Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008817.1 Hibiscus syriacus cultivar Beakdansim tig00111983_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: 1047399
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 2 of 4
Found at i:328354 original size:63 final size:64
Alignment explanation
Indices: 328255--328382 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
328245 CGTCAACATT
328255 AATCCTAGCCTTTACGTCGCCATGCCATCATCAAGGCATCAACATCTC-ACCCATGTCATGGCA
1 AATCCTAGCCTTTACGTCGCCATGCCATCATCAAGGCATCAACATCTCAACCCATGTCATGGCA
328318 AATCCTAGCCTTTACGTCGCCATGCCATCATCAAGGCATCAACATCTCAACCCATGTCATGGCA
1 AATCCTAGCCTTTACGTCGCCATGCCATCATCAAGGCATCAACATCTCAACCCATGTCATGGCA
328382 A
1 A
328383 CTCATCACCC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 48 0.75
64 16 0.25
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.23
Consensus pattern (64 bp):
AATCCTAGCCTTTACGTCGCCATGCCATCATCAAGGCATCAACATCTCAACCCATGTCATGGCA
Found at i:331977 original size:37 final size:36
Alignment explanation
Indices: 331935--332009 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
331925 ATTTTCGAGA
*
331935 TTTTGCTATTTTTGGCAAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGC-AAAATTCGAATAAAGACGAT
331972 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
332008 TT
1 TT
332010 CTTTTGCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 21 0.57
37 16 0.43
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:335869 original size:29 final size:29
Alignment explanation
Indices: 335827--335883 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
335817 CAACAGCTCA
335827 CCATCCGGTCATGCTAGAAACTTGTCCCC
1 CCATCCGGTCATGCTAGAAACTTGTCCCC
335856 CCATCCGGTCATGCTAGAAACTTGTCCC
1 CCATCCGGTCATGCTAGAAACTTGTCCC
335884 GACCCATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.25
Consensus pattern (29 bp):
CCATCCGGTCATGCTAGAAACTTGTCCCC
Found at i:338530 original size:17 final size:17
Alignment explanation
Indices: 338493--338535 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
338483 TAAATACAAC
* * *
338493 TTATGATATTTTTATTT
1 TTATGATACTTTAATTA
338510 TTATGATACTTTAATTA
1 TTATGATACTTTAATTA
*
338527 TTATAATAC
1 TTATGATAC
338536 ACGTAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTATGATACTTTAATTA
Found at i:343011 original size:2 final size:2
Alignment explanation
Indices: 343004--343059 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
342994 ATTTAATCCA
343004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
343046 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
343060 CATTTTTATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:350345 original size:24 final size:24
Alignment explanation
Indices: 350311--350373 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 24
350301 ATCAATGCAT
*
350311 AGGGAGTGCATCGATGCACACGTTA
1 AGGGA-TGCATCGATGCACACGGTA
350336 AGGGATGCATCGAT--ACACGGTA
1 AGGGATGCATCGATGCACACGGTA
350358 A--GATGCATCGATGCAC
1 AGGGATGCATCGATGCAC
350374 TTCAAGGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 11 0.31
22 10 0.29
24 9 0.26
25 5 0.14
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (24 bp):
AGGGATGCATCGATGCACACGGTA
Found at i:354413 original size:52 final size:54
Alignment explanation
Indices: 354337--354443 Score: 200
Period size: 52 Copynumber: 2.0 Consensus size: 54
354327 TTTTTTAAAA
354337 AAATTACAAGTAGAAGAGAATGTT-GGAATCTAACTCATC-GATCGTGCTACTT
1 AAATTACAAGTAGAAGAGAATGTTGGGAATCTAACTCATCGGATCGTGCTACTT
354389 AAATTACAAGTAGAAGAGAATGTTGGGAATCTAACTCATCGGATCGTGCTACTT
1 AAATTACAAGTAGAAGAGAATGTTGGGAATCTAACTCATCGGATCGTGCTACTT
354443 A
1 A
354444 TTTCCCCTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 24 0.45
53 15 0.28
54 14 0.26
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (54 bp):
AAATTACAAGTAGAAGAGAATGTTGGGAATCTAACTCATCGGATCGTGCTACTT
Found at i:355538 original size:13 final size:12
Alignment explanation
Indices: 355505--355529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
355495 GAAAGTGTTA
355505 TAAAAATATTTT
1 TAAAAATATTTT
355517 TAAAAATATTTT
1 TAAAAATATTTT
355529 T
1 T
355530 GAGAAATATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAAATATTTT
Found at i:357689 original size:34 final size:34
Alignment explanation
Indices: 357651--357721 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
357641 TAAGTTTTGA
357651 TTCTAATCCTTAACACTTTGGATCTCAATTGCTT
1 TTCTAATCCTTAACACTTTGGATCTCAATTGCTT
357685 TTCTAATCCTTAACACTTTGGATCTCAATTGCTT
1 TTCTAATCCTTAACACTTTGGATCTCAATTGCTT
357719 TTC
1 TTC
357722 CTTTTTATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (34 bp):
TTCTAATCCTTAACACTTTGGATCTCAATTGCTT
Found at i:371639 original size:20 final size:20
Alignment explanation
Indices: 371601--371640 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
371591 GGATGTAACC
*
371601 GAACATAAACGAACGTAAAT
1 GAACATAAACGAACATAAAT
* *
371621 GAACGTAAACGTACATAAAT
1 GAACATAAACGAACATAAAT
371641 AAAAATATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (20 bp):
GAACATAAACGAACATAAAT
Found at i:375543 original size:29 final size:29
Alignment explanation
Indices: 375501--375557 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
375491 AGTGTTGGCC
*
375501 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCACCATGCACTCCGGGCGACCTT
*
375530 GTAGGTCATCATGCACTCCGGGCGACCT
1 GTAGGTCACCATGCACTCCGGGCGACCT
375558 ACCCCTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.21
Consensus pattern (29 bp):
GTAGGTCACCATGCACTCCGGGCGACCTT
Found at i:375705 original size:10 final size:10
Alignment explanation
Indices: 375686--375793 Score: 63
Period size: 10 Copynumber: 10.1 Consensus size: 10
375676 GCATAGCTCG
*
375686 CTCGGTTGCC
1 CTCGGATGCC
375696 CTCGGATGCC
1 CTCGGATGCC
*
375706 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
375718 GTTCGGATGGCC
1 -CTCGGAT-GCC
*
375730 TCGGTCGGATGAC
1 -C--TCGGATGCC
*
375743 CTCGGATGCT
1 CTCGGATGCC
*
375753 CTCGGATGGC
1 CTCGGATGCC
* *
375763 GTCGGATGCT
1 CTCGGATGCC
* *
375773 TTCGGATGGC
1 CTCGGATGCC
375783 CTCGGATGCC
1 CTCGGATGCC
375793 C
1 C
375794 AGCGTGTTGG
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
10 53 0.73
11 2 0.03
12 3 0.04
13 9 0.12
14 6 0.08
ACGTcount: A:0.10, C:0.31, G:0.33, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:375708 original size:33 final size:33
Alignment explanation
Indices: 375671--375733 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
375661 CGCTCGGCTT
*
375671 CCCTCGCATAGCTCGCTCGGTTGCCCTCGGATG
1 CCCTCGCATAGCTCGCTCGGATGCCCTCGGATG
* *
375704 CCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 CCCTCGCATAGCTCGCTCGGATGCCCTCGG
375734 TCGGATGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.10, C:0.38, G:0.29, T:0.24
Consensus pattern (33 bp):
CCCTCGCATAGCTCGCTCGGATGCCCTCGGATG
Found at i:375759 original size:20 final size:20
Alignment explanation
Indices: 375734--375791 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
375724 ATGGCCTCGG
*
375734 TCGGATGACCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
* *
375754 TCGGATGGCGTCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
375774 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
375792 CCAGCGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.12, C:0.26, G:0.36, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:380575 original size:24 final size:24
Alignment explanation
Indices: 380548--380603 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
380538 TGAACATTCG
*
380548 GTTATGTTCGTTTATATGCGTTTA
1 GTTATGTTCGTTTATATGCGTTCA
*
380572 GTTATGTTCGTTTATGTGCGTTCA
1 GTTATGTTCGTTTATATGCGTTCA
*
380596 TTTATGTT
1 GTTATGTT
380604 TAACCTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.09, G:0.21, T:0.55
Consensus pattern (24 bp):
GTTATGTTCGTTTATATGCGTTCA
Found at i:380867 original size:33 final size:33
Alignment explanation
Indices: 380825--380914 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
380815 ATTTTCATTT
380825 CTGCAACGATTCGACGGAGCTTCAAGTCTTCAA
1 CTGCAACGATTCGACGGAGCTTCAAGTCTTCAA
*
380858 CTGCAACGATTTGACGGAGCTTCAAGTCTTCAA
1 CTGCAACGATTCGACGGAGCTTCAAGTCTTCAA
* *
380891 CTGCAACAATTCGACAGAGCTTCA
1 CTGCAACGATTCGACGGAGCTTCA
380915 TCTCTTTCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (33 bp):
CTGCAACGATTCGACGGAGCTTCAAGTCTTCAA
Found at i:382150 original size:10 final size:10
Alignment explanation
Indices: 382135--382209 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
382125 GGGTCTCTAA
382135 CGTTTATGTT
1 CGTTTATGTT
382145 CGTTTATGTT
1 CGTTTATGTT
382155 CG----TGTT
1 CGTTTATGTT
*
382161 CATTTATGTT
1 CGTTTATGTT
*
382171 CGTGTT-CGTTT
1 CGT-TTATG-TT
* *
382182 ATGTTTGTGTT
1 -CGTTTATGTT
382193 CGTTTATGTT
1 CGTTTATGTT
382203 CGTTTAT
1 CGTTTAT
382210 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 34 0.68
11 8 0.16
12 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:382166 original size:16 final size:16
Alignment explanation
Indices: 382141--382205 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
382131 CTAACGTTTA
382141 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
382157 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
382173 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
382189 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
382205 T
1 T
382206 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:382296 original size:16 final size:16
Alignment explanation
Indices: 382275--382306 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
382265 AAAAAAAGTT
382275 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
382291 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
382307 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:396067 original size:18 final size:18
Alignment explanation
Indices: 396044--396079 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
396034 TACCGTTTCT
*
396044 CGTCCCCGTCTCCGTATC
1 CGTCCCCGTATCCGTATC
396062 CGTCCCCGTATCCGTATC
1 CGTCCCCGTATCCGTATC
396080 AGTGCAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.47, G:0.17, T:0.28
Consensus pattern (18 bp):
CGTCCCCGTATCCGTATC
Found at i:399464 original size:12 final size:12
Alignment explanation
