Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 2 of 66
Found at i:541717 original size:503 final size:495
Alignment explanation
Indices: 539398--541966 Score: 2892
Period size: 503 Copynumber: 5.2 Consensus size: 495
539388 CGTAAAGTAA
* * ** * *
539398 TAAGAATTTACATAAAAACTCATAAAAGAGAAATAACTAAATTTTAAATCTTAACATAAATATGT
1 TAAGAATTGACGTAAAAACTTGT-AAAGTGAAATAACTAAATTTTAAATCTTAAC-T-AATGTGT
* * * *
539463 GAAAGTTAACATAACAAGTCAATTAAGTTAAAAAAATCTAAATTTAATGAAAAATAAATATTTAA
63 GAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAAT-AAAAAAAAATATTTAA
* *
539528 ATTTATATTCT-AGGGCTAAAAGTGTTTAATGATATA-AAGATTTTAATTTTTAAATAAAGAATA
127 ATTTATATTCTCA-AGCTAAAA-TGTTTAACGATATACAA-ATTTTAATTTTTAAATAAAGAATA
* *
539591 ATAAGGATAAAAATAATTATAGTTCAAAATTGACGTAGAAAAG-CCTTATCGTAAAACTGTAAAG
189 ATAA-GATAAAAATAATTATAGTTCAAAATTGACAT-GAAAAGTCCTGA-CGTAAAACTGT-AAG
* * * *
539655 AATTGACGTAAAAACTTATAAAAGTTGAATAACTAAATTTTAAATCTTAACATAAATGTATGAGA
250 AATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGA
* * *
539720 GTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATCTAAT-AAAAGA-AAATATTTAAATT
315 GTTAACATAACAAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAA-ATAAATATTTAAATT
* * * * * * * *
539783 TATACTCTCGGGGCTGAAAGTGTTTAACGATAAAAAAATTTTAATTTTTCAATTAAGAATAAGAA
379 TATATTCTC--GACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAA
* * *
539848 GGATAAAAATAATTATAGTTCAAAGTTGACATTG----AGCTTTGACGTAAAATTG
442 GGATAAAAATAATTATAGTTCAAAATTGATA-TGAAAAAGC-TTGACGTAAAACTG
* *
539900 TAAGAATTGACGTTAAAACTTGTAAAG-GTAGAATAACTAAATTTTAAATCTTAACGTAAGTTTG
1 TAAGAATTGACGTAAAAACTTGTAAAGTG-A-AATAACTAAATTTTAAATCTTAAC-TAA-TGTG
* * * *
539964 TGAGAGTTAACGTAATAAGTCAACTAAGTAAAAATAATCTAAATTTAATAAAAACAAATATTT-A
62 TGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAATAAAAAAAAATATTTAA
* *
540028 ATTTATATTCTCAGGCTGAAAGTGTTTAACG----AC--A---TAA----TAAATAAAGAATAAT
127 ATTTATATTCTCAAGCT-AAAATGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
** ** *
540080 AAGAATAAAAATAATTATAGTTCAAAATTGATGTAGAAAAGTTTTAACGTAAAACTGTAAGAATT
191 AAG-ATAAAAATAATTATAGTTCAAAATTGACAT-GAAAAGTCCTGACGTAAAACTGTAAGAATT
* *
540145 GACGTAAAAACTTATAAAAGTGGAATAACTAAATTATAAATCTTAATGTAAACGTGTGAGAGTTA
254 GACGTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGAGTTA
* *
540210 ACGTAATAAGTCAATTAAGTAAAAACAA-CATAAATTTAATGAAAAATAAATATTTAAATTTATA
319 ACATAACAAGTCAATTAAGTAAAAACAATC-TAAATTTAATGAAAAATAAATATTTAAATTTATA
* * * * * * *
540274 TTTTTTGATTGAAAGTGTTTAATGATAAAGAAATTTTAATTTTTAAATAAAGAATAATAAGGATA
383 -TTCTCGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATA
* * * *
540339 AAAATTATGATAGTTCAAAGTTGATATGAAAAAGCCTTGACATAAAACTG
447 AAAATAATTATAGTTCAAAATTGATATGAAAAAG-CTTGACGTAAAACTG
* *
540389 TAAGAATTGACGTAAAAACTTGTAAAAGTGAAATTACTAAATTTTAAATCTTAACGTAAATGTAT
1 TAAGAATTGACGTAAAAACTTGT-AAAGTGAAATAACTAAATTTTAAATCTTAAC-T-AATGTGT
* * * * **
540454 GAGACTTTACGTAACAAGTCAATCAAGTAAAAAAAATTTAAATTTAATAAAAGCAAATATTTAAA
63 GAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAATAAAAAAAAATATTTAAA
* * *
540519 TTTATATTCTCTAGCTAAAAATGTTTAACGATATACGAATTTTAATTTTTAAATTAAGAATAATA
128 TTTATATTCTCAAGCT-AAAATGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT-
* *
540584 AAGATAAAAAAAATTATAGTTCAAAGTTGACATGAAAAAG-CCTTGACGTAAAACTGTAAGAATT
191 AAGATAAAAATAATTATAGTTCAAAATTGACATG-AAAAGTCC-TGACGTAAAACTGTAAGAATT
* * ** * *
540648 GACGTAAAAACTTGT-AAAGTTGAAATAACTAAATTTTAAATCTTAGTGTAAATGTATGAGAGTT
254 GACGTAAAAACTTATAAAAG-TGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGAGTT
** *
540712 AACATAACAAGTCAACCAAGTAAAAAAAATCTAAATTTAAT--AAAA-AAATATTTAAATTTATA
318 AACATAACAAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATA
* * * * *
540774 TTCTCGAGCTGAAAGTGTTTAACGATATACAAATTTTAAGTTTTGAATTAAGAATAATAAAGATA
383 TTCTCGA-CTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATA
*
540839 AAAATAATTATAGTTCAAAATTGATATGAAAAAGTCTTAACGTAAAACTG
447 AAAATAATTATAGTTCAAAATTGATATGAAAAAG-CTTGACGTAAAACTG
* * * *
540889 TAAGAATTGAAGTAAAAACTTGTAAATGTGGAATAATTAAATTTTAAGTCTTAAC------GTGA
1 TAAGAATTGACGTAAAAACTTGTAAA-GTGAAATAACTAAATTTTAAATCTTAACTAATGTGTGA
* *
540948 GAGTTAACATAACAAGTCAATTAAGTAAAAATAATCTAAATTTAATAAAAAGAAAATATTTAAAT
65 GAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAATAAAAA-AAAATATTTAAAT
* * * * * *
541013 TTATATTCTCAGGCTGAAAATGTTTACCCATATAAAAAATTTAATTTTTAAATTAAGAATAATAA
129 TTATATTCTCAAGCT-AAAATGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAA
* * * *
541078 GGATAAAAATAATTATAGTTCAAAGTTGACATGGAAAA-TCTTGATGTAAAACTGTAAAAATTGA
193 -GATAAAAATAATTATAGTTCAAAATTGACAT-GAAAAGTCCTGACGTAAAACTGTAAGAATTGA
* **
541142 CGTAAAAACTTATAAATGTGGAATAACTAAATTTTAAATCTTAACGTAAGTGTGTGAGAGTTAAC
256 CGTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGAGTTAAC
* * *
541207 GTAACAAGTCAATTAAGTAAAAACAATCTAAATTTAAT-AAAAATAAATATTTAAATTTATGTTT
321 ATAACAAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTC
* *
541271 TCAGACTAAAAGTGTTTAACAATATACAAATTTTAATTTTTAAACAAAG-ATAATAAGGATAAAA
386 TC-GACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
541335 ATAATTATAGTTCAAAATTAGCATA-G-AAAAGCATTGACGTAAAACTG
450 ATAATTATAGTTCAAAATT-G-ATATGAAAAAGC-TTGACGTAAAACTG
* * *
541382 CAAGAATTGACGTAAAAACTTATAAGAGTAAAATAACTAAATTTTAAATCTTAACATAAGTGTGT
1 TAAGAATTGACGTAAAAACTTGTAA-AGTGAAATAACTAAATTTTAAATCTTAAC-TAA-TGTGT
* * *
541447 GGGAGTTAACGT-ATAAGTCAATTAAGTAAAAAAAATCTATATTTAATAAAAAATAAATATTTAA
63 GAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAATAAAAAA-AAATATTTAA
* * *
541511 ATTTCTATTTTCTCAAGC-AATAAGTGTTTAACGATATGCAAATTTTAATTTTTAAATAAAAAAT
127 A-TT-TATATTCTCAAGCTAA-AA-TGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAAT
* *
541575 AATAATGATAAAAATAATTATAGTTCAAAATTGACGTAGGAAAGTCCTGACGTAAAACTGTAAGA
188 AATAA-GATAAAAATAATTATAGTTCAAAATTGACAT-GAAAAGTCCTGACGTAAAACTGTAAGA
* *
541640 ATTGACGTAAAAACTTGTAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAGCGTGTGAGAG
251 ATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGAG
* *
541705 TTAACATAACAAGCCAATTAAGTAAAAACAATCTAATTTTAATGAAAAATAAATATTTAAATTTA
316 TTAACATAACAAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTA
* ** * *
541770 TACTCTCGGGTTCAAAA-TATTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAGG
381 TATTCTC-GACT-AAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGG
* * * * ** * * **
541834 ATAAGAATAATTATAGTTTAAAGTT-ACTATTAGAAGGGTTTGACGTTAAGTTG
444 ATAAAAATAATTATAGTTCAAAATTGA-TATGA-AAAAGCTTGACGTAAAACTG
* * * * *
541887 TAAGAATTGACGTAAAATCTTATAAAG-GTATAATAAAC-ATATTTAAAATCTTAACGTTAATCT
1 TAAGAATTGACGTAAAAACTTGTAAAGTG-A-AAT-AACTAAATTTTAAATCTTAAC--TAATGT
* *
541950 GTAAGAGTTAATGTAAC
61 GTGAGAGTTAACGTAAC
541967 TAGTAATAAG
Statistics
Matches: 1780, Mismatches: 208, Indels: 154
0.83 0.10 0.07
Matches are distributed among these distances:
485 3 0.00
486 178 0.10
487 85 0.05
488 4 0.00
489 118 0.07
490 36 0.02
491 4 0.00
492 159 0.09
493 206 0.12
494 65 0.04
495 5 0.00
496 2 0.00
499 12 0.01
500 231 0.13
501 44 0.02
502 177 0.10
503 274 0.15
504 67 0.04
505 100 0.06
506 10 0.01
