Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_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: 1820295
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:425396 original size:185 final size:187
Alignment explanation
Indices: 425084--425459 Score: 738
Period size: 185 Copynumber: 2.0 Consensus size: 187
425074 TGAAAGGCTA
425084 AGTTCATTTGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGG
1 AGTTCATTTGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGG
425149 CTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
66 CTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
425214 AGTCTAAGTGCCTTTAAGACC-TATTGTTCATTTGACAG-AAGGTGTCAATTATGAC
131 AGTCTAAGTGCCTTTAAGACCTTATTGTTCATTTGACAGAAAGGTGTCAATTATGAC
425269 AGTTCATTTGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGG
1 AGTTCATTTGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGG
425334 CTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
66 CTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
425399 AGTCTAAGTGCCTTTAAGACCTTATTGTTCATTTGACAGAAAGGTGTCAATTATGAC
131 AGTCTAAGTGCCTTTAAGACCTTATTGTTCATTTGACAGAAAGGTGTCAATTATGAC
425456 AGTT
1 AGTT
425460 AGATGAAAGG
Statistics
Matches: 189, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 151 0.80
186 17 0.09
187 21 0.11
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (187 bp):
AGTTCATTTGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGG
CTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
AGTCTAAGTGCCTTTAAGACCTTATTGTTCATTTGACAGAAAGGTGTCAATTATGAC
Found at i:425479 original size:253 final size:255
Alignment explanation
Indices: 425027--425527 Score: 738
Period size: 253 Copynumber: 2.0 Consensus size: 255
425017 AAAGATCAAT
* * *
425027 GGCCTAAATGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCATT
1 GGCCTAAATGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATT
* * *
425092 TGAGGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGCAAATTATGACAGTTAGATGAAAGGCTAAGTGC
* * *
425157 CTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAAAGTCTAAG
131 CTTTAAGACCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAAAGGCTAAG
* * *
425222 TGCCTTTAAGACCT-ATTGTTCATTTGAC-AGAAGGTGTCAATTATGACAGTTCATTTGA
196 TGCCTTTAAGACCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTCATTTGA
* * * *
425280 GGCCTAACTGTGCATTTGACATAAAGGTGCCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAAATGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATT
* * *
425345 TGAGGCCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAAAGTCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGCAAATTATGACAGTTAGATGAAAGGCTAAGTGC
* * * *
425410 CTTTAAGACCTTATTGT-TCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTTA
131 CTTTAAGACCTAACTGTGT-ATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAAAGGCTAA
* * *
425474 GTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGTCAGTT
195 GTGCCTTTAAGACCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTT
425528 AGATGAAAGG
Statistics
Matches: 219, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
252 1 0.00
253 185 0.84
254 12 0.05
255 21 0.10
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (255 bp):
GGCCTAAATGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATT
TGAGGCCTAACTGTGCATTTGACAGAAAGGTGCAAATTATGACAGTTAGATGAAAGGCTAAGTGC
CTTTAAGACCTAACTGTGTATTTGACAGAAAGGTGTAAATTATGACAGTTAGATGAAAGGCTAAG
TGCCTTTAAGACCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTCATTTGA
Found at i:425781 original size:45 final size:45
Alignment explanation
Indices: 425719--425829 Score: 150
Period size: 45 Copynumber: 2.4 Consensus size: 45
425709 ATGTATAATG
*
425719 GTGTATAAAAGGCATGAATGGATGTCCTAAATGAAATATATAAAA
1 GTGTATAAAAGGCATGAATGGATGCCCTAAATGAAATATATAAAA
* * * * *
425764 GTGTATAAAAGGAATGAAAGGATGCCCTAAATGGAATGTATAATA
1 GTGTATAAAAGGCATGAATGGATGCCCTAAATGAAATATATAAAA
*
425809 TTGTATAAGAAGGCATGAATG
1 GTGTATAA-AAGGCATGAATG
425830 ATTGTTATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
45 46 0.82
46 10 0.18
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (45 bp):
GTGTATAAAAGGCATGAATGGATGCCCTAAATGAAATATATAAAA
Found at i:430925 original size:30 final size:30
Alignment explanation
Indices: 430853--430926 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
430843 GGTTGAGTTC
* *
430853 CCGAAAAGATCAAGCTATAGCAGGGTGTGGT
1 CCGACAAGATC-AGCTATAGCAGGGCGTGGT
*
430884 CC-AGCAGGATCAGC-AGTAGCAGGGCGTGGT
1 CCGA-CAAGATCAGCTA-TAGCAGGGCGTGGT
430914 CCGACAAGATCAG
1 CCGACAAGATCAG
430927 ATGCAATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 1 0.03
30 27 0.75
31 8 0.22
ACGTcount: A:0.30, C:0.22, G:0.34, T:0.15
Consensus pattern (30 bp):
CCGACAAGATCAGCTATAGCAGGGCGTGGT
Found at i:431229 original size:20 final size:20
Alignment explanation
Indices: 431201--431242 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
431191 TTCCTCCACG
*
431201 TGCAACTATATGCTCCTAAA
1 TGCAACTATATGATCCTAAA
*
431221 TGCATCTATATGATCCTAAA
1 TGCAACTATATGATCCTAAA
431241 TG
1 TG
431243 GGCTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
TGCAACTATATGATCCTAAA
Found at i:432815 original size:46 final size:46
Alignment explanation
Indices: 432743--432839 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
432733 TTAATACACC
* * *
432743 GTTATATATTTTCATTTGTGGAATCCTTTCATGTCAATTATGCATT
1 GTTATACATTTTCATTTATGGAATCCTTTCATGCCAATTATGCATT
*
432789 GTTATACATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATT
1 GTTATACATTTTCATTTATGGAATCCTTTCATGCCAATTATGCATT
*
432835 ATTAT
1 GTTAT
432840 GCTTTTAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.48
Consensus pattern (46 bp):
GTTATACATTTTCATTTATGGAATCCTTTCATGCCAATTATGCATT
Found at i:433140 original size:55 final size:55
Alignment explanation
Indices: 433068--433406 Score: 570
Period size: 55 Copynumber: 6.2 Consensus size: 55
433058 CGTGAGTTGT
* * * * *
433068 ACACACAGTGCCAATACGGAAATTCATAAACTTATTACGAATTTCTTAGGTTTAC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
* * *
433123 ACACACAGTGCCCATACGGAAATTCATTAACTTATTATGGATTTCTTAGTTTTGC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
*
433178 ACACAAAGTGCCCATACGGAAATACATAAACTTATTATGAATTTCTTAGTTTTGC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
433233 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
*
433288 ACACAAAGTGCCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
**
433343 ACACAAAGTGCCTTTACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
1 ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
433398 ACACAAAGT
1 ACACAAAGT
433407 CTCATTTGGT
Statistics
Matches: 269, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 269 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (55 bp):
ACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC
Found at i:435379 original size:34 final size:34
Alignment explanation
Indices: 435336--435479 Score: 144
Period size: 34 Copynumber: 3.9 Consensus size: 34
435326 TTATGGCATC
435336 CTTTTATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
435370 CTTTTATGCCGATAATACACCCATATGCATTTCAGCTATGGCAT
1 CTTTTATGCCAATAATGCACCCATATGCA--T----TAT----T
*
435414 CCTTTTATGCCAATAATGCACCCATATGCATTATC
1 -CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
435449 CTTTTATGTCGATAATGCACCCATATGCATT
1 CTTTTATGCCAATAATGCACCCATATGCATT
435480 TCAGCTATGT
Statistics
Matches: 92, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
34 56 0.61
36 1 0.01
39 3 0.03
40 3 0.03
43 1 0.01
44 1 0.01
45 27 0.29
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:435420 original size:45 final size:44
Alignment explanation
Indices: 435370--435946 Score: 403
Period size: 45 Copynumber: 14.3 Consensus size: 44
435360 ATGCATTATT
* *
435370 CTTTTATGCCGATAATACACCCATATGCATTTCAGCTATGGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTAT-GCATC
435415 CTTTTATGCCAATAATGCACCCATATG-----CA--T-T--ATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
* *
435449 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTATGTCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATG-CATC
435494 CTTTCT-TGCCAATAATGCACCCATATGCA--T----TAT---T-
1 CTTT-TATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
* * * *
435528 CTTTTATGTCGATAATTCTCCCATATGCATTTCAGCTATGACATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATG-CATC
* *
435573 CTTTCATGCCAATAATGCACCCATATG----T-A--T-T--ATT
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
* *
435607 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTATGACATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATG-CATC
* *
435652 CTTTCATGCCAATAACGCACCCATATGCA--T----TAT---T-
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
*
435686 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTAT-GCATC
*
435731 CTTTCATGCCAATAATGCACCCATATGCA--T----TAT---T-
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
*
435765 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGACATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATG-CATC
*
435810 CTTTTGTGCCAATAATGCACCCATATGCA--T----TAT---T-
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
* * * *
435844 CTTTTATACCGATAATGCACCCATATGTATTTCAACTATGGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTAT-GCATC
* ** *
435889 CTTTCATGATAATAATGCACCCATATGCATTTCAACTATGGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTAT-GCATC
*
435934 CTTTTATACCAAT
1 CTTTTATGCCAAT
435947 TTAATTATGA
Statistics
Matches: 417, Mismatches: 47, Indels: 136
0.69 0.08 0.23
Matches are distributed among these distances:
33 1 0.00
34 155 0.37
35 4 0.01
36 4 0.01
37 2 0.00
38 3 0.01
39 15 0.04
40 15 0.04
41 3 0.01
42 2 0.00
43 4 0.01
44 4 0.01
45 204 0.49
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (44 bp):
CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGCATC
Found at i:435428 original size:79 final size:79
Alignment explanation