Indices: 399449--399487 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
399439 TACACCACCA
*
399449 CCTCCACCATGT
1 CCTCCACCATCT
*
399461 CCTCCTCCATCT
1 CCTCCACCATCT
*
399473 CCACCACCATCT
1 CCTCCACCATCT
399485 CCT
1 CCT
399488 GCATCGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.56, G:0.03, T:0.26
Consensus pattern (12 bp):
CCTCCACCATCT
Found at i:402214 original size:19 final size:19
Alignment explanation
Indices: 402192--402229 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
402182 GGGCGGATGT
402192 GGGGCGAGCGGATGCGGGG
1 GGGGCGAGCGGATGCGGGG
* *
402211 GGGGGGGGCGGATGCGGGG
1 GGGGCGAGCGGATGCGGGG
402230 CGGGTAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.13, G:0.74, T:0.05
Consensus pattern (19 bp):
GGGGCGAGCGGATGCGGGG
Found at i:402434 original size:24 final size:24
Alignment explanation
Indices: 402407--402555 Score: 63
Period size: 24 Copynumber: 6.2 Consensus size: 24
402397 AGTTCTAGCT
402407 CCAACGCCACCACCTCCACCAGCC
1 CCAACGCCACCACCTCCACCAGCC
* * * *
402431 CCAACACCTCCTCCTGCACCA-CC
1 CCAACGCCACCACCTCCACCAGCC
* * * * *
402454 ACCAGCTCCGA-CACCTCCTCCAACA
1 -CCAACGCC-ACCACCTCCACCAGCC
* * ** *
402479 CCAACACCACCGCCGACACCA-AC
1 CCAACGCCACCACCTCCACCAGCC
* * * * *
402502 TCTAGGACCACCTCCTGCC-CCAGCA
1 CCAACG-CCACCACCT-CCACCAGCC
402527 CCAACGCCACCACCTCCACCAGCC
1 CCAACGCCACCACCTCCACCAGCC
402551 CCAAC
1 CCAAC
402556 TCCTCCTCCT
Statistics
Matches: 84, Mismatches: 33, Indels: 16
0.63 0.25 0.12
Matches are distributed among these distances:
23 7 0.08
24 72 0.86
25 5 0.06
ACGTcount: A:0.26, C:0.57, G:0.09, T:0.08
Consensus pattern (24 bp):
CCAACGCCACCACCTCCACCAGCC
Found at i:402456 original size:18 final size:18
Alignment explanation
Indices: 402413--402456 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
402403 AGCTCCAACG
*
402413 CCACCACCTCCACCAGCC
1 CCACCACCTCCACCAGCA
* * *
402431 CCAACACCTCCTCCTGCA
1 CCACCACCTCCACCAGCA
402449 CCACCACC
1 CCACCACC
402457 AGCTCCGACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.64, G:0.05, T:0.09
Consensus pattern (18 bp):
CCACCACCTCCACCAGCA
Found at i:402456 original size:30 final size:30
Alignment explanation
Indices: 402417--402594 Score: 126
Period size: 30 Copynumber: 5.9 Consensus size: 30
402407 CCAACGCCAC
* *
402417 CACCTCCACCAGCCCCAACACCTCCTCCTG
1 CACCACCACCAGCCCCAACACCACCTCCTG
* * * **
402447 CACCACCACCAGCTCCGACACCTCCTCCAA
1 CACCACCACCAGCCCCAACACCACCTCCTG
* * *
402477 CACCAACACCA-CCGCCGACACCAACT-CTAG
1 CACCACCACCAGCC-CCAACACCACCTCCT-G
* * * * * * **
402507 GACCACCTCCTGCCCCAGCACCAACGCCAC
1 CACCACCACCAGCCCCAACACCACCTCCTG
* * *
402537 CACCTCCACCAGCCCCAACTCCTCCTCCTG
1 CACCACCACCAGCCCCAACACCACCTCCTG
*
402567 CACCACCACCAGCCCCAGCACCACCTCC
1 CACCACCACCAGCCCCAACACCACCTCC
402595 AACCCCTGCA
Statistics
Matches: 109, Mismatches: 35, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
29 2 0.02
30 104 0.95
31 3 0.03
ACGTcount: A:0.24, C:0.58, G:0.08, T:0.10
Consensus pattern (30 bp):
CACCACCACCAGCCCCAACACCACCTCCTG
Found at i:402570 original size:24 final size:24
Alignment explanation
Indices: 402509--402577 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
402499 AACTCTAGGA
*
402509 CCACCTCCTGCCCCAGCACCAACG
1 CCACCTCCTGCACCAGCACCAACG
* * * *
402533 CCACCACCTCCACCAGCCCCAACT
1 CCACCTCCTGCACCAGCACCAACG
* *
402557 CCTCCTCCTGCACCACCACCA
1 CCACCTCCTGCACCAGCACCA
402578 GCCCCAGCAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.22, C:0.61, G:0.07, T:0.10
Consensus pattern (24 bp):
CCACCTCCTGCACCAGCACCAACG
Found at i:402589 original size:18 final size:18
Alignment explanation
Indices: 402566--402608 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
402556 TCCTCCTCCT
*
402566 GCACCACCACCAGCCCCA
1 GCACCACCACCAACCCCA
* *
402584 GCACCACCTCCAACCCCT
1 GCACCACCACCAACCCCA
402602 GCACCAC
1 GCACCAC
402609 TTCCGGCATC
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:0.26, C:0.60, G:0.09, T:0.05
Consensus pattern (18 bp):
GCACCACCACCAACCCCA
Found at i:402607 original size:60 final size:60
Alignment explanation
Indices: 402375--402589 Score: 211
Period size: 60 Copynumber: 3.6 Consensus size: 60
402365 CCTACTCCTG
* ** * *
402375 CACCTCCTCCTGCACTACCACCAGTTCTAGCTCCAACGCCACCACCTCCACCAGCCCCAA
1 CACCTCCTCCTGCACCACCACCAGCCCCAGCACCAACGCCACCACCTCCACCAGCCCCAA
* ** * * ** *
402435 CACCTCCTCCTGCACCACCACCAGCTCC-GACACCTCCTCCAACACCAACACCA-CCGCCGA
1 CACCTCCTCCTGCACCACCACCAGCCCCAG-CACCAACGCCACCACCTCCACCAGCC-CCAA
** * * *
402495 CACCAACT-CTAGGACCACCTCCTGCCCCAGCACCAACGCCACCACCTCCACCAGCCCCAA
1 CACCTCCTCCT-GCACCACCACCAGCCCCAGCACCAACGCCACCACCTCCACCAGCCCCAA
*
402555 CTCCTCCTCCTGCACCACCACCAGCCCCAGCACCA
1 CACCTCCTCCTGCACCACCACCAGCCCCAGCACCA
402590 CCTCCAACCC
Statistics
Matches: 119, Mismatches: 30, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
59 5 0.04
60 109 0.92
61 5 0.04
ACGTcount: A:0.24, C:0.56, G:0.09, T:0.11
Consensus pattern (60 bp):
CACCTCCTCCTGCACCACCACCAGCCCCAGCACCAACGCCACCACCTCCACCAGCCCCAA
Found at i:402649 original size:120 final size:120
Alignment explanation
Indices: 402407--402659 Score: 303
Period size: 120 Copynumber: 2.1 Consensus size: 120
402397 AGTTCTAGCT
* *
402407 CCAACGCCACCACCTCCACCAGCCCCAACACCTCCTCCTGCACCACCACCAGCTCCGACACCTCC
1 CCAACGCCACCACCTCCACCAGCCCCAACACCTCCTCCTGCACCACCACCAGCCCCGACACCACC
** * ** *
402472 TCCAACACCAACACCACCGCCGACACCAACTCTAGGACCACCTCCTGCCCCAGCA
66 TCCAACACCAACACCACCGCCGACACCAACTCTACCACCACCACCAACCCCAACA
*
402527 CCAACGCCACCACCTCCACCAGCCCCAACTCCTCCTCCTGCACCACCACCAGCCCC-AGCACCAC
1 CCAACGCCACCACCTCCACCAGCCCCAACACCTCCTCCTGCACCACCACCAGCCCCGA-CACCAC
* ** ** * * *
402591 CTCCAACCCCTGCACCACTTCCGGCATCAACTCCT-CCACCACCACCAACGCCAACA
65 CTCCAACACCAACACCACCGCCGACACCAACT-CTACCACCACCACCAACCCCAACA
* *
402647 CCACCTCCACCAC
1 CCAACGCCACCAC
402660 GTCCTCCTCC
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 109 0.97
121 2 0.02
ACGTcount: A:0.25, C:0.57, G:0.08, T:0.09
Consensus pattern (120 bp):
CCAACGCCACCACCTCCACCAGCCCCAACACCTCCTCCTGCACCACCACCAGCCCCGACACCACC
TCCAACACCAACACCACCGCCGACACCAACTCTACCACCACCACCAACCCCAACA
Found at i:402689 original size:12 final size:12
Alignment explanation
Indices: 402672--402709 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
402662 CCTCCTCCAG
402672 CACCACCACCG-
1 CACCACCACCGA
402683 -A-CACCACCGA
1 CACCACCACCGA
402693 CACCACCACCGA
1 CACCACCACCGA
402705 CACCA
1 CACCA
402710 ACTCCACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.33
10 1 0.04
11 1 0.04
12 14 0.58
ACGTcount: A:0.34, C:0.58, G:0.08, T:0.00
Consensus pattern (12 bp):
CACCACCACCGA
Found at i:402709 original size:9 final size:9
Alignment explanation
Indices: 402675--402699 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
402665 CCTCCAGCAC
402675 CACCACCGA
1 CACCACCGA
402684 CACCACCGA
1 CACCACCGA
402693 CACCACC
1 CACCACC
402700 ACCGACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.60, G:0.08, T:0.00
Consensus pattern (9 bp):
CACCACCGA
Found at i:402717 original size:21 final size:21
Alignment explanation
Indices: 402672--402711 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
402662 CCTCCTCCAG
*
402672 CACCACCACCGACACCACCGA
1 CACCACCACCGACACCAACGA
402693 CACCACCACCGACACCAAC
1 CACCACCACCGACACCAAC
402712 TCCACCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.57, G:0.07, T:0.00
Consensus pattern (21 bp):
CACCACCACCGACACCAACGA
Found at i:402728 original size:30 final size:30
Alignment explanation
Indices: 402694--402750 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
402684 CACCACCGAC
*
402694 ACCACCACC-GACACCAACTCCACCTCCTGT
1 ACCACCACCAG-CACCAACACCACCTCCTGT
*
402724 ACCACCACCAGCGCCAACACCACCTCC
1 ACCACCACCAGCACCAACACCACCTCC
402751 ACCACATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.56, G:0.07, T:0.09
Consensus pattern (30 bp):
ACCACCACCAGCACCAACACCACCTCCTGT
Found at i:402733 original size:36 final size:36
Alignment explanation
Indices: 402693--402912 Score: 132
Period size: 36 Copynumber: 6.2 Consensus size: 36
402683 ACACCACCGA
*
402693 CACCACCACCGACACCAACTCCACCTCCTGTACCAC
1 CACCACCACCGACACCAACTCCACCTCCTGCACCAC
* * * * * * * * *
402729 CACCAGCGCCAACACCACCTCCACCACATCCTCCTC
1 CACCACCACCGACACCAACTCCACCTCCTGCACCAC
* * **
402765 CACCACCA--G-CTCCAACACCACCTCCACCACCTA-
1 CACCACCACCGACACCAACTCCACCTCCTGCACC-AC
402798 CACCACCACCGACACCAACTCCACCTCCTGCACCAC
1 CACCACCACCGACACCAACTCCACCTCCTGCACCAC
* * * * * *
402834 CACCAGCTCCAACACC-ACTTCCA-GTATCTACACCAC
1 CACCACCACCGACACCAAC-TCCACCT-CCTGCACCAC
* * *
402870 CACC-CACACCGACTCCAACTCCTCCTCCTGTACC-C
1 CACCAC-CACCGACACCAACTCCACCTCCTGCACCAC
402905 ACACCACC
1 -CACCACC
402913 TCCACCACGT
Statistics
Matches: 132, Mismatches: 40, Indels: 24
0.67 0.20 0.12
Matches are distributed among these distances:
33 23 0.17
35 6 0.05
36 99 0.75
37 4 0.03
ACGTcount: A:0.27, C:0.56, G:0.05, T:0.12
Consensus pattern (36 bp):
CACCACCACCGACACCAACTCCACCTCCTGCACCAC
Found at i:402777 original size:12 final size:12
Alignment explanation
Indices: 402725--402850 Score: 57
Period size: 12 Copynumber: 10.8 Consensus size: 12
402715 ACCTCCTGTA
*
402725 CCACCACCAGCG
1 CCACCACCAGCT
* *
402737 CCAACACCACCT
1 CCACCACCAGCT
**
402749 CCACCACATCCTCCT
1 CCA-C-CA-CCAGCT
402764 CCACCACCAGCT
1 CCACCACCAGCT
* *
402776 CCAACACCACCT
1 CCACCACCAGCT
402788 CCACCA-C--CT
1 CCACCACCAGCT
*
402797 ACACCACCA-C-
1 CCACCACCAGCT
* *
402807 CGA-CACCAACT
1 CCACCACCAGCT
* * *
402818 CCACCTCCTGCA
1 CCACCACCAGCT
402830 CCACCACCAGCT
1 CCACCACCAGCT
*
402842 CCAACACCA
1 CCACCACCA
402851 CTTCCAGTAT
Statistics
Matches: 84, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
9 12 0.14
10 3 0.04
11 4 0.05
12 52 0.62
13 2 0.02
14 3 0.04
15 8 0.10
ACGTcount: A:0.29, C:0.58, G:0.05, T:0.09
Consensus pattern (12 bp):
CCACCACCAGCT
Found at i:402785 original size:18 final size:18
Alignment explanation
Indices: 402724--402851 Score: 54
Period size: 18 Copynumber: 7.3 Consensus size: 18
402714 CACCTCCTGT
*
402724 ACCACCACCAGCGCCAAC
1 ACCACCACCAGCTCCAAC
**
402742 ACCACCTCCACCA-CATCCTCC
1 ACCA---CCACCAGC-TCCAAC
*
402763 TCCACCACCAGCTCCAAC
1 ACCACCACCAGCTCCAAC
* * * *
402781 ACCACCTCCACCACCTAC
1 ACCACCACCAGCTCCAAC
402799 ACCACCACC-G-----AC
1 ACCACCACCAGCTCCAAC
* * * **