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (495 bp):
TAAGAATTGACGTAAAAACTTGTAAAGTGAAATAACTAAATTTTAAATCTTAACTAATGTGTGAG
AGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAAATTTAATAAAAAAAAATATTTAAATTT
ATATTCTCAAGCTAAAATGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGAT
AAAAATAATTATAGTTCAAAATTGACATGAAAAGTCCTGACGTAAAACTGTAAGAATTGACGTAA
AAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAACGTGTGAGAGTTAACATAAC
AAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCGAC
TAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATT
ATAGTTCAAAATTGATATGAAAAAGCTTGACGTAAAACTG
Found at i:573214 original size:29 final size:30
Alignment explanation
Indices: 573168--573236 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
573158 GGGAGAAAGT
* * *
573168 AGAAAGAGAGAGAAAAAAAGAAAAAA-ATA
1 AGAAAGAAAAAGAAAAAAAGAAAAAACACA
* *
573197 AGAAAGAAAAAGAGAAAAGGAAAAAACACA
1 AGAAAGAAAAAGAAAAAAAGAAAAAACACA
*
573227 AGAAACAAAA
1 AGAAAGAAAA
573237 GCAATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (30 bp):
AGAAAGAAAAAGAAAAAAAGAAAAAACACA
Found at i:575740 original size:33 final size:33
Alignment explanation
Indices: 575698--575807 Score: 193
Period size: 33 Copynumber: 3.3 Consensus size: 33
575688 TACCCAGCTC
575698 CCTCCATTCCCATTTCCACCTCCCTTTGGTGTT
1 CCTCCATTCCCATTTCCACCTCCCTTTGGTGTT
* *
575731 CCTCCATTCCCATTTCCACCTCCTTTTGCTGTT
1 CCTCCATTCCCATTTCCACCTCCCTTTGGTGTT
*
575764 CCTCCATTCCCATTCCCACCTCCCTTTGGTGTT
1 CCTCCATTCCCATTTCCACCTCCCTTTGGTGTT
575797 CCTCCATTCCC
1 CCTCCATTCCC
575808 TGGTTTTCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.09, C:0.45, G:0.07, T:0.38
Consensus pattern (33 bp):
CCTCCATTCCCATTTCCACCTCCCTTTGGTGTT
Found at i:577573 original size:21 final size:22
Alignment explanation
Indices: 577547--577587 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
577537 TAATATTCTA
*
577547 ATTAATAATAA-TTATTTAACT
1 ATTAATAACAATTTATTTAACT
577568 ATTAATAACAATTTATTTAA
1 ATTAATAACAATTTATTTAA
577588 TTTAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAATAACAATTTATTTAACT
Found at i:579358 original size:3 final size:3
Alignment explanation
Indices: 579350--579374 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
579340 TCCCACTTAG
579350 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
579375 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:587283 original size:18 final size:18
Alignment explanation
Indices: 587260--587294 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
587250 TAACTCACAA
*
587260 AAATCTTATATCATTCTT
1 AAATCTCATATCATTCTT
587278 AAATCTCATATCATTCT
1 AAATCTCATATCATTCT
587295 CATCAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATCTCATATCATTCTT
Found at i:587595 original size:39 final size:39
Alignment explanation
Indices: 587521--587596 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
587511 GTGCACATTT
* *
587521 TTGCTTCCATACAAAGCCTTTGCAAGAAGACAAAGATAG
1 TTGCTTCCATACAAAACCTTTGCAAGAAGAAAAAGATAG
* *
587560 TTGCTTCCATGCAAAATCTTTG-AAGAAGATAAAAGAT
1 TTGCTTCCATACAAAACCTTTGCAAGAAGA-AAAAGAT
587597 GAGCGAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 7 0.22
39 25 0.78
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (39 bp):
TTGCTTCCATACAAAACCTTTGCAAGAAGAAAAAGATAG
Found at i:588340 original size:18 final size:18
Alignment explanation
Indices: 588280--588340 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
588270 TTAGCTCTAA
588280 TTTTGTTCAGATTTTATT
1 TTTTGTTCAGATTTTATT
* * * **
588298 TTTTTTTAATATTCAATTT
1 TTTTGTTCAGATTTTA-TT
588317 GATTTTGTTCAGATTTTATT
1 --TTTTGTTCAGATTTTATT
588337 TTTT
1 TTTT
588341 TATATTCAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 2 0.07
21 11 0.37
ACGTcount: A:0.20, C:0.05, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTGTTCAGATTTTATT
Found at i:588346 original size:36 final size:38
Alignment explanation
Indices: 588279--588354 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
588269 ATTAGCTCTA
588279 ATTTTGTTCAGATTTTATTTTTTTTTAATATTCAATTTG
1 ATTTTGTTCAGATTTTA-TTTTTTTTAATATTCAATTTG
588318 ATTTTGTTCAGATTTTA-TTTTTTT-ATATTCAATTTG
1 ATTTTGTTCAGATTTTATTTTTTTTAATATTCAATTTG
588354 A
1 A
588355 ATTTAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
36 13 0.35
37 7 0.19
39 17 0.46
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (38 bp):
ATTTTGTTCAGATTTTATTTTTTTTAATATTCAATTTG
Found at i:588617 original size:42 final size:42
Alignment explanation
Indices: 588558--588642 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
588548 TGATTAAAGT
*
588558 ATGAGTAAGTTCTAAATAATTCTCTTACACTTGAACAATCAA
1 ATGAGTAAGTTCTAAATAATTCTCCTACACTTGAACAATCAA
588600 ATGAGTAAGTTCTAAATAATTCTCCTACACTTGAACAATCAA
1 ATGAGTAAGTTCTAAATAATTCTCCTACACTTGAACAATCAA
588642 A
1 A
588643 CCTCAATAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (42 bp):
ATGAGTAAGTTCTAAATAATTCTCCTACACTTGAACAATCAA
Found at i:588659 original size:42 final size:42
Alignment explanation
Indices: 588563--588661 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
588553 AAAGTATGAG
* * *
588563 TAAGTTCTAAATAATTCTCTTACACTTGAACAATCAAATGAG
1 TAAGTTCTAAATAATTCTCCTACACTTGAACAATCAAATCAA
588605 TAAGTTCTAAATAATTCTCCTACACTTGAACAATCAAACCTCAA
1 TAAGTTCTAAATAATTCTCCTACACTTGAACAATCAAA--TCAA
588649 T-AGTTC-AAATAAT
1 TAAGTTCTAAATAAT
588662 GAAAAATAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 44 0.85
43 5 0.10
44 3 0.06
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.32
Consensus pattern (42 bp):
TAAGTTCTAAATAATTCTCCTACACTTGAACAATCAAATCAA
Found at i:591921 original size:48 final size:49
Alignment explanation
Indices: 591860--591956 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 49
591850 TATATAAAAA
* * *
591860 ATCTTAATCTCGACAACTTCA-AATCCTATTATTTGACAATAAATGAATAT
1 ATCTTAATCTCGACAAC--CAGAATCCTATTATCTCACAATAAATAAATAT
591910 ATCTT-AT-TCGACAACCATGAATCCTATTATCTCACAATAAATAAATA
1 ATCTTAATCTCGACAACCA-GAATCCTATTATCTCACAATAAATAAATA
591957 GATCCTGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 2 0.05
48 33 0.79
49 2 0.05
50 5 0.12
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (49 bp):
ATCTTAATCTCGACAACCAGAATCCTATTATCTCACAATAAATAAATAT
Found at i:592472 original size:22 final size:22
Alignment explanation
Indices: 592447--592493 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
592437 TTTTATTAAA
*
592447 TATATAAAAAAATCTTA-GCCTT
1 TATAT-AAAAAATCTTATACCTT
*
592469 TATATATAAAATCTTATACCTT
1 TATATAAAAAATCTTATACCTT
592491 TAT
1 TAT
592494 TTATGCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
TATATAAAAAATCTTATACCTT
Found at i:592641 original size:20 final size:20
Alignment explanation
Indices: 592616--592653 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
592606 ACCAAAAAAA
592616 ATTACTAAAGTTAATAATAG
1 ATTACTAAAGTTAATAATAG
*
592636 ATTACTATAGTTAATAAT
1 ATTACTAAAGTTAATAAT
592654 GCTCACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (20 bp):
ATTACTAAAGTTAATAATAG
Found at i:593263 original size:29 final size:29
Alignment explanation
Indices: 593207--593267 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
