Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005449.1 Hibiscus syriacus cultivar Beakdansim tig00012483_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: 106607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:626 original size:22 final size:22
Alignment explanation
Indices: 584--628 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
574 AGACTAAAAA
*
584 ATTTATATAAATAAATTTATAT
1 ATTTATATAAATAAATATATAT
*
606 ATTTATCTAAA-AAATAATATAT
1 ATTTATATAAATAAAT-ATATAT
628 A
1 A
629 AATAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTATATAAATAAATATATAT
Found at i:1670 original size:59 final size:59
Alignment explanation
Indices: 1604--1731 Score: 211
Period size: 59 Copynumber: 2.2 Consensus size: 59
1594 AAGATGTAGA
*
1604 TTTGTTGAGTAATTCAATTATTAAAAGTTATAAAATAATCTATAATTATAATGTGTTAT
1 TTTGTTGAGTAATTCAATTATTAAAAGTTATAAAATAATCTATAATTATAAGGTGTTAT
* * * *
1663 TTTGTTGAGTCATTCAATTATTAAAAGTTATAAAATAGTCTATGATTATAAGGTGTTGT
1 TTTGTTGAGTAATTCAATTATTAAAAGTTATAAAATAATCTATAATTATAAGGTGTTAT
1722 TTTGTTGAGT
1 TTTGTTGAGT
1732 TAAGAAGGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (59 bp):
TTTGTTGAGTAATTCAATTATTAAAAGTTATAAAATAATCTATAATTATAAGGTGTTAT
Found at i:4326 original size:28 final size:28
Alignment explanation
Indices: 4290--4343 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
4280 GAGTATATAT
*
4290 ATTTCAATTAAATATATAAATATTTTTA
1 ATTTAAATTAAATATATAAATATTTTTA
* *
4318 ATTTAAATTAAATTTATTAATATTTT
1 ATTTAAATTAAATATATAAATATTTT
4344 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTAAATTAAATATATAAATATTTTTA
Found at i:5439 original size:21 final size:21
Alignment explanation
Indices: 5414--5456 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5404 TATCGTGTTG
* *
5414 TATGCGAAGGAGTGCTAGTGT
1 TATGCGAACGAATGCTAGTGT
5435 TATGCGAACGAATGCTAGTGT
1 TATGCGAACGAATGCTAGTGT
5456 T
1 T
5457 TGTAGTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (21 bp):
TATGCGAACGAATGCTAGTGT
Found at i:16507 original size:14 final size:14
Alignment explanation
Indices: 16488--16519 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16478 TGTAAACATA
16488 ATTTGTCTTGTGAT
1 ATTTGTCTTGTGAT
16502 ATTTGTCTTGTGAT
1 ATTTGTCTTGTGAT
16516 ATTT
1 ATTT
16520 TTATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.59
Consensus pattern (14 bp):
ATTTGTCTTGTGAT
Found at i:21460 original size:14 final size:14
Alignment explanation
Indices: 21395--21461 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
21385 AATTTTAGAT
*
21395 TTTTTAAAATTACA
1 TTTTTAAAAATACA
* *
21409 TTATTATAAATACA
1 TTTTTAAAAATACA
* *
21423 TTATTAATAATTATAAA
1 TTTTTAA-AA--ATACA
*
21440 ATTTTAAAAATACA
1 TTTTTAAAAATACA
21454 TTTTTAAA
1 TTTTTAAA
21462 TGTAATATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 28 0.68
15 2 0.05
16 2 0.05
17 9 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTTTAAAAATACA
Found at i:25608 original size:60 final size:60
Alignment explanation
Indices: 25530--25673 Score: 227
Period size: 60 Copynumber: 2.4 Consensus size: 60
25520 ATTTAATTAT
25530 AATTGAGAAGTTACAAATTGATCACCCGACTATAGGGTGTTGTTTTGTTGAGT-CTCTCAAC
1 AATT-AGAAGTTACAAATTGATCACCCGACTATAGGGTGTTGTTTTGTTGAGTCCT-TCAAC
*
25591 AATTAGAAGTTACAAATTGATCACCCGACTATAGGGTGTTGTTTTGTTGAGTCCTTTAAC
1 AATTAGAAGTTACAAATTGATCACCCGACTATAGGGTGTTGTTTTGTTGAGTCCTTCAAC
* * *
25651 TATTAAAAGTTACAAAATGATCA
1 AATTAGAAGTTACAAATTGATCA
25674 TTCGATTATT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
60 72 0.92
61 6 0.08
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (60 bp):
AATTAGAAGTTACAAATTGATCACCCGACTATAGGGTGTTGTTTTGTTGAGTCCTTCAAC
Found at i:31667 original size:172 final size:172
Alignment explanation
Indices: 31460--31827 Score: 709
Period size: 172 Copynumber: 2.1 Consensus size: 172
31450 AATTTTATGC