402811 ACCAACTCCACCTCCTGC
1 ACCACCACCAGCTCCAAC
402829 ACCACCACCAGCTCCAAC
1 ACCACCACCAGCTCCAAC
402847 ACCAC
1 ACCAC
402852 TTCCAGTATC
Statistics
Matches: 77, Mismatches: 22, Indels: 22
0.64 0.18 0.18
Matches are distributed among these distances:
12 9 0.12
18 54 0.70
19 1 0.01
20 1 0.01
21 12 0.16
ACGTcount: A:0.29, C:0.58, G:0.05, T:0.09
Consensus pattern (18 bp):
ACCACCACCAGCTCCAAC
Found at i:402846 original size:30 final size:30
Alignment explanation
Indices: 402779--402837 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
402769 ACCAGCTCCA
*
402779 ACACCACCTCCACCACCTACACCACCACCG
1 ACACCAACTCCACCACCTACACCACCACCG
* *
402809 ACACCAACTCCACCTCCTGCACCACCACC
1 ACACCAACTCCACCACCTACACCACCACC
402838 AGCTCCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.59, G:0.03, T:0.08
Consensus pattern (30 bp):
ACACCAACTCCACCACCTACACCACCACCG
Found at i:402865 original size:66 final size:66
Alignment explanation
Indices: 402764--402892 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
402754 ACATCCTCCT
* *
402764 CCACCACCAGCTCCAACACCACCTCCACCACCTACACCACCACCGACACCAACTCCACCTCCTGC
1 CCACCACCAGCTCCAACACCACCTCCACCACCTACACCACCACCCACACCAACTCCAACTCCTGC
402829 A
66 A
* ** * *
402830 CCACCACCAGCTCCAACACCACTTCCAGTATCTACACCACCACCCACACCGACTCCAACTCCT
1 CCACCACCAGCTCCAACACCACCTCCACCACCTACACCACCACCCACACCAACTCCAACTCCT
402893 CCTCCTGTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.29, C:0.55, G:0.05, T:0.12
Consensus pattern (66 bp):
CCACCACCAGCTCCAACACCACCTCCACCACCTACACCACCACCCACACCAACTCCAACTCCTGC
A
Found at i:402916 original size:30 final size:32
Alignment explanation
Indices: 402871--402930 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
402861 CTACACCACC
402871 ACCCACACCGACTCCA-AC-TCCTCCTCCTGT
1 ACCCACACCGACTCCACACGTCCTCCTCCTGT
402901 ACCCACACC-ACCTCCACCACGTCCTCCTCC
1 ACCCACACCGA-CTCCA-CACGTCCTCCTCC
402931 ACCACTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 1 0.04
30 14 0.54
32 2 0.08
33 9 0.35
ACGTcount: A:0.20, C:0.58, G:0.05, T:0.17
Consensus pattern (32 bp):
ACCCACACCGACTCCACACGTCCTCCTCCTGT
Found at i:402977 original size:15 final size:15
Alignment explanation
Indices: 402908--402977 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
402898 TGTACCCACA
402908 CCACCTCCACCACGT
1 CCACCTCCACCACGT
*
402923 CCTCCTCCACCAC-T
1 CCACCTCCACCACGT
* *
402937 GCCACCACCAGCACCACCT
1 -CCACC-TC--CACCACGT
402956 CCACCTCCACCACGT
1 CCACCTCCACCACGT
*
402971 CCGCCTC
1 CCACCTC
402978 GTCCACCGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 1 0.02
15 29 0.66
16 1 0.02
17 1 0.02
18 11 0.25
19 1 0.02
ACGTcount: A:0.19, C:0.61, G:0.07, T:0.13
Consensus pattern (15 bp):
CCACCTCCACCACGT
Found at i:402992 original size:48 final size:48
Alignment explanation
Indices: 402905--403012 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
402895 TCCTGTACCC
* * *
402905 ACACCACCTCCACCACGTCCTCCTCCACCACTGCCACCACCAGCACCA
1 ACACCACCTCCACCACGTCCGCCTCCACCACCGCCACCACCAACACCA
* * ** * *
402953 CCTCCACCTCCACCACGTCCGCCTCGTCCACCGCTACCACCAACCCCA
1 ACACCACCTCCACCACGTCCGCCTCCACCACCGCCACCACCAACACCA
403001 ACACCACCTCCA
1 ACACCACCTCCA
403013 GCACCTACAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.59, G:0.06, T:0.11
Consensus pattern (48 bp):
ACACCACCTCCACCACGTCCGCCTCCACCACCGCCACCACCAACACCA
Found at i:403175 original size:42 final size:42
Alignment explanation
Indices: 403129--403296 Score: 140
Period size: 42 Copynumber: 3.9 Consensus size: 42
403119 CTCCGCCAAC
* * **
403129 TCCACCCCCTACACCACCACCGGCTCCACCACTACCACCGAA
1 TCCACCACCGACACCACCACCAACTCCACCACTACCACCGAA
* ** * * * * *
403171 TCCACCACCGCCGGCACCTCCACCTCCAACAATACCACCAAA
1 TCCACCACCGACACCACCACCAACTCCACCACTACCACCGAA
* * * *
403213 TCCACCATCGCCACCTCCACCAACTCCATCACTACCACCGAA
1 TCCACCACCGACACCACCACCAACTCCACCACTACCACCGAA
*
403255 CCCACCACC-ACTACCACCTCCACCAACTCCACCACTACCACC
1 TCCACCACCGAC-ACCA---CCACCAACTCCACCACTACCACC
403297 TCCACCGCTA
Statistics
Matches: 97, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
41 1 0.01
42 74 0.76
45 22 0.23
ACGTcount: A:0.29, C:0.56, G:0.05, T:0.11
Consensus pattern (42 bp):
TCCACCACCGACACCACCACCAACTCCACCACTACCACCGAA
Found at i:403250 original size:24 final size:24
Alignment explanation
Indices: 403205--403302 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
403195 TCCAACAATA
* *
403205 CCACCAAATCCACCA-TCGCCACCT
1 CCACCAACTCCACCACT-ACCACCT
*
403229 CCACCAACTCCATCACTACCACC-
1 CCACCAACTCCACCACTACCACCT
** *
403252 GAACC--CACCACCACTACCACCT
1 CCACCAACTCCACCACTACCACCT
403274 CCACCAACTCCACCACTACCACCT
1 CCACCAACTCCACCACTACCACCT
403298 CCACC
1 CCACC
403303 GCTACCACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
21 14 0.23
22 3 0.05
23 3 0.05
24 39 0.65
25 1 0.02
ACGTcount: A:0.30, C:0.57, G:0.02, T:0.11
Consensus pattern (24 bp):
CCACCAACTCCACCACTACCACCT
Found at i:403277 original size:15 final size:15
Alignment explanation
Indices: 403259--403311 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
403249 ACCGAACCCA
403259 CCACCACTACCACCT
1 CCACCACTACCACCT
403274 CCA-C-C-A--A-CT
1 CCACCACTACCACCT
403283 CCACCACTACCACCT
1 CCACCACTACCACCT
*
403298 CCACCGCTACCACC
1 CCACCACTACCACC
403312 AAACCCACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
9 5 0.16
10 2 0.06
11 1 0.03
12 2 0.06
13 1 0.03
14 2 0.06
15 18 0.58
ACGTcount: A:0.26, C:0.60, G:0.02, T:0.11
Consensus pattern (15 bp):
CCACCACTACCACCT
Found at i:412580 original size:125 final size:125
Alignment explanation
Indices: 412411--412652 Score: 382
Period size: 125 Copynumber: 1.9 Consensus size: 125
412401 ATGAAAGTTA
*
412411 AAATATTTGAGAGTTATTTTAAATAGATCAAAATAAATAACGACTCAAATAATTTAAATTCGAAT
1 AAATATTTGAGAGTTATTTGAAATAGATCAAAATAAATAACGACTCAAATAATTTAAATTCG-AT
*
412476 -AAAGTTCAATCGAGTTTTAATTT-TAAGATAATTAGAATTATA-TTTTGAATAGAGAGGTG
65 GAAAGTTCAATCGAGTTTTAATTTCAAAG-TAATTAGAATTATATTTTTGAATAGAGAGGTG
* *
412535 AAATGTTTGAGAGTTATTTGAAATCGATCAAAAATAAATAACGACTCAAATAATTTAAATTCGAT
1 AAATATTTGAGAGTTATTTGAAATAGATC-AAAATAAATAACGACTCAAATAATTTAAATTCGAT
* *
412600 GAGAGTTCAATCGAGTTTTAGTTTCAAAGTAATTAGAATTATATTTTTGAATA
65 GAAAGTTCAATCGAGTTTTAATTTCAAAGTAATTAGAATTATATTTTTGAATA
412653 ATTAGATGTG
Statistics
Matches: 108, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
124 28 0.26
125 68 0.63
126 12 0.11
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (125 bp):
AAATATTTGAGAGTTATTTGAAATAGATCAAAATAAATAACGACTCAAATAATTTAAATTCGATG
AAAGTTCAATCGAGTTTTAATTTCAAAGTAATTAGAATTATATTTTTGAATAGAGAGGTG
Found at i:418258 original size:21 final size:21
Alignment explanation
Indices: 418225--418274 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
418215 AACCCCCGAT
* *
418225 TCACCAGATGCCGGTGAAGAA
1 TCACCCGACGCCGGTGAAGAA
418246 TCACCCGACGCCGGTGAAGAA
1 TCACCCGACGCCGGTGAAGAA
418267 TCACCCGA
1 TCACCCGA
418275 ATCACCGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (21 bp):
TCACCCGACGCCGGTGAAGAA
Found at i:428807 original size:21 final size:21
Alignment explanation
Indices: 428783--428871 Score: 119
Period size: 21 Copynumber: 4.3 Consensus size: 21
428773 CATATTGGCA
*
428783 TTGCGATAGTACAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
428804 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
428825 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
428844 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
428865 TTGCGAT
1 TTGCGAT
428872 TTTGGAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.28
21 41 0.72
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:428847 original size:19 final size:20
Alignment explanation
Indices: 428823--428874 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
428813 TCGAAGTTCG
428823 CGTTGCGATTTTCCAAATT-
1 CGTTGCGATTTTCCAAATTC
** *
428842 CGTTGCGATAGTCCAAGTTC
1 CGTTGCGATTTTCCAAATTC
428862 GCGTTGCGATTTT
1 -CGTTGCGATTTT
428875 GGAATAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.62
21 10 0.38
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCCAAATTC
Found at i:428908 original size:21 final size:21
Alignment explanation
Indices: 428882--429039 Score: 139
Period size: 21 Copynumber: 7.6 Consensus size: 21
428872 TTTGGAATAA
428882 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
428903 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
428922 AAATCGTAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* *
428945 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
428964 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* **
428987 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* *
429006 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
429027 ATCGCAATGCGAA
1 ATCGCAACGCGAA
429040 TATGTAAATC
Statistics
Matches: 108, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
19 36 0.33
21 52 0.48
23 20 0.19
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:429040 original size:42 final size:42
Alignment explanation
Indices: 428872--429033 Score: 265
Period size: 42 Copynumber: 3.9 Consensus size: 42
428862 GCGTTGCGAT
*
428872 TTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* * *
428914 CTTGGAATAAATCGTAACGCGAACTTGGACTATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
428956 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
428998 TTTGG-A-AAATCGCAACACGAACTTCGACTATCGCAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
429034 TGCGAATATG
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 29 0.25
41 1 0.01
42 84 0.74
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
Found at i:449503 original size:59 final size:59
Alignment explanation
Indices: 449411--449528 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
449401 ACCCATTGAT
449411 TAGTAAGTTTGATCCTCCGTAACATAATGCAATATTTGAGGTCCCTTTGATGTATCTTA
1 TAGTAAGTTTGATCCTCCGTAACATAATGCAATATTTGAGGTCCCTTTGATGTATCTTA
449470 TAGTAAGTTTGATCCTCCGTAACATAATGCAATATTTGAGGTCCCTTTGATGTATCTTA
1 TAGTAAGTTTGATCCTCCGTAACATAATGCAATATTTGAGGTCCCTTTGATGTATCTTA
449529 GGATCCTCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (59 bp):
TAGTAAGTTTGATCCTCCGTAACATAATGCAATATTTGAGGTCCCTTTGATGTATCTTA
Found at i:457573 original size:7 final size:7
Alignment explanation
Indices: 457541--457570 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