593197 TGATGGATAA
* *
593207 TTTTAACCCACAAAAAGTAAATGGATACT
1 TTTTAACCCACAAAAAGTAAACGAATACT
* * *
593236 TTTTAACCCACCAGAAGTAGACGAATACT
1 TTTTAACCCACAAAAAGTAAACGAATACT
593265 TTT
1 TTT
593268 CAATCATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (29 bp):
TTTTAACCCACAAAAAGTAAACGAATACT
Found at i:593377 original size:34 final size:36
Alignment explanation
Indices: 593334--593417 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 36
593324 CGAAACATCT
*
593334 TGTTGAACTTTCAAGTATCACTACT-A-AAAAAAAA
1 TGTTGAACTTTAAAGTATCACTACTAAGAAAAAAAA
*
593368 TGTTGAACTTTAAAGTATCACTGCTAAAAGAAAAAAAA
1 TGTTGAACTTTAAAGTATCACTACT--AAGAAAAAAAA
593406 TGTTGAACTTTA
1 TGTTGAACTTTA
593418 TCAAACATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 23 0.52
37 1 0.02
38 20 0.45
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (36 bp):
TGTTGAACTTTAAAGTATCACTACTAAGAAAAAAAA
Found at i:597596 original size:17 final size:18
Alignment explanation
Indices: 597571--597604 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
597561 ATTAAAATGC
597571 AATATTTTATAAAAATTA
1 AATATTTTATAAAAATTA
*
597589 AATA-TTTATCAAAATT
1 AATATTTTATAAAAATT
597605 GTTTAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTTTATAAAAATTA
Found at i:597664 original size:33 final size:33
Alignment explanation
Indices: 597627--597693 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
597617 CCGATCTAAT
* *
597627 ACTTAAATTAATATAAGCAAACTATTTCCCCTA
1 ACTTAAACTAATATAAACAAACTATTTCCCCTA
597660 ACTTAAACTAATATAAACAAACTATTTCCCCTA
1 ACTTAAACTAATATAAACAAACTATTTCCCCTA
597693 A
1 A
597694 ATGCTTACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.31
Consensus pattern (33 bp):
ACTTAAACTAATATAAACAAACTATTTCCCCTA
Found at i:604326 original size:22 final size:23
Alignment explanation
Indices: 604284--604326 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
604274 AATAATTTTA
* *
604284 TAATTATTTAAAATATTAATAAT
1 TAATAATTTAAAATATCAATAAT
604307 TAATAATTT-AAATATCAATA
1 TAATAATTTAAAATATCAATA
604327 TTTTAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAATTTAAAATATCAATAAT
Found at i:604334 original size:8 final size:8
Alignment explanation
Indices: 604291--604383 Score: 53
Period size: 7 Copynumber: 12.6 Consensus size: 8
604281 TTATAATTAT
*
604291 TTAAAATA
1 TTAATATA
604299 TTAATA-A
1 TTAATATA
604306 TTAATA-A
1 TTAATATA
604313 TTTAA-ATA
1 -TTAATATA
* *
604321 TCAATATT
1 TTAATATA
604329 TTAATATAA
1 TTAATAT-A
604338 TTAAT-TA
1 TTAATATA
604345 TTAATAT-
1 TTAATATA
*
604352 TT--TAAA
1 TTAATATA
604358 TTAATA-A
1 TTAATATA
*
604365 TAAAT-TA
1 TTAATATA
604372 TTAATAT-
1 TTAATATA
604379 TTAAT
1 TTAAT
604384 TTATAATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 35 0.52
8 23 0.34
9 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (8 bp):
TTAATATA
Found at i:604363 original size:52 final size:50
Alignment explanation
Indices: 604304--604405 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 50
604294 AAATATTAAT
604304 AATTAATAATTTAAA-TATCAATATTTTAA-TATAA-TTAATTATTAATATTTTA
1 AATTAATAA--TAAATTATCAATA-TTTAATTATAATTTAA-TATTAAT-TTTTA
*
604356 AATTAATAATAAATTATTAATATTTAATTTATAATTTAATATTAATTTTT
1 AATTAATAATAAATTATCAATATTTAA-TTATAATTTAATATTAATTTTT
604406 GATTAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
50 9 0.20
51 11 0.24
52 21 0.47
53 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (50 bp):
AATTAATAATAAATTATCAATATTTAATTATAATTTAATATTAATTTTTA
Found at i:604398 original size:25 final size:26
Alignment explanation
Indices: 604303--604423 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 26
604293 AAAATATTAA
* *
604303 TAATTAATAATTTAAATATCAATATTT
1 TAATTTATAATTT-AATATTAATATTT
604330 TAA--TATAA-TTAATTATTAATATTT
1 TAATTTATAATTTAA-TATTAATATTT
* *
604354 TAAATTAATAA-TAAATTATTAATA-TT
1 T-AATTTATAATTTAA-TATTAATATTT
604380 TAATTTATAATTTAATATTAAT-TTT
1 TAATTTATAATTTAATATTAATATTT
* *
604405 TGA-TTAAAATATTAATATT
1 TAATTTATAAT-TTAATATT
604424 TTATTTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
23 2 0.03
24 19 0.24
25 33 0.42
26 6 0.08
27 19 0.24
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATTTATAATTTAATATTAATATTT
Found at i:604502 original size:8 final size:8
Alignment explanation
Indices: 604475--604568 Score: 55
Period size: 8 Copynumber: 11.4 Consensus size: 8
604465 NNNNNAAACA
*
604475 TTAATAGT
1 TTAATATT
* *
604483 TTAAAATA
1 TTAATATT
604491 TTAATATT
1 TTAATATT
604499 TTAATATT
1 TTAATATT
*
604507 TTAATCATA
1 TTAAT-ATT
604516 TTAATATT
1 TTAATATT
* *
604524 AATAATGTT
1 -TTAATATT
*
604533 TCAATTATAT
1 TTAA-TAT-T
* * *
604543 ATAAAATA
1 TTAATATT
604551 TTAATATT
1 TTAATATT
604559 TTAA-ATT
1 TTAATATT
604566 TTA
1 TTA
604569 CAAATAATTT
Statistics
Matches: 63, Mismatches: 19, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
7 6 0.10
8 37 0.59
9 17 0.27
10 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (8 bp):
TTAATATT
Found at i:606108 original size:48 final size:48
Alignment explanation
Indices: 606037--606129 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
606027 TTTCCCATTC
* *
606037 CTGTGTCTTGTCATCAATTGGAGAAACTCTTTCTTGCAACATGGGTTG
1 CTGTGTCTTGTCATCAATTGGAGAAACACTTGCTTGCAACATGGGTTG
* * * *
606085 CTGTGTCTTGTCCTTAATTGGAGAAAGACTTGCTTGGAACATGGG
1 CTGTGTCTTGTCATCAATTGGAGAAACACTTGCTTGCAACATGGG
606130 GTCGCATCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (48 bp):
CTGTGTCTTGTCATCAATTGGAGAAACACTTGCTTGCAACATGGGTTG
Found at i:619255 original size:35 final size:35
Alignment explanation
Indices: 619209--619278 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
619199 ACCCAGTCTC
*
619209 TAACTGATATGAGATTCGTGACAGACGCATGCATA
1 TAACTAATATGAGATTCGTGACAGACGCATGCATA
619244 TAACTAATATGAGATTCGTGACAGACGCATGCATA
1 TAACTAATATGAGATTCGTGACAGACGCATGCATA
619279 CAACATATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (35 bp):
TAACTAATATGAGATTCGTGACAGACGCATGCATA
Found at i:620926 original size:2 final size:2
Alignment explanation
Indices: 620921--620950 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
620911 GTGTGTCTGT
620921 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
620951 ATATACTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:624911 original size:26 final size:26
Alignment explanation
Indices: 624875--624930 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
624865 CTTAAAATTT
*
624875 AACAGATTAAAACCCAAGAAAGTAGG
1 AACAGATTAAAACACAAGAAAGTAGG
* *
624901 AACAGATTAAAACACAAGATAGTTGG
1 AACAGATTAAAACACAAGAAAGTAGG
624927 AACA
1 AACA
624931 CTAGAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (26 bp):
AACAGATTAAAACACAAGAAAGTAGG
Found at i:644649 original size:3 final size:3
Alignment explanation
Indices: 644636--644666 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
644626 CTGCTCCATT
644636 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
644667 TTGACCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:645183 original size:2 final size:2
Alignment explanation
Indices: 645176--645204 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