Indices: 435327--435919 Score: 979
Period size: 79 Copynumber: 7.5 Consensus size: 79
435317 TTATTTTATT
* *
435327 TATGGCATCCTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATACACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435392 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
435406 TATGGCATCCTTTTATGCCAATAATGCACCCATATGCATTATCCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435471 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * * * *
435485 TATGTCATCCTTTCTTGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATTCTCCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435550 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
435564 TATGACATCCTTTCATGCCAATAATGCACCCATATGTATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435629 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* *
435643 TATGACATCCTTTCATGCCAATAACGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435708 ATATGCATTTCAGC
66 ATATGCATTTCAGC
435722 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
435787 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* ** *
435801 TATGACATCCTTTTGTGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
* *
435866 ATATGTATTTCAAC
66 ATATGCATTTCAGC
**
435880 TATGGCATCCTTTCATGATAATAATGCACCCATATGCATT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
435920 TCAACTATGG
Statistics
Matches: 484, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 484 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
ATATGCATTTCAGC
Found at i:436442 original size:47 final size:46
Alignment explanation
Indices: 436337--436442 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
436327 CGTTAAATAA
* * *
436337 CATTTTATTTATGACATCCTTTCATGCCTTAATGCATCCATTCATT
1 CATTCTATTTATGACATCCTTTCATGCCATAATGCACCCATTCATT
*
436383 CATTTTATTTATGACATCCTTTCATGCCAATAATGCACCCATATGCATT
1 CATTCTATTTATGACATCCTTTCATGCC-ATAATGCACCCAT-T-CATT
436432 -ATTCT-TTTATG
1 CATTCTATTTATG
436443 CCGATAATAC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 28 0.52
47 17 0.31
48 5 0.09
49 4 0.07
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (46 bp):
CATTCTATTTATGACATCCTTTCATGCCATAATGCACCCATTCATT
Found at i:436487 original size:79 final size:79
Alignment explanation
Indices: 436392--437046 Score: 1094
Period size: 79 Copynumber: 8.3 Consensus size: 79
436382 TCATTTTATT
* * *
436392 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATACACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
**
436457 ATATGCATTTTGGC
66 ATATGCATTTCAGC
*
436471 TATGGCATCCTTTCATGCCAATAATGCACCGATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
436536 ATATGCATTTCAGC
66 ATATGCATTTCAGC
436550 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
436615 ATGTGCATTTCAGC
66 ATATGCATTTCAGC
* * *
436629 TATGGCATCCTTTCATGCTAATGATACACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
436694 ATATGCATTTGAGC
66 ATATGCATTTCAGC
* *
436708 TATGGCATCATTTCATGCTAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
436773 ATATTCATTTCAGC
66 ATATGCATTTCAGC
* *
436787 TATGGCATCCTTTCATGCCAATAATGCACCCATATGTATTATTCTTTTATGTCGATAATGCACAC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
436852 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* **
436866 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTTTTTTTATACCGATAATGCACC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTA-TTCTTTTATGTCGATAATGCACC
436931 CATATGCATTTCAGC
65 CATATGCATTTCAGC
* * *
436946 TATGGCATCCTTTCATGCCAATAATACACCCACATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
437011 ATATGCATTTCAGT
66 ATATGCATTTCAGC
437025 TATGGCATCCTTTCATGCCAAT
1 TATGGCATCCTTTCATGCCAAT
437047 TTAATTATGA
Statistics
Matches: 542, Mismatches: 33, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
79 469 0.87
80 73 0.13
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
ATATGCATTTCAGC
Found at i:437587 original size:22 final size:22
Alignment explanation
Indices: 437550--437609 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
437540 TCGATACCCT
* *
437550 TACTATAGTATCGATATTATCA
1 TACTATGGTACCGATATTATCA
*
437572 TACTATGGTACTGATATTATCA
1 TACTATGGTACCGATATTATCA
437594 TACTATGGTACCGATA
1 TACTATGGTACCGATA
437610 CCCCTTCCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (22 bp):
TACTATGGTACCGATATTATCA
Found at i:449711 original size:21 final size:21
Alignment explanation
Indices: 449685--449730 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
449675 GTGTTACAAT
449685 GTCAGCACCGTAAACCACCAC
1 GTCAGCACCGTAAACCACCAC
*
449706 GTCAGCACCGTGAACCACCAC
1 GTCAGCACCGTAAACCACCAC
449727 GTCA
1 GTCA
449731 ACACATTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.41, G:0.17, T:0.11
Consensus pattern (21 bp):
GTCAGCACCGTAAACCACCAC
Found at i:452437 original size:29 final size:29
Alignment explanation
Indices: 452382--452437 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
452372 GAAAACGAAC
* * * *
452382 TAAAAGTTTGGTGACTATATTATAAGTTT
1 TAAAAGTTTGGTGACCAAAATACAAGTTT
*
452411 TAAAAGTTTGGTGACCAAAATGCAAGT
1 TAAAAGTTTGGTGACCAAAATACAAGT
452438 ATCCTAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (29 bp):
TAAAAGTTTGGTGACCAAAATACAAGTTT
Found at i:453679 original size:17 final size:17
Alignment explanation
Indices: 453645--453680 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
453635 ATCAGAAATA
* *
453645 TTTTTTATAAATATATT
1 TTTTTTATAAAAAGATT
453662 TTTTTTATAAAAAGATT
1 TTTTTTATAAAAAGATT
453679 TT
1 TT
453681 CATTTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTTATAAAAAGATT
Found at i:460201 original size:19 final size:18
Alignment explanation
Indices: 460173--460223 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
460163 CTATATCACA
*
460173 TACACGATAATCACAATT
1 TACACAATAATCACAATT
460191 TCACACAATAA-CAC-ATT
1 T-ACACAATAATCACAATT
* *
460208 TATACAATAATGACAA
1 TACACAATAATCACAA
460224 CCGATATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 5 0.19
19 8 0.30
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (18 bp):
TACACAATAATCACAATT
Found at i:460311 original size:40 final size:40
Alignment explanation
Indices: 460227--460311 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
460217 ATGACAACCG
* * *
460227 ATATTACATAGAGATTATGTAGCCTAGATAGAGAATCACA
1 ATATTACATAGAGATTAGGTAGCCTAGATAGAGAATAAAA
* * *
460267 ATATTACATAGAGGTTAGGTAGTCTAGAT-GATAATAAAA
1 ATATTACATAGAGATTAGGTAGCCTAGATAGAGAATAAAA
460306 TATATT
1 -ATATT
460312 TTTGAGTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (40 bp):
ATATTACATAGAGATTAGGTAGCCTAGATAGAGAATAAAA
Found at i:460368 original size:46 final size:48
Alignment explanation
Indices: 460297--460389 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 48
460287 AGTCTAGATG
* *
460297 ATAATAAAATATATTTTTGAGTTAAAATAAGAA-A-AATATATATTAAA
1 ATAATAAAAAATATTTTTGAATTAAAATAAGAATACAATATAT-TTAAA
* *
460344 ATAA-AAAAAATATTTTTTAATTAAATTAAGAATACAATATATTTAA
1 ATAATAAAAAATATTTTTGAATTAAAATAAGAATACAATATATTTAA
460390 TAAGTTAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 24 0.60
47 9 0.22
48 7 0.17
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (48 bp):
ATAATAAAAAATATTTTTGAATTAAAATAAGAATACAATATATTTAAA
Found at i:460386 original size:29 final size:29
Alignment explanation
Indices: 460353--460420 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
460343 AATAAAAAAA
460353 ATATTTTTTAA-TTAAATTAAGAAT-ACAAT
1 ATATTTTTTAAGTTAAATTAA-AATAAC-AT
** *
460382 ATATTTAATAAGTTAAGTTAAAATAACAT
1 ATATTTTTTAAGTTAAATTAAAATAACAT
460411 AT-TTTTTTAA
1 ATATTTTTTAA
460421 AAGTTAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 16 0.50
30 10 0.31
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (29 bp):
ATATTTTTTAAGTTAAATTAAAATAACAT
Found at i:467448 original size:61 final size:61
Alignment explanation
Indices: 467360--467474 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
467350 AAAGGTGGAT
* *
467360 ACGACCTTATGTATCATGTCCGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* *
467421 ACGACCTTATGTGTCATATCCGGATTAGCACTATAGCGTAAGCTTGGTGCAGGT
1 ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
467475 TTAGCACTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (61 bp):
ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:468086 original size:22 final size:22
Alignment explanation
Indices: 468058--468110 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
468048 TGTATCGATA
**
468058 CACTGTTTGCGGTACAGTTCAT
1 CACTGTTCACGGTACAGTTCAT
*
468080 CACTGTTCACGGTACTGTTCAT
1 CACTGTTCACGGTACAGTTCAT
*
468102 CACTATTCA
1 CACTGTTCA
468111 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (22 bp):
CACTGTTCACGGTACAGTTCAT
Found at i:470358 original size:29 final size:29
Alignment explanation
Indices: 470323--470390 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
470313 CATTTTACAC
* * *
470323 AAATAGCACCCTTTTTAAAATATTTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
* *
470352 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
470381 GAATAGCACC
1 AAATAGCACC
470391 AAAACTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:470471 original size:18 final size:18
Alignment explanation
Indices: 470463--470505 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
470453 GTCGGGTCAA
*
470463 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
470481 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
470499 CGGGTCG
1 CGGGTCG
470506 TGACCGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:470503 original size:13 final size:13
Alignment explanation
Indices: 470438--470486 Score: 98
Period size: 13 Copynumber: 3.8 Consensus size: 13
470428 GTCAACGATT
470438 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
470451 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
470464 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
470477 GGGTCGGGTC
1 GGGTCGGGTC
