Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 17 of 144
Found at i:4750793 original size:24 final size:22
Alignment explanation
Indices: 4750748--4750796 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
4750738 GATAAAGTTA
*
4750748 AAAAAAAATGAGAGAAATTTTT
1 AAAAAAAATGAGAGAAAATTTT
*
4750770 AAAAAAAATTAGAGTCAAAATTTT
1 AAAAAAAATGAGAG--AAAATTTT
4750794 AAA
1 AAA
4750797 GGGTCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
24 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAAAAATGAGAGAAAATTTT
Found at i:4754402 original size:8 final size:8
Alignment explanation
Indices: 4754389--4754420 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
4754379 TTATTAATTG
4754389 TTTATTAA
1 TTTATTAA
4754397 TTTATTAA
1 TTTATTAA
4754405 TTTATTAA
1 TTTATTAA
4754413 TTTATTAA
1 TTTATTAA
4754421 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTATTAA
Found at i:4756548 original size:29 final size:31
Alignment explanation
Indices: 4756510--4756577 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
4756500 AATATTAAAA
* *
4756510 TTATACATG-AACTTTGATTTTG-TGCAATT-
1 TTATAAATGAAACTTTGA-TTTGATCCAATTC
*
4756539 TTATAAATGAAATTTTGATTTGATCCAATTC
1 TTATAAATGAAACTTTGATTTGATCCAATTC
4756570 TTATAAAT
1 TTATAAAT
4756578 TATTACCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 13 0.39
31 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (31 bp):
TTATAAATGAAACTTTGATTTGATCCAATTC
Found at i:4758026 original size:26 final size:28
Alignment explanation
Indices: 4757980--4758041 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
4757970 TCCGAAATTG
4757980 AATTAAATTTTATTTTATTAT-ATATAT
1 AATTAAATTTTATTTTATTATGATATAT
*
4758007 AATT-AATTTTAATTTT-TTATGATATAA
1 AATTAAATTTT-ATTTTATTATGATATAT
*
4758034 AAATAAAT
1 AATTAAAT
4758042 ATTTTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.33
27 17 0.57
28 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
AATTAAATTTTATTTTATTATGATATAT
Found at i:4758181 original size:5 final size:5
Alignment explanation
Indices: 4758171--4758200 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
4758161 ATAAATTTAA
4758171 AAAAT AAAAT AAAAT AAAAT AAATAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
4758201 AACCGAGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:4758972 original size:17 final size:18
Alignment explanation
Indices: 4758952--4758990 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4758942 AACTATCATC
4758952 ATTTATA-AAATTTTAAT
1 ATTTATATAAATTTTAAT
* *
4758969 ATTTATATTATTTTTAAT
1 ATTTATATAAATTTTAAT
4758987 ATTT
1 ATTT
4758991 CAATAATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATATAAATTTTAAT
Found at i:4761119 original size:60 final size:58
Alignment explanation
Indices: 4761010--4761133 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 58
4761000 AATAAAAGTA
* *
4761010 AATTA-TAATAAAGTTTTTTTTGTCACCCAACTATAAAAAATTATAAAATAATTACTC
1 AATTATTAATAAAGTTTTTTTTGTCACCCAACTATAAAAAATTACAAAATAATCACTC
* * * * * *
4761067 AATTATTAATAAATTTCTTTTTTGATCACTCAATTATGAAAAGTTACAAAATAGTCACTC
1 AATTATTAATAAAGTT-TTTTTTG-TCACCCAACTATAAAAAATTACAAAATAATCACTC
*
4761127 AACTATT
1 AATTATT
4761134 TGATTGTCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
57 5 0.09
58 9 0.16
59 7 0.13
60 34 0.62
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.40
Consensus pattern (58 bp):
AATTATTAATAAAGTTTTTTTTGTCACCCAACTATAAAAAATTACAAAATAATCACTC
Found at i:4765477 original size:13 final size:13
Alignment explanation
Indices: 4765459--4765496 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4765449 TTCTTCATTA
4765459 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
4765472 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
4765485 CTTTTGAAAAGT
1 CTTTTGAAAAGT
4765497 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:4765725 original size:24 final size:24
Alignment explanation
Indices: 4765691--4765736 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4765681 TATATGAAAT
* *
4765691 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
4765715 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
4765737 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:4766397 original size:10 final size:9
Alignment explanation
Indices: 4766376--4766418 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
4766366 GCCAAACATT
4766376 TTTTAAATA
1 TTTTAAATA
4766385 TTTTAAATAA
1 TTTTAAAT-A
*
4766395 TTTTATATA
1 TTTTAAATA
*
4766404 TATTTAAATT
1 T-TTTAAATA
4766414 TTTTA
1 TTTTA
4766419 GATTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAATA
Found at i:4766397 original size:21 final size:20
Alignment explanation
Indices: 4766373--4766412 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4766363 AATGCCAAAC
*
4766373 ATTTTTTAAATATTTTAAATA
1 ATTTTATAAATA-TTTAAATA
*
4766394 ATTTTATATATATTTAAAT
1 ATTTTATAAATATTTAAAT
4766413 TTTTTAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTATAAATATTTAAATA
Found at i:4766417 original size:19 final size:18
Alignment explanation
Indices: 4766373--4766418 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
4766363 AATGCCAAAC
4766373 ATTTTTTAAATATTTTAA
1 ATTTTTTAAATATTTTAA
* *
4766391 ATAATTTTATATATATTTAA
1 AT-TTTTTAAATAT-TTTAA
4766411 ATTTTTTA
1 ATTTTTTA
4766419 GATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTAAATATTTTAA
Found at i:4768205 original size:27 final size:27
Alignment explanation
Indices: 4768157--4768219 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
4768147 ATTTTCAATT
*
4768157 TTTATATATTATTATCACTTTT-TTAAA
1 TTTATAT-TTATTATCACTTTTATAAAA
* *
4768184 TTTATATTTATTTTCGATTTTTATAAAA
1 TTTATATTTATTATC-ACTTTTATAAAA
4768212 TTT-TATTT
1 TTTATATTT
4768220 TTAAATACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 7 0.23
27 17 0.55
28 7 0.23
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATATTTATTATCACTTTTATAAAA
Found at i:4774579 original size:44 final size:44
Alignment explanation
Indices: 4774516--4774604 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
4774506 ATTAAGAGTC
4774516 GTGAAAAAAGGAAGAGAAAGATGAATAAAAAAATTCATAAACCA
1 GTGAAAAAAGGAAGAGAAAGATGAATAAAAAAATTCATAAACCA
4774560 GTGAAAAAAGGAAGAGAAAGATGAATAAAAAAATTCATAAACCA
1 GTGAAAAAAGGAAGAGAAAGATGAATAAAAAAATTCATAAACCA
4774604 G
1 G
4774605 AGACATGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.61, C:0.07, G:0.19, T:0.13
Consensus pattern (44 bp):
GTGAAAAAAGGAAGAGAAAGATGAATAAAAAAATTCATAAACCA
Found at i:4775791 original size:23 final size:25
Alignment explanation
Indices: 4775748--4775803 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
4775738 AATTAAAATT
* *
4775748 TTTTTAAGA-AGTAGAATAATA-AA
1 TTTTTATGATAGTAGAAAAATATAA
4775771 TTTTTATGATAGT-GAAAAATATAA
1 TTTTTATGATAGTAGAAAAATATAA
4775795 -TTTTATGAT
1 TTTTTATGAT
4775804 TTTAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (25 bp):
TTTTTATGATAGTAGAAAAATATAA
Found at i:4790787 original size:35 final size:35
Alignment explanation
Indices: 4790741--4790811 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
4790731 CATCTACAGA
* *
4790741 GCTTGGTAAATATGGAAAGTAATCTTTAAAGATAT
1 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
* *
4790776 GCTTGGCAAATATGGAAAGTTATCTTCAGAGATAT
1 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
4790811 G
1 G
4790812 TGATCTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
Found at i:4793442 original size:117 final size:116
Alignment explanation
Indices: 4793110--4793449 Score: 387
Period size: 117 Copynumber: 2.9 Consensus size: 116
4793100 AGACGGCCAG
* * * * * *
4793110 AAATGCATTGTCTGAATCGAATTCAAGGCTAGAGCAAGATAATAGAAAGCTAGGAGAGAAGCTTG
1 AAATGCATTGACTGAATCCATTTCAAGGCTAGAGCACGAAAATAGAAAGCTA-AAGAGAAGCTTG
* * * *
4793175 CTACTTGTGACGCTGAGGTGAGGAAGTCTAGGGATACTATGGAGGCATGGAA
65 CTACTTGTGAAGCTGAGCTGAGGAAGTCTAGGGATTCAATGGAGGCATGGAA
* * * * *
4793227 AAATGCATGGGCTGAATCCATTTCAAGGCTAGAGCACGAAAATGGACACCTTAAAGAGAAGCTTG
1 AAATGCATTGACTGAATCCATTTCAAGGCTAGAGCACGAAAATAGAAAGC-TAAAGAGAAGCTTG
* * *
4793292 CTACCTGTGAAGTTGAGCTGAGGAAATCTAGGGATTCAATGGAGGCA-GGCAA
65 CTACTTGTGAAGCTGAGCTGAGGAAGTCTAGGGATTCAATGGAGGCATGG-AA