645166 ATGTTGATTA
645176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
645205 GGCACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:647564 original size:14 final size:15
Alignment explanation
Indices: 647545--647577 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
647535 CCCTCTCCAC
647545 AAATTAT-AAAAAAA
1 AAATTATCAAAAAAA
*
647559 AAATTATCATAAAAA
1 AAATTATCAAAAAAA
647574 AAAT
1 AAAT
647578 AAAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATTATCAAAAAAA
Found at i:648609 original size:2 final size:2
Alignment explanation
Indices: 648599--648635 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
648589 AAAAAAAATC
*
648599 AT AT A- AT AT AT AC 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
648636 TTTTTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:657505 original size:30 final size:30
Alignment explanation
Indices: 657464--657528 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
657454 AGCACCAGGA
* *
657464 GGAGGAGGCATTCCAGGCCGTGGTGGAGGT
1 GGAGCAGGCATTCCAGGCCGTGGAGGAGGT
*
657494 GGAGCAGGCATTCCAGGCCGTGGAGGCGGT
1 GGAGCAGGCATTCCAGGCCGTGGAGGAGGT
657524 GGAGC
1 GGAGC
657529 TGGAGGTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.20, G:0.49, T:0.14
Consensus pattern (30 bp):
GGAGCAGGCATTCCAGGCCGTGGAGGAGGT
Found at i:670883 original size:24 final size:24
Alignment explanation
Indices: 670843--670893 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
670833 ACGATGATAA
*
670843 GAAACGTGAGAGAGAGAAAGAGAG
1 GAAACGTGAAAGAGAGAAAGAGAG
*
670867 GAAACGTAGAAAG-GAGAAGGAGAG
1 GAAACGT-GAAAGAGAGAAAGAGAG
670891 GAA
1 GAA
670894 GGGAAAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.41, T:0.04
Consensus pattern (24 bp):
GAAACGTGAAAGAGAGAAAGAGAG
Found at i:671074 original size:3 final size:3
Alignment explanation
Indices: 671029--671057 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
671019 ACAAAACTAC
671029 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
671058 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:679200 original size:23 final size:23
Alignment explanation
Indices: 679167--679213 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
679157 TAATCGTGAA
679167 ATTTTGATCTAACTGGTTACTAG
1 ATTTTGATCTAACTGGTTACTAG
* *
679190 ATTTTGGTCTAATTGGTTACTAG
1 ATTTTGATCTAACTGGTTACTAG
679213 A
1 A
679214 CCTTGACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (23 bp):
ATTTTGATCTAACTGGTTACTAG
Found at i:701188 original size:27 final size:28
Alignment explanation
Indices: 701151--701208 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
701141 CAACACTCAG
*
701151 TATTCCTAATTAATTTA-TTTTTTAGGC
1 TATTCCAAATTAATTTATTTTTTTAGGC
701178 TATTCCAAATTAATTTATTTTTTTAGGC
1 TATTCCAAATTAATTTATTTTTTTAGGC
701206 TAT
1 TAT
701209 GGGATTGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (28 bp):
TATTCCAAATTAATTTATTTTTTTAGGC
Found at i:711992 original size:12 final size:12
Alignment explanation
Indices: 711968--712007 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
711958 TAGTAGTATC
711968 AATAGTAGCAAT
1 AATAGTAGCAAT
*
711980 AATAGTAGTAAT
1 AATAGTAGCAAT
711992 ACCATAGTAGCAAT
1 A--ATAGTAGCAAT
712006 AA
1 AA
712008 CTATGCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (12 bp):
AATAGTAGCAAT
Found at i:722399 original size:2 final size:2
Alignment explanation
Indices: 722392--722416 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
722382 GGTTTTCTCG
722392 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
722417 TCGCTGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:728359 original size:32 final size:30
Alignment explanation
Indices: 728314--728373 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 30
728304 GAAGTTATTC
728314 ATAAGGTACTTAATTGAAAAGAAAAAAAGATTT
1 ATAAGGTACTTAATTG---AGAAAAAAAGATTT
*
728347 ATAAGGT-GTTAATTGAGAAAAAAAGAT
1 ATAAGGTACTTAATTGAGAAAAAAAGAT
728374 ATCATGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
32 7 0.27
33 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.18, T:0.27
Consensus pattern (30 bp):
ATAAGGTACTTAATTGAGAAAAAAAGATTT
Found at i:730493 original size:2 final size:2
Alignment explanation
Indices: 730486--730516 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
730476 TCCTTTGTCT
730486 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
730517 CAAAATAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:744161 original size:44 final size:43
Alignment explanation
Indices: 744098--744187 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 43
744088 TAGGGGAAAT
*
744098 TATTTAGGAAACTAAGCAGT-TGGAGTTTGGCTTTAATGTAAAGA
1 TATTTAGGAAACTAAGCAGTAT-G-GTTTGGCTTTAATATAAAGA
* *
744142 TATTTAGGTAACTAAGCAGTAATGGTTTGGCTTTAATATGAAGA
1 TATTTAGGAAACTAAGCAGT-ATGGTTTGGCTTTAATATAAAGA
744186 TA
1 TA
744188 ATTAAGTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
44 39 0.95
45 1 0.02
46 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (43 bp):
TATTTAGGAAACTAAGCAGTATGGTTTGGCTTTAATATAAAGA
Found at i:745464 original size:15 final size:15
Alignment explanation
Indices: 745444--745481 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
745434 TATATATATA
745444 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
745459 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
745475 TTATAAT
1 TTATAAT
745482 GTTAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:745535 original size:16 final size:16
Alignment explanation
Indices: 745499--745557 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
745489 CAAAATAAAA
*
745499 ATTAAA-TATATTTAT
1 ATTAAAGTATATATAT
745514 ATTTAAAGTATATATAT
1 A-TTAAAGTATATATAT
*
745531 ATTAAATTATATATAT
1 ATTAAAGTATATATAT
745547 ATTAAAAGTAT
1 ATT-AAAGTAT
745558 TTTAGTGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 1 0.03
16 22 0.58
17 15 0.39
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTAAAGTATATATAT
Found at i:745776 original size:15 final size:15
Alignment explanation
Indices: 745756--745803 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
745746 TTTAGATAAT
745756 TAAGTTTATATATTA
1 TAAGTTTATATATTA
*
745771 TAAGTTTATATA-AA
1 TAAGTTTATATATTA
*
745785 TAAAGTATATATATTA
1 T-AAGTTTATATATTA
745801 TAA
1 TAA
745804 TTAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
TAAGTTTATATATTA
Found at i:746242 original size:17 final size:17
Alignment explanation
Indices: 746212--746262 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
746202 AAGTAGAAAG
*
746212 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
746228 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
746245 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
746263 ATAATACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:746329 original size:341 final size:341
Alignment explanation
Indices: 745436--746411 Score: 1058
Period size: 357 Copynumber: 2.8 Consensus size: 341
745426 AGTGTGTATA
* *
745436 TATATATATTATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAAAAAT
1 TATATATATTATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAG
* * *
745501 TAAATATATTTATATTTAAAGTATATATATA-TTAAATTA-TATATATAT-TAA-AAGTATTTTA
66 TAAATATATTTATATTTAAAGTATATATATACTAAAAGTATTATATATATATAATAAGTA-ATTA
* * * * * * *
745562 GTGTATAATTAATAGTA-TTATATTTTTATAAATGAACTCAATATATATTAAAAAGACATTACAA
130 GTCT-T-ATAAAT-GAACTCA-ATATATATAAA-G---T--ATATATATTAAAAA-ACATTATAA
* * * * *
745626 GTTAATTAATAATAATAATTTCATTAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTATA
184 GTTAATTAATAATCATAGTTTAATGAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATA
* * * * * *
745691 AGAAATTAAAAAAAAATAGCTAAGTTTCAAAACTATTCTAATCTTACAACTTCTTTTTAGATAAT
249 TGAAATT-AAAAAAAATAACTAAGTCTCAAAACTATTCTAATCTCACAACTTCTCTTAAGAT-AT
*
745756 TAAGTTTATATATTATAAGTTTATATAAATAAAG
312 T-AG--T-TATATTATAAGTTTATATAAACAAAG
* *
745790 TATATATATTATAATTAATAATTAATTTATAAGTTATAATTTTTTTAATATTAACACAAAATAGA
1 TATATATATTATAATTAATAA-T--TTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGA
* *
745855 AAGTAAATATGA-TTATATTTAAAGTGTGTATATATATACACACACTATAAGTGTTTTATTATAT
63 AAGTAAATAT-ATTTATATTTAAA----GTATATATAT------ACTA-AA-AGTATTA-TATAT
* * * * * *
745919 GTATAATAA-TAATTATATTTTTTATAAATGAACTCAATATATGTAAAGTAAATATATTAAAAGA
114 ATATAATAAGTAA-T-TA-GTCTTATAAATGAACTCAATATATATAAAGTATATATATTAAAAAA
* *
745983 CATTATAAGGTAATTAATAATCATAGTTTTATGAATTAATTTAATTAACTATATGAGTTTGTCCT
176 CATTATAAGTTAATTAATAATCATAGTTTAATGAATTAATTTAATTAACTATATGAGTTTGTCCT
* *
746048 TAACTATATGAAATTAAAAAAAATAACTAGGTCTCAAAACTATTCTAATCTCACAACTTCTCTTA
241 TAATTATATGAAATTAAAAAAAATAACTAAGTCTCAAAACTATTCTAATCTCACAACTTCTCTTA
* *
746113 AGCT-TT-G-TGTATTATAAGTTTATATAAACAAAGG
306 AGATATTAGTTATATTATAAGTTTATATAAACAAA-G
* * * * *
746147 TGTATATATTATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAATATAAAGTAGAAAG
1 TATATATATTATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAG
746212 TAAATATATTTATATTTAAAGTATATATATACTAAAAGTATTAGTATATATATAATACAGTAATT
66 TAAATATATTTATATTTAAAGTATATATATACTAAAAGTATTA-TATATATATAATA-AGTAATT
*
746277 A-TNCTTATAAATGAACTCAATATATATAAAGTGTATATATTAAAAAACATTATAAGTTAATTAA
129 AGT-CTTATAAATGAACTCAATATATATAAAGTATATATATTAAAAAACATTATAAGTTAATTAA
* *
746341 TAATCATAGTTTAATG-ATTAATTTAATTAACTATATGAGTTTGTCTTTAATTATATAAAATTAA
193 TAATCATAGTTTAATGAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATATGAAATTAA
746405 AAAAAAT
258 AAAAAAT
746412 TGTTAGATTC
Statistics
Matches: 534, Mismatches: 58, Indels: 74
0.80 0.09 0.11
Matches are distributed among these distances:
340 53 0.10
341 70 0.13
342 19 0.04
343 4 0.01
344 7 0.01
350 10 0.02
353 1 0.00
354 77 0.14
355 1 0.00
356 24 0.04
357 78 0.15
358 1 0.00
360 1 0.00
361 10 0.02
362 2 0.00
364 47 0.09
365 72 0.13
366 12 0.02
367 1 0.00
368 2 0.00
369 2 0.00
370 1 0.00
371 3 0.01
372 16 0.03
373 13 0.02
374 5 0.01
375 2 0.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (341 bp):
TATATATATTATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAG
TAAATATATTTATATTTAAAGTATATATATACTAAAAGTATTATATATATATAATAAGTAATTAG
TCTTATAAATGAACTCAATATATATAAAGTATATATATTAAAAAACATTATAAGTTAATTAATAA
TCATAGTTTAATGAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATATGAAATTAAAAA
AAATAACTAAGTCTCAAAACTATTCTAATCTCACAACTTCTCTTAAGATATTAGTTATATTATAA
GTTTATATAAACAAAG
Found at i:764428 original size:44 final size:43
Alignment explanation
Indices: 764365--764454 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 43
764355 TAGGGGAAAT
764365 TATTTAGGAAACTAAGCAGT-TGGAGTTTGGCTTTAATATAAAGA
1 TATTTAGGAAACTAAGCAGTAT-G-GTTTGGCTTTAATATAAAGA
*
764409 TATTTA-GATAACTAAGCAGTAATGGTTTGGCTTTAATATGAAGA
1 TATTTAGGA-AACTAAGCAGT-ATGGTTTGGCTTTAATATAAAGA
764453 TA
1 TA
764455 ATTAAGTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 2 0.05
44 38 0.90
45 1 0.02
46 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.36
Consensus pattern (43 bp):
TATTTAGGAAACTAAGCAGTATGGTTTGGCTTTAATATAAAGA
Found at i:774180 original size:22 final size:22
Alignment explanation
Indices: 774153--774201 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
774143 AATGAAAATG
774153 AAAAATAG-AATAATAAGGTA-AT
1 AAAAATAGTAATAA-AA-GTACAT
774175 AAAAATAGTAATAAAAGTACAT
1 AAAAATAGTAATAAAAGTACAT
774197 AAAAA
1 AAAAA
774202 AATAGTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 17 0.68
23 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (22 bp):
AAAAATAGTAATAAAAGTACAT
Found at i:787800 original size:93 final size:93
Alignment explanation
Indices: 787535--787818 Score: 382
Period size: 93 Copynumber: 3.1 Consensus size: 93
787525 NNNNNNACAG
787535 CATTTTACTTGATATGCATGTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCAT
1 CATTTTACTTGATATGCATGTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCAT
** *
787600 TTTACTTGTTATGCATGGCGT-TTAACAT
66 TTTACTTGAAATGCATGGCGTGTT-ACAA
787628 CATTTTACTTGATATGCATGTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCAT
1 CATTTTACTTGATATGCATGTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCAT
*
787693 TTAACTT-AATATGCATGGCGTGTTACAA
66 TTTACTTGAA-ATGCATGGCGTGTTACAA
* * *
787721 CATTTTACTT-ATTATGCATGGT-GTGTCACA-ACATTTTACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGA-TATGCAT-GTCGTGTCACAGA-ATTTTACTTGTTATGCATGGCGTTTGACAG
* * *
787783 CATTTTGA-TTGCAATGCATGGTGTGTCACAA
63 CATTTT-ACTTGAAATGCATGGCGTGTTACAA
787814 CATTT
1 CATTT
787819 ATTCCTTATA
Statistics
Matches: 173, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
92 2 0.01
93 165 0.95
94 6 0.03
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (93 bp):
CATTTTACTTGATATGCATGTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCAT
TTTACTTGAAATGCATGGCGTGTTACAA
Found at i:787813 original size:31 final size:31
Alignment explanation
Indices: 787535--787818 Score: 322
Period size: 31 Copynumber: 9.2 Consensus size: 31
787525 NNNNNNACAG
* *
787535 CATTTTACTTGATATGCATGTCGTGTCACAGA
1 CATTTTACTTGTTATGCATGGCGTGTCACA-A
* * *
787567 -ATTTTACTTGTTATGCATGGCGTTTGACAG
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* * *
787597 CATTTTACTTGTTATGCATGGCGTTTAACAT
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* *
787628 CATTTTACTTGATATGCATGTCGTGTCACAGA
1 CATTTTACTTGTTATGCATGGCGTGTCACA-A
* * *
787660 -ATTTTACTTGTTATGCATGGCGTTTGACAG
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* ** *
787690 CATTTAACTTAATATGCATGGCGTGTTACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* *
787721 CATTTTACTTATTATGCATGGTGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
787752 CATTTTACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
** *
787783 CATTTTGA-TTGCAATGCATGGTGTGTCACAA
1 CATTTT-ACTTGTTATGCATGGCGTGTCACAA
787814 CATTT
1 CATTT
787819 ATTCCTTATA
Statistics
Matches: 216, Mismatches: 32, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
31 215 1.00
32 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (31 bp):
CATTTTACTTGTTATGCATGGCGTGTCACAA
Found at i:789712 original size:156 final size:156
Alignment explanation
Indices: 789464--789785 Score: 439
Period size: 156 Copynumber: 2.1 Consensus size: 156
789454 CACAGTAATT
* * *
789464 TATGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACCGATAGGTCCAGCTCAACCGC
1 TATGTAATTGCAGTATACGGAAGCGACAACAGGTCCTCAAGCACCAATAGGTCCAGCTCAACCGC
* *
789529 AGACTGCTAACTAGCCGGCGGTAAGGATATTAAAGTTATAACAATTAATGTTCAACAAATT-CAT
66 AGACTGCTAACGAGCCGCCGGTAAGGATATTAAAGTTATAACAATTAATGTTCAA-AAATTCCAT
789593 ACATGATTATTGAATAACACAATTAAA
130 ACATGATTATTGAATAACACAATTAAA
* * * * * * *
789620 TATGTAATTGCAGTATGCGGAAGCGACAATAGGTCCTGAAGCACCAATCGGTTCGGCTCCACCGC
1 TATGTAATTGCAGTATACGGAAGCGACAACAGGTCCTCAAGCACCAATAGGTCCAGCTCAACCGC
* * ** *
789685 AGACTGCTAACGAGCCGCCGGTTAGGATATTAAAGTTGTAACGGTTAATGTTCAATAATTCCATA
66 AGACTGCTAACGAGCCGCCGGTAAGGATATTAAAGTTATAACAATTAATGTTCAAAAATTCCATA
* * *
789750 TATGATTATTGAATAACATAATTATA
131 CATGATTATTGAATAACACAATTAAA
*
789776 TATGTTATTG
1 TATGTAATTG
789786 TAGTTGACCT
Statistics
Matches: 144, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
155 4 0.03
156 140 0.97
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (156 bp):
TATGTAATTGCAGTATACGGAAGCGACAACAGGTCCTCAAGCACCAATAGGTCCAGCTCAACCGC
AGACTGCTAACGAGCCGCCGGTAAGGATATTAAAGTTATAACAATTAATGTTCAAAAATTCCATA
CATGATTATTGAATAACACAATTAAA
Found at i:790253 original size:62 final size:62
Alignment explanation
Indices: 790115--790327 Score: 245
Period size: 62 Copynumber: 3.4 Consensus size: 62
790105 GTCAGCTTTA
* * * *
790115 GCGTGTCACAACATTATA-TATGTTATT--TATGGCGTGTCA-CAACCTTTGATTTTGATATGCA
1 GCGTGTCACAACATTTTACT-TGTT-TTCCT-TGGCGTGTCACCAA-GTTT-ATCTTGTTATGCA
790176 TG
61 TG
* *
790178 GCGTGTCAGAACATTTTGCTTGTTTTCCTTGGCGTGTCACCAAGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTTTCCTTGGCGTGTCACCAAGTTTATCTTGTTATGCATG
* * ** *
790240 GTGTGTCACAACATTTTCCTCATTATCCTTGGCGTGTCACCAAGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTTTCCTTGGCGTGTCACCAAGTTTATCTTGTTATGCATG
*
790302 GCGTGTCACGACATTTTACTTGTTTT
1 GCGTGTCACAACATTTTACTTGTTTT
790328 GCATGACATG
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
62 91 0.71
63 32 0.25
64 5 0.04
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (62 bp):
GCGTGTCACAACATTTTACTTGTTTTCCTTGGCGTGTCACCAAGTTTATCTTGTTATGCATG
Found at i:790324 original size:31 final size:31
Alignment explanation
Indices: 790115--790352 Score: 176
Period size: 31 Copynumber: 7.6 Consensus size: 31
790105 GTCAGCTTTA
* **
790115 GCGTGTCACAACATTATA-TATGTTATTTATG
1 GCGTGTCACAACATTTTACT-TGTTATGCATG
* * * *
790146 GCGTGTCACAACCTTTGATTTTGATATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * * * *
790178 GCGTGTCAGAACATTTTGCTTGTTTTCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
790209 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * ** * *
790240 GTGTGTCACAACATTTTCCTCATTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
790271 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* *
790302 GCGTGTCACGACATTTTACTTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
790333 ACATGTGACAACATTTTACT
1 GCGTGTCACAACATTTTACT
790353 ATTTATGGGT
Statistics
Matches: 156, Mismatches: 45, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
30 8 0.05
31 116 0.74
32 31 0.20
33 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:791856 original size:13 final size:13
Alignment explanation
Indices: 791824--791871 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
791814 ACACATAAAT
791824 TTTTTTATACA-A
1 TTTTTTATACACA
791836 TTCATTTTATACACA
1 TT--TTTTATACACA
*
791851 TTTTTTGTACACA
1 TTTTTTATACACA
*
791864 CTTTTTAT
1 TTTTTTAT
791872 TGAATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 2 0.07
13 16 0.53
14 9 0.30
15 3 0.10
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (13 bp):
TTTTTTATACACA
Found at i:792507 original size:31 final size:31
Alignment explanation
Indices: 792467--792743 Score: 286
Period size: 31 Copynumber: 9.0 Consensus size: 31
792457 ACACACCAGA
* * * *
792467 ACTTGTTATGCATGGCGGGTTAGAACAATTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
* **
792498 AATTGTTATGCATGGCGTGTCGGAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
* * * *
792529 GCTTGTTATCCTTGGCGTGTCACAACCTTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
*
792560 ACTTGTTATGCATGGCGTGTCAGAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
* * * * *
792591 GCTTGTTATCCTTGGTGTGTCACAACCTTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
***
792622 ACTTGTTATGCATGGCGTGTCATTTCATTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
* * * *
792653 TCTTGTTATGAATGGCGTGTTACAATATTTT
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
* * * *
792684 ATTTGATATGCATGGCGTGTGACAACATTTA
1 ACTTGTTATGCATGGCGTGTCACAACATTTT
*
792715 ACTTGTTATGCATGGCGTGTCTC-ACATTT
1 ACTTGTTATGCATGGCGTGTCACAACATTT
792744 ATTCTTTATT
Statistics
Matches: 197, Mismatches: 49, Indels: 1
0.80 0.20 0.00
Matches are distributed among these distances:
30 6 0.03
31 191 0.97
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.42
Consensus pattern (31 bp):
ACTTGTTATGCATGGCGTGTCACAACATTTT
Found at i:796253 original size:31 final size:31
Alignment explanation
Indices: 796211--796291 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
796201 TTGTCAGTCG
*
796211 TGTTGTTACACGCCATGCAAAT-AACGTAAAA
1 TGTTGTAACACGCCATGCAAATCAA-GTAAAA
* *
796242 TGTTGTAACACGCCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCAAATCAAGTAAAA
* *
796273 TGTCGTGACACGCCATGCA
1 TGTTGTAACACGCCATGCA
796292 TCAGTATCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCAAATCAAGTAAAA
Found at i:796306 original size:23 final size:23
Alignment explanation
Indices: 796275--796356 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
796265 AAGTCAAATG
*
796275 TCGTGACACGCCATGCATCAGTA
1 TCGTGACACGCCATGCATCACTA
* * *
796298 TCGTTACACGTCATGCATCACTG
1 TCGTGACACGCCATGCATCACTA
* *
796321 TCGTGACACACCATGCATCACTG
1 TCGTGACACGCCATGCATCACTA
*
796344 TCTTGACACGCCA
1 TCGTGACACGCCA
796357 ATCACTGTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (23 bp):
TCGTGACACGCCATGCATCACTA
Found at i:796362 original size:20 final size:21
Alignment explanation
Indices: 796313--796364 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
796303 ACACGTCATG
796313 CATCACTGTCGTGACACACCA
1 CATCACTGTCGTGACACACCA
* *
796334 TGCATCACTGTCTTGACACGCCA
1 --CATCACTGTCGTGACACACCA
796357 -ATCACTGT
1 CATCACTGT
796365 AATTACTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
23 19 0.70
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (21 bp):
CATCACTGTCGTGACACACCA
Found at i:796461 original size:55 final size:55
Alignment explanation
Indices: 796393--796510 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
796383 CCAACATCCG
* ** *
796393 TGACACGCTAAAAACCCAAAAAACCAGTTAACCCATGACACACCAGGAACAGCCA
1 TGACACGCCAAAAACCCAAAAAACCAGTTAACCCACCACACACCAAGAACAGCCA
* ** * *
796448 TGACACGCCAAAAACCCATAAATTCAGTTAACCCACCACACCCCAAGAACAGCCG
1 TGACACGCCAAAAACCCAAAAAACCAGTTAACCCACCACACACCAAGAACAGCCA
796503 TGACACGC
1 TGACACGC
796511 TAAATAACTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.42, C:0.36, G:0.13, T:0.10
Consensus pattern (55 bp):
TGACACGCCAAAAACCCAAAAAACCAGTTAACCCACCACACACCAAGAACAGCCA
Found at i:799425 original size:13 final size:14