457531 GGATGTAGTA
457541 AATTAAT
1 AATTAAT
457548 AATTAAT
1 AATTAAT
457555 AATTAAT
1 AATTAAT
457562 AATTTAAT
1 AA-TTAAT
457570 A
1 A
457571 TTTTCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTAAT
Found at i:460454 original size:31 final size:32
Alignment explanation
Indices: 460412--460474 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
460402 TTTAAAAAAA
* *
460412 TTTATTATGATCGTTAAT-ATTAACTTTCGTT
1 TTTATTATGATCATTAATAATTAAATTTCGTT
* *
460443 TTTATTTTGATCATTTATAATTAAATTTCGTT
1 TTTATTATGATCATTAATAATTAAATTTCGTT
460475 GGTGTCCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTATTATGATCATTAATAATTAAATTTCGTT
Found at i:462774 original size:16 final size:16
Alignment explanation
Indices: 462755--462788 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
462745 TGTAACATAT
*
462755 TAAATATTTTTTTATA
1 TAAATATTTTGTTATA
462771 TAAATATTTTGTTATA
1 TAAATATTTTGTTATA
462787 TA
1 TA
462789 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAAATATTTTGTTATA
Found at i:463011 original size:60 final size:60
Alignment explanation
Indices: 462911--463028 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
462901 CATATGTTCC
* * * * *
462911 CAAACTATGACTTTTATTTTAAATTGATCCCTAAACTTTTGAATATTTTAATTTCATCAT
1 CAAACTATGACTTTTATTCTAAATTGATCACTAAAATTTTGAACATTCTAATTTCATCAT
* * *
462971 CAAACTATGTCTTTTGTTCTAAATT-AGTCATTAAAATTTTGAACATTCTAATTTCATC
1 CAAACTATGACTTTTATTCTAAATTGA-TCACTAAAATTTTGAACATTCTAATTTCATC
463029 CCTAAACTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (60 bp):
CAAACTATGACTTTTATTCTAAATTGATCACTAAAATTTTGAACATTCTAATTTCATCAT
Found at i:463300 original size:60 final size:60
Alignment explanation
Indices: 463189--463347 Score: 164
Period size: 60 Copynumber: 2.6 Consensus size: 60
463179 ATATATACAT
* * * * * *
463189 ATAATTT-GGGATGAAATTGGAATGTTCAAAAAAATTT-AGATACCAATTTAGAATGA-AGGTC
1 ATAATTTAGGGATGAAATTAGAATATT--TAAAAATTTAAG-GACTAATTTAGAATCATA-GTC
*
463250 ATAGTTTAGGGATGAAATT-GAAATATTTAAAAATTTAAGGACTAATTTAGAATCATAGTC
1 ATAATTTAGGGATGAAATTAG-AATATTTAAAAATTTAAGGACTAATTTAGAATCATAGTC
* *
463310 ATAATTTAGGTATGTAATTAGAATATTTAAAAATTTAA
1 ATAATTTAGGGATGAAATTAGAATATTTAAAAATTTAA
463348 AAATCAATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
60 57 0.68
61 11 0.13
62 16 0.19
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.35
Consensus pattern (60 bp):
ATAATTTAGGGATGAAATTAGAATATTTAAAAATTTAAGGACTAATTTAGAATCATAGTC
Found at i:469168 original size:60 final size:60
Alignment explanation
Indices: 469013--469169 Score: 160
Period size: 60 Copynumber: 2.6 Consensus size: 60
469003 CATATGTCCT
* * * *
469013 CAAACTATGACCTTCATTTTAAATTATTCCCTAATCTTTTAAATGTTCCAATTTCATCCC
1 CAAACTATGACCTTCATTCTAAATTAGTCCCCAAACTTTTAAATGTTCCAATTTCATCCC
* ** * * *
469073 TAAGTTATGA-ATACGATTCTAAATTAGTCCTCAAACTTTTGAACAT-TT-CAATTTCATCCC
1 CAAACTATGACCTTC-ATTCTAAATTAGTCCCCAAACTTTT-AA-ATGTTCCAATTTCATCCC
469133 CAAACTATGACCTTCATTCTAAATT-GATCCCCAAACT
1 CAAACTATGACCTTCATTCTAAATTAG-TCCCCAAACT
469170 ATTTTGATCA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
59 3 0.04
60 65 0.86
61 6 0.08
62 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (60 bp):
CAAACTATGACCTTCATTCTAAATTAGTCCCCAAACTTTTAAATGTTCCAATTTCATCCC
Found at i:476673 original size:19 final size:19
Alignment explanation
Indices: 476649--476685 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
476639 TAGTTTGCGG
476649 TTATAATTGTAAATTTTTA
1 TTATAATTGTAAATTTTTA
* *
476668 TTATAATTTTAGATTTTT
1 TTATAATTGTAAATTTTT
476686 TAATAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATAATTGTAAATTTTTA
Found at i:488608 original size:41 final size:41
Alignment explanation
Indices: 488534--488639 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
488524 GTTTCAAAAG
*
488534 TCACAAATTGATCGTTAACGTTATCTTGAGTTACAAACTGA
1 TCACAAATTGATCATTAACGTTATCTTGAGTTACAAACTGA
* *
488575 TCACAAATT-AGTCATTAACGTTATCATT-TGTTACAAA-TTA
1 TCACAAATTGA-TCATTAACGTTATC-TTGAGTTACAAACTGA
* * *
488615 GTCACAAATCGATCACTAATGTTAT
1 -TCACAAATTGATCATTAACGTTAT
488640 TATTTGTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
40 3 0.05
41 49 0.89
42 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (41 bp):
TCACAAATTGATCATTAACGTTATCTTGAGTTACAAACTGA
Found at i:493623 original size:21 final size:20
Alignment explanation
Indices: 493583--493624 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
493573 CCAACTTACA
*
493583 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
493603 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
493624 A
1 A
493625 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:493654 original size:20 final size:20
Alignment explanation
Indices: 493626--493663 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
493616 CTATTATTAG
493626 TTGTATGACAACTAATAACT
1 TTGTATGACAACTAATAACT
*
493646 TTGTTTGACAACTAATAA
1 TTGTATGACAACTAATAA
493664 ATTATACAAA
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:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TTGTATGACAACTAATAACT
Found at i:499363 original size:20 final size:24
Alignment explanation
Indices: 499300--499356 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
499290 TTCTCCACTA
*
499300 TTCTTTATAACTATCGTTGATTGC
1 TTCTTTATAACTATCATTGATTGC
499324 TTCTTTATAACTATCATTGATTGC
1 TTCTTTATAACTATCATTGATTGC
499348 TTCTTTATA
1 TTCTTTATA
499357 TCTTTGAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.53
Consensus pattern (24 bp):
TTCTTTATAACTATCATTGATTGC
Found at i:502529 original size:916 final size:916
Alignment explanation
Indices: 500754--503464 Score: 4604
Period size: 916 Copynumber: 3.0 Consensus size: 916
500744 AGATCAAAGA
500754 GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAACATGCACAAA
1 GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAACATGCACAAA
* *
500819 TCAAAGCCGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGCTCGAAGCAGTGTCCCACAAG
66 TCAAAGACGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
*
500884 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGGCAGTCTCATGTATG
131 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
* *
500949 CAATGATATGCAGAAGACTAGATATCACCTATGCTGTAACACCCCTAACTCATATTCGACCCGAA
196 CAATGATATGCAGAAGACCAGATATCGCCTATGCTGTAACACCCCTAACTCATATTCGACCCGAA
* * * *
501014 TACAAGTCTGATATATCACATTGACTTTTCAAACTTTGATTCTTAAAGTAAAATCTTGGGAATTT
261 TACAAGTCCGAGATGTCACATTGACTTTTCAAACTTTGATTCTTAAAGTAAAATCTCGGGAATTT
*
501079 AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCATTTAATACAAAATCGATC
326 AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCACTTAATACAAAATCGATC
*
501144 AGAACATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAATACATACTTTG
391 AGAGCATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAATAC-TACTTTG
*
501209 TCAATTACTTCTGATCTAATTTCTTAGTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTC
455 TCAATTACTTCTGATCTGATTTCTTAGTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTC
501274 TTATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAA
520 TTATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAA
501339 TGAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATG
585 TGAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATG
501404 CATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTA
650 CATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTA
*
501469 CCACTTTCACTTTACTTTGTATTTCAATTGCCCATGAATATTATTGAGAATAGAGGTATGTGAGT
715 CCACTTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATGTGAGT
*
501534 ACATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGGGCACCGAAC
780 ACATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGAGCACCGAAC
*
501599 CTTAGTTCAGTATTCGTCCCGAAAGACTGTCATATATGTCCCGTAGGACCACTACAT-CCGAAGG
845 CTTAGTTCAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAGG
501663 ACTACGT
910 ACTACGT
*
501670 GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAAAATGCACAAA
1 GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAACATGCACAAA
* * *
501735 TCAAAGTCGGTTAACACACTATTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
66 TCAAAGACGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
501800 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
131 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
* * * *
501865 CAATGATATGCAGAATACCAGATATCGCCTATGCTGTAATACCCCTAACTTATATTCGACTCGAA
196 CAATGATATGCAGAAGACCAGATATCGCCTATGCTGTAACACCCCTAACTCATATTCGACCCGAA
* *
501930 TACAAGTCCGAGATGTCATATTGACTTTTCAAACTTTAATTCTTAAAGTAAAATCTCGGGAATTT
261 TACAAGTCCGAGATGTCACATTGACTTTTCAAACTTTGATTCTTAAAGTAAAATCTCGGGAATTT
*
501995 AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCACTTAATACAAAATTGATC
326 AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCACTTAATACAAAATCGATC
502060 AGAGCATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAATATCTACTTTG
391 AGAGCATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAATA-CTACTTTG
*
502125 TCAATTACTTCTGATCTGATTTCTTATTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTC
455 TCAATTACTTCTGATCTGATTTCTTAGTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTC
502190 TTATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAA
520 TTATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAA
*
502255 TGAATATGCAACAATATCTTTATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATG
585 TGAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATG
502320 CATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTA
650 CATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTA
* *
502385 TCACCTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATGTGAGT
715 CCACTTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATGTGAGT
502450 ACATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGAGCACCGAAC
780 ACATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGAGCACCGAAC
*
502515 CTTAGTTTAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAGG
845 CTTAGTTCAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAGG
502580 ACTACGT
910 ACTACGT
* *
502587 GACTGTTATGGTTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTTAACATGCACAAA
1 GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAACATGCACAAA
502652 TCAAAGACGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
66 TCAAAGACGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
502717 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
131 TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
** *
502782 CAATGATATATAGAAGACCAGATATCGCCTATGCTGTAACA-CCCTAACTCAAATTCGACCCGAA
196 CAATGATATGCAGAAGACCAGATATCGCCTATGCTGTAACACCCCTAACTCATATTCGACCCGAA
* * * *
502846 TACAAGCCCAAGATGTCACATTGGCTTTTCAAACTTTGATTCTTAAAGTAAAATCCCGGGAATTT
261 TACAAGTCCGAGATGTCACATTGACTTTTCAAACTTTGATTCTTAAAGTAAAATCTCGGGAATTT
* *
502911 AAAACTTTCATTAAAACAAAATAATTTAATTTACATAAAAAAGACCACTTAATACAAAATCGATC
326 AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCACTTAATACAAAATCGATC
502976 AGAGCATTCG----T-A-C-C--ATT---T-------C-TT-T------C---ATGAC-A--TT-
391 AGAGCATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAAT-ACTACTTTG
*
503007 TC---TA-TTCTGATCTGATTTCTTAGTAATGTTGTTGTCCGTGCCACTTCTATTCTGAATCTTC
455 TCAATTACTTCTGATCTGATTTCTTAGTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTC
* * *
503068 TTATTTTTTGGTACCTACGTGTAAATCACTTACACGTTAAGTCATAGACTTAGCGAGGCAATAAA
520 TTATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAA
* *
503133 TGAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCTTTCATGACATTTTAATATG
585 TGAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATG
* * *
503198 CATGTATTTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACTTTTTTGTA
650 CATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTA
*
503263 CCACTTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATTTGAGT
715 CCACTTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATGTGAGT
** *
503328 ACATTGAGGTTGTGCACTAATGTTGTCACCACAGCTCGTATCAATTCCCTCAT-GAGGTACCGAA
780 ACATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGA-GCACCGAA
503392 CCTTAGTTCAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAG
844 CCTTAGTTCAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAG
503457 GACTACGT
909 GACTACGT
503465 CCCGAAAGAC
Statistics
Matches: 1721, Mismatches: 70, Indels: 46
0.94 0.04 0.03
Matches are distributed among these distances:
877 2 0.00
878 433 0.25
879 2 0.00
882 2 0.00
883 2 0.00
885 1 0.00
886 3 0.00
887 1 0.00
889 1 0.00
895 1 0.00
896 2 0.00
897 1 0.00
904 1 0.00
907 3 0.00
909 1 0.00
910 1 0.00
911 1 0.00
912 1 0.00
916 1021 0.59
917 241 0.14
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (916 bp):
GACTGTTATGGCTATCCCAAGAGAGATACATTGAGAAGGTGTTGGTAAGATTCAACATGCACAAA
TCAAAGACGGTTAACACACCACTTGTTGGACACTTCAAGCTGAGTTCGAAGCAGTGTCCCACAAG
TGAGAACGAAATGGAGGAAATAAAGAAAATTACATACTCATCTGTAGTAGACAGTCTCATGTATG
CAATGATATGCAGAAGACCAGATATCGCCTATGCTGTAACACCCCTAACTCATATTCGACCCGAA
TACAAGTCCGAGATGTCACATTGACTTTTCAAACTTTGATTCTTAAAGTAAAATCTCGGGAATTT
AAAACTTTCATTAAAACAAAATACTTTAATTTACATAAAAGAGACCACTTAATACAAAATCGATC
AGAGCATTCGTAATTAACCACTTATTACATACCAACACTTTATACACAACAAAATACTACTTTGT
CAATTACTTCTGATCTGATTTCTTAGTAATGTTGATGTCCGTGCCACTTCTATTCTGAATCTTCT
TATTTCTTGGTACCTACGTGTAAATCACTTACACGCTAAGTCATAGACTTAGTGAGGCAATAAAT
GAATATGCAACAATATCTTCATGAATATGCATTCTTACCATTTCCTTCATGACATTTCAATATGC
ATGTATCTATTACACAATAACATATATAATCATATCATGCATGTACAAAACTTACCTTCTTGTAC
CACTTTCACTTTACTTTGTATTTCAATTGCCCATGTATATTATTGAGAATAGAGGTATGTGAGTA
CATTGAGGTTGTGCACTAATACTGTCACCACAGCTCGTATCAATTCCCTCATGGAGCACCGAACC
TTAGTTCAGTATTCGTCCCGAAGGACTGTCATATATGTCCCGTAGGACCACTACATCCCGAAGGA
CTACGT
Found at i:503467 original size:15 final size:15
Alignment explanation
Indices: 503443--503476 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
503433 CCGTAGGACC
*
503443 ACTACATCCCGAAGG
1 ACTACATCCCGAAAG
*
503458 ACTACGTCCCGAAAG
1 ACTACATCCCGAAAG
503473 ACTA
1 ACTA
503477 TTATACCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAAG
Found at i:503632 original size:29 final size:29
Alignment explanation
Indices: 503563--503672 Score: 159
Period size: 29 Copynumber: 3.7 Consensus size: 29
503553 TCATATGTTT
*
503563 ATGTA-CTTATGTCATTTCTCTTGTGTGATC
1 ATGTAGCTCATGTCATTTCTC-T-TGTGATC
*
503593 ATGTAGTTCATGTCATTTCTCTTGTGATC
1 ATGTAGCTCATGTCATTTCTCTTGTGATC
*
503622 ATGTAGCTCATGTCATTTATCTTGTGATC
1 ATGTAGCTCATGTCATTTCTCTTGTGATC
503651 ATGTAGCTCATGTCATGTTCTC
1 ATGTAGCTCATGTCAT-TTCTC
503673 ATATCACATA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
29 50 0.68
30 10 0.14
31 13 0.18
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (29 bp):
ATGTAGCTCATGTCATTTCTCTTGTGATC
Found at i:503668 original size:14 final size:14
Alignment explanation
Indices: 503620--503668 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
503610 TCTCTTGTGA
503620 TCATGTAGCTCATG
1 TCATGTAGCTCATG
* * **
503634 TCATTTATCTTGTG
1 TCATGTAGCTCATG
503648 ATCATGTAGCTCATG
1 -TCATGTAGCTCATG
503663 TCATGT
1 TCATGT
503669 TCTCATATCA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (14 bp):
TCATGTAGCTCATG
Found at i:504264 original size:21 final size:21
Alignment explanation
Indices: 504238--504294 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
504228 TTTAACCTTG
504238 ATGCATCGATGCACTATGAAT
1 ATGCATCGATGCACTATGAAT
504259 ATGCATCGATGCACTATGAAT
1 ATGCATCGATGCACTATGAAT
504280 ATGCATCGATGCACT
1 ATGCATCGATGCACT
504295 CTGCCCAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGCATCGATGCACTATGAAT
Found at i:504897 original size:16 final size:17
Alignment explanation
Indices: 504876--504909 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
504866 TACTCTATTG
*
504876 TCCTTTC-ATTCCTTCT
1 TCCTTTCAATTCCATCT
504892 TCCTTTCAATTCCATCT
1 TCCTTTCAATTCCATCT
504909 T
1 T
504910 ACACAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (17 bp):
TCCTTTCAATTCCATCT
Found at i:505723 original size:20 final size:20
Alignment explanation
Indices: 505673--505723 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
505663 AGCTTTCTGA
**
505673 AGAAGTGTAGAGTTTTCTAG
1 AGAAGTGTAGAGTACTCTAG
* *
505693 A-ACATTTTAGAGTACTCTAG
1 AGA-AGTGTAGAGTACTCTAG
505713 AGAAGTGTAGA
1 AGAAGTGTAGA
505724 ACTCTCTAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (20 bp):
AGAAGTGTAGAGTACTCTAG
Found at i:507477 original size:2 final size:2
Alignment explanation
Indices: 507472--507544 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
507462 TATACTAGTT
507472 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
507514 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
507545 TACGAATAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:525574 original size:14 final size:14
Alignment explanation
Indices: 525555--525581 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
525545 ATTCCATACC
525555 AAAAGATTAAAATA
1 AAAAGATTAAAATA
525569 AAAAGATTAAAAT
1 AAAAGATTAAAAT
525582 TTAAACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAAGATTAAAATA
Found at i:526340 original size:15 final size:15
Alignment explanation
Indices: 526320--526351 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
526310 AACTCCTCAT
526320 CCTAGGTCCCTACAG
1 CCTAGGTCCCTACAG
526335 CCTAGGTCCCTACAG
1 CCTAGGTCCCTACAG
526350 CC
1 CC
526352 CTGTTAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (15 bp):
CCTAGGTCCCTACAG
Found at i:528109 original size:21 final size:19
Alignment explanation
Indices: 528083--528134 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
528073 TTTCATTTCG
*
528083 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATAGTCCA-AAT-T
**
528104 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
528123 CGTTGCGATAGT
1 CGTTGCGATAGT
528135 TAAAAAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:528221 original size:6 final size:6
Alignment explanation
Indices: 528210--528242 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
528200 GACACGTATT
528210 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
528243 CGAGACGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:528767 original size:6 final size:6
Alignment explanation
Indices: 528736--528775 Score: 52
Period size: 5 Copynumber: 7.3 Consensus size: 6
528726 CTCGTCTCGA
528736 GTCG-G GTCG-G GTCGT- GTCGT- GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
528776 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.58
6 14 0.42
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GTCGTG
Found at i:528990 original size:19 final size:19
Alignment explanation
Indices: 528966--529031 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
528956 AACGCGATTT
528966 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
528985 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
*
529007 TCGTAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
529026 TCGCAA
1 TCGCAA
529032 TGATAACTGT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 18 0.53
20 2 0.06
21 2 0.06
22 12 0.35
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:529027 original size:41 final size:41
Alignment explanation
Indices: 528966--529055 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
528956 AACGCGATTT
528966 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* * *
529007 TCGTAACGAATTTGGAAAATCGCAATGATAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
529048 TCGCAACG
1 TCGCAACG
529056 CGAACTGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:529051 original size:96 final size:96
Alignment explanation
Indices: 528852--529058 Score: 240
Period size: 96 Copynumber: 2.2 Consensus size: 96
528842 CTTTTTTTTT
* *
528852 AACTATCACAACG-AATTTTCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCA
1 AACTATCGCAACGCGATTTTCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCA
* * * *
528916 ACGCGATTTTCAACTATCACAACGCGAAATG
66 ACGCAATTTGCAACAATCACAACGAGAAATG
** * *
528947 AAAAATCGCAACGCGATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGTA
1 AACTATCGCAACGCGATTTTCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCA
* * * * *
529012 ACG-AATTTGGAA-AATCGCAATGATAACTG
66 ACGCAATTTGCAACAATCACAACGAGAAATG
529041 TAGACTATCGCAACGCGA
1 -A-ACTATCGCAACGCGA
529059 ACTGAAAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
94 11 0.12
95 17 0.18
96 64 0.70
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (96 bp):
AACTATCGCAACGCGATTTTCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCA
ACGCAATTTGCAACAATCACAACGAGAAATG