* * * **
4793344 GAATTCATTGACTGAATCCATTTCAAGGCTAGAACACGAAAATAGTGAGCTGAAAGAGAAGCTTG
1 AAATGCATTGACTGAATCCATTTCAAGGCTAGAGCACGAAAATAGAAAGCT-AAAGAGAAGCTTG
* * *
4793409 CCAGTTGTGAAGCTGAGCTGAGGGAGT-TGAGGGATTCAATG
65 CTACTTGTGAAGCTGAGCTGAGGAAGTCT-AGGGATTCAATG
4793450 AATTCAAGCA
Statistics
Matches: 187, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
116 4 0.02
117 181 0.97
118 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (116 bp):
AAATGCATTGACTGAATCCATTTCAAGGCTAGAGCACGAAAATAGAAAGCTAAAGAGAAGCTTGC
TACTTGTGAAGCTGAGCTGAGGAAGTCTAGGGATTCAATGGAGGCATGGAA
Found at i:4799641 original size:549 final size:548
Alignment explanation
Indices: 4798709--4800362 Score: 2432
Period size: 549 Copynumber: 3.0 Consensus size: 548
4798699 ACGGCTGGGA
* * * * *
4798709 GAGGTAAATATAGGACTGCAATCCCAAATTTCAGAACTTGAGATGATGTCAAAAAAGAGAGAAGA
1 GAGGAAAATATAGGACTGCAATCCCAAATTTCAGAACTCGAGATGATATCAAAACAGAGACAAGA
* * *
4798774 AGAACTTTTGACTCTCGCAAAGAAATTTGAGGATAATGAGAAAGAATCATTGTCTAGAGTGGAGA
66 AGAACTTTTGACTCTCACAAAGAAGTTTGAGGATAATGAGAAAGAATCATTATCTAGAGTGGAGA
* *
4798839 ATCTGATAGTGCAGATCAACAATCTGCTAGCAGACATGGAGTCACTACGCACCCAGAAAGCTCAG
131 ATTTGACAGTGCAGATCAACAATCTGCTAGCAGACATGGAGTCACTACGCACCCAGAAAGCTCAG
* * ** *
4798904 TTGGAAGAGCATATTGCAGTAAAAGATGATGAAGCATCGACTCAAGTCAAGAGCTTGATGGATCA
196 TTGGAAGAACATATTGTAGTAAAAGGCGATGAAGCATCAACTCAAGTCAAGAGCTTGATGGATCA
* * * *
4798969 GATAAATAATTTGCAGCAGGAGCTGGAGTCCCTGCAGAGTCAGAAAGCAGAACTTGAAGTTCAAC
261 GATAAATACTTTGCAGCAGGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
* * * * *
4799034 TTGAGAGTAAAACTCGAGCTATTTCCGATCATGTGATTAAGATAGAAAATGCAAAAGAAGAGATA
326 TTGAGAGAAAAACTCAAGCTATTTCCAATCATGTGATTGAGATAGAAAAGGCAAAAGAAGAGATA
* * *
4799099 GCAAGCAAGACCGAGGATCAACAAAGAGTTCTGCAGGAGAAAGAGGGTTTGCTGGCACAAATGAA
391 GTAAGCAAGACCGAGGATCAACAGAGAGTTCTGCAGGAGAAAGAGGGTTTGTTGGCACAAATGAA
* * * ** * *
4799164 GGAACTAGAATTTGATGTCAATTCTTTAAAGAATCAGAAAGGTGAGTTGGAAGAGGATTTGCGAA
456 GGAACTAGAATTGGA-GTCAATTCTCTAAAGAACCAGAAAGGTGAACTGGAAGAGGACTTGAGAA
4799229 CTAAAATCAAAGAGAATGGTCAGCTGAGG
520 CTAAAATCAAAGAGAATGGTCAGCTGAGG
* * *
4799258 GAGGAAAGTTTAGGACTGCGATCCCAAATTTCAGAACTCGAGATGATATCAAAACAGAGACAAGA
1 GAGGAAAATATAGGACTGCAATCCCAAATTTCAGAACTCGAGATGATATCAAAACAGAGACAAGA
* * * **
4799323 AGAACTTTTGACGCTCACAAAGAAGTTTGAGGACAACGAGAAAGAATCGCTATCTAGAGTGGAGA
66 AGAACTTTTGACTCTCACAAAGAAGTTTGAGGATAATGAGAAAGAATCATTATCTAGAGTGGAGA
* * *
4799388 ATTTGACAGTGCAGATCAACAATTTGCTAGCAGACATGGAGTCCCTTCGCACCCAGAAAGCTCAG
131 ATTTGACAGTGCAGATCAACAATCTGCTAGCAGACATGGAGTCACTACGCACCCAGAAAGCTCAG
* * * *
4799453 TTGGAAGAACATATTGTAGTGAAAGGCGATGAAGCATCAACTCAGGTCAGGGGCTTGATGGATCA
196 TTGGAAGAACATATTGTAGTAAAAGGCGATGAAGCATCAACTCAAGTCAAGAGCTTGATGGATCA
*
4799518 GATAAATACTTTGCAGCAGGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAACTGGAAGTTCAGC
261 GATAAATACTTTGCAGCAGGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
*
4799583 TTGAGAGAAAAACTCAAGCTATTTCCAATCATGTGATTGAGATAGAGAAGGCAAAAGAAGAGATA
326 TTGAGAGAAAAACTCAAGCTATTTCCAATCATGTGATTGAGATAGAAAAGGCAAAAGAAGAGATA
* *
4799648 GTAAGCAGGACCGAAGATCAACAGAGAGTTCTGCAGGAGAAAGAGGGTTTGTTGGCACAAATGAA
391 GTAAGCAAGACCGAGGATCAACAGAGAGTTCTGCAGGAGAAAGAGGGTTTGTTGGCACAAATGAA
* * *
4799713 GGAACTAGAATTGGAGTTCATTTCTCTAAAGAACCAGAAAGGTGAACTGGAAGAGGACCTGATAA
456 GGAACTAGAATTGGAG-TCAATTCTCTAAAGAACCAGAAAGGTGAACTGGAAGAGGACTTGAGAA
*
4799778 CTAAAATCGAAGAGAATGGTCAGCTGAGG
520 CTAAAATCAAAGAGAATGGTCAGCTGAGG
* ** * * *
4799807 GAGGAAAATATGGGACTGCAATATCAAATTTCAGAACTCGAGAGGGTATTAAAGAC-GAGACAAG
1 GAGGAAAATATAGGACTGCAATCCCAAATTTCAGAACTCGAGATGATATCAAA-ACAGAGACAAG
* *
4799871 AAGAACTTTTTACTCTCACAAAGAAGTTTGAGGATAATGAGACAGAATCATTATCTAGAGTGGAG
65 AAGAACTTTTGACTCTCACAAAGAAGTTTGAGGATAATGAGAAAGAATCATTATCTAGAGTGGAG
* * ** * * **
4799936 AATTTGACAGTGCAGATTAACAATCTGCTAGGAGACATGGAGTTGCTGCGGACTGAGAAAGCTCA
130 AATTTGACAGTGCAGATCAACAATCTGCTAGCAGACATGGAGTCACTACGCACCCAGAAAGCTCA
*
4800001 GTTGGAAGAACATATTGTAGTTAAAGGCGATGAAGCATCGAAC-CAAGTCAAGAGCTTGATGGAT
195 GTTGGAAGAACATATTGTAGTAAAAGGCGATGAAGCATC-AACTCAAGTCAAGAGCTTGATGGAT
* * * * * * * *
4800065 GAAATAAATACATTGCAGCAGAAACTGGAATCCATGCATAGCCAGAAAGCTGAACTTGAAGTTCA
259 CAGATAAATACTTTGCAGCAGGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCA
*
4800130 GCTTGAGAGAAAAACTCAAGCTATTT-CAGATCATATGATTGAGATAGAAAAGGCAAAAGAAGAG
324 GCTTGAGAGAAAAACTCAAGCTATTTCCA-ATCATGTGATTGAGATAGAAAAGGCAAAAGAAGAG
* *
4800194 ATAGTAAGCAAGACTGAGGATCAACAGAGAGTTCTACAGGAGAAAGAGGGTTTGTTGGCACAAAT
388 ATAGTAAGCAAGACCGAGGATCAACAGAGAGTTCTGCAGGAGAAAGAGGGTTTGTTGGCACAAAT
* *
4800259 GAAGGAACTAGAATTGGAGGTCAGTTCTCTAAGGAACCAGAAAGGTGAACTGGAAGAGGACTTGA
453 GAAGGAACTAGAATTGGA-GTCAATTCTCTAAAGAACCAGAAAGGTGAACTGGAAGAGGACTTGA
**
4800324 GAACTAAAATCAAAGAGAATGGTCAATTGAGG
517 GAACTAAAATCAAAGAGAATGGTCAGCTGAGG
4800356 GAGGAAA
1 GAGGAAA
4800363 TAGTGAGTTT
Statistics
Matches: 992, Mismatches: 108, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
548 3 0.00
549 983 0.99
550 6 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (548 bp):
GAGGAAAATATAGGACTGCAATCCCAAATTTCAGAACTCGAGATGATATCAAAACAGAGACAAGA
AGAACTTTTGACTCTCACAAAGAAGTTTGAGGATAATGAGAAAGAATCATTATCTAGAGTGGAGA
ATTTGACAGTGCAGATCAACAATCTGCTAGCAGACATGGAGTCACTACGCACCCAGAAAGCTCAG
TTGGAAGAACATATTGTAGTAAAAGGCGATGAAGCATCAACTCAAGTCAAGAGCTTGATGGATCA
GATAAATACTTTGCAGCAGGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
TTGAGAGAAAAACTCAAGCTATTTCCAATCATGTGATTGAGATAGAAAAGGCAAAAGAAGAGATA
GTAAGCAAGACCGAGGATCAACAGAGAGTTCTGCAGGAGAAAGAGGGTTTGTTGGCACAAATGAA
GGAACTAGAATTGGAGTCAATTCTCTAAAGAACCAGAAAGGTGAACTGGAAGAGGACTTGAGAAC
TAAAATCAAAGAGAATGGTCAGCTGAGG
Found at i:4806338 original size:22 final size:24
Alignment explanation
Indices: 4806294--4806340 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4806284 TAATTTTTTA
*
4806294 AAAATTATAAAAAATATAAACTATT
1 AAAATAATAAAAAATAT-AACTATT
4806319 AAAATAAT-AAAAATAT-ACTATT
1 AAAATAATAAAAAATATAACTATT
4806341 TAATTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATAATAAAAAATATAACTATT
Found at i:4806933 original size:16 final size:16
Alignment explanation
Indices: 4806912--4806944 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4806902 TTTGAATTAC
4806912 TACGGACAAGTTAAAT
1 TACGGACAAGTTAAAT
4806928 TACGGACAAGTTAAAT
1 TACGGACAAGTTAAAT
4806944 T
1 T
4806945 GAGTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (16 bp):
TACGGACAAGTTAAAT
Found at i:4815067 original size:147 final size:147
Alignment explanation
Indices: 4814800--4815074 Score: 399
Period size: 147 Copynumber: 1.9 Consensus size: 147
4814790 GTAATCAAAA
* * * * *
4814800 TGATGGATCAGAAAAGGGTGTTGATAGTGGTGCAAGTAAGAGTGGTTTGAACCAACAATCAGGTT
1 TGATGGATCAGAAAAGAGTGTTGACAGTGGTACAAGTAAGAGTGATTTGAACCAACAATCAGGTA
* * ** * *
4814865 CAAATGAAGGTGGGAATTTGGATAAAAGTGGGAAAGCATCGAGTGAGGAGGCAAAAGGAAAGATG
66 AAAATGAAGGCGACAATTTGGATAAAAGTGGGAAAGCATCGAGTGAGAAAGCAAAAGGAAAGATG
4814930 AATGATGTTGGGGAAGT
131 AATGATGTTGGGGAAGT
*
4814947 TGATGGATCAGAAGAA-AGTGTTGACAGTGGTACAAGTAAGAGTGATTTGAACCAGCAATCAGGT
1 TGATGGATCAGAA-AAGAGTGTTGACAGTGGTACAAGTAAGAGTGATTTGAACCAACAATCAGGT
* **
4815011 AAAAATGAAGGCGACAATTTGGATAAAGGTGGGAAAGCATCGAGTGCTAAAGCAAAAGGAAAGA
65 AAAAATGAAGGCGACAATTTGGATAAAAGTGGGAAAGCATCGAGTGAGAAAGCAAAAGGAAAGA
4815075 CAGATGGTGG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
147 110 0.98
148 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (147 bp):
TGATGGATCAGAAAAGAGTGTTGACAGTGGTACAAGTAAGAGTGATTTGAACCAACAATCAGGTA
AAAATGAAGGCGACAATTTGGATAAAAGTGGGAAAGCATCGAGTGAGAAAGCAAAAGGAAAGATG
AATGATGTTGGGGAAGT
Found at i:4820588 original size:27 final size:26
Alignment explanation
Indices: 4820553--4820604 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
4820543 TAATTTTTTA
4820553 ATTTTTATATTTTTATACATTTTAAAT
1 ATTTTTATATTTTTATA-ATTTTAAAT
*
4820580 ATTTTTATATTTTTTTAATTTTAAA
1 ATTTTTATATTTTTATAATTTTAAA
4820605 AATTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTTATATTTTTATAATTTTAAAT
Found at i:4820591 original size:17 final size:16
Alignment explanation
Indices: 4820542--4820592 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
4820532 TAGCAATTAA