470487 GGGTAAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.12, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
GGGTCGGGTCAAC
Found at i:472321 original size:166 final size:161
Alignment explanation
Indices: 472006--472332 Score: 609
Period size: 166 Copynumber: 2.0 Consensus size: 161
471996 ACGCAACCCC
472006 AACATATCCTCCAGAATCTGAATTACTCTCTCAGATTGACCATCATTGTGGATGAAAGGATGTAC
1 AACATATCCTCCAGAATCTGAATTACTCTCTCAGATTGACCATCATTGTGGATGAAAGGATGTAC
472071 TATAATACAATCTGTTCCAAAGCCGTATGTAACGCCTTCCAAATCTCGAAGTAAATCTCGGATCT
66 TATAATACAATCTGTTCCAAAGCCGTATGTAACGCCTTCCAAATCTCGAAGTAAATCTCGGATCT
472136 CGATCAGAAATAATAGACAATGGAACACCAT
131 CGATCAGAAATAATAGACAATGGAACACCAT
472167 AACATATCCTCCAGAATCTGAATTACTCTCTCAGATTGACCATCAGTTTGTGGATGAAAGGATGT
1 AACATATCCTCCAGAATCTGAATTACTCTCTCAGATTGACCATCA--TTGTGGATGAAAGGATGT
472232 ACTATAATACAATCTTGTTCCCAAAGCCGTATGTAACGCCTTCCAAAATCTCGAAGTAAATCTCG
64 ACTATAATACAATC-TGTT-CCAAAGCCGTATGTAACGCCTTCC-AAATCTCGAAGTAAATCTCG
472297 GATCTCGATCAGAAATAATAGACAATGGAACACCAT
126 GATCTCGATCAGAAATAATAGACAATGGAACACCAT
472333 GCAATCTGAC
Statistics
Matches: 161, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
161 45 0.28
163 32 0.20
164 4 0.02
165 24 0.15
166 56 0.35
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (161 bp):
AACATATCCTCCAGAATCTGAATTACTCTCTCAGATTGACCATCATTGTGGATGAAAGGATGTAC
TATAATACAATCTGTTCCAAAGCCGTATGTAACGCCTTCCAAATCTCGAAGTAAATCTCGGATCT
CGATCAGAAATAATAGACAATGGAACACCAT
Found at i:477848 original size:29 final size:29
Alignment explanation
Indices: 477813--477880 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
477803 CATTTTACAC
* * *
477813 AAATAGCACCCTTTTTAAAATATTTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
* *
477842 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
477871 GAATAGCACC
1 AAATAGCACC
477881 AAAACCGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:477889 original size:29 final size:29
Alignment explanation
Indices: 477833--477938 Score: 158
Period size: 29 Copynumber: 3.7 Consensus size: 29
477823 CTTTTTAAAA
* * ***
477833 TATTTACCAAAATAGCACCCATTTCGAAT
1 TATTTACCAGAATAGCACCAAAACCGAAT
*
477862 TAATTACCAGAATAGCACCAAAACCGAAT
1 TATTTACCAGAATAGCACCAAAACCGAAT
477891 TATTTACCAGAATAGCACCAAAACCGAAT
1 TATTTACCAGAATAGCACCAAAACCGAAT
477920 TATTTACCAGAATAGCACC
1 TATTTACCAGAATAGCACC
477939 GGTCAACGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (29 bp):
TATTTACCAGAATAGCACCAAAACCGAAT
Found at i:477978 original size:18 final size:18
Alignment explanation
Indices: 477969--478011 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
477959 GTCGGGTCAA
*
477969 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
*
477987 CAGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
478005 CGGGTCG
1 CGGGTCG
478012 TGACCGGTCA
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:0.14, C:0.21, G:0.49, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:478009 original size:13 final size:13
Alignment explanation
Indices: 477956--477992 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
477946 GGTCAACGAT
477956 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
477969 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
477982 CGGGTCAGGTC
1 CGGGTCGGGTC
477993 GGGTAAACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.46, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:482848 original size:24 final size:24
Alignment explanation
Indices: 482821--482869 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
482811 CTAGGGAAGC
482821 AGTGAGAAAATCATTTATGCTGTT
1 AGTGAGAAAATCATTTATGCTGTT
482845 AGTGAGAAAATCATTTATGCTGTT
1 AGTGAGAAAATCATTTATGCTGTT
482869 A
1 A
482870 AAGAACGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (24 bp):
AGTGAGAAAATCATTTATGCTGTT
Found at i:490327 original size:30 final size:29
Alignment explanation
Indices: 490291--490393 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 29
490281 ACTCCCTAAT
*
490291 TTTTTTTTTGAATTTTTAGGAATTTAGGAG
1 TTTTTTTTTGAAATTTTAGGAATTTAGG-G
* *
490321 -TTTTTTTTGAAATTTTATGGAAATTAAGG
1 TTTTTTTTTGAAATTTTA-GGAATTTAGGG
**
490350 TGTTTTTTTTGAAATTTTAATAATTTCAGGG
1 T-TTTTTTTTGAAATTTTAGGAATTT-AGGG
* *
490381 GTTTTTTTAGAAA
1 TTTTTTTTTGAAA
490394 ATAACTTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 17 0.28
30 23 0.38
31 20 0.33
ACGTcount: A:0.27, C:0.01, G:0.17, T:0.54
Consensus pattern (29 bp):
TTTTTTTTTGAAATTTTAGGAATTTAGGG
Found at i:490328 original size:31 final size:30
Alignment explanation
Indices: 490290--490388 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
490280 TACTCCCTAA
*
490290 TTTTTTTTTTGAATTTTTAGGAATTTAGGAG
1 TTTTTTTTTTGAAATTTTAGGAATTTAGG-G
* *
490321 --TTTTTTTTGAAATTTTATGGAAATTAAGG
1 TTTTTTTTTTGAAATTTTA-GGAATTTAGGG
* **
490350 TGTTTTTTTTGAAATTTTAATAATTTCAGGG
1 TTTTTTTTTTGAAATTTTAGGAATTT-AGGG
*
490381 GTTTTTTT
1 TTTTTTTT
490389 AGAAAATAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
29 17 0.31
30 12 0.22
31 26 0.47
ACGTcount: A:0.24, C:0.01, G:0.17, T:0.58
Consensus pattern (30 bp):
TTTTTTTTTTGAAATTTTAGGAATTTAGGG
Found at i:494194 original size:2 final size:2
Alignment explanation
Indices: 494187--494262 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
494177 ACCAAACCAA
494187 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
494229 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
494263 TAAGTTCAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:496268 original size:23 final size:22
Alignment explanation
Indices: 496234--496307 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
496224 TACAGCAGAG
496234 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* * *
496257 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
* *
496278 TGTATCGATACACATTCAAGGGA
1 TGCATCGATGCACATTCAA-GGA
*
496301 TGTATCG
1 TGCATCG
496308 GTACAGTAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 14 0.34
22 2 0.05
23 25 0.61
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:496312 original size:23 final size:23
Alignment explanation
Indices: 496244--496312 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
496234 TGCATCGATG
* * *
496244 CACATTCAAGGAATGCATCGGTG
1 CACATTCAAGGGATGTATCGGTA
* * *
496267 CACCTTC-ATGG-TGTATCGATA
1 CACATTCAAGGGATGTATCGGTA
496288 CACATTCAAGGGATGTATCGGTA
1 CACATTCAAGGGATGTATCGGTA
496311 CA
1 CA
496313 GTAACTAGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 13 0.37
22 5 0.14
23 17 0.49
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
CACATTCAAGGGATGTATCGGTA
Found at i:500160 original size:22 final size:21
Alignment explanation
Indices: 500118--500157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
500108 AAGACTATTT
500118 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
500139 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
500158 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:506480 original size:19 final size:18
Alignment explanation
Indices: 506462--506507 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
506452 TCTAAGTTTA
*
506462 AAAATAAAAATATTTTTT
1 AAAATAAAAATATATTTT
**
506480 AATGTAAAAATATATTTT
1 AAAATAAAAATATATTTT
506498 GAAAATAAAA
1 -AAAATAAAA
506508 TAAAATTTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
AAAATAAAAATATATTTT
Found at i:508989 original size:16 final size:16
Alignment explanation
Indices: 508968--509030 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
508958 TTATATATAT
508968 TAAAATATAAATAATA
1 TAAAATATAAATAATA
*
508984 TAAAATTTAAA-AATA
1 TAAAATATAAATAATA
**
508999 -AAAATA-AGTCTAATA
1 TAAAATATA-AATAATA
*
509014 TAAAATATTAATAATA
1 TAAAATATAAATAATA
509030 T
1 T
509031 TAAGTTCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
13 1 0.03
14 5 0.14
15 8 0.22
16 22 0.61
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATAAATAATA
Found at i:510808 original size:15 final size:15
Alignment explanation
Indices: 510790--510824 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
510780 TATGATATAT
510790 GTGAATATGTGTTAA
1 GTGAATATGTGTTAA
* *
510805 GTGAATGTGTGTTAT
1 GTGAATATGTGTTAA
510820 GTGAA
1 GTGAA
510825 ATAAAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (15 bp):
GTGAATATGTGTTAA
Found at i:511075 original size:25 final size:23
Alignment explanation
Indices: 511034--511108 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 23
511024 GAGTCGAGGG
*
511034 TTCTACGCGGTCTTTCGGGGACAAA
1 TTCTACGC-GTCCTTC-GGGACAAA
*
511059 TTCTACGCAGTCCTTCGTGACAAA
1 TTCTACGC-GTCCTTCGGGACAAA
*
511083 TTTCTACGCGATCCTTCAGGACAAA
1 -TTCTACGCG-TCCTTCGGGACAAA
511108 T
1 T
511109 CTATGTGGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 9 0.21
25 34 0.79
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (23 bp):
TTCTACGCGTCCTTCGGGACAAA
Found at i:511142 original size:24 final size:24
Alignment explanation
Indices: 511113--511159 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
511103 ACAAATCTAT
*
511113 GTGGCACTTCAG-TGCATATTATGA
1 GTGGCACTTC-GTTGCAAATTATGA
511137 GTGGCACTTCGTTGCAAATTATG
1 GTGGCACTTCGTTGCAAATTATG
511160 TGAGCAGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (24 bp):
GTGGCACTTCGTTGCAAATTATGA
Found at i:512546 original size:20 final size:20
Alignment explanation
Indices: 512517--512565 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
512507 CTGGGCAAGG
*
512517 TATCGGTACTGGAAGAACAA
1 TATCGATACTGGAAGAACAA
512537 TATCGATACTGGAAGAACAA
1 TATCGATACTGGAAGAACAA
512557 TATCGATAC
1 TATCGATAC
512566 CATATGAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (20 bp):
TATCGATACTGGAAGAACAA
Found at i:512687 original size:18 final size:19
Alignment explanation
Indices: 512664--512719 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
512654 TGCAAAAATG
512664 GTATCGATACTGAAGTG-A
1 GTATCGATACTGAAGTGAA
*
512682 GTATCGATACCATAGAAGGGAA
1 GTATCGATA-C-T-GAAGTGAA
512704 GTATCGATACT-AAGTG
1 GTATCGATACTGAAGTG