31460 ACATATTTATAGTTTGCAATTTAAAATCATATATTTATTAATCCATGTTTGATTAAATGTGCTCT
1 ACATATTTATAGTTTGCAATTTAAAATCATATATTTATTAATCCATGTTTGATTAAATGTGCTCT
*
31525 AATAAAAATAAGGAAAAGTCATTTTAATTTTATTTCTAATTCTATTCTCTTTAAAAGAATATATA
66 AATAAAAATAAGGAAAAATCATTTTAATTTTATTTCTAATTCTATTCTCTTTAAAAGAATATATA
31590 ATTTATGATCGGTTAACCATTTATCAAAATTTATAATTATAT
131 ATTTATGATCGGTTAACCATTTATCAAAATTTATAATTATAT
*
31632 ACATATTTATAGTTTGCAATTTAAAATCATATATTTATTAATCCATGTTTGATTAAATTTGCTCT
1 ACATATTTATAGTTTGCAATTTAAAATCATATATTTATTAATCCATGTTTGATTAAATGTGCTCT
31697 AATAAAAATAAGGAAAAATCATTTTAATTTTATTTCTAATTCTATTCTCTTTAAAAGAATATATA
66 AATAAAAATAAGGAAAAATCATTTTAATTTTATTTCTAATTCTATTCTCTTTAAAAGAATATATA
*
31762 ATTTATTATCGGTTAACCATTTATCAAAATTTATAATTATAT
131 ATTTATGATCGGTTAACCATTTATCAAAATTTATAATTATAT
31804 ACATATTTATAGTTTGCAATTTAA
1 ACATATTTATAGTTTGCAATTTAA
31828 TTTGTACACC
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 193 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (172 bp):
ACATATTTATAGTTTGCAATTTAAAATCATATATTTATTAATCCATGTTTGATTAAATGTGCTCT
AATAAAAATAAGGAAAAATCATTTTAATTTTATTTCTAATTCTATTCTCTTTAAAAGAATATATA
ATTTATGATCGGTTAACCATTTATCAAAATTTATAATTATAT
Found at i:35094 original size:21 final size:21
Alignment explanation
Indices: 35070--35122 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
35060 ACACTTAGGG
35070 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
35091 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
35112 TACCGATTCCC
1 AACCGATTCCC
35123 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:35428 original size:32 final size:33
Alignment explanation
Indices: 35332--35430 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
35322 TCAAATACTT
* * *
35332 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
35365 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
35398 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
35430 A
1 A
35431 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:35449 original size:21 final size:21
Alignment explanation
Indices: 35425--35464 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35415 ACTTCAAGTT
35425 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
35446 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
35465 ATAAAATAAA
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:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:44639 original size:3 final size:3
Alignment explanation
Indices: 44631--44661 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
44621 CAATTAACTC
*
44631 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44662 GGTGTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:44927 original size:2 final size:2
Alignment explanation
Indices: 44920--44948 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44910 TTATATGTGA
44920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44949 GTTTTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45713 original size:24 final size:23
Alignment explanation
Indices: 45661--45713 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
45651 TTATTTTTAC
45661 TTTTAAAATTTATAAATTTACAT
1 TTTTAAAATTTATAAATTTACAT
* *
45684 TCTTAAAATTTAATAAATTTATAT
1 TTTTAAAATTT-ATAAATTTACAT
45708 TTTTAA
1 TTTTAA
45714 CATAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTAAAATTTATAAATTTACAT
Found at i:47744 original size:18 final size:19
Alignment explanation
Indices: 47709--47744 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47699 TGTCCCTCAC
*
47709 TCTTACTTTGCTAGCCATT
1 TCTTACTTGGCTAGCCATT
47728 TCTTACTTGGC-AGCCAT
1 TCTTACTTGGCTAGCCAT
47745 AGCCATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.42
Consensus pattern (19 bp):
TCTTACTTGGCTAGCCATT
Found at i:48873 original size:163 final size:163
Alignment explanation
Indices: 48603--48929 Score: 654