4820542 TTAAT-TTTTTA-ATT
1 TTAATATTTTTATATT
*
4820556 TTTATATTTTTATACATT
1 TTAATATTTTTAT--ATT
4820574 TTAAATATTTTTATATT
1 TT-AATATTTTTATATT
4820591 TT
1 TT
4820593 TTTAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
17 5 0.17
18 5 0.17
19 10 0.33
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTAATATTTTTATATT
Found at i:4828689 original size:105 final size:105
Alignment explanation
Indices: 4828506--4828705 Score: 242
Period size: 105 Copynumber: 1.9 Consensus size: 105
4828496 AATTTTTAAA
* * * * * **
4828506 TGTAATACCATAGCTGGGCTATGGCATTTTAATGAAAAGACCATAATTGGATTATGACACATTGA
1 TGTAAGACCATAGCTAGGCTATGACATTTTAATGAAAAGACCATAACTGGATTATAACACATCAA
** *
4828571 ACGTAAGACCATGGTTGGGCCATGGCAATATAAATACACG
66 ACGTAAGACCATGGCAGAGCCATGGCAATATAAATACACG
* *
4828611 TGTAAGACCATAGCTAGGCTATGACATTTTGATGATAAGACCATAACT-GAGTTATAACAC-TAC
1 TGTAAGACCATAGCTAGGCTATGACATTTTAATGAAAAGACCATAACTGGA-TTATAACACAT-C
* *
4828674 AAATGTAAGATCATGGCAGAGCCATGGCAATA
64 AAACGTAAGACCATGGCAGAGCCATGGCAATA
4828706 CATGTGTAAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
104 3 0.04
105 76 0.96
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTAGGCTATGACATTTTAATGAAAAGACCATAACTGGATTATAACACATCAA
ACGTAAGACCATGGCAGAGCCATGGCAATATAAATACACG
Found at i:4833787 original size:4 final size:4
Alignment explanation
Indices: 4833778--4833804 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4833768 AGAGACTGTT
4833778 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
4833805 TTTTCTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:4844116 original size:23 final size:23
Alignment explanation
Indices: 4844087--4844130 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
4844077 TTGATTAGTT
4844087 GTTATAAGCTCTTTAGGAATTGA
1 GTTATAAGCTCTTTAGGAATTGA
4844110 GTTATAAGCTCTTTAGGAATT
1 GTTATAAGCTCTTTAGGAATT
4844131 ACTGATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
GTTATAAGCTCTTTAGGAATTGA
Found at i:4853660 original size:13 final size:13
Alignment explanation
Indices: 4853644--4853669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4853634 TACAATTTTA
4853644 TTTTAACAATAAT
1 TTTTAACAATAAT
4853657 TTTTAACAATAAT
1 TTTTAACAATAAT
4853670 AATTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTAACAATAAT
Found at i:4854057 original size:14 final size:15
Alignment explanation
Indices: 4854038--4854067 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4854028 CCAAATAACG
4854038 AAAAATATT-TTATT
1 AAAAATATTATTATT
4854052 AAAAATATTATTATT
1 AAAAATATTATTATT
4854067 A
1 A
4854068 TTTTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATATTATTATT
Found at i:4860757 original size:32 final size:32
Alignment explanation
Indices: 4860703--4860765 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
4860693 GTTAACGATT
*
4860703 TATAAGAATTGAATCAAATCAAAATTTCATGTG
1 TATAAGAATTGAATCAAATC-AAAGTTCATGTG
*
4860736 TATAA-AATTGCA-CAAAGTCAAAGTTCATGT
1 TATAAGAATTGAATCAAA-TCAAAGTTCATGT
4860766 ATACAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 14 0.52
32 8 0.30
33 5 0.19
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (32 bp):
TATAAGAATTGAATCAAATCAAAGTTCATGTG
Found at i:4873183 original size:18 final size:18
Alignment explanation
Indices: 4873156--4873248 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
4873146 TACGACCGTT
4873156 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
4873174 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
4873192 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
4873210 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
4873228 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
4873246 TAC
1 TAC
4873249 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:4873203 original size:36 final size:36
Alignment explanation
Indices: 4873156--4873248 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
4873146 TACGACCGTT
4873156 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
4873192 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
4873228 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
4873249 AGTAGTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:4896359 original size:16 final size:16
Alignment explanation
Indices: 4896338--4896368 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4896328 ATATAATCAA
4896338 ATTTATTCACCCAAAG
1 ATTTATTCACCCAAAG
*
4896354 ATTTATTCACTCAAA
1 ATTTATTCACCCAAA
4896369 CGAACATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTATTCACCCAAAG
Found at i:4899742 original size:21 final size:22
Alignment explanation
Indices: 4899718--4899760 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4899708 TTAGATATTT
4899718 AAATTTGTTATTT-ATT-TTTTA
1 AAATTT-TTATTTAATTCTTTTA
4899739 AAATTTTTATTTAATTCTTTTA
1 AAATTTTTATTTAATTCTTTTA
4899761 TATATACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
AAATTTTTATTTAATTCTTTTA
Found at i:4899970 original size:15 final size:15
Alignment explanation
Indices: 4899922--4899970 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
4899912 GATAAATTAA
* *
4899922 AAAAATTAAGGGTGG
1 AAAAATTAAGTGTTG
* *
4899937 AAAAAATAAGTGTTT
1 AAAAATTAAGTGTTG
*
4899952 AAAAATTAAGTATTG
1 AAAAATTAAGTGTTG
4899967 AAAA
1 AAAA
4899971 TGTAAGTACT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
AAAAATTAAGTGTTG
Found at i:4903785 original size:44 final size:45
Alignment explanation
Indices: 4903697--4903785 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
4903687 ATGATTGTTT
4903697 ATATTATTTGAATTTGAATCTACATTGAAAATAGGTTAAATACAA
1 ATATTATTTGAATTTGAATCTACATTGAAAATAGGTTAAATACAA
* *
4903742 ATATTATTTGAATTTGAATCTGCA-TGAAAA-CGGATTAAATACAA
1 ATATTATTTGAATTTGAATCTACATTGAAAATAGG-TTAAATACAA
4903786 GTGAATGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 2 0.05
44 16 0.39
45 23 0.56
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (45 bp):
ATATTATTTGAATTTGAATCTACATTGAAAATAGGTTAAATACAA
Found at i:4905267 original size:8 final size:8
Alignment explanation
Indices: 4905254--4905281 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4905244 AGCTTTGTAT
4905254 AATTTATA
1 AATTTATA
4905262 AATTTATA
1 AATTTATA
4905270 AATTTATA
1 AATTTATA
4905278 AATT
1 AATT
4905282 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTATA
Found at i:4905299 original size:23 final size:22
Alignment explanation
Indices: 4905264--4905306 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4905254 AATTTATAAA
*
4905264 TTTATAAATTTATAAATTATTT
1 TTTATAAAGTTATAAATTATTT
*
4905286 TTTATAAAGGTTATATATTAT
1 TTTATAAA-GTTATAAATTAT
4905307 AGATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTATAAAGTTATAAATTATTT
Found at i:4907063 original size:17 final size:16
Alignment explanation
Indices: 4907041--4907074 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4907031 ATATTTTCAT
4907041 AAATATAAATTTTAAAA
1 AAATAT-AATTTTAAAA
*
4907058 AAATATATTTTTAAAA
1 AAATATAATTTTAAAA
4907074 A
1 A
4907075 TTGTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTTAAAA
Found at i:4910423 original size:20 final size:20
Alignment explanation
Indices: 4910395--4910433 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4910385 ATTATATTCG
*
4910395 AAAATGTATTTTAAAAATAA
1 AAAAAGTATTTTAAAAATAA
4910415 AAAAAGTATTTTAAAAATA
1 AAAAAGTATTTTAAAAATA
4910434 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAGTATTTTAAAAATAA
Found at i:4910478 original size:13 final size:13
Alignment explanation
Indices: 4910460--4910486 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4910450 TAAAAAATAA
4910460 ATATTTATTATAT
1 ATATTTATTATAT
4910473 ATATTTATTATAT
1 ATATTTATTATAT
4910486 A
1 A
4910487 AATATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATTATAT
Found at i:4916078 original size:15 final size:16
Alignment explanation
Indices: 4916060--4916102 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
4916050 AAACAAATAA
4916060 TTATA-AAATTTTAAT
1 TTATATAAATTTTAAT
4916075 TTATATCAAATTTTAAT
1 TTATAT-AAATTTTAAT
*
4916092 ATATATAAATT
1 TTATATAAATT
4916103 AAATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 5 0.20