Found at i:529066 original size:41 final size:41
Alignment explanation
Indices: 528966--529074 Score: 139
Period size: 41 Copynumber: 2.6 Consensus size: 41
528956 AACGCGATTT
*
528966 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
* * * *
529007 TCGTAACGAATTTGGAAAATCGCAATGATAACTGTAGACTA
1 TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
*
529048 TCGCAACGCGAA-CTGAAAAATCGCAAC
1 TCGCAA--CGAATCTGGAAAATCGCAAC
529075 ACGAAATGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 43 0.73
42 12 0.20
43 4 0.07
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (41 bp):
TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:529072 original size:20 final size:20
Alignment explanation
Indices: 529047--529139 Score: 105
Period size: 20 Copynumber: 4.6 Consensus size: 20
529037 ACTGTAGACT
529047 ATCGCAACGCGAACTGAAAA
1 ATCGCAACGCGAACTGAAAA
* *
529067 ATCGCAACACGAAATGAAAA
1 ATCGCAACGCGAACTGAAAA
** * **
529087 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-ACTGAAAA
*
529108 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGAAAA
529128 ATCGCAACGCGA
1 ATCGCAACGCGA
529140 TTTTCAACTA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 43 0.74
21 15 0.26
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAACTGAAAA
Found at i:529129 original size:41 final size:41
Alignment explanation
Indices: 529067--529160 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
529057 GAACTGAAAA
*
529067 ATCGCAACACGAAATGAAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
* *
529108 ATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
529149 ATCGCAACGCGA
1 ATCGCAACGCGA
529161 TTTTCAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
Found at i:529148 original size:26 final size:21
Alignment explanation
Indices: 529087--529181 Score: 129
Period size: 21 Copynumber: 4.6 Consensus size: 21
529077 GAAATGAAAA
529087 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
529108 ATCGCAACGCGAACTGGAA-A
1 ATCGCAACGCGATTTTCAACT
529128 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
529149 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
529170 ATCGCAACGCGA
1 ATCGCAACGCGA
529182 AATGCAACGC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 15 0.24
21 47 0.76
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:529153 original size:62 final size:61
Alignment explanation
Indices: 529044--529182 Score: 197
Period size: 62 Copynumber: 2.3 Consensus size: 61
529034 ATAACTGTAG
*
529044 ACTATCGCAACGCGAACTGAAAAATCGCAACACGAAATGAAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGAAAAATCGCAACACGAAATCAAAAATCGCAACGCGATTTTCA
* * ** **
529105 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGAAAAATCGCAACACGA-AATCAAAAATCGCAACGCGATTTTCA
*
529167 ATTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
529183 ATGCAACGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
61 33 0.48
62 36 0.52
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.19
Consensus pattern (61 bp):
ACTATCGCAACGCGAACTGAAAAATCGCAACACGAAATCAAAAATCGCAACGCGATTTTCA
Found at i:529469 original size:21 final size:21
Alignment explanation
Indices: 529443--529499 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
529433 GCATTGCATT
529443 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
529464 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
529485 TCGCATTGCGATAGT
1 TCGCGTTGCGATAGT
529500 CTACAGTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:530681 original size:23 final size:22
Alignment explanation
Indices: 530616--530668 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
530606 GTCATTATAT
530616 TTAAAAATTTATAATGTAAACA
1 TTAAAAATTTATAATGTAAACA
530638 TTAAAAATTTATAATGTAAACA
1 TTAAAAATTTATAATGTAAACA
530660 TTAAAAATT
1 TTAAAAATT
530669 GAGTAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAAAAATTTATAATGTAAACA
Found at i:532648 original size:23 final size:23
Alignment explanation
Indices: 532620--532695 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
532610 ATTTTATTTA
*
532620 TGTTCGTTTATGTTCATTTATTG
1 TGTTCGTTTACGTTCATTTATTG
* *
532643 TGTTCGTTTACATTTATTCGT-TTG
1 TGTTCGTTTACGTTCATT--TATTG
*
532667 TGTTTGTTTACGTTCATTTATTG
1 TGTTCGTTTACGTTCATTTATTG
532690 TGTTCG
1 TGTTCG
532696 CTGATATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 1 0.02
23 23 0.53
24 18 0.42
25 1 0.02
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.59
Consensus pattern (23 bp):
TGTTCGTTTACGTTCATTTATTG
Found at i:534349 original size:12 final size:12
Alignment explanation
Indices: 534332--534367 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
534322 AGACAAAATG
534332 AAATAAGTTTAT
1 AAATAAGTTTAT
534344 AAATAAGTTTAT
1 AAATAAGTTTAT
534356 AAATAAGTTTAT
1 AAATAAGTTTAT
534368 CAGTATATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
AAATAAGTTTAT
Found at i:543335 original size:26 final size:26
Alignment explanation
Indices: 543280--543344 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
543270 AACTATAATA
* *
543280 AATAGTATTATTTATTATAAAAATTT
1 AATAATATTATTTATTATAAAAATTG
*
543306 AATATTATTATTT-TTA-AAAATATTAG
1 AATAATATTATTTATTATAAAA-ATT-G
543332 AATAAT-TTATTTA
1 AATAATATTATTTA
543345 ATATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.12
25 12 0.36
26 17 0.52
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
AATAATATTATTTATTATAAAAATTG
Found at i:543347 original size:12 final size:13
Alignment explanation
Indices: 543302--543379 Score: 60
Period size: 12 Copynumber: 6.3 Consensus size: 13
543292 TATTATAAAA
*
543302 ATTTAATATTATT
1 ATTTAATAATATT
*
543315 ATTTTTAAAAATATT
1 A--TTTAATAATATT
*
543330 A--GAATAAT-TT
1 ATTTAATAATATT
*
543340 ATTTAATATTATT
1 ATTTAATAATATT
543353 -TTTAATAATATT
1 ATTTAATAATATT
543365 A-TTAA-AATATT
1 ATTTAATAATATT
543376 ATTT
1 ATTT
543380 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
10 3 0.06
11 12 0.24
12 22 0.43
13 3 0.06
15 11 0.22
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (13 bp):
ATTTAATAATATT
Found at i:543396 original size:23 final size:26
Alignment explanation
Indices: 543332--543391 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
543322 AAAATATTAG
*
543332 AATAAT-TTATT-TAATATTATTTTT
1 AATAATATTATTAAAATATTATTTTT
543356 AATAATATTATTAAAATATTATTTTT
1 AATAATATTATTAAAATATTATTTTT
*
543382 AA-AATTTTAT
1 AATAATATTAT
543392 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 6 0.19
25 12 0.38
26 14 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AATAATATTATTAAAATATTATTTTT
Found at i:543462 original size:23 final size:22
Alignment explanation
Indices: 543431--543481 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
543421 ATTAAAATAA
*
543431 AAATATAATATCA-TATATTATT
1 AAATATAAT-TAAGTATATTATT
543453 ATAATATAATTAAGTATATTATT
1 A-AATATAATTAAGTATATTATT
543476 AAATAT
1 AAATAT
543482 TAAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATATAATTAAGTATATTATT
Found at i:543492 original size:22 final size:23
Alignment explanation
Indices: 543444--543513 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
543434 TATAATATCA
* *
543444 TATATTATTATAATA-TAATTAAG
1 TATATTATTATAATATTAA-AAAT
543467 TATATTATTA-AATATTAAAAAT
1 TATATTATTATAATATTAAAAAT
* *
543489 TATAATATTATACTATT-AAAAT
1 TATATTATTATAATATTAAAAAT
543511 TAT
1 TAT
543514 TAATAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 23 0.56
23 18 0.44
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
TATATTATTATAATATTAAAAAT
Found at i:543534 original size:53 final size:55
Alignment explanation
Indices: 543428--543545 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 55
543418 TCTATTAAAA
* * *
543428 TAAAAA-TATAATATCATATATTATTATAATATAATTAAGTATATTATTAAATA-T
1 TAAAAATTATAATAT-ATATACTATTAAAATATAATTAAATATATTATTAAATATT
543482 TAAAAATTATAATAT-TATACTATTAAAATTATTAA-TAAATATATT-TTAAATATT
1 TAAAAATTATAATATATATACTATTAAAA-TA-TAATTAAATATATTATTAAATATT
543536 TAAACAATTA
1 TAAA-AATTA
543546 ATTTTTTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
53 18 0.32
54 22 0.39
55 16 0.29
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (55 bp):
TAAAAATTATAATATATATACTATTAAAATATAATTAAATATATTATTAAATATT
Found at i:543872 original size:2 final size:2
Alignment explanation
Indices: 543865--543919 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
543855 TCCAAATAGG
543865 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
543907 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
543920 TTACAGAGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:553632 original size:24 final size:24
Alignment explanation
Indices: 553602--553658 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
553592 GCACAAAACC
553602 AGAAAAGCCAGAGTCAAAACAGGA
1 AGAAAAGCCAGAGTCAAAACAGGA
553626 AGAAAAGCCAGAGTCAAAACAGGA
1 AGAAAAGCCAGAGTCAAAACAGGA
553650 AGAAAAGCC
1 AGAAAAGCC
553659 TGACTATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.54, C:0.18, G:0.25, T:0.04
Consensus pattern (24 bp):
AGAAAAGCCAGAGTCAAAACAGGA
Found at i:553845 original size:153 final size:154
Alignment explanation
Indices: 553491--554162 Score: 897
Period size: 153 Copynumber: 4.3 Consensus size: 154
553481 AACCACAACC
* *
553491 AGAAAAGCCTGATTATGGCACTAAGCCAAACTCCTATAAACCACAGCCAGATCAAGAGAAAGAGA
1 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGATCAAGAGAAAGAGA
* * * ** * *
553556 AGCCAATGCCAGAAGAGACAGAAAATTCTGGTTATAGCACAAAACCAGA-AAAGCCAGAGTCAAA
66 AGCCAATGCCAGAAGAGACAGAAAAGTCTGGTTACAGCACAAAACCATATCTA-CCA-A-CCACA
*
553620 ACAGGAAGAAAAGCCAGAGTCAAAACAGGA
128 AC---CAGAAAAGCCAGAGTCAAAACAGGA
* * *
553650 AGAAAAGCCTGACTATGGCACCAAGCCAAATTACTATGAACCACAGCCAGATCAAGAGAAAGAGA
1 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGATCAAGAGAAAGAGA
* *
553715 AGCCAATTCCAGAAGAGACAGAAAAGTCTAGTTACAGCA-AGAAACCA-ATCTACCAACCACAAC
66 AGCCAATGCCAGAAGAGACAGAAAAGTCTGGTTACAGCACA-AAACCATATCTACCAACCACAAC
*
553778 CAGAAAAGCCAGAGTCAAAAGAGGA
130 CAGAAAAGCCAGAGTCAAAACAGGA
* * *
553803 AGAAAAGCCTGATTATGGCACCAAGTCAAACTCCTATAAACCACAACCAGATCAAGAGAAAGAGA
1 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGATCAAGAGAAAGAGA
* * * *
553868 AGCCACTGCCAGAAGAGACAGAGAAGTCTGGTTACAGCACAAAACCA-GTCTATCAACCACAACC
66 AGCCAATGCCAGAAGAGACAGAAAAGTCTGGTTACAGCACAAAACCATATCTACCAACCACAACC
