indices: 886949--887016 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
886939 GAAATGAAAA
886949 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
886965 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
886982 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
887001 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
887017 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:886992 original size:52 final size:52
Alignment explanation
Indices: 886930--887044 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
886920 AACGAGAAAA
* ***
886930 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
886982 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
887034 TCGCGTTGCGA
1 TCGCATTGCGA
887045 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:887152 original size:14 final size:14
Alignment explanation
Indices: 887133--887169 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
887123 CATCAATTAA
887133 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
887147 ACAAATCATCTTTT
1 ACAAATCAACATTT
887161 ACAAATCAA
1 ACAAATCAA
887170 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:889063 original size:19 final size:19
Alignment explanation
Indices: 889039--889105 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
889029 GAAACTTAAA
889039 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
889058 ATCGCAACACGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
889078 ATCGTAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
889097 ATCGCAACG
1 ATCGCAACG
889106 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:889074 original size:20 final size:19
Alignment explanation
Indices: 889020--889104 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 19
889010 TAGTTTACTT
* **
889020 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAA-TGACTA
*
889040 TCGCAACGCGAAATGACTA
1 TCGCAACACGAAATGACTA
*
889059 TCGCAACACGGAAATGGCTA
1 TCGCAACAC-GAAATGACTA
* ** **
889079 TCGTAATGCGAAATGAAAA
1 TCGCAACACGAAATGACTA
889098 TCGCAAC
1 TCGCAAC
889105 GACAAAATCG
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
19 23 0.46
20 27 0.54
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (19 bp):
TCGCAACACGAAATGACTA
Found at i:889113 original size:14 final size:14
Alignment explanation
Indices: 889094--889151 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
889084 ATGCGAAATG
889094 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
889108 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
889124 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
889140 AAAATCGCAACG
1 AAAATCGCAACG
889152 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:889136 original size:32 final size:33
Alignment explanation
Indices: 889086--889156 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 33
889076 CTATCGTAAT
889086 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
889119 GCGAAATG-AAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
889151 GCGAAA
1 GCGAAA
889157 CACAAATCGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGACAAAATCGCAAC
Found at i:889185 original size:19 final size:17
Alignment explanation
Indices: 889163--889258 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 17
889153 GAAACACAAA
889163 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
889182 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
889198 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
889214 TCGCGTTGCGA---AATT
1 TCGC-TTGCGATTTCATT
889229 GTCG-TTGCGATTTTCATT
1 -TCGCTTGCGA-TTTCATT
889247 TCGCATTGCGAT
1 TCGC-TTGCGAT
889259 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 23
0.69 0.06 0.26
Matches are distributed among these distances:
14 15 0.25
15 3 0.05
16 11 0.18
17 3 0.05
18 13 0.21
19 16 0.26
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.44
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:889204 original size:14 final size:14
Alignment explanation
Indices: 889185--889242 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
889175 TTTCATTTCG
889185 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
889199 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
**
889215 CGCGTTGCGAAATTGT
1 --CGTTGCGATTTTGT
889231 CGTTGCGATTTT
1 CGTTGCGATTTT
889243 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 21 0.62
16 4 0.12
18 9 0.26
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:889215 original size:32 final size:33
Alignment explanation
Indices: 889168--889259 Score: 150
Period size: 32 Copynumber: 2.8 Consensus size: 33
889158 ACAAATCGCA
*
889168 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATATTGTCG
*
889201 TTGCGA-TTTCATTTCGCGTTGCGAAATTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATATTGTCG
*
889233 TTGCGATTTTCATTTCGCATTGCGATA
1 TTGCGATTTTCATTTCGCGTTGCGATA
889260 GCCATTTCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATATTGTCG
Found at i:889277 original size:20 final size:19
Alignment explanation
Indices: 889243--889297 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
889233 TTGCGATTTT
*
889243 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
889262 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
889282 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
889298 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:889805 original size:18 final size:18
Alignment explanation
Indices: 889779--889823 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
889769 GTCGATCAGA
*
889779 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
889797 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
889815 TGATGGCTC
1 TGATGGCTC
889824 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:891188 original size:20 final size:20
Alignment explanation
Indices: 891139--891196 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
891129 AATAGTTTCT
**
891139 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
891159 GAAAATGACTATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
891179 G-AATTCGACTATCGCAAC
1 GAAAAT-GACTATCGCAAC
891197 GAGAGAATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:891490 original size:22 final size:22
Alignment explanation
Indices: 891460--891503 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
891450 GATGGAGATA
891460 GACGAATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
* *
891482 GACGGATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
891504 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:891717 original size:20 final size:20
Alignment explanation
Indices: 891691--891804 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
891681 GATTATGTAT
891691 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
891711 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
891731 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
891751 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
891772 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
891792 TATCGCATTGCGA
1 TATCGCGTTGCGA
891805 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:891808 original size:41 final size:41
Alignment explanation
Indices: 891671--891806 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
891661 CGCTTTGAAA
*
891671 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
891712 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
891752 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
891793 ATCGCATTGCGATT
1 ATCGCATTGCGATT
891807 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Done.