17 15 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATATAAATTTTAAT
Found at i:4918027 original size:5 final size:5
Alignment explanation
Indices: 4918017--4918042 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4918007 CTCGAAAATT
4918017 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
4918043 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:4918325 original size:25 final size:27
Alignment explanation
Indices: 4918274--4918334 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
4918264 ACACATTTCT
4918274 CTTTTATATAAAATAATATATAGTATA
1 CTTTTATATAAAATAATATATAGTATA
*
4918301 -TTTTATAT-AAATAATAT-TATTTATA
1 CTTTTATATAAAATAATATATA-GTATA
4918326 CTATTTATA
1 CT-TTTATA
4918335 AAGTTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
26 9 0.30
27 6 0.20
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (27 bp):
CTTTTATATAAAATAATATATAGTATA
Found at i:4918996 original size:5 final size:5
Alignment explanation
Indices: 4918986--4919023 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
4918976 GGTACAATAG
4918986 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
4919024 TTGAGAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:4929323 original size:37 final size:38
Alignment explanation
Indices: 4929269--4929341 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
4929259 TTTTCATAAT
* *
4929269 TTCACTTTTTCACTTTTAA-TCACTATTAAATTCAAAA
1 TTCACTTTTCCACTTTTAAGTCAATATTAAATTCAAAA
* *
4929306 TTCACTTTTCCATTTTTAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTTAAGTCAATATTAAATTCAA
4929342 TTCCACACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.33, C:0.19, G:0.01, T:0.47
Consensus pattern (38 bp):
TTCACTTTTCCACTTTTAAGTCAATATTAAATTCAAAA
Found at i:4929372 original size:23 final size:22
Alignment explanation
Indices: 4929329--4929372 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
4929319 TTTTAAGTCA
4929329 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
4929352 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
4929373 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:4929504 original size:23 final size:23
Alignment explanation
Indices: 4929478--4929522 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4929468 CCACACTGGT
4929478 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
4929501 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
4929523 TCAATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:4929775 original size:18 final size:17
Alignment explanation
Indices: 4929749--4929787 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4929739 ATTTTCCTTC
4929749 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
4929766 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
4929784 CACA
1 CACA
4929788 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:4930004 original size:30 final size:30
Alignment explanation
Indices: 4929970--4930028 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
4929960 TCCTTGACTC
4929970 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
4930000 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTGGCAAAATTACAATTTTGCCCC
4930029 AAAGCTCGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:4931061 original size:16 final size:16
Alignment explanation
Indices: 4931040--4931073 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4931030 CCGTCTTCAT
4931040 CAATAATTACCATATC
1 CAATAATTACCATATC
4931056 CAATAATTACCATATC
1 CAATAATTACCATATC
4931072 CA
1 CA
4931074 GTGCCGGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (16 bp):
CAATAATTACCATATC
Found at i:4932418 original size:45 final size:45
Alignment explanation
Indices: 4932363--4932501 Score: 140
Period size: 45 Copynumber: 3.1 Consensus size: 45
4932353 AACACCACCC
* *
4932363 TTATAATCAATAGTACTCAGTGAAATCAGCACATAGCAA-CTACTT
1 TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAATC-ACTT
*** * *
4932408 TTATACTCAATGGTACAGGGTGAATTCAACACATAGCAATCACTT
1 TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAATCACTT
* * *
4932453 ATATAAC-CATTGGTA-TCCAGTGAAATCAGCACATAGCAATCACCT
1 TTAT-ACTCAATGGTACT-CAGTGAAATCAGCACATAGCAATCACTT
4932498 TTAT
1 TTAT
4932502 TTTCATTAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
45 72 0.96
46 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (45 bp):
TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAATCACTT
Found at i:4933095 original size:50 final size:50
Alignment explanation
Indices: 4932972--4933157 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
4932962 CACATATCGA
* * * *
4932972 TGCCGATGTCATGTCCCAGACATGGTCTTACTCTGGCCCT-C-ATCT-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTATGTCCG
* *
4933019 AGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATGTCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTATGTCCG
* ** *
4933069 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTATGTCCG
4933119 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
4933158 ACTCACTGCC
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
47 36 0.29
48 1 0.01
49 3 0.02
50 84 0.68
ACGTcount: A:0.18, C:0.34, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTATGTCCG
Found at i:4933149 original size:100 final size:97
Alignment explanation
Indices: 4932972--4933155 Score: 287
Period size: 97 Copynumber: 1.9 Consensus size: 97
4932962 CACATATCGA
* * * *
4932972 TGCCGATGTCATGTCCCAGACATGGTCTTACTCTGGCCCTCATCTCGAGCCGATGCCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCCGATGCCATGTCCCA
4933037 GACATGGTCTTACACTGGCTCTCCTATGTCCG
66 GACATGGTCTTACACTGGCTCTCCTATGTCCG
* *
4933069 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC--TC-GAGCCGATGCCATGTC
4933134 CCAGACATGGTCTTACACTGGC
63 CCAGACATGGTCTTACACTGGC
4933156 ACACTCACTG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
97 39 0.50
99 2 0.03
100 37 0.47
ACGTcount: A:0.17, C:0.34, G:0.22, T:0.27
Consensus pattern (97 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTCCTATGTCCG
Found at i:4933181 original size:100 final size:97
Alignment explanation
Indices: 4932929--4933159 Score: 252
Period size: 97 Copynumber: 2.4 Consensus size: 97
4932919 TAGGACGCCA
* * * * * * **
4932929 ATGCCATATCCCATATATGGTCTTACA-TGGGATCA-C-ATATCGATGCCGATGTCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA-CACCTATGTCCATGCCGATACCATGTCCCAG
* * *
4932991 ACATGGTCTTACTCTGGCCCTCATCTCGAGCCG
65 ACATGGTCTTACACTAGCACTCATCTCGAGCCG
* * * *
4933024 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATGTCCGTGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACCTATGTCCATGCCGATACCATGTCCCAGA
* *
4933089 CATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
66 CATGGTCTTACACTAGCACTCATC--TC-GAGCCG
4933124 ATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
4933160 TCACTGCCAT
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
95 25 0.22
96 4 0.04
97 43 0.38
99 2 0.02
100 39 0.35
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACCTATGTCCATGCCGATACCATGTCCCAGA
CATGGTCTTACACTAGCACTCATCTCGAGCCG
Found at i:4935747 original size:47 final size:49
Alignment explanation
Indices: 4935630--4935756 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
4935620 TCGTTTTCAC
* *
4935630 ATGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCG
1 ATGCCATAGTCCAGA-TATGGTCTTACACGGAATCACATATCACATACCG
* * *
4935679 ATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACA-A-TG
1 ATGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATACCG
*
4935726 ATGCCATATTCCAGATATGGTCTTACACGGA
1 ATGCCATAGTCCAGATATGGTCTTACACGGA
4935757 GATTTCATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 29 0.42
48 1 0.01
49 39 0.57
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
ATGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATACCG
Found at i:4937052 original size:38 final size:37
Alignment explanation
Indices: 4936983--4937055 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
4936973 TTTTCATAAT
* *
4936983 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
4937020 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