512720 TAGAGTACCG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 13 0.41
19 1 0.03
20 2 0.06
21 6 0.19
22 10 0.31
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (19 bp):
GTATCGATACTGAAGTGAA
Found at i:513250 original size:15 final size:15
Alignment explanation
Indices: 513232--513266 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
513222 TATGATATAT
513232 GTGAATATGTGTTAA
1 GTGAATATGTGTTAA
* *
513247 GTGAATGTGTGTTAT
1 GTGAATATGTGTTAA
513262 GTGAA
1 GTGAA
513267 ATGAAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (15 bp):
GTGAATATGTGTTAA
Found at i:513381 original size:30 final size:30
Alignment explanation
Indices: 513336--513405 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
513326 TGAAAATGTG
* *
513336 TATGCGAATATGTGTTAAGTGACTATAGTT
1 TATGTGAATACGTGTTAAGTGACTATAGTT
*
513366 TATGTGAATACGTGTTAAGTGACTGTAGTT
1 TATGTGAATACGTGTTAAGTGACTATAGTT
513396 TATGTGAATA
1 TATGTGAATA
513406 AAACATACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (30 bp):
TATGTGAATACGTGTTAAGTGACTATAGTT
Found at i:513540 original size:24 final size:24
Alignment explanation
Indices: 513505--513602 Score: 103
Period size: 24 Copynumber: 4.1 Consensus size: 24
513495 GAGTTGAGGG
*
513505 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* *
513529 TTCTACGTGGTCTTTCGAGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
*
513553 TTTCTACATGGTCCTTCGGGACAAA
1 -TTCTACGTGGTCCTTCGGGACAAA
*
513578 -TCTATGTGG-CACTTCGGTG-CAAA
1 TTCTACGTGGTC-CTTCGG-GACAAA
513601 TT
1 TT
513603 ATGTGAGAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.02
23 17 0.27
24 23 0.37
25 21 0.34
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:513564 original size:25 final size:25
Alignment explanation
Indices: 513513--513578 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
513503 GGTTCTACGC
*
513513 GGTCCTTCGGGACAAA-TTCTACGT
1 GGTCCTTCGGGACAAATTTCTACAT
* *
513537 GGTCTTTCGAGACAAATTTCTACAT
1 GGTCCTTCGGGACAAATTTCTACAT
513562 GGTCCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
513579 CTATGTGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 14 0.39
25 22 0.61
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
GGTCCTTCGGGACAAATTTCTACAT
Found at i:541785 original size:93 final size:93
Alignment explanation
Indices: 541651--541842 Score: 303
Period size: 93 Copynumber: 2.1 Consensus size: 93
541641 TTATCACAAC
* * * *
541651 TAAGATCAAAATCCTCACTGTGATTCATTTGAAGTTCTTTTAGCAACCGTTGAGCTCGAATATCT
1 TAAGTTCAAAATCCTCACTATGATTCATTTGAAGTTCTTTTAGCAACCGTTGAACTCGAATAGCT
** *
541716 TCACAAATTCCTTGTGCCAAAAAGGACT
66 TCACAAATTCCTCATGCCAAAAAAGACT
*
541744 TAAGTTCAAAATCCTCACTATGATTCATTTGAAGTTCTTTTAGCAACTGTTGAACTCGAATAGCT
1 TAAGTTCAAAATCCTCACTATGATTCATTTGAAGTTCTTTTAGCAACCGTTGAACTCGAATAGCT
*
541809 TCACAAATTCCTCATGCCAAAAAAGCCT
66 TCACAAATTCCTCATGCCAAAAAAGACT
541837 TAAGTT
1 TAAGTT
541843 TCTGTATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (93 bp):
TAAGTTCAAAATCCTCACTATGATTCATTTGAAGTTCTTTTAGCAACCGTTGAACTCGAATAGCT
TCACAAATTCCTCATGCCAAAAAAGACT
Found at i:545234 original size:72 final size:72
Alignment explanation
Indices: 545147--545290 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
545137 ACTGTTTGTT
* *
545147 CCTTTTGTTCTAGGTTATCGTTTCCATCGTTGTTTATTTGTAAATTTATGATATATGTTCTATGT
1 CCTTTTGCTCTAGGTTATCGTTTCCATCGTTGTTTATTTGTAAATTTATGATATAGGTTCTATGT
545212 GCTGGTA
66 GCTGGTA
545219 CCTTTTGCTCTAGGTTATCGTTTCCATCGTTGTTTATTTGTAAATTTATGATATAGGTTCTATGT
1 CCTTTTGCTCTAGGTTATCGTTTCCATCGTTGTTTATTTGTAAATTTATGATATAGGTTCTATGT
545284 GCTGGTA
66 GCTGGTA
545291 AAGATCTGGC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (72 bp):
CCTTTTGCTCTAGGTTATCGTTTCCATCGTTGTTTATTTGTAAATTTATGATATAGGTTCTATGT
GCTGGTA
Found at i:550945 original size:2 final size:2
Alignment explanation
Indices: 550938--550970 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
550928 AAATATCTTC
550938 AT AT 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 AT AT A
550971 AGCCTTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:551138 original size:23 final size:23
Alignment explanation
Indices: 551112--551156 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
551102 TATCTTTTAG
*
551112 TTTAC-ATATAAAACTATATTTTT
1 TTTACAAT-TAAAACTAAATTTTT
*
551135 TTTAGAATTAAAACTAAATTTT
1 TTTACAATTAAAACTAAATTTT
551157 CAAGGGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTACAATTAAAACTAAATTTTT
Found at i:551427 original size:27 final size:26
Alignment explanation
Indices: 551396--551452 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
551386 TAAGAATTTA
*
551396 AAAAAATTTAAATTTTTAAAAATATAT
1 AAAAAATTTAAATTTTAAAAAATAT-T
*
551423 AAAAATTTTAAATTTTAAAAAATATT
1 AAAAAATTTAAATTTTAAAAAATATT
551449 AAAA
1 AAAA
551453 CGAAAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAAATTTAAATTTTAAAAAATATT
Found at i:551531 original size:15 final size:14
Alignment explanation
Indices: 551513--551546 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
551503 TTTTAAAAAT
551513 ATTATACATTATAAA
1 ATTATACATTAT-AA
*
551528 ATTATATATTATAA
1 ATTATACATTATAA
551542 ATTAT
1 ATTAT
551547 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATACATTATAA
Found at i:551558 original size:22 final size:22
Alignment explanation
Indices: 551507--551570 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
551497 ATTTATTTTT
*
551507 AAAAATATTATACATTA-TAAA
1 AAAAATATTATAAATTATTAAA
* *
551528 ATTATATATTATAAATTATTAAA
1 A-AAAATATTATAAATTATTAAA
*
551551 AAAAATATTTATAAAATATT
1 AAAAATA-TTATAAATTATT
551571 GATATGAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 17 0.50
23 16 0.47
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATATTATAAATTATTAAA
Found at i:552889 original size:16 final size:17
Alignment explanation
Indices: 552863--552898 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
552853 TATGGCTAAA
552863 AAATGATGTGACTGATT
1 AAATGATGTGACTGATT
552880 AAAT-ATGTGACTGATT
1 AAATGATGTGACTGATT
552896 AAA
1 AAA
552899 AGCGCTACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (17 bp):
AAATGATGTGACTGATT
Found at i:553309 original size:107 final size:108
Alignment explanation
Indices: 553122--553317 Score: 315
Period size: 107 Copynumber: 1.8 Consensus size: 108
553112 TAGAAATCTA
*
553122 ACGATAACAAAATATGTTTATTACTTAATTTGTTATCAATATTATCAACATATTAAGTAGCGCCT
1 ACGATAACAAAATATGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAAGTAGCGCCT
*
553187 AAAATATTATCAAAGTTTAAGCTGGCGGGGCTTTAGATATTCG
66 AAAATATTACCAAAGTTTAAGCTGGCGGGGCTTTAGATATTCG
* * *
553230 ACGATAACAAAATAT-TTAATTACTTATTTTGTT-TCTAATATTATCAACATATTAGGTAGCGCT
1 ACGATAACAAAATATGTTAATTACTTAATTTGTTATC-AATATTATCAACATATTAAGTAGCGCC
*
553293 TAAAATGTTACCAAAGTTTAAGCTG
65 TAAAATATTACCAAAGTTTAAGCTG
553318 ATGGGGCATT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
106 2 0.02
107 64 0.79
108 15 0.19
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (108 bp):
ACGATAACAAAATATGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAAGTAGCGCCT
AAAATATTACCAAAGTTTAAGCTGGCGGGGCTTTAGATATTCG
Found at i:553346 original size:107 final size:107
Alignment explanation
Indices: 553127--553392 Score: 293
Period size: 107 Copynumber: 2.5 Consensus size: 107
553117 ATCTAACGAT
* *
553127 AACAAAATATGTTTATTACTTAATTTGTTATCAATATTATCAACATATTAAGTAGCGCCTAAAAT
1 AACAAAATAT-TTAATTACTTATTTTGTTATCAATATTATCAACATATTAAGTAGCGCCTAAAAT
* * * * * * *
553192 ATTATCAAAGTTTAAGCTGGCGGGGCTTTAGATATTCGACGAT
65 ATTACCAAAGTTTAAGCTGACGGGGCATTAGATAATCCACAAC
* *
553235 AACAAAATATTTAATTACTTATTTTGTT-TCTAATATTATCAACATATTAGGTAGCGCTTAAAAT
1 AACAAAATATTTAATTACTTATTTTGTTATC-AATATTATCAACATATTAAGTAGCGCCTAAAAT
* * *
553299 GTTACCAAAGTTTAAGCTGATGGGGCATTCGA-AATCACACAAC
65 ATTACCAAAGTTTAAGCTGACGGGGCATTAGATAATC-CACAAC
* * * * * *
553342 AACAAAATAAGTTAATTTCTTATTTTATTATAAATAAATATTAACATATTA
1 AACAAAAT-ATTTAATTACTTATTTTGTTATCAAT-ATTATCAACATATTA
553393 GGTTGCACTC
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
106 5 0.04
107 84 0.63
108 30 0.23
109 14 0.11
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (107 bp):
AACAAAATATTTAATTACTTATTTTGTTATCAATATTATCAACATATTAAGTAGCGCCTAAAATA
TTACCAAAGTTTAAGCTGACGGGGCATTAGATAATCCACAAC
Found at i:554313 original size:75 final size:75
Alignment explanation
Indices: 554229--554392 Score: 220
Period size: 75 Copynumber: 2.2 Consensus size: 75
554219 TTAGGTAACA
* * * * * *
554229 CCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAATAAACCGGTAGATATTTTAACGTA
1 CCTATTTTATTTTACCGTTTACATTATTAGAAACATTCAAACAAACCGGTAGATAGTTTAACATA
554294 ATATGCAGCG
66 ATATGCAGCG
* * * *
554304 CCTATTTTATTTTACCGTTTATATTATTAGAAACATTCAAACAAACTGGTAGGTAGTTTAATATA
1 CCTATTTTATTTTACCGTTTACATTATTAGAAACATTCAAACAAACCGGTAGATAGTTTAACATA
*
554369 ATATGTAGCG
66 ATATGCAGCG
*
554379 TCTATTTTATTTTA
1 CCTATTTTATTTTA
554393 ATCGGTTAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (75 bp):
CCTATTTTATTTTACCGTTTACATTATTAGAAACATTCAAACAAACCGGTAGATAGTTTAACATA
ATATGCAGCG
Found at i:555205 original size:30 final size:30
Alignment explanation
Indices: 555169--555244 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
555159 TGCATGGAGG
555169 CATGGAGGTCTAGGCGCCTTTAACACAAGT
1 CATGGAGGTCTAGGCGCCTTTAACACAAGT
**
555199 CATGGAGGTCTAGGCATCTTTAACACAAGT
1 CATGGAGGTCTAGGCGCCTTTAACACAAGT
*
555229 CATGGAGGTCTCGGCG
1 CATGGAGGTCTAGGCG
555245 TCTTCAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (30 bp):
CATGGAGGTCTAGGCGCCTTTAACACAAGT
Found at i:558862 original size:31 final size:31
Alignment explanation
Indices: 558827--558965 Score: 171
Period size: 31 Copynumber: 4.6 Consensus size: 31
558817 TTATTAAATT
*
558827 TTAACTTTAATGATTTGATACTAATTATTAG
1 TTAACTTTAATGATTTAATACTAATTATTAG
* *
558858 TTAAC-TTACATGATTTAATTA-TAATGAGTAG
1 TTAACTTTA-ATGATTTAA-TACTAATTATTAG
*
558889 TTAACTTTAATGATTTGATACTAATTATTAG
1 TTAACTTTAATGATTTAATACTAATTATTAG
* *
558920 TTAACTTTAATGATTTAATAATAATAATT--
1 TTAACTTTAATGATTTAATACTAATTATTAG