Period size: 163 Copynumber: 2.0 Consensus size: 163
48593 AGTGGCATGT
48603 TGTAGTCTATTGCTTGTTTAATCCTATTATTGATTTTAAGGCATATCATTTATGGAAAGATGATT
1 TGTAGTCTATTGCTTGTTTAATCCTATTATTGATTTTAAGGCATATCATTTATGGAAAGATGATT
48668 CTCTAACGTTTCTAAGCATTACATTGTTTATACATTTAAGCTCATTAGAGGTATGCATGTCATAT
66 CTCTAACGTTTCTAAGCATTACATTGTTTATACATTTAAGCTCATTAGAGGTATGCATGTCATAT
48733 GCTCCTTGTACAGGTCAAATCTCCTTCATTGCC
131 GCTCCTTGTACAGGTCAAATCTCCTTCATTGCC
48766 TGTAGTCTATTGCTTGTTTAATCCTATTATTGATTTTAAGGCATATCATTTATGGAAAGATGATT
1 TGTAGTCTATTGCTTGTTTAATCCTATTATTGATTTTAAGGCATATCATTTATGGAAAGATGATT
48831 CTCTAACGTTTCTAAGCATTACATTGTTTATACATTTAAGCTCATTAGAGGTATGCATGTCATAT
66 CTCTAACGTTTCTAAGCATTACATTGTTTATACATTTAAGCTCATTAGAGGTATGCATGTCATAT
48896 GCTCCTTGTACAGGTCAAATCTCCTTCATTGCC
131 GCTCCTTGTACAGGTCAAATCTCCTTCATTGCC
48929 T
1 T
48930 CATCAGATTA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (163 bp):
TGTAGTCTATTGCTTGTTTAATCCTATTATTGATTTTAAGGCATATCATTTATGGAAAGATGATT
CTCTAACGTTTCTAAGCATTACATTGTTTATACATTTAAGCTCATTAGAGGTATGCATGTCATAT
GCTCCTTGTACAGGTCAAATCTCCTTCATTGCC
Found at i:56534 original size:621 final size:621
Alignment explanation
Indices: 55344--58222 Score: 4565
Period size: 621 Copynumber: 4.6 Consensus size: 621
55334 ATTTATAATA
* * *
55344 TCAAAATTCTTAAAAATCCAGAATTTAGGACTCATCCACGGTCCGAGTGTTTAAAACGGAAAGCT
1 TCAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGCT
* * *
55409 CTGATACCACCAAATTACTTAATTATAAATATTTTTTATTCTA-TTTTCCGGATTGTTACATTGA
66 CTGATACCACCAAATTACTTAATTATAAATA-TTTTTATCCCATTTTTCCGGGTTGTTACATTGA
* * *
55473 ACTTGTAGTTGTATAAATTAACTAGACTGAAAAACACACAATGCTACAAAAAGAAATGATTTCTA
130 ACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTA
* * * *
55538 TAAATTCAATACAATAAACCCTACGTTGATTTTATCTTTTTCGATCTCTATTTTTCATGTGGAAA
195 TAAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAA
*
55603 AAATGAAGTGAGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAA
260 AAATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAA
* * *
55668 TACTTGAACGGGGCTGCAAAAATAATTAAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
325 TGCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
*
55733 CGCAATGTTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACG-CGA
390 CGCAATGCTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACGCCG-
* * * *
55797 ATACCCTACCCAAATCTGAGAAAATTTTTAAAACGAAAGTAAAGACCACGTTGAGTTCGTGGAAA
454 ATACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAA
55862 ATATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACAGACGATTTTCC
519 ATATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACAGACGATTTTCC
55927 CGAAAAATCACCCAATTAATCATTATTTCCCTGTCAGG
584 CGAAAAATCACCCAATTAATCATTATTTCCCTGTCAGG
* ** *
55965 TTAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCAAAGTGTTTAAAACCGAAAGTT
1 TCAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGCT
** *
56030 CTGATACCACCAAATTACTTAATTATAAATATTTTTATCCCATTTTTTTGGGTTGTTATATTGAA
66 CTGATACCACCAAATTACTTAATTATAAATATTTTTATCCCATTTTTCCGGGTTGTTACATTGAA
* *
56095 CTTGTAGTTGTATAAATTAACTAGGTTGGAAAACACGCAATGCTACAAATAGAAATGATTTCTAT
131 CTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTAT
*
56160 AAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGAAAAA
196 AAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAAA
*
56225 AATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGAACTCATACCCTAATTTCGGACAAT
261 AATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAAT
* * *
56290 GCTTGAATTAGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGATGGAAAACAC
326 GCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACAC
* * * *
56355 GCAATGCTGCAACTGAAGCTTTAACAGATAATAATGTTGCAACTTGGTTGCTTCCATACGCCGAC
391 GCAATGCTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACGCCGAT
* * *
56420 ACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAATACCACGTTGAGTTCGTGAAAAAT