4937056 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:4937086 original size:23 final size:22
Alignment explanation
Indices: 4937043--4937086 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
4937033 TTTCAAGTCA
4937043 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
4937066 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
4937087 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:4937211 original size:23 final size:23
Alignment explanation
Indices: 4937185--4937283 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
4937175 ATAAGTGCCA
*
4937185 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4937208 CACTGATATATAGCCGAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
4937231 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4937254 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4937277 CACTGAT
1 CACTGAT
4937284 CAATAACACC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4945142 original size:26 final size:24
Alignment explanation
Indices: 4945113--4945162 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4945103 TTTATTTTCA
* *
4945113 TGACTTTTGTATATATATATATGCAT
1 TGACATTT-TATA-ATACATATGCAT
4945139 TGACATTTTATAATACATATGCAT
1 TGACATTTTATAATACATATGCAT
4945163 CGTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (24 bp):
TGACATTTTATAATACATATGCAT
Found at i:4947411 original size:24 final size:23
Alignment explanation
Indices: 4947354--4947411 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
4947344 CTCTTTGTCC
4947354 TTTTTTTATTT-TTCTTTTTAAG
1 TTTTTTTATTTATTCTTTTTAAG
4947376 TTTTTTCT-TTTATTACTTTTTAAG
1 TTTTTT-TATTTATT-CTTTTTAAG
4947400 TTTTTTTATTTA
1 TTTTTTTATTTA
4947412 CCCTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.28
23 4 0.12
24 19 0.59
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTTTTATTTATTCTTTTTAAG
Found at i:4947553 original size:22 final size:22
Alignment explanation
Indices: 4947506--4947570 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 22
4947496 TAAATGTATT
4947506 TTTTAAAACTATT-TTTTTT-AAA
1 TTTT-AAA-TATTATTTTTTAAAA
4947528 -TTTAAATATTATTTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
*
4947549 TTTTAAACATATATATTTTTAA
1 TTTTAAATAT-TAT-TTTTTAA
4947571 TAATATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 6 0.16
22 8 0.22
23 3 0.08
24 7 0.19
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:4947570 original size:16 final size:15
Alignment explanation
Indices: 4947549--4947609 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
4947539 TTTTTTAAAA
4947549 TTTTAAACATATATAT
1 TTTTAAA-ATATATAT
* *
4947565 TTTTAATAATATAAAAC
1 TTTTAA-AATAT-ATAT
*
4947582 ATTTAAAATATATCAT
1 TTTTAAAATATAT-AT
4947598 TTTTAAAGATAT
1 TTTTAAA-ATAT
4947610 GACCTGTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 1 0.03
16 22 0.63
17 12 0.34
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:4949851 original size:43 final size:42
Alignment explanation
Indices: 4949785--4949902 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
4949775 AGCTCGTACA
4949785 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATAACG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAATCAAAT-ACG
* *
4949828 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATACG
* * *
4949870 ACGCCAATGTCCCAGACATGGTCTTACATGTAA
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAA
4949903 ATCTCAAATC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 34 0.51
43 32 0.48
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATACG
Found at i:4949893 original size:42 final size:42
Alignment explanation
Indices: 4949787--4949943 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
4949777 CTCGTACAAT
* * * *
4949787 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAATCATAT-ACGAC
*
4949830 GCC-ACTGTCCCAGACAGGGTCTTACACGTAATCATATACGAC
1 GCCAAC-GTCCCAGACATGGTCTTACACGTAATCATATACGAC
* * * *
4949872 GCCAATGTCCCAGACATGGTCTTACATGTAAATC-TCAAATCGAG
1 GCCAACGTCCCAGACATGGTCTTACACGT-AATCAT-ATA-CGAC
* *
4949916 GCCAACGTCTCAGACGTGGTCTTACACG
1 GCCAACGTCCCAGACATGGTCTTACACG
4949944 ATGTCACATT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 31 0.33
43 37 0.39
44 27 0.28
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (42 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAATCATATACGAC
Found at i:4953473 original size:13 final size:14
Alignment explanation
Indices: 4953459--4953497 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
4953449 TTTAAAAATA
4953459 ATTTAAAAAATTAAT
1 ATTTAAAAAATT-AT
4953474 CATTTGAAAAAATTAT
1 -ATTT-AAAAAATTAT
4953490 ATTTAAAA
1 ATTTAAAA
4953498 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 6 0.27
17 8 0.36
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAAAAATTAT
Found at i:4953521 original size:21 final size:19
Alignment explanation
Indices: 4953481--4953517 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4953471 AATCATTTGA
*
4953481 AAAAATTATATTTAAAATT
1 AAAAATAATATTTAAAATT
4953500 AAAAATAATATTTAAAAT
1 AAAAATAATATTTAAAAT
4953518 ATTATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAATATTTAAAATT
Found at i:4953617 original size:22 final size:22
Alignment explanation
Indices: 4953579--4953639 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
4953569 TTTTAAAGGT
*
4953579 TTTATAATATTAAAAAA-ATATA
1 TTTAAAATATTAAAAAATA-ATA
4953601 TTTAAAAT-TTAATAAAATAATA
1 TTTAAAATATTAA-AAAATAATA
* *
4953623 TTATAAAAAATTTAAAA
1 TT-TAAAATATTAAAAA
4953640 TATACATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.12
22 16 0.50
23 9 0.28
24 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATATTAAAAAATAATA
Found at i:4953622 original size:24 final size:25
Alignment explanation
Indices: 4953589--4953637 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4953579 TTTATAATAT
**
4953589 TAAAAAAATA-TATTTAAAATTTAA
1 TAAAAAAATATTATAAAAAATTTAA
*
4953613 TAAAATAATATTATAAAAAATTTAA
1 TAAAAAAATATTATAAAAAATTTAA
4953638 AATATACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAAAATATTATAAAAAATTTAA
Found at i:4954166 original size:79 final size:79
Alignment explanation
Indices: 4954035--4954194 Score: 259
Period size: 79 Copynumber: 2.0 Consensus size: 79
4954025 GCCAAACACT
*
4954035 TTGGCTCCACCAACTTTTACTGTAGATTTTGAATTATTTTCATATTTTATAAAAAA-AGGTCATT
1 TTGGCTCCACCAACTTTTACGGTAGATTTTGAATTATTTTCATATTTTATAAAAAATAGGTCA-T
4954099 TTAAGTAATTAATTA
65 TTAAGTAATTAATTA
* ** *
4954114 TTGGCTCCACCAACTTTTACGGTAGATTTTGAGTTATTTTTGTATTTTATAAAAAATAGGTGATT
1 TTGGCTCCACCAACTTTTACGGTAGATTTTGAATTATTTTCATATTTTATAAAAAATAGGTCATT
4954179 TAAGTAATTAATTA
66 TAAGTAATTAATTA
4954193 TT
1 TT
4954195 TTTTTGAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
79 70 0.93
80 5 0.07
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (79 bp):
TTGGCTCCACCAACTTTTACGGTAGATTTTGAATTATTTTCATATTTTATAAAAAATAGGTCATT
TAAGTAATTAATTA
Found at i:4969357 original size:18 final size:19
Alignment explanation
Indices: 4969334--4969370 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4969324 ATGACATTGA
4969334 TTATTACAAAAT-AATTTC
1 TTATTACAAAATAAATTTC
*
4969352 TTATTATAAAATAAATTTC
1 TTATTACAAAATAAATTTC
4969371 GATTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTACAAAATAAATTTC
Found at i:4969486 original size:22 final size:21
Alignment explanation
Indices: 4969445--4969486 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4969435 ACAAAAAATA
*
4969445 ATATAAAATATAAATTTATAG
1 ATATAAAATATAAATGTATAG
*
4969466 ATATAAAATCTCAAATGTATA
1 ATATAAAATAT-AAATGTATA
4969487 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATAAAATATAAATGTATAG
Found at i:4979014 original size:21 final size:21
Alignment explanation
Indices: 4978988--4979028 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4978978 ATCTGCTCAA
* *
4978988 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4979009 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4979029 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4983846 original size:21 final size:21
Alignment explanation
Indices: 4983820--4983860 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4983810 ATCTGCTCAA