558949 TT-ACTTTAATGATTTAA
1 TTAACTTTAATGATTTAA
558966 CTTTACTGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
28 15 0.16
29 2 0.02
30 5 0.05
31 68 0.72
32 5 0.05
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (31 bp):
TTAACTTTAATGATTTAATACTAATTATTAG
Found at i:558902 original size:62 final size:62
Alignment explanation
Indices: 558827--558944 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 62
558817 TTATTAAATT
*
558827 TTAACTTTAATGATTTGATACTAATTATTAGTTAAC-TTACATGATTTAATTATAATGAGTAG
1 TTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTA-ATGATTTAATAATAATGAGTAG
558889 TTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAATGATTTAATAATAAT
1 TTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAATGATTTAATAATAAT
558945 AATTTTACTT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
62 51 0.94
63 3 0.06
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (62 bp):
TTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAATGATTTAATAATAATGAGTAG
Found at i:558944 original size:14 final size:14
Alignment explanation
Indices: 558927--559051 Score: 87
Period size: 14 Copynumber: 8.9 Consensus size: 14
558917 TAGTTAACTT
558927 TAATGATTTAATAA
1 TAATGATTTAATAA
* * *
558941 TAATAATTTTACT-T
1 TAATGA-TTTAATAA
*
558955 TAATGATTTAACT-T
1 TAATGATTTAA-TAA
*
558969 TACTGATTTAATAA
1 TAATGATTTAATAA
* * *
558983 TTATGAATTAACT-T
1 TAATGATTTAA-TAA
558997 TAATGATTTAATAA
1 TAATGATTTAATAA
* *
559011 TAATAATTTAACT-T
1 TAATGATTTAA-TAA
*
559025 TAATTATTTAATAA
1 TAATGATTTAATAA
559039 TAATGATTTAATA
1 TAATGATTTAATA
559052 GGCAAATCAA
Statistics
Matches: 85, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
13 7 0.08
14 71 0.84
15 7 0.08
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:558967 original size:42 final size:42
Alignment explanation
Indices: 558920--559007 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
558910 TAATTATTAG
*
558920 TTAACTTTAATGATTTAATAATAAT-AATTTTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATGAA-TTAACTTTAATGAT
* *
558962 TTAACTTTACTGATTTAATAATTATGAATTAACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATGAATTAACTTTAATGAT
559004 TTAA
1 TTAA
559008 TAATAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (42 bp):
TTAACTTTAATGATTTAATAATAATGAATTAACTTTAATGAT
Found at i:558977 original size:28 final size:28
Alignment explanation
Indices: 558803--558965 Score: 103
Period size: 31 Copynumber: 5.4 Consensus size: 28
558793 GATTTAATAA
* *
558803 TAATGATTTAATCATTATTAAATTTTAACTT
1 TAATGATTTAAT-AATAAT-AATTTT-ACTT
* * *
558834 TAATGATTTGATACTAATTATTAGTTAAC-T
1 TAATGATTTAATAATAATAATT--TT-ACTT
* * *
558864 TACATGATTTAATTATAATGAGTAGTTAACTT
1 TA-ATGATTTAATAATAAT-A--ATTTTACTT
* * *
558896 TAATGATTTGATACTAATTATTAGTTAACTT
1 TAATGATTTAATAATAATAATT--TT-ACTT
558927 TAATGATTTAATAATAATAATTTTACTT
1 TAATGATTTAATAATAATAATTTTACTT
558955 TAATGATTTAA
1 TAATGATTTAA
558966 CTTTACTGAT
Statistics
Matches: 103, Mismatches: 19, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
28 17 0.17
29 5 0.05
30 8 0.08
31 67 0.65
32 4 0.04
34 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (28 bp):
TAATGATTTAATAATAATAATTTTACTT
Found at i:558988 original size:28 final size:28
Alignment explanation
Indices: 558955--559049 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
558945 AATTTTACTT
*
558955 TAATGATTTAACTTTACTGATTTAATAA
1 TAATGATTTAACTTTAATGATTTAATAA
* *
558983 TTATGAATTAACTTTAATGATTTAATAA
1 TAATGATTTAACTTTAATGATTTAATAA
* *
559011 TAATAATTTAACTTTAATTATTTAATAA
1 TAATGATTTAACTTTAATGATTTAATAA
559039 TAATGATTTAA
1 TAATGATTTAA
559050 TAGGCAAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (28 bp):
TAATGATTTAACTTTAATGATTTAATAA
Found at i:558997 original size:70 final size:73
Alignment explanation
Indices: 558889--559035 Score: 228
Period size: 70 Copynumber: 2.1 Consensus size: 73
558879 TAATGAGTAG
* * *
558889 TTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAATGATTTAATAATAATAATTTTACT
1 TTAACTTTAATGATTTGATACTAATTATGAATTAACTTTAATGATTTAATAATAATAATTTAACT
558954 TTAATGAT
66 TTAATGAT
*
558962 TTAACTTTACTGATTT-A-A-TAATTATGAATTAACTTTAATGATTTAATAATAATAATTTAACT
1 TTAACTTTAATGATTTGATACTAATTATGAATTAACTTTAATGATTTAATAATAATAATTTAACT
*
559024 TTAATTAT
66 TTAATGAT
559032 TTAA
1 TTAA
559036 TAATAATGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 52 0.75
71 1 0.01
72 1 0.01
73 15 0.22
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (73 bp):
TTAACTTTAATGATTTGATACTAATTATGAATTAACTTTAATGATTTAATAATAATAATTTAACT
TTAATGAT
Found at i:559020 original size:42 final size:42
Alignment explanation
Indices: 558920--559021 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
558910 TAATTATTAG
* *
558920 TTAACTTTAATGATTTAATAATAATAATTTTACTTTAATGAT
1 TTAACTATAATGATTTAATAATAATAATTTAACTTTAATGAT
* * *
558962 TTAACTTTACTGATTTAATAATTATGAA-TTAACTTTAATGAT
1 TTAACTATAATGATTTAATAATAAT-AATTTAACTTTAATGAT
*
559004 TTAA-TAATAATAATTTAA
1 TTAACT-ATAATGATTTAA
559022 CTTTAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.94
43 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (42 bp):
TTAACTATAATGATTTAATAATAATAATTTAACTTTAATGAT
Found at i:561555 original size:27 final size:29
Alignment explanation
Indices: 561525--561591 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 29
561515 CATATCCCAT
561525 GAAGAAGA-CG-AATCCTTACCCTAATAC
1 GAAGAAGACCGAAATCCTTACCCTAATAC
561552 GAAGAAGACGCCGATAAATCCTTACCCTAATAC
1 GAAGAAGA--CCG--AAATCCTTACCCTAATAC
561585 GAAGAAG
1 GAAGAAG
561592 TCATTGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 8 0.24
30 2 0.06
33 24 0.71
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (29 bp):
GAAGAAGACCGAAATCCTTACCCTAATAC
Found at i:561601 original size:33 final size:33
Alignment explanation
Indices: 561535--561606 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
561525 GAAGAAGACG
*
561535 AATCCTTACCCTAATACGAAGAAGACGCCGATA
1 AATCCTTACCCTAATACGAAGAAGACACCGATA
* **
561568 AATCCTTACCCTAATACGAAGAAGTCATTGATA
1 AATCCTTACCCTAATACGAAGAAGACACCGATA
561601 AATCCT
1 AATCCT
561607 CTAATAAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (33 bp):
AATCCTTACCCTAATACGAAGAAGACACCGATA
Found at i:561815 original size:39 final size:39
Alignment explanation
Indices: 561759--561846 Score: 167
Period size: 39 Copynumber: 2.3 Consensus size: 39
561749 CTCCCACATT
*
561759 ACTGAAGACGCCGAGAGTTCCTATAATGAATTCAACACC
1 ACTGAAGACGCCAAGAGTTCCTATAATGAATTCAACACC
561798 ACTGAAGACGCCAAGAGTTCCTATAATGAATTCAACACC
1 ACTGAAGACGCCAAGAGTTCCTATAATGAATTCAACACC
561837 ACTGAAGACG
1 ACTGAAGACG
561847 TCGGGAGATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (39 bp):
ACTGAAGACGCCAAGAGTTCCTATAATGAATTCAACACC
Found at i:562320 original size:81 final size:82
Alignment explanation
Indices: 562167--562345 Score: 324
Period size: 81 Copynumber: 2.2 Consensus size: 82
562157 CAATTCCAAA
562167 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCGAAATTC
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCGAAATTC
*
562232 GCGTTGCGATTTTCCAT
66 GCATTGCGATTTTCCAT
* *
562249 TTCGCGTTGCGATAGTCGAAATTTGCGTTGCGA-TTTCCATTTCGCGTTGCGATAGTTGAAATTC
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCGAAATTC
562313 GCATTGCGATTTTCCAT
66 GCATTGCGATTTTCCAT
562330 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
562346 TTCCGCGCGG
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 62 0.66
82 32 0.34
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (82 bp):
TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCGAAATTC
GCATTGCGATTTTCCAT
Found at i:562346 original size:41 final size:41
Alignment explanation
Indices: 562167--562345 Score: 324
Period size: 41 Copynumber: 4.4 Consensus size: 41
562157 CAATTCCAAA
562167 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
562208 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
*
562249 TTCGCGTTGCGATAGTCGAAATTTGCGTTGCGA-TTTCCAT
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
* *
562289 TTCGCGTTGCGATAGTTGAAATTCGCATTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
562330 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
562346 TTCCGCGCGG
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 37 0.28
41 96 0.72
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATTTTCCAT
Found at i:562387 original size:6 final size:6
Alignment explanation
Indices: 562376--562431 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
562366 GACACGTATT
562376 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
562424 ACC-CG ACC
1 ACCACG ACC
562432 CGAGACGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 45 0.90
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:563346 original size:20 final size:20
Alignment explanation
Indices: 563323--563398 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
563313 ATTTTGGACT
563323 ATCGCAATGCGAAATGGAAA
1 ATCGCAATGCGAAATGGAAA
* * **
563343 ATCGCAATGCGAATTTCGACT
1 ATCGCAATGCGAA-ATGGAAA
* *
563364 ATCGTAACGCGAAATGGAAA
1 ATCGCAATGCGAAATGGAAA
563384 ATCGCAATGC-AAATG
1 ATCGCAATGCGAAATG
563399 CGAATTTCGA
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
19 5 0.12
20 24 0.56
21 14 0.33
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAATGGAAA
Found at i:568765 original size:13 final size:13
Alignment explanation
Indices: 568747--568792 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
568737 ACTCTCTATG
568747 ATATATGTATATC
1 ATATATGTATATC
* *
568760 ATATATGCATAAC
1 ATATATGTATATC
568773 ATATATGTATATC
1 ATATATGTATATC
*
568786 ACATATG
1 ATATATG
568793 AAGAAATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (13 bp):
ATATATGTATATC
Found at i:570251 original size:48 final size:48
Alignment explanation
Indices: 570182--570297 Score: 178
Period size: 48 Copynumber: 2.4 Consensus size: 48
570172 CATAATTCAT
* * *
570182 GTCAAGTATCATATCAAAATCCATGTTAAATATCATATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCATGTCAAATATCATATCAAAATCCAA