456 ACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAAAT
* * *
56485 ATGAAATATTAATTGAACTTATAATTGTATAAATTAACTAGGTTGGAAAACA-AGTGATTTTCCC
521 ATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACAGA-CGATTTTCCC
* * *
56549 GAAAAATTACCAAATTAATCATTATTTCCCTGTTAGG
585 GAAAAATCACCCAATTAATCATTATTTCCCTGTCAGG
* *
56586 TCAAAATTCTTAAAAATCCAGAGTTTAAGACTCATCCACAGTCCGAGTGTTTAAAACTGAAAGCT
1 TCAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGCT
* *
56651 CTGATACCACCAAATTACTTAATTATAAATATTTTTTATCCCATTTTTTCGAGTTGTTACATTGA
66 CTGATACCACCAAATTACTTAATTATAAATA-TTTTTATCCCATTTTTCCGGGTTGTTACATTGA
* * *
56716 ACTTGTAGTTGTATAAATTAACTAGGCTGAAAAACACGCAATGCTACAAATAAAAATGATTTCTA
130 ACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTA
* * *
56781 TAAATTCAATACAATAAACCCTACATTGATATTGTCATTTTCGATCTCTATTTTTCATGTGGAAA
195 TAAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAA
* * *
56846 AAATGAAGTGGGTGAACTCTCTTGGTTGCTTTCATACGCTGACCTCATGCCTTAATTTCGGACAA
260 AAATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAA
*
56911 TGCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTAGAAAACA
325 TGCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
* * * * *
56976 TGCAACGCTGCAATTGAAGCTTTAACAAATAATAATGTTGTAACATGGTTGCTTCCGTACGCGGA
390 CGCAATGCTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACGCCGA
* *
57041 TACCCTACCCAAATTTAGGACAATTTTTAAAACGAAAATAAAGACCACATTGAGTT-GTGGAAAA
455 TACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAAA
* * ** *
57105 TATGAAATATT-ATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGTAAACAGGTGATTTTTCC
520 TATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACAGACGATTTTCCC
*
57169 GAAAAATCACCTAATTAATCATTATTTACCC-GTCAGG
585 GAAAAATCACCCAATTAATCATTATTT-CCCTGTCAGG
* * *
57206 TCAAAATTCTTAAAAATACAGTA-TTTAGGACTCATCCACAGTCCGAGTGCTTAAAACTGAAAGC
1 TCAAAATTCTTAAAAATCCAG-AGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGC
* * * *
57270 TCTGATACCACCAAATTACTTAATTATGAATA-TTTTATCTCATTTTTCTGGGTTGTTACATTAA
65 TCTGATACCACCAAATTACTTAATTATAAATATTTTTATCCCATTTTTCCGGGTTGTTACATTGA
* * *
57334 ACTTGTAGTTGTATAAATTAACTGGGCTGGAAAACACATAATGCTACAAATATAAATGATTTCTA
130 ACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTA
* *
57399 TAAATTCAATACAGTAAACCTTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATTTGGAAA
195 TAAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAA
* **
57464 AAATGAAGTAGGTGAACTCTCTTGGTTGCTTCCATACATTGACCTCATACCCTAATTTCGGACAA
260 AAATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAA
*
57529 TGCTTGAACTGGGTTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
325 TGCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
* * * *
57594 CGCAATGCTGCAACTGAAGCTTTAACAAATAACAATGTTGCAACTTGGTTGCTTCTGTACGCGGA
390 CGCAATGCTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACGCCGA
57659 TACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAAA
455 TACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAAA
* * *
57724 TATGAAATATTAATTGAACTTGTAGTTGTATAAATTAACTAGGTTGGAAAACATG-CGATTTTCT
520 TATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACA-GACGATTTTCC
* * *
57788 CGAAAAATCACCCAATTAATAATTATTTTCATGTCAGG
584 CGAAAAATCACCCAATTAATCATTATTTCCCTGTCAGG
*
57826 TCAAAATTCTTAAAAAT-CAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCAAAAGCT
1 TCAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGCT
* * * *
57890 CTGAAATCACCAAATTACTTAATTATATATATATTTTATCCCATTTTTCCGAGTTGTTACATTGA
66 CTGATACCACCAAATTACTTAATTATAAATAT-TTTTATCCCATTTTTCCGGGTTGTTACATTGA
* *
57955 ACTTGTAGTTGTATAAATTAACTAGG-TTGAAAACACACAATGCTACAGATAGAAATGATTTCTA
130 ACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTA
*
58019 TAAATTCAATACAGTAAACCCTACGTTGATATTGTTCTTTTCGATCTCTATTTTTCATGTGGAAA
195 TAAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAA
* * *
58084 AAATGAAGTGGATGAACTCTCTTGGTTGCTTCCATACGCTGACCCCATACCCTAATTTCGAACAA
260 AAATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAA
* * *
58149 TGCTTGAACTGGGCTACAAAAATAATTGAAATTGTAGTTGTATAAAATAACTAGGCTGGAAAACA
325 TGCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACA
58214 CGCAATGCT
390 CGCAATGCT
58223 ACAAAAAGAA
Statistics
Matches: 2076, Mismatches: 168, Indels: 29
0.91 0.07 0.01
Matches are distributed among these distances:
618 382 0.18
619 89 0.04
620 495 0.24
621 725 0.35
622 385 0.19
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (621 bp):
TCAAAATTCTTAAAAATCCAGAGTTTAGGACTCATCCACAGTCCGAGTGTTTAAAACCGAAAGCT
CTGATACCACCAAATTACTTAATTATAAATATTTTTATCCCATTTTTCCGGGTTGTTACATTGAA
CTTGTAGTTGTATAAATTAACTAGGCTGGAAAACACACAATGCTACAAATAGAAATGATTTCTAT
AAATTCAATACAGTAAACCCTACGTTGATATTGTCCTTTTCGATCTCTATTTTTCATGTGGAAAA
AATGAAGTGGGTGAACTCTCTTGGTTGCTTCCATACGCTGACCTCATACCCTAATTTCGGACAAT
GCTTGAACTGGGCTGCAAAAATAATTGAACTTGTAGTTGTATAAATTAACTAGGCTGGAAAACAC
GCAATGCTGCAACTGAAGCTTTAACAAATAATAATGTTGCAACATGGTTGCTTCCGTACGCCGAT
ACCCTACCCAAATTTGGGACAATTTTTAAAACGAAAGTAAAGACCACATTGAGTTCGTGGAAAAT
ATGAAATATTAATTGAACTTATAGTTGTATAAATTAACTAGGCTGGAAAACAGACGATTTTCCCG
AAAAATCACCCAATTAATCATTATTTCCCTGTCAGG
Found at i:58346 original size:224 final size:223
Alignment explanation
Indices: 57950--58446 Score: 798
Period size: 224 Copynumber: 2.2 Consensus size: 223
57940 GAGTTGTTAC
* * * *
57950 ATTGAACTTGTAGTTGTATAAATTAACTAGGTTGAAAACACACAATGCTACAGATAGAAATGATT
1 ATTGAACTTGTAGTTGTATAAATTAACTAGGTGGAAAACACGCAATGCTACAAAAAGAAATGATT
* * *
58015 TCTATAAATTCAATACAGTAAACCCTACGTTGATATTGTTCTTTTCGATCTCTATTTTTCATGTG
66 TCTATAAATTCAATACAATAAACCCTAAGTTGATATTATTCTTTTCGATCTCTATTTTTCATGTG
* *
58080 GAAAAAATGAAGTGGATGAACTCTCTTGGTTGCTTCCATACGCTGACCCCATACCCTAATTTCGA
131 GAAAAAATGAAGTGGATGAACTCTCTTGGTTGCTTCCATACGCTGACCACATACCCTAATTTCAA
*
58145 ACAATGCTTGAACTGGGCTACAAAAATA
196 ACAATGCTTGAACTGGACTACAAAAATA
* *
58173 ATTGAAATTGTAGTTGTATAAAATAACTAGGCTGGAAAACACGCAATGCTACAAAAAGAAATGAT
1 ATTGAACTTGTAGTTGTATAAATTAACTAGG-TGGAAAACACGCAATGCTACAAAAAGAAATGAT
58238 TTCTATAAATTCAATACAATAAACCCTAAGTTGATATTA-TCTTTTTCGATCTCTATTTTTCATG
65 TTCTATAAATTCAATACAATAAACCCTAAGTTGATATTATTC-TTTTCGATCTCTATTTTTCATG
* * *
58302 TGGAAAAAATGAAGTGGGTGCACTCTCTTGGTTGTTTCCATACGCTGACCACATACCCTAATTTC
129 TGGAAAAAATGAAGTGGATGAACTCTCTTGGTTGCTTCCATACGCTGACCACATACCCTAATTTC
*
58367 AAACAATGCTTGAACTGGACTGCAAAAATA
194 AAACAATGCTTGAACTGGACTACAAAAATA
**
58397 ATTGAACTTGTAGTTGTATAAATTAACTAATTTGGAAAACACGCAATGCT
1 ATTGAACTTGTAGTTGTATAAATTAACT-AGGTGGAAAACACGCAATGCT
58447 GCAACTAAAG
Statistics
Matches: 251, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
223 31 0.12
224 219 0.87
225 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (223 bp):
ATTGAACTTGTAGTTGTATAAATTAACTAGGTGGAAAACACGCAATGCTACAAAAAGAAATGATT
TCTATAAATTCAATACAATAAACCCTAAGTTGATATTATTCTTTTCGATCTCTATTTTTCATGTG
GAAAAAATGAAGTGGATGAACTCTCTTGGTTGCTTCCATACGCTGACCACATACCCTAATTTCAA
ACAATGCTTGAACTGGACTACAAAAATA
Found at i:60297 original size:21 final size:21
Alignment explanation
Indices: 60248--60298 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
60238 CAATGACAAT
60248 AAATAA-ATAATGAAAATAACA
1 AAATAATA-AATGAAAATAACA
60269 AACA-AATAAATGAAAATATA-A
1 AA-ATAATAAATGAAAATA-ACA
60290 AAATAATAA
1 AAATAATAA
60299 TCCAGGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAATAAATGAAAATAACA
Found at i:66033 original size:420 final size:421
Alignment explanation
Indices: 65253--66094 Score: 1650
Period size: 420 Copynumber: 2.0 Consensus size: 421
65243 CATGGCGGTC
65253 GCCGTCAAGAAATCAAATCCCGATAGCTCCCAAGGCTTGCGAGAATGGCAGGTATTTCTCTTCTT
1 GCCGTCAAGAAATCAAATCCCGATAGCTCCCAAGGCTTGCGAGAATGGCAGGTATTTCTCTTCTT
65318 TTTCTTTTTAAAGAAAATTTGCTTCCTTAGCAAATTAAATTAATTTAAGGAAATATATTTCATTT