* *
553932 AGAAAAGCCAGATTCAAAGCAGGA
131 AGAAAAGCCAGAGTCAAAACAGGA
* * * *
553956 AGAAAAACCTGACTATGGAACCAAGCCAAATTACTATAAACCACAGCCA-AGTCAAGAGAAAGAG
1 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGA-TCAAGAGAAAGAG
* * * *
554020 AAGCCAATTCCAGAAGAGACAGAAAATTCTGGTTATAGCACAAAACCAGTTTAT-TATCAACCAC
65 AAGCCAATGCCAGAAGAGACAGAAAAGTCTGGTTACAGCACAAAACCA---TATCTACCAACCAC
*
554084 AACCAGTAAAGCCAGAGTCAAAACAGGA
127 AACCAGAAAAGCCAGAGTCAAAACAGGA
554112 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGA
1 AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGA
554163 AGAGACTGAA
Statistics
Matches: 454, Mismatches: 50, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
152 1 0.00
153 257 0.57
154 1 0.00
156 85 0.19
157 3 0.01
158 5 0.01
159 102 0.22
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.13
Consensus pattern (154 bp):
AGAAAAGCCTGATTATGGCACCAAGCCAAACTACTATAAACCACAGCCAGATCAAGAGAAAGAGA
AGCCAATGCCAGAAGAGACAGAAAAGTCTGGTTACAGCACAAAACCATATCTACCAACCACAACC
AGAAAAGCCAGAGTCAAAACAGGA
Found at i:555133 original size:18 final size:18
Alignment explanation
Indices: 555110--555164 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
555100 TCATCATTTT
555110 ATAAATTTATTTTTTATG
1 ATAAATTTATTTTTTATG
555128 ATAAA-TTA---TTT-T-
1 ATAAATTTATTTTTTATG
555140 ATAAATTTATTTTTTATG
1 ATAAATTTATTTTTTATG
555158 ATAAATT
1 ATAAATT
555165 ATTACTGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 5 0.16
13 4 0.13
14 3 0.10
16 3 0.10
17 4 0.13
18 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATAAATTTATTTTTTATG
Found at i:555138 original size:17 final size:17
Alignment explanation
Indices: 555110--555167 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 17
555100 TCATCATTTT
555110 ATAAATTTATTTTTTATG
1 ATAAA-TTATTTTTTATG
555128 ATAAATTA--TTTTAT-
1 ATAAATTATTTTTTATG
*
555142 A-AATTTATTTTTTATG
1 ATAAATTATTTTTTATG
555158 ATAAATTATT
1 ATAAATTATT
555168 ACTGTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 12 0.35
16 1 0.03
17 10 0.29
18 5 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATAAATTATTTTTTATG
Found at i:555141 original size:30 final size:30
Alignment explanation
Indices: 555105--555167 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
555095 ATTACTCATC
555105 ATTTTATAAATTTATTTTTTATGATAAATT
1 ATTTTATAAATTTATTTTTTATGATAAATT
555135 ATTTTATAAATTTATTTTTTATGATAAATT
1 ATTTTATAAATTTATTTTTTATGATAAATT
555165 ATT
1 ATT
555168 ACTGTTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTTATAAATTTATTTTTTATGATAAATT
Found at i:572757 original size:5 final size:5
Alignment explanation
Indices: 572747--573195 Score: 566
Period size: 5 Copynumber: 89.0 Consensus size: 5
572737 GCCATTGACT
572747 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
572797 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTATA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA
572849 TATATA TATT- TATTA TATTA TA-TA TATTA TATTA TA-TA TATTA TATTA
1 TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
572897 TA-TA TATTA TATTA TATTA TATTA TATTA TATTA TATT- TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * *
572945 TTATATA TATTATA TATTA CATTA CAATA CATTA CATTA CATT- TAGTT-
1 -TAT-TA TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA
572993 TATTA -ATTA TATATA TTATTA TATTA TATTA TATTA TATTTA TATTA
1 TATTA TATTA TAT-TA -TATTA TATTA TATTA TATTA TA-TTA TATTA
*
573040 TATTA TATTA TATTATA TATTA TATTA TA-TC TATTA TATTA TA-TA TATTA
1 TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
573090 TATTA TTATTA TA-TA TATTA TATTA TATTA TA-TA TATTATA TATTA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA
*
573136 TATTA TATATA TATTA TA-TA TATTA TATTA TA-TA TATTA TATATA TATTG
1 TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA TATTA
573186 TATTA TATTA
1 TATTA TATTA
573196 CGCCATAATA
Statistics
Matches: 406, Mismatches: 8, Indels: 60
0.86 0.02 0.13
Matches are distributed among these distances:
4 50 0.12
5 293 0.72
6 40 0.10
7 23 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:574492 original size:2 final size:2
Alignment explanation
Indices: 574485--574518 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
574475 ATATTCTGAA
574485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
574519 TACTCGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:575087 original size:9 final size:9
Alignment explanation
Indices: 575073--575113 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
575063 TAAAAGGGAA
575073 AAATAAAAT
1 AAATAAAAT
575082 AAATAAAAT
1 AAATAAAAT
*
575091 AAATAAGAT
1 AAATAAAAT
* *
575100 AAAGAAAAA
1 AAATAAAAT
575109 AAATA
1 AAATA
575114 GTAAAGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (9 bp):
AAATAAAAT
Found at i:575560 original size:2 final size:2
Alignment explanation
Indices: 575553--575604 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
575543 TATTAAAGAA
*
575553 AT AT AT AT AT AT AT AT AG AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
575594 A- AT A- AT AT AT A
1 AT AT AT AT AT AT A
575605 ATAAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:575568 original size:23 final size:24
Alignment explanation
Indices: 575542--575604 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
575532 TATAAGTAGA
575542 ATATTAAAGA-AATATATATATAT
1 ATATTAAAGATAATATATATATAT
* * *
575565 ATA-TAGATATATTATATATATAT
1 ATATTAAAGATAATATATATATAT
*
575588 ATA-TATA-ATAATATATA
1 ATATTAAAGATAATATATA
575605 ATAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
ATATTAAAGATAATATATATATAT
Found at i:576052 original size:37 final size:36
Alignment explanation
Indices: 576008--576108 Score: 154
Period size: 34 Copynumber: 2.8 Consensus size: 36
575998 CTTAGTAGAA
576008 CTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT
1 CTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT-T
576046 -TATCCTATTTTTAGGAGTTTGAATCCT--AAAATT
1 CTATCCTATTTTTAGGAGTTTGAATCCTAGAAAATT
*
576079 CTATCATATTTTTAGGAGTTTGAATCCTAG
1 CTATCCTATTTTTAGGAGTTTGAATCCTAG
576109 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
33 1 0.02
34 31 0.53
37 27 0.46
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (36 bp):
CTATCCTATTTTTAGGAGTTTGAATCCTAGAAAATT
Found at i:577162 original size:105 final size:105
Alignment explanation
Indices: 576653--577716 Score: 1480
Period size: 105 Copynumber: 10.3 Consensus size: 105
576643 CATTGTTCCA
* * **
576653 AGTCCAATATCCTCCGTCGTGAAGTTTGAAATTGGCTCTG-GAACCGGGAAA-TTGTT-TGTGAC
1 AGTCCAATATCCTTCGTTGTGAAG-TTGAAATTGGCTCTGAG-A-TTGGAAAGTTGTTGT-TGAC
* * * * *
576715 AACCAGCCGTCCCCTTCGTTGTGAAGTTGAACTTGTG-TGTCTCG
62 AAGCAGCGGT-CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
576759 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T-GAAA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
576819 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
576859 AGTCCAATAT-TTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
*
576923 AGCGGT-CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
576962 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA----TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
577020 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
577060 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
* * *
577125 AGCGGTTCCTTCTTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
577165 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
*
577225 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
577265 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
* *
577330 AGTGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
577370 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTG-TGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
577434 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
577473 AGTCCAATATCCTTCGCTGTGAAGTTGAAA-TGGCTCTGAAATTGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTG-TTGTTGACAAG
577537 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
577578 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGA-AAGTTG-TTGTTGACAA
* * * * *
577642 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
577684 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAA
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAA
577717 ATCGCGGATG
Statistics
Matches: 877, Mismatches: 51, Indels: 57
0.89 0.05 0.06
Matches are distributed among these distances:
97 17 0.02
98 71 0.08
99 50 0.06
100 121 0.14
101 18 0.02
102 28 0.03
103 82 0.09
104 136 0.16
105 239 0.27
106 91 0.10
107 3 0.00
109 21 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:577265 original size:205 final size:205
Alignment explanation
Indices: 576653--577716 Score: 1531
Period size: 205 Copynumber: 5.1 Consensus size: 205
576643 CATTGTTCCA
* * **
576653 AGTCCAATATCCTCCGTCGTGAAGTTTGAAATTGGCTCTG-GAACCGGGAAA-TTGTT-TGTGAC
1 AGTCCAATATCCTTCGTTGTGAAG-TTGAAATTGGCTCTGAG-A-TTGGAAAGTTGTTGT-TGAC
* * *
576715 AACCAGCCGTCCCCTTCGTTGTGAAGTTGAACTTG--TGTGTCTCGAGTCCAATATCCTTCGTTG
62 AACCAGCGGT-CCCTTCGTCGTGAAGTTGAACTTGCAT-TGTCTGGAGTCCAATATCCTTCGTTG
**
576778 TGAAGTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
125 TGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
576843 AACTTGCGTTGTCTGG
190 AACTTGCGTTGTCTGG
* * * *
576859 AGTCCAATAT-TTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
*
576923 AGCGGT-CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
576987 TGAAATTGGCTCTGAATGAAA--TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
577050 CGTTGTCTGG
196 CGTTGTCTGG
*
577060 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
* * *
577125 AGCGGTTCCTTCTTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
577190 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
*
577255 CATTGTCTGG
196 CGTTGTCTGG
*
577265 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
*
577330 AGTGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
577395 TGAAATTGGCTCTGAGATTGGGAAGTTGTTG-TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
577459 ACTTGCGTTGTCT-G
191 ACTTGCGTTGTCTGG
* * * *
577473 AGTCCAATATCCTTCGCTGTGAAGTTGAAA-TGGCTCTGAAATTGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTG-TTGTTGACAAC