* * *
570230 GTCAAGTATCAGATCAGAATCCATGTCAGATATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCATGTCAAATATCATATCAAAATCCAA
570278 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
570298 TCAAATCGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCATGTCAAATATCATATCAAAATCCAA
Found at i:570294 original size:24 final size:24
Alignment explanation
Indices: 570179--570297 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
570169 AAACATAATT
*
570179 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
570203 CATGTTAAATATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* *
570227 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
570251 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
570275 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
570298 TCAAATCGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:570313 original size:72 final size:72
Alignment explanation
Indices: 570179--570315 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
570169 AAACATAATT
* * * *
570179 CATGTCAAGTATCATATCAAAATCCATGTTAAATATCATATCAAAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCATGTCAAATATCAGATCAAAATCCAAATCAAGAATCAGAT
570244 CAGAATC
66 CAGAATC
* * * *
570251 CATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCATATCAAAATCCATGTCAAATATCAGATCAAAATCCAAATC-AAGAATCAG
570314 AT
64 AT
570316 AAAATATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.93
73 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (72 bp):
CATGTCAAGTATCATATCAAAATCCATGTCAAATATCAGATCAAAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:571923 original size:18 final size:17
Alignment explanation
Indices: 571900--571933 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
571890 AACTAACATT
571900 TTTTATGCACATCAATAG
1 TTTTAT-CACATCAATAG
*
571918 TTTTATCAGATCAATA
1 TTTTATCACATCAATA
571934 TGTATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
TTTTATCACATCAATAG
Found at i:571932 original size:17 final size:18
Alignment explanation
Indices: 571900--571946 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
571890 AACTAACATT
*
571900 TTTTATGCACATCAATA-G
1 TTTTAT-CAGATCAATATG
571918 TTTTATCAGATCAATATG
1 TTTTATCAGATCAATATG
571936 TATTT-TCAGAT
1 T-TTTATCAGAT
571947 TTATTAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTATCAGATCAATATG
Found at i:573780 original size:19 final size:19
Alignment explanation
Indices: 573752--573789 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
573742 ACAAAAATGA
*
573752 GTATGTAAAACTTTTATTT
1 GTATGCAAAACTTTTATTT
*
573771 GTATGCAAAATTTTTATTT
1 GTATGCAAAACTTTTATTT
573790 TTTCTCCTTG
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:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
GTATGCAAAACTTTTATTT
Found at i:584002 original size:8 final size:8
Alignment explanation
Indices: 583989--584016 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
583979 ATATTCTCCC
583989 ATATGTAT
1 ATATGTAT
583997 ATATGTAT
1 ATATGTAT
584005 ATATGTAT
1 ATATGTAT
584013 ATAT
1 ATAT
584017 CTTCTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:587538 original size:8 final size:8
Alignment explanation
Indices: 587525--587581 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 8
587515 AAAATGAGTG
587525 AAAATGAA
1 AAAATGAA
587533 AAAATG-A
1 AAAATGAA
587540 AAAAT-AA
1 AAAATGAA
587547 AAAAT-AA
1 AAAATGAA
587554 AAAATG--
1 AAAATGAA
587560 --AATGAAA
1 AAAATG-AA
587567 AAAATGAA
1 AAAATGAA
587575 AAAATGA
1 AAAATGA
587582 GGGTTCAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
4 4 0.10
7 19 0.45
8 15 0.36
9 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (8 bp):
AAAATGAA
Found at i:587555 original size:21 final size:20
Alignment explanation
Indices: 587525--587577 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
587515 AAAATGAGTG
587525 AAAATGAAAAAATGAAAAATAA
1 AAAATG-AAAAATGAAAAA-AA
* **
587547 AAAATAAAAAATGAATGAAA
1 AAAATGAAAAATGAAAAAAA
587567 AAAATGAAAAA
1 AAAATGAAAAA
587578 ATGAGGGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (20 bp):
AAAATGAAAAATGAAAAAAA
Found at i:587578 original size:21 final size:22
Alignment explanation
Indices: 587525--587581 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
587515 AAAATGAGTG
587525 AAAATGAAAAAATGAAAAATAA
1 AAAATGAAAAAATGAAAAATAA
**
587547 AAAAT-AAAAAATGAATGA-AA
1 AAAATGAAAAAATGAAAAATAA
587567 AAAATGAAAAAATGA
1 AAAATGAAAAAATGA
587582 GGGTTCAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 20 0.62
22 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (22 bp):
AAAATGAAAAAATGAAAAATAA
Found at i:588664 original size:55 final size:55
Alignment explanation
Indices: 588580--589170 Score: 836
Period size: 55 Copynumber: 10.7 Consensus size: 55
588570 CCAACGATAA
* * *
588580 TTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
*
588635 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* *
588690 TTGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
588745 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* *
588800 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGTTTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
588855 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGATTG
588911 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-TTCG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATT-G
* * *
588966 TTGAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCAGGCACGATTA
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGATTG
* * * *
589022 TTG-AGAATTGTTCGAGTCTCGTACTCTCTGAAAAAAATAGGGAGCAGACATGATTA
1 TTGAAG-ATTGTTCGAGTCTCATACTCTCTG-AAGAAATAGGGAGCAGACACGATTG
* * * ** *
589078 TCG-AGAATCGTTTGAGTCTTGTACTCTCTGGAA-AAATGGGGAGCAGACACGATTG
1 TTGAAG-ATTGTTCGAGTCTCATACTCTCT-GAAGAAATAGGGAGCAGACACGATTG
** * * *
589133 ACGAAGATT-TTCGAGT-T-TTACTCCCTGAAGCAATAGGG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
589171 GATAAAACCA
Statistics
Matches: 496, Mismatches: 31, Indels: 21
0.91 0.06 0.04
Matches are distributed among these distances:
51 3 0.01
52 13 0.03
53 1 0.00
54 8 0.02
55 322 0.65
56 144 0.29
57 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
Found at i:595137 original size:13 final size:14
Alignment explanation
Indices: 595121--595152 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
595111 CTATTATTAT
595121 TATTATT-AATAAA
1 TATTATTAAATAAA
595134 TATTATTAAATAAA
1 TATTATTAAATAAA
595148 TATTA
1 TATTA
595153 CAGGCCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTATTAAATAAA
Found at i:595141 original size:3 final size:3
Alignment explanation
Indices: 595066--595128 Score: 110
Period size: 3 Copynumber: 21.0 Consensus size: 3
595056 TTCATTTTGT
595066 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
595114 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
595129 ATAAATATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:596507 original size:11 final size:11
Alignment explanation
Indices: 596438--596514 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
596428 TTTATAATTT
*
596438 TTATAATTTTA
1 TTATTATTTTA
*
596449 TT-TTGTTTTA
1 TTATTATTTTA
596459 TTATTATTTT-
1 TTATTATTTTA
*
596469 TGATATATGTTTAAA
1 TTAT-TAT-TTT--A
596484 TTATTATTTTTA
1 TTATTA-TTTTA
596496 TTATTATTTTA
1 TTATTATTTTA
*
596507 TTAGTATT
1 TTATTATT
596515 ATCTTAAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 11 0.21
11 23 0.43
12 10 0.19
14 5 0.09
15 4 0.08
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:599078 original size:15 final size:15
Alignment explanation
Indices: 599058--599089 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
599048 CATTTTTACA
599058 TTTGCATATTTGCAT
1 TTTGCATATTTGCAT
*
599073 TTTGCATCTTTGCAT
1 TTTGCATATTTGCAT
599088 TT
1 TT
599090 GTACTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTGCATATTTGCAT
Found at i:599090 original size:14 final size:14
Alignment explanation
Indices: 599037--599090 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
599027 ATTTTGAATA
* *
599037 ATTTACATTTACAT
1 ATTTGCATTTGCAT
* *
599051 TTTTACATTTGCAT
1 ATTTGCATTTGCAT
599065 ATTTGCATTTTGCAT
1 ATTTGCA-TTTGCAT
*
599080 CTTTGCATTTG
1 ATTTGCATTTG
599091 TACTTTTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.54
Consensus pattern (14 bp):
ATTTGCATTTGCAT
Found at i:602601 original size:10 final size:9
Alignment explanation
Indices: 602586--602624 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
602576 TATTATACTT
602586 AAAAAAAGG
1 AAAAAAAGG
602595 AAAAAAAAGG
1 -AAAAAAAGG
602605 -AAAAAAGG
1 AAAAAAAGG
602613 AAAAAAAGG
1 AAAAAAAGG
602622 AAA
1 AAA
602625 GAATTGAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:602610 original size:18 final size:17
Alignment explanation
Indices: 602587--602624 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
602577 ATTATACTTA
602587 AAAAAAGGAAAAAAAAGG
1 AAAAAAGG-AAAAAAAGG
602605 AAAAAAGGAAAAAAAGG
1 AAAAAAGGAAAAAAAGG
602622 AAA
1 AAA
602625 GAATTGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAAAAAAAGG
Found at i:606769 original size:22 final size:22
Alignment explanation
Indices: 606741--606798 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
606731 TACATCTACA
* *
606741 CTCTTCAAAGATGATGGATTTT
1 CTCTTCAAAGATGATAGATTCT
* *
606763 CTCTTCAAAGATAATATATTCT
1 CTCTTCAAAGATGATAGATTCT
*
606785 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
606799 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:607531 original size:113 final size:113
Alignment explanation
Indices: 607171--607943 Score: 1234
Period size: 113 Copynumber: 6.9 Consensus size: 113
607161 ATCCACCACC
** *
607171 CGATGGATTAGCATTGCCAGACAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
607236 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTTAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* * *