66 TTTCTTTTTAAAGAAAATTTGCTTCCTTAGCAAATTAAATTAATTTAAGGAAATATATTTCATTT
65383 TATCTACCCTTAATAATAACGTTTGGAGGGGTTAAAATATTAAAAAAAAATATTATCAAAATGAC
131 TATCTACCCTTAATAATAACGTTTGGAGGGGTTAAAATATTAAAAAAAAATATTATCAAAATGAC
65448 TATTTAGTCAAGTTTTATATACCTTTTTGTTATAAAATATAATATTGGGAGTTAAAATAAAAATT
196 TATTTAGTCAAGTTTTATATACCTTTTTGTTATAAAATATAATATTGGGAGTTAAAATAAAAATT
65513 AAAGTAACTACTTAATCAAAAATTTAAGAGATTTTTTAATATTACGTATTTTAAAGAATTTATAA
261 AAAGTAACTACTTAATCAAAAATTTAAGAGATTTTTTAATATTACGTATTTTAAAGAATTTATAA
*
65578 TTCAATTTGAAATCGAGGAGATTTGAGGTATGAAAATGATGTTGATTTTGACAGGCAGAGGTGAA
326 TTCAATTTGAAATCGAGAAGATTTGAGGTATGAAAATGATGTTGATTTTGACAGGCAGAGGTGAA
65643 ATTTTTGGGCAAGTTCAGCCATCCAAACCTA
391 ATTTTTGGGCAAGTTCAGCCATCCAAACCTA
65674 GCCGTCAAGAAATCAAATCCCGATAGCTCCCAAGGCTTGCGAGAATGGCAGGTATTTCTCTTCTT
1 GCCGTCAAGAAATCAAATCCCGATAGCTCCCAAGGCTTGCGAGAATGGCAGGTATTTCTCTTCTT
65739 TTTCTTTTTAAAGAAAATTTGCTTCCTTAGCAAATTAAATTAATTTAAGGAAATATATTTCATTT
66 TTTCTTTTTAAAGAAAATTTGCTTCCTTAGCAAATTAAATTAATTTAAGGAAATATATTTCATTT
65804 TATCTACCCTTAATAATAACGTTTGGAGGGGTTAAAATATT-AAAAAAAATATTATCAAAATGAC
131 TATCTACCCTTAATAATAACGTTTGGAGGGGTTAAAATATTAAAAAAAAATATTATCAAAATGAC
65868 TATTTAGTCAAGTTTTATATACCTTTTTGTTATAAAATATAATATTGGGAGTTAAAATAAAAATT
196 TATTTAGTCAAGTTTTATATACCTTTTTGTTATAAAATATAATATTGGGAGTTAAAATAAAAATT
*
65933 AAAGTAACTACTTAATCAAAAGTTTAAGAGATTTTTTAATATTACGTATTTTAAAGAATTTATAA
261 AAAGTAACTACTTAATCAAAAATTTAAGAGATTTTTTAATATTACGTATTTTAAAGAATTTATAA
*
65998 TTCAATTTGGAATCGAGAAGATTTGAGGTATGAAAATGATGTTGATTTTGACAGGCAGAGGTGAA
326 TTCAATTTGAAATCGAGAAGATTTGAGGTATGAAAATGATGTTGATTTTGACAGGCAGAGGTGAA
66063 ATTTTTGGGCAAGTTCAGCCATCCAAACCTA
391 ATTTTTGGGCAAGTTCAGCCATCCAAACCTA
66094 G
1 G
66095 TAAAGTTGTT
Statistics
Matches: 418, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
420 247 0.59
421 171 0.41
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (421 bp):
GCCGTCAAGAAATCAAATCCCGATAGCTCCCAAGGCTTGCGAGAATGGCAGGTATTTCTCTTCTT
TTTCTTTTTAAAGAAAATTTGCTTCCTTAGCAAATTAAATTAATTTAAGGAAATATATTTCATTT
TATCTACCCTTAATAATAACGTTTGGAGGGGTTAAAATATTAAAAAAAAATATTATCAAAATGAC
TATTTAGTCAAGTTTTATATACCTTTTTGTTATAAAATATAATATTGGGAGTTAAAATAAAAATT
AAAGTAACTACTTAATCAAAAATTTAAGAGATTTTTTAATATTACGTATTTTAAAGAATTTATAA
TTCAATTTGAAATCGAGAAGATTTGAGGTATGAAAATGATGTTGATTTTGACAGGCAGAGGTGAA
ATTTTTGGGCAAGTTCAGCCATCCAAACCTA
Found at i:69026 original size:21 final size:20
Alignment explanation
Indices: 69001--69068 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
68991 AAGATTTAAT
*
69001 TAAAAAAAGATAATAATAAA
1 TAAAAAAAAATAATAATAAA
*
69021 TAAAAAGAAAATAATAAAATAA
1 TAAAAA-AAAATAATAATA-AA
* **
69043 TAAATATTAATAATAATAAA
1 TAAAAAAAAATAATAATAAA
69063 TAAAAA
1 TAAAAA
69069 TGGGTTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.33
21 19 0.49
22 7 0.18
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
TAAAAAAAAATAATAATAAA
Found at i:69059 original size:16 final size:15
Alignment explanation
Indices: 69029--69065 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
69019 AATAAAAAGA
69029 AAATAATAAAATAAT
1 AAATAATAAAATAAT
*
69044 AAATATTAATAATAAT
1 AAATAATAA-AATAAT
69060 AAATAA
1 AAATAA
69066 AAATGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:69117 original size:12 final size:12
Alignment explanation
Indices: 69100--69130 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
69090 AAGTATGATC
69100 AAATAAACAATT
1 AAATAAACAATT
69112 AAATAAACAATT
1 AAATAAACAATT
69124 AAATAAA
1 AAATAAA
69131 ATAACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAACAATT
Found at i:75287 original size:4 final size:4
Alignment explanation
Indices: 75278--75302 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
75268 TAAACAATCT
75278 GAAA GAAA GAAA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA G