*
577537 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * *
577602 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
130 TTGAAATTGGCTCTG-AA-TGA-AA--T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
* *
577667 GAACTTGTGTTGTCTCG
189 GAACTTGCGTTGTCTGG
* * *
577684 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAA
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAA
577717 ATCGCGGATG
Statistics
Matches: 792, Mismatches: 41, Indels: 42
0.91 0.05 0.05
Matches are distributed among these distances:
201 62 0.08
202 78 0.10
203 131 0.17
204 34 0.04
205 204 0.26
206 13 0.02
207 22 0.03
208 120 0.15
209 54 0.07
210 47 0.06
211 4 0.01
212 3 0.00
214 20 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:578418 original size:68 final size:64
Alignment explanation
Indices: 578318--578474 Score: 199
Period size: 67 Copynumber: 2.4 Consensus size: 64
578308 AAGATATCTG
* * **
578318 TTGTTTCATGAGAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGG-AAATAAATTTGAAGAT
1 TTGTTTCAAGAGAACTGTCTCAAGGGAAACAAAATT-TGTTTT-AGGGAAAATAAATTCAAAGA-
578382 TT
63 TT
*
578384 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGAAAATAAATTCAAAGAT
1 T-TGTTTCAAGAG-AACTGTCTCAAGGGAAACAAAATTTGTTTTAGGGAAAATAAATTCAAAGAT
578449 T
64 T
*
578450 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAG-AACTGTCTCAAG
578475 ATAGACGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
65 22 0.27
66 8 0.10
67 29 0.36
68 22 0.27
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (64 bp):
TTGTTTCAAGAGAACTGTCTCAAGGGAAACAAAATTTGTTTTAGGGAAAATAAATTCAAAGATT
Found at i:578437 original size:67 final size:64
Alignment explanation
Indices: 578318--578500 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 64
578308 AAGATATCTG
* * * **
578318 TTGTTTCATGAGAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGATT
1 TTGTTTCAAGAGAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-T
578383 T
64 T
578384 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTT-AGGGAAAATAAATTCAAAGA
1 T-TGTTTCAAGAG-AACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGG-AAATAAATTCAAAGA
578448 TT
63 TT
* ** * *
578450 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TTGTTTCAAGAG-AACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
578501 CTGTCTCAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
65 35 0.35
66 15 0.15
67 29 0.29
68 22 0.22
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (64 bp):
TTGTTTCAAGAGAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:578501 original size:36 final size:35
Alignment explanation
Indices: 578450--578727 Score: 241
Period size: 36 Copynumber: 8.0 Consensus size: 35
578440 TTCAAAGATT
* *
578450 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
578486 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *** *
578521 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGCAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGA-CAAAA
* * **
578559 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
578588 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
578623 TTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
578659 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
578694 TTGTTTCAAG-GGAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
578728 CTCTTCTAGT
Statistics
Matches: 199, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 23 0.12
35 50 0.25
36 74 0.37
37 28 0.14
38 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:578561 original size:138 final size:136
Alignment explanation
Indices: 578431--578683 Score: 389
Period size: 138 Copynumber: 1.8 Consensus size: 136
578421 TTGTTTTAGG
* * *
578431 GAAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAATTGTTTCAAG
1 GAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTATTTCAAG
578496 AGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGCATTT
65 AGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGCATTT
578561 GTTTCAAA
129 GTTTCAAA
* * *
578569 GAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGG
1 GAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGA
* * * * *
578634 GAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAG
66 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAG
578684 AGAGACAAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
136 23 0.22
137 35 0.34
138 46 0.44
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (136 bp):
GAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGA
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGCATTTGT
TTCAAA
Found at i:578637 original size:35 final size:35
Alignment explanation
Indices: 578588--578727 Score: 219
Period size: 35 Copynumber: 4.0 Consensus size: 35
578578 TTCAAATATT
578588 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
578623 TTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAA
* *
578659 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
578694 TTGTTTCAAGGG-AACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
578728 CTCTTCTAGT
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
34 21 0.22
35 44 0.46
36 31 0.32
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (35 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:578674 original size:71 final size:70
Alignment explanation
Indices: 578587--578723 Score: 229
Period size: 71 Copynumber: 1.9 Consensus size: 70
578577 ATTCAAATAT
* *
578587 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAAACTGTCTCAAGATAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGG-AACTGTCTCAAGAGAG
578652 ACGAAA
65 ACGAAA
* *
578658 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAACTGTCTCAAGAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAACTGTCTCAAGAGAGA
578723 C
66 C
578724 AAAACTCTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 17 0.27
71 45 0.73
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (70 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAACTGTCTCAAGAGAGA
CGAAA
Found at i:578750 original size:105 final size:105
Alignment explanation
Indices: 578450--578778 Score: 270
Period size: 105 Copynumber: 3.1 Consensus size: 105
578440 TTCAAAGATT
* * * *
578450 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAATTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* * * * ***
578515 ACAAAACTTAGTTCCAA-AAGAAACTGTCTCAAGGGAAATGGCAT-
64 ACAAAAC-TACTT-CAAGGA-AAACTGTCTCAAGAGAGA-CAAATC
* * *
578559 TTGTTTCAAAGAAAACATAT-TC---A-A-A-TATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTC-AAGAAAAC-TGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* * * *
578617 ACAAAATTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT-
64 ACAAAACTACTTCAAGGAAAACTGTCTCAAGAGAGAC-AAATC
578659 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGG-AACTGTCTCAAGAGAGA
1 TTGTTTCAAGA-AAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
578723 CAAAACT-CTTCTAGTGAAAAC-GATCTCAAGCGAGACAAATC
65 CAAAACTACTTCAAG-GAAAACTG-TCTCAAGAGAGACAAATC
*
578764 TTGTTTTAAGAAAAC
1 TTGTTTCAAGAAAAC
578779 AATCATGAGT
Statistics
Matches: 179, Mismatches: 26, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
99 6 0.03
100 33 0.18
101 4 0.02
102 35 0.20
103 1 0.01
104 16 0.09
105 51 0.28
106 15 0.08
109 14 0.08
110 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (105 bp):
TTGTTTCAAGAAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
AAAACTACTTCAAGGAAAACTGTCTCAAGAGAGACAAATC
Found at i:579222 original size:17 final size:18
Alignment explanation
Indices: 579196--579230 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
579186 TGTTGAATCC
*
579196 CCAAAGATGCCTCAATAT
1 CCAAAGATGCCCCAATAT
579214 CCAAA-ATGCCCCAATAT
1 CCAAAGATGCCCCAATAT
579231 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (18 bp):
CCAAAGATGCCCCAATAT
Found at i:579618 original size:22 final size:22
Alignment explanation
Indices: 579593--579642 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
579583 TGTGTTTGGC
*
579593 CAAAGGTTTGGCATTTGATTCT
1 CAAAGGTTTGGCATTTGATGCT
*
579615 CAAAGGTTTGGTATTTGATGCT
1 CAAAGGTTTGGCATTTGATGCT
579637 CAAAGG
1 CAAAGG
579643 ATTGATGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (22 bp):
CAAAGGTTTGGCATTTGATGCT
Found at i:580307 original size:23 final size:21
Alignment explanation
Indices: 580261--580307 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
580251 CCCTTTTTTA
*
580261 TTTTTGTTCTTGTTTTTTCCT
1 TTTTTGTTCTTCTTTTTTCCT
580282 TTTTTGCTTCTTTCTTTTTT-CT
1 TTTTTG-TTC-TTCTTTTTTCCT
580304 TTTT
1 TTTT
580308 GCCCTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 9 0.39
23 8 0.35
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (21 bp):
TTTTTGTTCTTCTTTTTTCCT
Found at i:584455 original size:18 final size:17
Alignment explanation
Indices: 584427--584471 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
584417 ATATATATAT
*
584427 AATATAATAATAATAATA
1 AATA-AATAATAAAAATA
584445 ACATAAATAATAAAAATA
1 A-ATAAATAATAAAAATA
584463 AATAAATAA
1 AATAAATAA
584472 AATCTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATAATAAAAATA
Found at i:584456 original size:21 final size:21
Alignment explanation
Indices: 584425--584472 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
584415 ATATATATAT
*
584425 ATAATATAATAATAAT-AATAA
1 ATAA-ATAATAAAAATAAATAA
584446 CATAAATAATAAAAATAAATAA
1 -ATAAATAATAAAAATAAATAA
584468 ATAAA
1 ATAAA
584473 ATCTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATAATAAAAATAAATAA
Found at i:584922 original size:31 final size:35
Alignment explanation
Indices: 584849--584942 Score: 117
Period size: 31 Copynumber: 2.7 Consensus size: 35
584839 TCTTAGTAGA
584849 CTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT
1 CTATCCTATTTTTAGGAGTTTGAAT-CTA--AAAATGT
584887 -TATCCTA-TTTTAGGAG-TTGAATCT-AAAAT-T
1 CTATCCTATTTTTAGGAGTTTGAATCTAAAAATGT
*
584917 CTATCCTATTTTTAAGAGTTTGAATC
1 CTATCCTATTTTTAGGAGTTTGAATC
584943 CTAGTAGGAC
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
30 1 0.02
31 12 0.23
32 8 0.15
33 7 0.13
34 2 0.04
35 6 0.12
36 9 0.17
37 7 0.13
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (35 bp):
CTATCCTATTTTTAGGAGTTTGAATCTAAAAATGT
Done.