607284 CGATGGATTAACATTGCCAGGTAGAGTTTATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAA
1 CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
607349 GTTC---ATGAGAAGAACTTGTTCAACATTTTTCTTTAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* *
607394 CGATGGATTAACATTGCCAGGTAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
607459 GTTCATAATGAGAAGAACTTGTTCAACATTTTTCTTTAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* * * *
607507 CGATGGATTAACATTGCCAGGTAGAGTTCGTAATGAGAAAAACTCATCTGAAGAAGGAAGAATAA
1 CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
607572 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* *
607620 CGATGGATTAGCATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGA
1 CGATGGATTAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
607684 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
65 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* * *
607733 CGATGGATTAGCATTTCCAGGTAGAGTTCGTAATGAGAAGAACTCATATGAAGAAGGAAGAAGAA
1 CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
607798 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
* * * *
607846 CGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGA
1 CGATGGATTAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
**
607909 AGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
65 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
607944 ATGACTCTAT
Statistics
Matches: 622, Mismatches: 32, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
110 104 0.17
112 44 0.07
113 472 0.76
114 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
CGATGGATTAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACT
Found at i:608037 original size:40 final size:40
Alignment explanation
Indices: 607993--608087 Score: 190
Period size: 40 Copynumber: 2.4 Consensus size: 40
607983 TTCCAGAATT
607993 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGA
608033 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGA
608073 GTTCATAATGAGAAG
1 GTTCATAATGAGAAG
608088 CTTGTTCAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.44, C:0.09, G:0.27, T:0.19
Consensus pattern (40 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGA
Found at i:608125 original size:160 final size:161
Alignment explanation
Indices: 607869--608208 Score: 569
Period size: 160 Copynumber: 2.1 Consensus size: 161
607859 TTTCCAGAGA
*
607869 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
*
607934 AACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCATCATCAACATTTCCAGAATTGTTCAT
66 AACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCATCATCAACATTTCCAGAAGTGTTCAT
*
607999 AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
131 AATGAGAAGAACTCATCTGAAG-AGAAAGAAG
* *
608031 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAATGAG-A-AGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* **
608094 CAA-CTTTTGCATGACTCTATCACAGAAGGAGATAGATCATCATCAACATTTCTTGAAGTGTTCA
65 CAACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCATCATCAACATTTCCAGAAGTGTTCA
608158 TAATGAGAAGAACTCATCTGAAGAGAAAGAAG
130 TAATGAGAAGAACTCATCTGAAGAGAAAGAAG
608190 AAGTTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
608209 TTTGTTTAAC
Statistics
Matches: 168, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
159 26 0.15
160 80 0.48
161 10 0.06
162 30 0.18
163 22 0.13
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (161 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCATCATCAACATTTCCAGAAGTGTTCAT
AATGAGAAGAACTCATCTGAAGAGAAAGAAG
Found at i:608590 original size:3 final size:3
Alignment explanation
Indices: 608584--608626 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
608574 TTCATTTTGT
* *
608584 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTT TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
608627 ATAAATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:608613 original size:22 final size:22
Alignment explanation
Indices: 608584--608636 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
608574 TTCATTTTGT
*
608584 TTAT-TATTATTATTATTATTA
1 TTATATATTATTATTACTATTA
*
608605 TTATATATTTTTATTACTATTA
1 TTATATATTATTATTACTATTA
* *
608627 ATAAATATTA
1 TTATATATTA
608637 CAGGCCCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATATTATTATTACTATTA
Found at i:609997 original size:11 final size:11
Alignment explanation
Indices: 609928--610004 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
609918 TAAGTTAATT
*
609928 TTATAATTTTA
1 TTATTATTTTA
*
609939 TT-TTGTTTTA
1 TTATTATTTTA
609949 TTATTATTTT-
1 TTATTATTTTA
*
609959 TGATATATGTTTAAA
1 TTAT-TAT-TTT--A
609974 TTATTATTTTTA
1 TTATTA-TTTTA
609986 TTATTATTTTA
1 TTATTATTTTA
*
609997 TTAGTATT
1 TTATTATT
610005 ATCTTAAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 11 0.21
11 23 0.43
12 10 0.19
14 5 0.09
15 4 0.08
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:610885 original size:3 final size:3
Alignment explanation
Indices: 610877--610965 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
610867 TTTTTATCCA
*
610877 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
610925 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
610966 AATATATTAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:611453 original size:21 final size:21
Alignment explanation
Indices: 611442--611500 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
611432 AAAGAGACCG
611442 GAGACAGAAAAAAAAACCAGA
1 GAGACAGAAAAAAAAACCAGA
* ** *
611463 GGGACAGAAAAAAAAAAAACA
1 GAGACAGAAAAAAAAACCAGA
*
611484 GAGAAAGAAAAAAAAAC
1 GAGACAGAAAAAAAAAC
611501 TACTAAACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.71, C:0.10, G:0.19, T:0.00
Consensus pattern (21 bp):
GAGACAGAAAAAAAAACCAGA
Found at i:611453 original size:23 final size:21
Alignment explanation
Indices: 611426--611499 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
611416 ACCCCAACCT
*
611426 GAAAAAAAAGAGACCGGAGACA
1 GAAAAAAAAAAGA-CGGAGACA
611448 GAAAAAAAAACCAGA-GG-GACA
1 GAAAAAAAAA--AGACGGAGACA
* * *
611469 GAAAAAAAAAAAACAGAGAAA
1 GAAAAAAAAAAGACGGAGACA
611490 GAAAAAAAAA
1 GAAAAAAAAA
611500 CTACTAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 27 0.61
22 11 0.25
24 3 0.07
ACGTcount: A:0.70, C:0.09, G:0.20, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAAAGACGGAGACA
Found at i:612350 original size:19 final size:19
Alignment explanation
Indices: 612312--612350 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
612302 TATAATTTAG
*
612312 TCATTTAATTTATAAGTTT
1 TCATTTAATTTATAACTTT
* *
612331 TCATTTATTTTATTACTTT
1 TCATTTAATTTATAACTTT
612350 T
1 T
612351 AAAATATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (19 bp):
TCATTTAATTTATAACTTT
Found at i:624132 original size:16 final size:16
Alignment explanation
Indices: 624111--624150 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
624101 ATACAATTCT
624111 ATTTATTTCA-AGTTCA
1 ATTTATTTCAGAG-TCA
*
624127 ATTTATTTGAGAGTCA
1 ATTTATTTCAGAGTCA
624143 ATTTATTT
1 ATTTATTT
624151 TTGGAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (16 bp):
ATTTATTTCAGAGTCA
Found at i:625059 original size:83 final size:83
Alignment explanation
Indices: 624920--625635 Score: 1110
Period size: 83 Copynumber: 8.7 Consensus size: 83
624910 AATTAAATGA
624920 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
624985 ACCAATCAGTGAATTTAG
66 ACCAATCATTGAATTTAG
*
625003 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
* *
625067 AA-TAATCATTGAGTTTAG
65 AACCAATCATTGAATTTAG
625085 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
625150 ACCAATCAGTGAATTTAG
66 ACCAATCATTGAATTTAG
*
625168 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
625232 AA-CAATCATTGAGTTTAG
65 AACCAATCATTGAATTTAG
625250 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
625315 ACCAATCATTGAATTT-G
66 ACCAATCATTGAATTTAG
*
625332 AAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 -AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
* * *
625396 GAACCAAACAATT-AAATGA-
64 GAACCAATC-ATTGAATTTAG
*
625415 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
* *
625479 AACCAATCAGTGAGTTTAG
65 AACCAATCATTGAATTTAG
* * *
625498 AAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTTGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
**
625563 ACCAATCATTGAATTCGG
66 ACCAATCATTGAATTTAG
* *
625581 AACATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
625636 ATTCAGTAGG
Statistics
Matches: 584, Mismatches: 35, Indels: 28
0.90 0.05 0.04
Matches are distributed among these distances:
81 2 0.00
82 231 0.40
83 345 0.59
84 6 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (83 bp):
AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTTAG
Found at i:625192 original size:165 final size:165
Alignment explanation
Indices: 624920--625635 Score: 1142
Period size: 165 Copynumber: 4.3 Consensus size: 165
624910 AATTAAATGA
624920 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
624985 ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
625050 CTGATCTGGTTGGACAGAA-TAATCATTGAGTTTAG
131 CTGATCTGGTTGG-CAGAACCAATCATTGAATTTAG
625085 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
625150 ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
625215 CTGATCTGGTTGGACAGAA-CAATCATTGAGTTTAG
131 CTGATCTGGTTGG-CAGAACCAATCATTGAATTTAG
625250 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
* * *
625315 ACCAATCATTGAATTT-GAAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 ACCAATCAGTGAATTTAG-AAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* * *
625378 ATCTGATCTGGTTTGGCAGAACCAAACAATT-AAATGA-
129 ATCTGATCTGG-TTGGCAGAACCAATC-ATTGAATTTAG
*
625415 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
* *
625479 AACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTA
65 AACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* **
625544 TCTGATCTTGTTTGGCAGAACCAATCATTGAATTCGG