75303 TGTTTGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:76623 original size:29 final size:29
Alignment explanation
Indices: 76557--76771 Score: 215
Period size: 29 Copynumber: 7.6 Consensus size: 29
76547 TGTTAGGTGC
* * *
76557 TATTTCGGTAAATATTTTT-AAA-AGTGT
1 TATTTTGGTAATTATTTTTAAAACAGTGA
* * ** *
76584 TATTTTCGTAATTCTTTTTAAAAGGGTGC
1 TATTTTGGTAATTATTTTTAAAACAGTGA
* * *
76613 TATTTTGGTAATTA-TTTAAAAATAGTTA
1 TATTTTGGTAATTATTTTTAAAACAGTGA
* * *
76641 TATTTTGGTAATTATTGTTAAAACAATAA
1 TATTTTGGTAATTATTTTTAAAACAGTGA
*
76670 TATTTTGGTAATTATTTTAAAAACAGTGA
1 TATTTTGGTAATTATTTTTAAAACAGTGA
** *
76699 TATTTTGGTAATTATTTAAAAAATAGTGA
1 TATTTTGGTAATTATTTTTAAAACAGTGA
*
76728 TATTTTGGTAATTA-TTTTAAAAAAGTGA
1 TATTTTGGTAATTATTTTTAAAACAGTGA
*
76756 TATTTTCGTAA-TATTT
1 TATTTTGGTAATTATTT
76772 GACTCACTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
27 17 0.11
28 49 0.31
29 90 0.58
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (29 bp):
TATTTTGGTAATTATTTTTAAAACAGTGA
Found at i:76707 original size:86 final size:86
Alignment explanation
Indices: 76557--76771 Score: 267
Period size: 86 Copynumber: 2.5 Consensus size: 86
76547 TGTTAGGTGC
* * * ** * * ** *
76557 TATTTCGGTAAATATTTT-TAAAAGTGTTATTTTCGTAATTCTTTTTAAAAGGGTGCTATTTTGG
1 TATTTTGGTAATTATTTTAAAAAAGTAATATTTTCGTAATTATTTTAAAAACAGTGATATTTTGG
*
76621 TAATTATTT-AAAAATAGTTA
66 TAATTATTTAAAAAATAGTGA
*
76641 TATTTTGGTAATTATTGTTAAAACAA-TAATATTTTGGTAATTATTTTAAAAACAGTGATATTTT
1 TATTTTGGTAATTATT-TTAAAA-AAGTAATATTTTCGTAATTATTTTAAAAACAGTGATATTTT
76705 GGTAATTATTTAAAAAATAGTGA
64 GGTAATTATTTAAAAAATAGTGA
*
76728 TATTTTGGTAATTATTTTAAAAAAGTGATATTTTCGTAA-TATTT
1 TATTTTGGTAATTATTTTAAAAAAGTAATATTTTCGTAATTATTT
76772 GACTCACTTT
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
84 14 0.12
85 9 0.08
86 61 0.54
87 28 0.25
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (86 bp):
TATTTTGGTAATTATTTTAAAAAAGTAATATTTTCGTAATTATTTTAAAAACAGTGATATTTTGG
TAATTATTTAAAAAATAGTGA
Found at i:77797 original size:26 final size:26
Alignment explanation
Indices: 77759--77812 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
77749 ACGGTAACTC
* * *
77759 TTTTATGGTATTTATTGTAGTATAAT
1 TTTTATGGTATTTACTGGACTATAAT
77785 TTTTATGAG-ATTTACTGGACTATAAT
1 TTTTATG-GTATTTACTGGACTATAAT
77811 TT
1 TT
77813 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.54
Consensus pattern (26 bp):
TTTTATGGTATTTACTGGACTATAAT
Found at i:83966 original size:29 final size:29
Alignment explanation
Indices: 83921--84224 Score: 367
Period size: 29 Copynumber: 10.8 Consensus size: 29
83911 ATATTTTAAA
* * * *
83921 AGTGTTATTTTCGTAATTATTTTTAAAAG
1 AGTGATATTTTGGTAATTATTTTAAAAAC
* * *
83950 GGTGCTATTTTGATAATTA-TTTAAAAAC
1 AGTGATATTTTGGTAATTATTTTAAAAAC
83978 AGTGATATTTTGGTAATTATTGTT-AAAAC
1 AGTGATATTTTGGTAATTATT-TTAAAAAC
*
84007 AATGATATTTTGGTAATTATTTT-AAAAC
1 AGTGATATTTTGGTAATTATTTTAAAAAC
* *
84035 AATGATATTTTGGTAATTATTTAAAAAAC
1 AGTGATATTTTGGTAATTATTTTAAAAAC
*
84064 AGTGATATTTTGATAATTA-TTTAAAAAC
1 AGTGATATTTTGGTAATTATTTTAAAAAC
*
84092 AGTGATATTTTGGTAATTATTTTAAAAAT
1 AGTGATATTTTGGTAATTATTTTAAAAAC
84121 AGTGATATTTTGGTAATTA-TTTAAAAAC
1 AGTGATATTTTGGTAATTATTTTAAAAAC
*
84149 AATGATATTTTGGTAATTATATTT-AAAAC
1 AGTGATATTTTGGTAATTAT-TTTAAAAAC
* *
84178 GGTTATATTTTGGTAATTA--TTAAAAA-
1 AGTGATATTTTGGTAATTATTTTAAAAAC
* *
84204 AATGATATTTTCGTAA-TATTT
1 AGTGATATTTTGGTAATTATTT
84225 GACTCTGGTC
Statistics
Matches: 241, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 14 0.06
27 5 0.02
28 104 0.43
29 111 0.46
30 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (29 bp):
AGTGATATTTTGGTAATTATTTTAAAAAC
Found at i:83998 original size:57 final size:57
Alignment explanation
Indices: 83926--84224 Score: 406
Period size: 57 Copynumber: 5.3 Consensus size: 57
83916 TTAAAAGTGT
* ** * * *
83926 TATTTTCGTAATTATTTTTAAAAGGGTGCTATTTTGATAATTATTTAAAAACAGTGA