* *
4983820 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4983841 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4983861 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4984083 original size:53 final size:53
Alignment explanation
Indices: 4984020--4984125 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
4984010 CTTTGCCCTC
4984020 GGATCTAACTTTGACTCCTTCACATGGTAATATGCAGTGGATCCAAACACATG
1 GGATCTAACTTTGACTCCTTCACATGGTAATATGCAGTGGATCCAAACACATG
*
4984073 GGATCTAACTTTGACTCCTTCACATGGTAATATGCAGTGGTTCCAAACACATG
1 GGATCTAACTTTGACTCCTTCACATGGTAATATGCAGTGGATCCAAACACATG
4984126 TAAGGAATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (53 bp):
GGATCTAACTTTGACTCCTTCACATGGTAATATGCAGTGGATCCAAACACATG
Found at i:4995333 original size:15 final size:15
Alignment explanation
Indices: 4995313--4995355 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4995303 TCAAAATCCA
*
4995313 ATTTTTTTAAAAAAT
1 ATTTTTATAAAAAAT
4995328 ATTTTTATAAAAAAT
1 ATTTTTATAAAAAAT
*
4995343 -TATATTATAAAAA
1 AT-TTTTATAAAAA
4995356 TGAACATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTTATAAAAAAT
Found at i:4995639 original size:21 final size:22
Alignment explanation
Indices: 4995615--4995664 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4995605 TTATGTGTCC
*
4995615 ATATTATATATT-ATAAAAATA
1 ATATTATATATTCATAAAAAAA
4995636 ATA-TACT-TATTCATAAAAAAA
1 ATATTA-TATATTCATAAAAAAA
4995657 ATATTATA
1 ATATTATA
4995665 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTATATATTCATAAAAAAA
Found at i:4998365 original size:21 final size:22
Alignment explanation
Indices: 4998340--4998383 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
4998330 CACTCTTCCT
4998340 TTTCTTCATCGATTATTGCAGG
1 TTTCTTCATCGATTATTGCAGG
4998362 TTCTTCTTCATCGATTATTGCA
1 -T-TTCTTCATCGATTATTGCA
4998384 CTGTTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTCTTCATCGATTATTGCAGG
Found at i:4998398 original size:24 final size:24
Alignment explanation
Indices: 4998347--4998401 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4998337 CCTTTTCTTC
* *
4998347 ATCGATTATTGCAGGTTCTTCTTC
1 ATCGATTATTGCAGGTTCTACTTA
*
4998371 ATCGATTATTGCACTGTTC-ACTTA
1 ATCGATTATTGCA-GGTTCTACTTA
4998395 ATCGATT
1 ATCGATT
4998402 TCCCTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (24 bp):
ATCGATTATTGCAGGTTCTACTTA
Found at i:5001404 original size:35 final size:37
Alignment explanation
Indices: 5001364--5001436 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
5001354 TACGTATGAT
5001364 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCCTGATCAGATAAGTGTAGC
*
5001399 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCCTGATCAGATAAGTGTAGC
5001436 C
1 C
5001437 GAAACTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 10 0.29
36 5 0.14
37 20 0.57
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCCTGATCAGATAAGTGTAGC
Found at i:5001451 original size:46 final size:46
Alignment explanation
Indices: 5001399--5001667 Score: 304
Period size: 46 Copynumber: 5.6 Consensus size: 46
5001389 TAAGTGTAGC
* *
5001399 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAACTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
** * * *
5001445 CACTTATCACTTTGTCTTTTGATCAGAGAAGTATAGCTGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
5001491 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAACTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
** * * *
5001543 CACTTATCACTTTGTCTTTTGATCAGAGAAGTATAGCTGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
5001589 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
5001641 CACCTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
5001668 AGTACTCAAA
Statistics
Matches: 188, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
46 106 0.56
48 2 0.01
50 2 0.01
52 78 0.41
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:5001521 original size:98 final size:98
Alignment explanation
Indices: 5001410--5001667 Score: 471
Period size: 98 Copynumber: 2.6 Consensus size: 98
5001400 ACTTATCACT
*
5001410 TTGTCTCTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGAGAA
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGAGAA
5001475 GTATAGCTGAAGCTATCACTTATCACTTTCCAC
66 GTATAGCTGAAGCTATCACTTATCACTTTCCAC
5001508 TTGTCACTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGAGAA
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGAGAA
5001573 GTATAGCTGAAGCTATCACTTATCACTTTCCAC
66 GTATAGCTGAAGCTATCACTTATCACTTTCCAC
* * **
5001606 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGA
5001668 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 155 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCTTTTGATCAGAGAA
GTATAGCTGAAGCTATCACTTATCACTTTCCAC
Found at i:5001522 original size:52 final size:52
Alignment explanation
Indices: 5001463--5001653 Score: 250
Period size: 52 Copynumber: 3.8 Consensus size: 52
5001453 ACTTTGTCTT
*
5001463 TTGATCAGAGAAGTATAGCTGAAGCTATCACTTATCACTTTCCACTTGTCAC
1 TTGATCAGAGAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCAC
* * * **
5001515 TTGATCAGATAAGTGTAGCCGAAACTATCACTTATCAC--T----TTGTCTT
1 TTGATCAGAGAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCAC
*
5001561 TTGATCAGAGAAGTATAGCTGAAGCTATCACTTATCACTTTCCACTTGTCAC
1 TTGATCAGAGAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCAC
* * *
5001613 TTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 TTGATCAGAGAAGTATAGCCGAAGCTATCACTTATCACTTT
5001654 GTCACTTGAT
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 39 0.33
48 1 0.01
50 1 0.01
52 76 0.65
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (52 bp):
TTGATCAGAGAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCAC
Found at i:5005779 original size:30 final size:28
Alignment explanation
Indices: 5005740--5005801 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
5005730 ATGGATTTAA
5005740 ATTACTTATTATTTAAGTAAATATATATTT
1 ATTACTTATTA-TTAAGTAAA-ATATATTT
*
5005770 ATTATTTATTATTAAGTAAAATATATTT
1 ATTACTTATTATTAAGTAAAATATATTT
5005798 ATTA
1 ATTA
5005802 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAATATATTT
Found at i:5006464 original size:17 final size:18
Alignment explanation
Indices: 5006442--5006477 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5006432 TAAATGAGTT
5006442 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
5006459 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
5006477 A
1 A
5006478 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:5006949 original size:21 final size:22
Alignment explanation
Indices: 5006923--5006986 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
5006913 GCTTTGCCGA
5006923 TCAGGCACTATATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
* ** *
5006945 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTTGTAT
*
5006965 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
5006987 ACTGCTTCTG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (22 bp):
TCAGGCACTATATGTGTTGTAT
Found at i:5009592 original size:50 final size:50
Alignment explanation
Indices: 5009468--5009716 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
5009458 AATAATAACA
* * ** * *
5009468 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
5009519 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
5009569 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
5009619 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
5009674 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
5009717 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:5009646 original size:100 final size:104
Alignment explanation
Indices: 5009467--5009716 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
5009457 TAATAATAAC
**
5009467 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
5009532 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
5009569 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
5009632 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
5009674 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5009717 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:5009832 original size:13 final size:13