130 TCTGATC-TGGTTGGCAGAACCAATCATTGAATTTAG
* *
625581 AACATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
625636 ATTCAGTAGG
Statistics
Matches: 520, Mismatches: 20, Indels: 21
0.93 0.04 0.04
Matches are distributed among these distances:
164 5 0.01
165 441 0.85
166 71 0.14
167 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (165 bp):
AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTGGCAGAACCAATCATTGAATTTAG
Found at i:625358 original size:248 final size:248
Alignment explanation
Indices: 624904--625635 Score: 1190
Period size: 248 Copynumber: 3.0 Consensus size: 248
624894 ATATCCTAGT
*
624904 CCAAACAATTAAATGAAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CCAAACAATGAAATGAAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
*
624969 GATCTGGTTTGGCAGAACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAA
66 GATCTGGTTTGGCAGAACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAA
* * *
625034 GTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAA-TAATCATTGAGTTT-AGAAGATGAATTT
131 GTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGAATTTGA-AAGATGAATGT
625096 G-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
194 GTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
* * * * *
625151 CCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAAACAATGAAATGA-AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
625216 TGATCTGG-TTGGACAGAA-CAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGG
65 TGATCTGGTTTGG-CAGAACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGG
625279 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGAAAGATGAATGT
129 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGAAAGATGAATGT
625344 GTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
194 GTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
* *
625399 CCAAACAATTAAATGAAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAAACAATGAAATGAAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
625463 TGATCTGGTTTGGCAGAACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGA
65 TGATCTGGTTTGGCAGAACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGA
* * * * *
625528 AATGTTCTTTGAGTTATCTGATCTTGTTTGGCAGAACCAATCATTGAATTCGGAACATGAATGTG
130 AGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGAAAGATGAATGTG
625593 TTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
195 TTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
625636 ATTCAGTAGG
Statistics
Matches: 450, Mismatches: 26, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
247 146 0.32
248 301 0.67
249 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (248 bp):
CCAAACAATGAAATGAAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
GATCTGGTTTGGCAGAACCAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAA
GTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGAAAGATGAATGTGT
TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
Found at i:626467 original size:113 final size:113
Alignment explanation
Indices: 626264--627048 Score: 1338
Period size: 113 Copynumber: 7.0 Consensus size: 113
626254 CAAAGATTCA
* ** * * *
626264 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
626329 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
626377 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
626442 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
626490 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
626555 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
626603 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
626668 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
626716 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
* *
626781 AGGAAGAAGGAGTTCATAATGAGAAGAATTTCTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * *
626829 AATCCATCATTTGAGGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
*
626894 AGGAAGAAGAAGTTCATAATTAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
** * * * ** *
626942 AATTTATCAATTGATGGATTATCTTTTCTGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
* * * *
627006 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
627049 GCATAATTCT
Statistics
Matches: 647, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
112 70 0.11
113 577 0.89
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:627375 original size:3 final size:3
Alignment explanation
Indices: 627367--627464 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
627357 TTTTTATCCA
* *
627367 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
627415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
627463 TA
1 TA
627465 AATATATATT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:627954 original size:22 final size:22
Alignment explanation
Indices: 627929--628001 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
627919 ACCCCAACCT
627929 GAAAAAAAAGAGACC-G-GAGACA
1 GAAAAAAAA-A-ACCAGAGAGACA
*
627951 GAAAAAAAAAACCAGAGGGACA
1 GAAAAAAAAAACCAGAGAGACA
*
627973 GAAAAAAAAAA-TAGAGA-A-A
1 GAAAAAAAAAACCAGAGAGACA
627992 GAAAAAAAAA
1 GAAAAAAAAA
628002 CTACTAAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 11 0.24
20 4 0.09
21 6 0.13
22 25 0.54
ACGTcount: A:0.70, C:0.08, G:0.21, T:0.01
Consensus pattern (22 bp):
GAAAAAAAAAACCAGAGAGACA
Found at i:629958 original size:25 final size:25
Alignment explanation
Indices: 629920--629970 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
629910 GATTTAAATA
629920 GCTTAGAACACTCTCAAGGAAGATG
1 GCTTAGAACACTCTCAAGGAAGATG
*
629945 GCTTAGAACTCTCTCAAGGAAGATG
1 GCTTAGAACACTCTCAAGGAAGATG
629970 G
1 G
629971 ATCTCTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTTAGAACACTCTCAAGGAAGATG
Found at i:632126 original size:16 final size:16
Alignment explanation
Indices: 632091--632128 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
632081 TCCTTGGCGT
632091 GTATAAAAAACATTCA
1 GTATAAAAAACATTCA
632107 -TATAAAAATAC-TTCA
1 GTATAAAAA-ACATTCA
632122 GTATAAA
1 GTATAAA
632129 TCAGTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (16 bp):
GTATAAAAAACATTCA
Found at i:638809 original size:30 final size:30
Alignment explanation
Indices: 638775--638834 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
638765 TTAATTGGAT
* * *
638775 CCAAATTTAATCAAAATTTCACTTTGGTCC
1 CCAAATTTAATCAAAAATTCAATTTAGTCC
*
638805 CCAAATTTAATTAAAAATTCAATTTAGTCC
1 CCAAATTTAATCAAAAATTCAATTTAGTCC
638835 TCAGAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (30 bp):
CCAAATTTAATCAAAAATTCAATTTAGTCC
Found at i:645192 original size:29 final size:28
Alignment explanation
Indices: 645088--645193 Score: 140
Period size: 29 Copynumber: 3.7 Consensus size: 28
645078 CACATTCAAA
* *
645088 AATTCCCAAAATGTCACTTTTTTTAAAAT
1 AATTCCCAAAATGTCAC-CTTTTCAAAAT
* *
645117 AATTCCCAGAATGTCATCTGTTTCAAAAT
1 AATTCCCAAAATGTCACCT-TTTCAAAAT
*
645146 AATTCCCAGAATGTCACCATTTTCAAAAT
1 AATTCCCAAAATGTCACC-TTTTCAAAAT
645175 AATTCCCAAAATGTCACCT
1 AATTCCCAAAATGTCACCT
645194 GGTTGGGTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
28 2 0.03
29 66 0.96
30 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (28 bp):
AATTCCCAAAATGTCACCTTTTCAAAAT
Found at i:652589 original size:29 final size:29
Alignment explanation
Indices: 652485--652589 Score: 140
Period size: 29 Copynumber: 3.6 Consensus size: 29
652475 CACATTCGAA
*
652485 AATTCCCAAAATGTCA-CATTTTTTAAAAT
1 AATTCCCAAAATATCACCA-TTTTTAAAAT
* *
652514 AATTCCCAGAATATCACCTTTTTTAAAAT
1 AATTCCCAAAATATCACCATTTTTAAAAT
* *
652543 AATTCCCATAATATCACCATTTTCAAAAT
1 AATTCCCAAAATATCACCATTTTTAAAAT
*
652572 AATTCCCAAAATGTCACC
1 AATTCCCAAAATATCACC
652590 GGGTTAGGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 66 0.99
30 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (29 bp):
AATTCCCAAAATATCACCATTTTTAAAAT
Found at i:652610 original size:18 final size:18
Alignment explanation
Indices: 652584--652634 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
652574 TTCCCAAAAT
* *
652584 GTCACCGGGTTAGGTCGG
1 GTCAACGGGTCAGGTCGG
*
652602 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCAGGTCGG
*
652620 GT-AACGGGTCGGGTC
1 GTCAACGGGTCAGGTC
652635 AGACCGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.20
Consensus pattern (18 bp):
GTCAACGGGTCAGGTCGG
Found at i:652627 original size:17 final size:18
Alignment explanation
Indices: 652596--652634 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
652586 CACCGGGTTA
652596 GGTCGGGTCAACGGGTCG
1 GGTCGGGTCAACGGGTCG
652614 GGTCGGGT-AACGGGTCG
1 GGTCGGGTCAACGGGTCG
652631 GGTC
1 GGTC
652635 AGACCGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (18 bp):
GGTCGGGTCAACGGGTCG
Found at i:654544 original size:165 final size:165
Alignment explanation
Indices: 654268--654587 Score: 541
Period size: 165 Copynumber: 1.9 Consensus size: 165
654258 GACTACCTTC
* * * * *
654268 CTTATTCCCAGAGTGCAGCTGAACAGATTGAGTTGTGCGAGCGTTGCTAATTCCGTGAACATTAC
1 CTTATTCCCAGAGTACAGCTGAACAGATTAAGTTATACGAGCGTTGCTAATACCGTGAACATTAC
*
654333 TGAAGGAGTGCCAAACTCCATGACTTTTGTTCATATCTCCGAGATATCTCCTCATCAGCTACTTT
66 TGAAGGAGTGCCAAACTCCATGACTTTTGTTCATATCTCCGAGATATCTCCTCATCAACTACTTT
*
654398 TTCGAAGATTACAAAGGTCGACTCCTCATCAGCTA
131 TTCGAAGATTACAAAGGCCGACTCCTCATCAGCTA
* *
654433 CTTATTCCCAGAGTACAGGTGAACAGATTAAGTTATACGAGCGTTGCTAATACTGTGAACATTAC
1 CTTATTCCCAGAGTACAGCTGAACAGATTAAGTTATACGAGCGTTGCTAATACCGTGAACATTAC
*
654498 TGAAGGAGTGCCAAACTCCATGACTTTTGTTCATATCTCTGAGATATCTCCTCATCAACTACTTT
66 TGAAGGAGTGCCAAACTCCATGACTTTTGTTCATATCTCCGAGATATCTCCTCATCAACTACTTT
*
654563 TTCGGAGATTACAAAGGCCGACTCC
131 TTCGAAGATTACAAAGGCCGACTCC
654588 GAGAATCCGA
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 144 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (165 bp):
CTTATTCCCAGAGTACAGCTGAACAGATTAAGTTATACGAGCGTTGCTAATACCGTGAACATTAC
TGAAGGAGTGCCAAACTCCATGACTTTTGTTCATATCTCCGAGATATCTCCTCATCAACTACTTT
TTCGAAGATTACAAAGGCCGACTCCTCATCAGCTA
Done.