1 TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
* * *
83983 TATTTTGGTAATTATTGTTAAAACAATGATATTTTGGTAATTATTTTAAAACAATGA
1 TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
** * *
84040 TATTTTGGTAATTATTTAAAAAACAGTGATATTTTGATAATTATTTAAAAACAGTGA
1 TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
* *
84097 TATTTTGGTAATTATTTTAAAAATAGTGATATTTTGGTAATTATTTAAAAACAATGA
1 TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
* * *
84154 TATTTTGGTAATTATATTTAAAACGGTTATATTTTGGTAATTA-TTAAAAA-AATGA
1 TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
*
84209 TATTTTCGTAA-TATTT
1 TATTTTGGTAATTATTT
84225 GACTCTGGTC
Statistics
Matches: 215, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
54 4 0.02
55 15 0.07
56 7 0.03
57 189 0.88
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.46
Consensus pattern (57 bp):
TATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGTAATTATTTAAAAACAATGA
Found at i:85293 original size:26 final size:26
Alignment explanation
Indices: 85240--85293 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
85230 AGGGTAACTC
* *
85240 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
85266 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
85292 TT
1 TT
85294 GTTTAGGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:86698 original size:60 final size:60
Alignment explanation
Indices: 86627--86742 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
86617 GAACATATAA
* * *
86627 ATAGTTTGATGA-CTATTTTGTAATTTTTAATAGTTAAGAA-ACTCAACAAAGCAACGTTAT
1 ATAGTTAGATGATC-ATTTTGTAACTTTTAATAGTCAA-AAGACTCAACAAAGCAACGTTAT
86687 ATAGTTAGATGATCATTTTGTAACTTTTAATAGTCAAAAGACTCAACAAAGCAACG
1 ATAGTTAGATGATCATTTTGTAACTTTTAATAGTCAAAAGACTCAACAAAGCAACG
86743 CCTATAGTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 2 0.04
60 48 0.94
61 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (60 bp):
ATAGTTAGATGATCATTTTGTAACTTTTAATAGTCAAAAGACTCAACAAAGCAACGTTAT
Found at i:88659 original size:2 final size:2
Alignment explanation
Indices: 88654--88690 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
88644 TTTTTTCAGT
*
88654 TA TA TA TA TA TA TG 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 TA TA TA T
88691 TAAATTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95163 original size:17 final size:17
Alignment explanation
Indices: 95132--95164 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95122 CTAAATATTA
95132 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
95149 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
95165 AATAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:97041 original size:4 final size:4
Alignment explanation
Indices: 97032--97058 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
97022 AACCTATGAT
97032 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
97059 TTGGGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:97688 original size:13 final size:13
Alignment explanation
Indices: 97667--97718 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
97657 CAAATTACAT
97667 AAAT-TAAAAATG
1 AAATATAAAAATG
*
97679 AAATTTAAAAATG
1 AAATATAAAAATG
97692 TAAAATATAAAATAT-
1 --AAATATAAAA-ATG
97707 AAATATAAAAAT
1 AAATATAAAAAT
97719 ACAACTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 6 0.17
13 18 0.51
15 9 0.26
16 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
AAATATAAAAATG
Found at i:101125 original size:18 final size:18
Alignment explanation
Indices: 101077--101118 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
101067 TTTAGAAAAA
*
101077 AAATAAAATT-AAGATATT
1 AAATTAAATTCAAG-TATT
*
101095 AATTTAAATTCAAGTATT
1 AAATTAAATTCAAGTATT
101113 AAATTA
1 AAATTA
101119 GAATCAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATTAAATTCAAGTATT
Done.