Alignment explanation
Indices: 5009811--5009842 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5009801 GCTTGGATCA
*
5009811 TCATCAAATAAAT
1 TCATAAAATAAAT
5009824 TCATAAAATAAAT
1 TCATAAAATAAAT
5009837 TCATAA
1 TCATAA
5009843 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5010089 original size:30 final size:30
Alignment explanation
Indices: 5010054--5010111 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5010044 CCTCGACTCT
*
5010054 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
5010084 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5010112 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5011364 original size:17 final size:17
Alignment explanation
Indices: 5011342--5011377 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5011332 ATGAGATTTC
5011342 TCAATTACAAAAGGACT
1 TCAATTACAAAAGGACT
5011359 TCAATTACAAAAGGACT
1 TCAATTACAAAAGGACT
5011376 TC
1 TC
5011378 GAAGGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (17 bp):
TCAATTACAAAAGGACT
Found at i:5012828 original size:25 final size:25
Alignment explanation
Indices: 5012779--5012828 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5012769 CACAAATTGC
**
5012779 AAGTCTGCTTCTAATAGCATGTTTT
1 AAGTCTGCTTCTAATAGCACATTTT
*
5012804 AAGTCTGCTTCTGATAGCACATTTT
1 AAGTCTGCTTCTAATAGCACATTTT
5012829 TGAATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (25 bp):
AAGTCTGCTTCTAATAGCACATTTT
Found at i:5015718 original size:30 final size:30
Alignment explanation
Indices: 5015682--5015741 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5015672 TTGTTGCCTA
* *
5015682 AGTTTCTTCCCTATTCATCTATGGAACATG
1 AGTTTCTTCCATATTCATCTATGAAACATG
*
5015712 AGTTTCTTCCATATTCATGTATGAAACATG
1 AGTTTCTTCCATATTCATCTATGAAACATG
5015742 TTCCTTGTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (30 bp):
AGTTTCTTCCATATTCATCTATGAAACATG
Found at i:5022537 original size:37 final size:37
Alignment explanation
Indices: 5022487--5022574 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
5022477 AAAGATATCC
*
5022487 CATAAATCCCTCAATTTTCTCCCACTTACCCACTACT
1 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
5022524 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
1 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
5022561 CATAACTCCCTCAA
1 CATAACTCCCTCAA
5022575 AATTTTGGCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (37 bp):
CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
Found at i:5039106 original size:19 final size:20
Alignment explanation
Indices: 5039082--5039127 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
5039072 AATATGATGC
5039082 AAAGAAGAG-GAACGAAA-AG
1 AAAGAAGAGAGAA-GAAATAG
5039101 AAAGAA-AGAGAAGAAATAG
1 AAAGAAGAGAGAAGAAATAG
*
5039120 AGAGAAGA
1 AAAGAAGA
5039128 AGGTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.02
Consensus pattern (20 bp):
AAAGAAGAGAGAAGAAATAG
Found at i:5039560 original size:23 final size:22
Alignment explanation
Indices: 5039534--5039578 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
5039524 GCCCACTACC
*
5039534 CAAACTTAACCCTAAACCCAAAA
1 CAAACATAACCCT-AACCCAAAA
* *
5039557 CAAACATAATCCTAGCCCAAAA
1 CAAACATAACCCTAACCCAAAA
5039579 TTAACCCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.13
Consensus pattern (22 bp):
CAAACATAACCCTAACCCAAAA
Found at i:5040268 original size:10 final size:10
Alignment explanation
Indices: 5040253--5040278 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5040243 AAGGGAGCCC
5040253 CTTTCTTTTT
1 CTTTCTTTTT
5040263 CTTTCTTTTT
1 CTTTCTTTTT
5040273 CTTTCT
1 CTTTCT
5040279 GTTCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:5044137 original size:17 final size:17
Alignment explanation
Indices: 5044115--5044149 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5044105 ATGTGATTTA
*
5044115 TAAAATTTTAAAAATAT
1 TAAAATTTCAAAAATAT
*
5044132 TAAAATTTCAAATATAT
1 TAAAATTTCAAAAATAT
5044149 T
1 T
5044150 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTCAAAAATAT
Found at i:5044208 original size:20 final size:20
Alignment explanation
Indices: 5044141--5044220 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
5044131 TTAAAATTTC
5044141 AAATATATTTTA-AATTTTTT
1 AAATA-ATTTTATAATTTTTT
* *
5044161 TAGTGAATTTTAT-ATGTTTTT
1 AAAT-AATTTTATAAT-TTTTT
*
5044182 --GTAATTTTATAATTTTTT
1 AAATAATTTTATAATTTTTT
5044200 AAATAATTTTAATAAATTTTT
1 AAATAATTTT-AT-AATTTTT
5044221 GTAACTTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
18 13 0.27
19 4 0.08
20 17 0.35
21 8 0.16
22 7 0.14
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
AAATAATTTTATAATTTTTT
Found at i:5044220 original size:39 final size:38
Alignment explanation
Indices: 5044147--5044224 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
5044137 TTTCAAATAT
* * **
5044147 ATTTTAAATTTTTTTAGTGAATTTTATATGTTTTTGTA
1 ATTTTAAATTTTTTAAATGAATTTTATAAATTTTTGTA
5044185 ATTTTATAATTTTTTAAAT-AATTTTAATAAATTTTTGTA
1 ATTTTA-AATTTTTTAAATGAATTTT-ATAAATTTTTGTA
5044224 A
1 A
5044225 CTTTGTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 12 0.35
39 22 0.65
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (38 bp):
ATTTTAAATTTTTTAAATGAATTTTATAAATTTTTGTA
Found at i:5044489 original size:24 final size:24
Alignment explanation
Indices: 5044462--5044512 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5044452 CGTTCAATCG
*
5044462 AATCGAGTGAAGAAATTTTGAGTT
1 AATCAAGTGAAGAAATTTTGAGTT
5044486 AATCAAGTGAAGAAATTTTGAGTT
1 AATCAAGTGAAGAAATTTTGAGTT
5044510 AAT
1 AAT
5044513 TGTGTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (24 bp):
AATCAAGTGAAGAAATTTTGAGTT
Found at i:5044876 original size:19 final size:21
Alignment explanation
Indices: 5044840--5044890 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
5044830 TATAAATTTT
5044840 TTTTGAA-TTTTTATAAAT-A
1 TTTTGAATTTTTTATAAATCA
5044859 TTTTGAATTTTTTA-AAATCA
1 TTTTGAATTTTTTATAAATCA
*
5044879 ATTT-AATTTTTT
1 TTTTGAATTTTTT
5044891 TGTAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTGAATTTTTTATAAATCA
Found at i:5045350 original size:19 final size:21
Alignment explanation
Indices: 5045322--5045365 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
5045312 TTTTTGAAAA
* *
5045322 TTTTATAAAT-ATTTTGAATT
1 TTTTATAAATCAATTTAAATT
5045342 TTTTA-AAATCAATTTAAATT
1 TTTTATAAATCAATTTAAATT
5045362 TTTT
1 TTTT
5045366 GTAATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATAAATCAATTTAAATT
Found at i:5048235 original size:35 final size:35
Alignment explanation
Indices: 5048195--5048267 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
5048185 AATTTAACTG
5048195 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
1 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
5048230 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
1 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
5048265 AAT
1 AAT
5048268 ACTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (35 bp):
AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
Found at i:5049471 original size:9 final size:9
Alignment explanation
Indices: 5049457--5049528 Score: 72
Period size: 9 Copynumber: 7.6 Consensus size: 9
5049447 TTTGGTTAAA
5049457 AATTACCCG
1 AATTACCCG
5049466 AATTACCCG
1 AATTACCCG
*
5049475 AAAATTACCCA
1 --AATTACCCG
*
5049486 AATTACCTG
1 AATTACCCG
*
5049495 AATTGCCCG
1 AATTACCCG
*
5049504 AAAATTACCCA
1 --AATTACCCG
5049515 AATTACCCG
1 AATTACCCG
5049524 AATTA
1 AATTA
5049529 AATCACTACA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 36 0.71
11 15 0.29
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:5049480 original size:20 final size:19
Alignment explanation
Indices: 5049456--5049528 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
5049446 TTTTGGTTAA
5049456 AAATTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
* *
5049475 AAAATTACCCAAATTACCTG
1 -AAATTACCCGAATTACCCG
*
5049495 -AATTGCCCGAAAATTACCC-
1 AAATTACCCG--AATTACCCG
5049514 AAATTACCCGAATTA
1 AAATTACCCGAATTA
5049529 AATCACTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.27
20 32 0.73
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.23
Consensus pattern (19 bp):
AAATTACCCGAATTACCCG
Found at i:5049498 original size:29 final size:29
Alignment explanation
Indices: 5049456--5049528 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
5049446 TTTTGGTTAA
5049456 AAATTACCCGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCGAAAATTACCC
* *
5049485 AAATTACCTGAATTGCCCGAAAATTACCC
1 AAATTACCCGAATTACCCGAAAATTACCC
5049514 AAATTACCCGAATTA
1 AAATTACCCGAATTA
5049529 AATCACTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.23
Consensus pattern (29 bp):
AAATTACCCGAATTACCCGAAAATTACCC
Found at i:5049570 original size:37 final size:37
Alignment explanation
Indices: 5049529--5049641 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
5049519 ACCCGAATTA
* *
5049529 AATCACTACATGATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
5049566 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
5049603 AATCACTACATAATTAAAAACATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
5049639 AAT
1 AAT
5049642 TAACACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:5049577 original size:20 final size:20
Alignment explanation
Indices: 5049552--5049615 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
5049542 TTAAAAACAT
5049552 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
5049572 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
5049589 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
5049609 TACATAA
1 TACATAA
5049616 TTAAAAACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:5049594 original size:17 final size:17
Alignment explanation
Indices: 5049572--5049632 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
5049562 TTTGAATCAC
5049572 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
5049589 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
5049609 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
5049626 TACATAA
1 TACATAA
5049633 GTCTTGAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:5057573 original size:22 final size:22
Alignment explanation
Indices: 5057548--5057593 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
5057538 ATGTGATAGA
5057548 TTTTTTCATACAAGGAACGACT
1 TTTTTTCATACAAGGAACGACT
5057570 TTTTTTCATACAAGGAACGACT
1 TTTTTTCATACAAGGAACGACT
5057592 TT
1 TT
5057594 AAGATCTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (22 bp):
TTTTTTCATACAAGGAACGACT
Found at i:5060711 original size:28 final size:27
Alignment explanation
Indices: 5060652--5060703 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5060642 TTTCTCTTTT
* **
5060652 AAAAAATACCTATTATCATAAATATAA
1 AAAAAAAACCTAAAATCATAAATATAA
*
5060679 AAAAAAAACCTAAAATCCTAAATAT
1 AAAAAAAACCTAAAATCATAAATAT
5060704 TAGAAAAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAAAAAACCTAAAATCATAAATATAA
Found at i:5061786 original size:2 final size:2
Alignment explanation
Indices: 5061779--5061803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5061769 GAGGAGCTAT
5061779 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
5061804 TCTCTCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5061808 original size:2 final size:2
Alignment explanation
Indices: 5061803--5061840 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5061793 CACACACACA
5061803 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
5061841 TTCCAACTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5063380 original size:17 final size:17
Alignment explanation
Indices: 5063342--5063392 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
5063332 GGACAAAGAA
*
5063342 AGAAAATTTTGGAACTT
1 AGAAAATTTTGAAACTT
*
5063359 AGAAAATTTTGAAATTT
1 AGAAAATTTTGAAACTT
* * *
5063376 GGAAAACTTGGAAACTT
1 AGAAAATTTTGAAACTT
5063393 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
AGAAAATTTTGAAACTT
Found at i:5063937 original size:110 final size:110
Alignment explanation
Indices: 5063809--5064049 Score: 358
Period size: 110 Copynumber: 2.2 Consensus size: 110
5063799 CGGCACACGA
*
5063809 GCGTGTAGTCTGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGGTAGGACACGGGCTGGGACAC
1 GCGTGTAGTCTGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGGTAGGACACGGGCTGAGACAC
* * *
5063874 GACCGTGTGTCTTAAATTTGAATGCCTACACGGCCTAACACACAG
66 GACCGTGTGTCCTAAATTTGAATGCCCACACGACCTAACACACAG
* * *
5063919 GCGTGTGGTCTGGTCGTGTGACCCAATTCAGTGAGTTACACGGGGTAGGACACGGGCTGAGACAC
1 GCGTGTAGTCTGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGGTAGGACACGGGCTGAGACAC
* * * *
5063984 GACCGTGTGTCCTCATTTTGAATGCCCACACGACCTGAGACACAG
66 GACCGTGTGTCCTAAATTTGAATGCCCACACGACCTAACACACAG
*
5064029 GCGTGTCACT-TGGCCGTGTGA
1 GCGTGT-AGTCTGGCCGTGTGA
5064050 GGCACTCTGC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
110 115 0.99
111 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.22
Consensus pattern (110 bp):
GCGTGTAGTCTGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGGTAGGACACGGGCTGAGACAC
GACCGTGTGTCCTAAATTTGAATGCCCACACGACCTAACACACAG
Found at i:5069735 original size:61 final size:63
Alignment explanation
Indices: 5069655--5069786 Score: 196
Period size: 61 Copynumber: 2.1 Consensus size: 63
5069645 TTGTCCTACT
* * **
5069655 AATTGATTTTCTGTATTATTTCAACGGATTCTTCGCAAGTATTATATATTTATAA-TTTTT-A
1 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTAA
* *
5069716 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGTAAGTATTATATGTACATAATTTTTTAA
1 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTAA
5069779 AATTTATT
1 AATTTATT
5069787 CAAAAACAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 49 0.78
62 5 0.08
63 9 0.14
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (63 bp):
AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTAA
Found at i:5073099 original size:61 final size:61
Alignment explanation
Indices: 5072968--5073102 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 61
5072958 TGAGTAATAT
* * *
5072968 ATTTATAAATTTAGAAACATTTAAATAGTATCTAAAAAAATTAATTTTAAATAGACTTAAAA
1 ATTTATAAATTTAGAAACATGTAAATAGTATATAAAAAAATTAACTTT-AATAGACTTAAAA
* *
5073030 ATTT-TAAATTTAGAAACGTGTAATATA-TTTATAAAAAAACTT-ACTTT-ATAGA-TTAAATTA
1 ATTTATAAATTTAGAAACATGTAA-ATAGTATATAAAAAAA-TTAACTTTAATAGACTTAAA--A
5073090 ATTTATAAATTTA
1 ATTTATAAATTTA
5073103 AAATTTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
58 5 0.08
59 5 0.08
60 5 0.08
61 39 0.62
62 9 0.14
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (61 bp):
ATTTATAAATTTAGAAACATGTAAATAGTATATAAAAAAATTAACTTTAATAGACTTAAAA
Found at i:5085565 original size:52 final size:48
Alignment explanation
Indices: 5085546--5085748 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
5085536 TGACAAGTGG
* *
5085546 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5085592 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
5085644 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
5085690 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5085736 AAAGTGATAAGTG
1 AAAGTGATAAGTG
5085749 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:5085600 original size:98 final size:98
Alignment explanation
Indices: 5085480--5085748 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
5085470 TTTGAGTACT
*
5085480 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5085545 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
5085578 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5085643 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
5085676 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
5085741 GATAAGTG
65 GAAAAGTG
5085749 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:5085756 original size:37 final size:37
Alignment explanation
Indices: 5085712--5085857 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
5085702 GATAGCTTTA
*
5085712 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5085749 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
5085786 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
5085823 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5085858 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Done.