Alignment explanation
Indices: 799399--799455 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 14
799389 AGAAAATCAA
799399 AAAAATAATAAAAC
1 AAAAATAATAAAAC
*
799413 AAAAATCAT-AAAC
1 AAAAATAATAAAAC
799426 AAAAATGAATTAAAA-
1 AAAAAT-AA-TAAAAC
799441 ATAATAATAATAAAA
1 A-AA-AATAATAAAA
799456 ATAGGAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 10 0.28
14 9 0.25
15 7 0.19
16 7 0.19
17 3 0.08
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAATAATAAAAC
Found at i:799998 original size:2 final size:2
Alignment explanation
Indices: 799991--800018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
799981 CCGCCGTAGT
799991 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
800019 TGAGTGAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:800951 original size:12 final size:13
Alignment explanation
Indices: 800925--800960 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
800915 TAAATACATG
800925 TATATAAAAATAA
1 TATATAAAAATAA
800938 TATATAAAAA-AA
1 TATATAAAAATAA
800950 TATATAAAAAT
1 TATATAAAAAT
800961 TACCATGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATATAAAAATAA
Found at i:801190 original size:15 final size:14
Alignment explanation
Indices: 801166--801211 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
801156 ATTAGTCAAA
801166 AAAT-AATAAATAAT
1 AAATAAATAAA-AAT
801180 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
801194 AGAAAAAATAAAAAT
1 A-AATAAATAAAAAT
801209 AAA
1 AAA
801212 ATAAGCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:808199 original size:17 final size:18
Alignment explanation
Indices: 808168--808202 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
808158 ATCAATTCAG
808168 TATGGTACAATTTATAGA
1 TATGGTACAATTTATAGA
808186 TATGGTAC-ATTTATAGA
1 TATGGTACAATTTATAGA
808203 AATGCTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (18 bp):
TATGGTACAATTTATAGA
Found at i:812902 original size:16 final size:15
Alignment explanation
Indices: 812881--812950 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 15
812871 TTAATTTTTT
812881 ATTAATTAATGTATAA
1 ATTAATTAAT-TATAA
* *
812897 ATTAATAAATTATTA
1 ATTAATTAATTATAA
*
812912 ATTTATTAATTCAATAA
1 ATTAATTAATT--ATAA
812929 TATCTTAATTAATTAATAA
1 -A--TTAATTAATT-ATAA
812948 ATT
1 ATT
812951 TTCATGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
15 13 0.30
16 11 0.26
17 3 0.07
18 2 0.05
19 5 0.12
20 9 0.21
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (15 bp):
ATTAATTAATTATAA
Found at i:825422 original size:22 final size:22
Alignment explanation
Indices: 825396--825442 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
825386 TACTTGTGAG
825396 TTGGTGGACTATACTGGGGCAA
1 TTGGTGGACTATACTGGGGCAA
825418 TTGGTGGACTATACTGGGGCAA
1 TTGGTGGACTATACTGGGGCAA
825440 TTG
1 TTG
825443 ACTGAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (22 bp):
TTGGTGGACTATACTGGGGCAA
Found at i:825541 original size:44 final size:43
Alignment explanation
Indices: 825478--825567 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 43
825468 TAGGGGAAAT
825478 TATTTAGGAAACTAAGCAGT-TGGAGTTTGGCTTTAATATAAAGA
1 TATTTAGGAAACTAAGCAGTAT-G-GTTTGGCTTTAATATAAAGA
* *
825522 TATTTAGGTAACTAAGCAGTAATGGTTTGGCTTTAATATGAAGA
1 TATTTAGGAAACTAAGCAGT-ATGGTTTGGCTTTAATATAAAGA
825566 TA
1 TA
825568 ATTAAGTGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 40 0.95
45 1 0.02
46 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.36
Consensus pattern (43 bp):
TATTTAGGAAACTAAGCAGTATGGTTTGGCTTTAATATAAAGA
Found at i:826842 original size:15 final size:15
Alignment explanation
Indices: 826822--826859 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
826812 TATATATATA
826822 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
826837 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
826853 TTATAAT
1 TTATAAT
826860 GTTAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:827434 original size:350 final size:341
Alignment explanation
Indices: 826814--827811 Score: 1157
Period size: 343 Copynumber: 2.9 Consensus size: 341
826804 AAAGTGTGTA
*
826814 TATATATATTATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACA-AAATATAAAAA
1 TATATATATTATAATTAATAA-TTT-TAAGTTATAATTTTTATAATGTTAACACAAA-ATAGAAA
* * * *
826878 GTAAATACATTTATTTTTAAAGTATATATATATATATATTAAAAGTATTTTAGTGTATATATATA
63 GTAAATATATTTATATTTAAAGTATATATATA-A-A-ACTAAAAGTGTTTTA-T-TATATATATA
* * * * * *
826943 ATAGTGATTATATTCTTTATAAATGAATTCAATATATATAAAGTATAGATATT-AAAGACATTAC
123 ATAATAATTATATTTTTTATAAATGAATCCAATATATATAAAGTA-ATATATTAAAAGAAATTAC
* * * *
827007 AAGTTAATTAATAATCATAGTTTCATTAATTAATTTAATTAATTATATGAGTTTGTCCTTTACTA
187 AAGTTAATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTA
* *
827072 CAAGAAATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCT-TT-TTAG-A
252 TATGAAATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTTATTAGCA
*
827134 TAAT-TAAGTTTATATATATC-AAAG
317 TAATATAAGTTTATATA-AACAAAAG
* *
827158 TATCTATATTATAATTAATAATTTGTAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGT
1 TATATATATTATAATTAATAATTT-TAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGT
** *
827223 AAATATGGTTATATTTAAAGTGTGTATATATATACACACACACACTAAAAGTGTTTTATTATATG
65 AAATATATTTATATTTAAA----GTATATATAT----A-A-A-ACTAAAAGTGTTTTATTATATA
827288 TATAATAATAATTATATTTTTTATAAATGAATCCAATATATATAAAGTAAATATATTAAAAGAAA
119 TATAATAATAATTATATTTTTTATAAATGAATCCAATATATATAAAGT-AATATATTAAAAGAAA
* * * *
827353 TTACAAGGTAATTAATAATCATAGTTTTATGAATTAATTTAATTAATTATATGAGTTTATCCTTA
183 TTACAAGTTAATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTA
** *
827418 ATTATATGAAATTAAAAAAAATAACTAGGTTTCAAAACTATTCTAATCTCACAACTTCTCTTAAG
248 ATTATATGAAATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTT-A-
* *
827483 CTTTGCATATTATAAGTTTATATAAACAAAAG
311 -TTAGCATAATATAAGTTTATATAAACAAAAG
* * * *
827515 TGTATATATTATAATTAATAATTTTATATGTTATAATTTTTTTTAATTTTAATACAAAATAGAAA
1 TATATATATTATAATTAATAATTTTA-A-GTTATAA-TTTTTATAATGTTAACACAAAATAGAAA
* *
827580 GTAAATATATTTATATTTAAAGTATATATAT---ACTAAAA--GTATTAGTATATATATAATACA
63 GTAAATATATTTATATTTAAAGTATATATATAAAACTAAAAGTGTTTTATTATATATATAATA-A
* * *
827640 GTAATTATATTTCTTATAAATGAA-CTCAATATATATAATGT-ATATATTAAAA-AACATTTCAA
127 -TAATTATATTTTTTATAAATGAATC-CAATATATATAAAGTAATATATTAAAAGAA-ATTACAA
* * *
827702 GTTAATTAATAATTATAGTTTAATAAATTAATTTAATTAACTATAT-AGTTTTGTCTTTAATTAT
189 GTTAATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAG-TTTGTCCTTAATTAT
*
827766 ATGAAATTAAAAAAAATAGTT-AGATTCCAAAACTATTCTAATCTCA
253 ATGAAATTAAAAAAAATAGTTAAG-TTTCAAAACTATTCTAATCTCA
827812 AAGACTCTCT
Statistics
Matches: 568, Mismatches: 58, Indels: 57
0.83 0.08 0.08
Matches are distributed among these distances:
342 5 0.01
343 180 0.32
344 25 0.04
345 43 0.08
347 10 0.02
349 55 0.10
350 121 0.21
351 18 0.03
355 13 0.02
356 8 0.01
357 39 0.07
358 7 0.01
359 44 0.08
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (341 bp):
TATATATATTATAATTAATAATTTTAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTA
AATATATTTATATTTAAAGTATATATATAAAACTAAAAGTGTTTTATTATATATATAATAATAAT
TATATTTTTTATAAATGAATCCAATATATATAAAGTAATATATTAAAAGAAATTACAAGTTAATT
AATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTATATGAAATT
AAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTTATTAGCATAATATAAG
TTTATATAAACAAAAG
Found at i:827611 original size:17 final size:17
Alignment explanation
Indices: 827581--827631 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
827571 AAATAGAAAG
*
827581 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
827597 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
827614 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
827632 ATAATACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:828893 original size:661 final size:660
Alignment explanation
Indices: 827637--828953 Score: 2206
Period size: 661 Copynumber: 2.0 Consensus size: 660
827627 TATATATAAT
*
827637 ACAGTAATTATATTTCTTATAAATGAACTCAATATATATAATGTATATATTAAAAAACATTTCAA
1 ACAGTAATTATATTTCTTATAAATGAACTCAATATATATAATGTATATATTAAAAAACATTCCAA
* *
827702 GTTAATTAATAATTATAGTTTAATAAATTAATTTAATTAACTATATAGTTTTGTCTTTAATTATA
66 GTTAATTAATAATTATAGTTTAATAAATTAATTTAATTAACAATATAGGTTTGTCTTTAATTATA
827767 TGAAATTAAAAAAAATAGTTAGATTCCAAAACTATTCTAATCTCAAAGACTCTCTTTAAGTATAT
131 TGAAATTAAAAAAAATAGTTAGA-T-CAAAACTATTCTAATCTCAAAGACTCTCTTTAAGTATAT
* * *
827832 ATATTATGAGTTATAATTTTTGTAATATTAATACAAAGTAAAAAGTAACTATATTTATATTAGAA
194 ATATTATGAGTTATAATTTTTGTAATATTAACACAAAATAAAAAGTAAATATATTTATATTAGAA
827897 GTATATATATAATAGTAATTATATTCTTTTGTAATATGATATGATATTCATATTATTTAAACATA
259 GTATATATATAATAGTAATTATATTCTTTTGTAATATGATATGATATTCATATTATTTAAACATA
* * *
827962 ATTAATAATCTAATAATTTTTTAATTGAAATATTTTAATGTAATCACATTAATAATTTGAGTAAC
324 ATTAATAATCTAATAATTTTTTAATTGAAATATATTAATGAAATCACATTAATAATTTGACTAAC
828027 CAGACTTTTTAATATATTTGTCAGCTTTTAATAAATATATTAATGTTGATTATTTTTAATTTAAT
389 CAGACTTTTTAATATATTTGTCAGCTTTTAATAAATATATTAATGTTGATTATTTTTAATTTAAT
828092 CATTTAAATAACAACAAAATATATATAAACAGGTATTGGGATCGAGTTCGAGGTGGGTACCCGTG
454 CATTTAAATAACAACAAAATATATATAAACAGGTATTGGGATCGAGTTCGAGGTGGGTACCCGTG
828157 TAACTTGAATAGTAACATAATCGGGTTCAGGTAGCGGGTACCCAAGAGGTACTACCCCGAACCTG
519 TAACTTGAATAGTAACATAATCGGGTTCAGGTAGCGGGTACCCAAGAGGTACTACCCCGAACCTG
828222 ATATGGGTAGTGAAATCACTATCCGAACCCGTCCTAAACTTGATTATAGGGTATCTTAATCCGAT
584 ATATGGGTAGTGAAATCACTATCCGAACCCGTCCTAAACTTGATTATAGGGTATCTTAATCCGAT
828287 ATAACCNTATATA
649 ATAACC-TATATA
*
828300 ACAGTAATTATATTTCTTATAAATGAACTCAATATATATAATGTATAAATATTTAAAAACATTCC
1 ACAGTAATTATATTTCTTATAAATGAACTCAATATATATAATGTAT--ATATTAAAAAACATTCC
* * * *
828365 AAGTTAATTAATAATTATAGTTTTATGAATTAATTTAATTAACAATATTGGTTTGTTTTTAATTA
64 AAGTTAATTAATAATTATAGTTTAATAAATTAATTTAATTAACAATATAGGTTTGTCTTTAATTA
* *
828430 TATGAAATTAAAAAAAATAAGTT-GA-C-AAACTACTT-TAATCTCACA-A-TCTCCTTTTAGGT
129 TATGAAATTAAAAAAAAT-AGTTAGATCAAAACTA-TTCTAATCTCAAAGACTCT-C-TTTAAG-
* * ** *
828489 ATATATATTATTATGAGGTTATAATTTTTGTAATGTTAACATAAAATTGAAAGTAAATATGTTTA
189 -TATATA-TATTATGA-GTTATAATTTTTGTAATATTAACACAAAATAAAAAGTAAATATATTTA
* *
828554 TATTTGAAGTATATATATAATAGTAATTATATTCTTTT-TAATATGATATGATATTCATATTGTT
251 TATTAGAAGTATATATATAATAGTAATTATATTCTTTTGTAATATGATATGATATTCATATTATT
*
828618 TAAACATAATTAATAATCTAATAA-TTTTTAATTTAAATATATTAAT-AACATCACATTAATAAT
316 TAAACATAATTAATAATCTAATAATTTTTTAATTGAAATATATTAATGAA-ATCACATTAATAAT
*
828681 TTGACTAACCATA-TTTTTAATATATTTGTCAGCTTTTAATAAATATATTAATGTTGATT-TTTT
380 TTGACTAACCAGACTTTTTAATATATTTGTCAGCTTTTAATAAATATATTAATGTTGATTATTTT
828744 TAATTTAATCATTTAAATAACAACAAAATATATATAAACAGGTATTGGGATCGAGTTCGAGGTGG
445 TAATTTAATCATTTAAATAACAACAAAATATATATAAACAGGTATTGGGATCGAGTTCGAGGTGG
828809 GTACCCGTGTAACTTGAATAGTAACATAATCGGGTTCAGGTAGCGGGTACCCAAGAGGTACTACC
510 GTACCCGTGTAACTTGAATAGTAACATAATCGGGTTCAGGTAGCGGGTACCCAAGAGGTACTACC
828874 CCGAACCTGATATGGGTAGTGAAATCACTATCCGAACCCGTCCTAAACTTGATTATAGGGTATCT
575 CCGAACCTGATATGGGTAGTGAAATCACTATCCGAACCCGTCCTAAACTTGATTATAGGGTATCT
828939 TAATCCGATATAACC
640 TAATCCGATATAACC
828954 GGGTTGGATA
Statistics
Matches: 618, Mismatches: 25, Indels: 24
0.93 0.04 0.04
Matches are distributed among these distances:
659 3 0.00
660 2 0.00
661 234 0.38
662 50 0.08
663 97 0.16
664 57 0.09
665 171 0.28
666 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (660 bp):
ACAGTAATTATATTTCTTATAAATGAACTCAATATATATAATGTATATATTAAAAAACATTCCAA
GTTAATTAATAATTATAGTTTAATAAATTAATTTAATTAACAATATAGGTTTGTCTTTAATTATA
TGAAATTAAAAAAAATAGTTAGATCAAAACTATTCTAATCTCAAAGACTCTCTTTAAGTATATAT
ATTATGAGTTATAATTTTTGTAATATTAACACAAAATAAAAAGTAAATATATTTATATTAGAAGT
ATATATATAATAGTAATTATATTCTTTTGTAATATGATATGATATTCATATTATTTAAACATAAT
TAATAATCTAATAATTTTTTAATTGAAATATATTAATGAAATCACATTAATAATTTGACTAACCA
GACTTTTTAATATATTTGTCAGCTTTTAATAAATATATTAATGTTGATTATTTTTAATTTAATCA
TTTAAATAACAACAAAATATATATAAACAGGTATTGGGATCGAGTTCGAGGTGGGTACCCGTGTA
ACTTGAATAGTAACATAATCGGGTTCAGGTAGCGGGTACCCAAGAGGTACTACCCCGAACCTGAT
ATGGGTAGTGAAATCACTATCCGAACCCGTCCTAAACTTGATTATAGGGTATCTTAATCCGATAT
AACCTATATA
Found at i:840317 original size:39 final size:39
Alignment explanation
Indices: 840268--840345 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
840258 AAATTGACGA
*
840268 AAAAAATCTTTAATATAGGGATTTATGAGGTACTTTGAC
1 AAAAAATCTTTAATATAGGGATCTATGAGGTACTTTGAC
840307 AAAAAATCTTTAATATAGGGATCTATGAGGTACTTTGAC
1 AAAAAATCTTTAATATAGGGATCTATGAGGTACTTTGAC
840346 TATTAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (39 bp):
AAAAAATCTTTAATATAGGGATCTATGAGGTACTTTGAC
Found at i:846073 original size:28 final size:29
Alignment explanation
Indices: 846025--846106 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
846015 CGCCCCCAAA
* * * *
846025 ATTTCAAAAATTTATATTTTTTTGTTT-T
1 ATTTTAAAAATTTATAATTTTATCTTTAT
*
846053 ATTTTAAAAATTGATAATTTTATCTTTAT
1 ATTTTAAAAATTTATAATTTTATCTTTAT
*
846082 TTTTTAAAAATTTTATAATTTTATC
1 ATTTTAAAAA-TTTATAATTTTATC
846107 CTTTCAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.49
29 10 0.22
30 13 0.29
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTAAAAATTTATAATTTTATCTTTAT
Found at i:846073 original size:29 final size:30
Alignment explanation
Indices: 846025--846106 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
846015 CGCCCCCAAA
* *
846025 ATTTCAAAAATTTAT-ATTTT-T-TTGTTTT
1 ATTTTAAAAATTTATAATTTTATCTT-TATT
*
846053 ATTTTAAAAATTGATAATTTTATCTTTATT
1 ATTTTAAAAATTTATAATTTTATCTTTATT
846083 -TTTTAAAAATTTTATAATTTTATC
1 ATTTTAAAAA-TTTATAATTTTATC
846107 CTTTCAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.28
29 14 0.30
30 17 0.37
31 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTAAAAATTTATAATTTTATCTTTATT
Found at i:846149 original size:29 final size:31
Alignment explanation
Indices: 846088--846152 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
846078 TTATTTTTTA
*
846088 AAAATTTTATAATTTTATCCTTTCAAATATT
1 AAAATTTTATAATTTTATCATTTCAAATATT
*
846119 AAAATTTT-T-ATTTTCTCATTCTCAAAT-TT
1 AAAATTTTATAATTTTATCATT-TCAAATATT
846148 AAAAT
1 AAAAT
846153 ATTGACTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.52
30 7 0.23
31 8 0.26
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (31 bp):
AAAATTTTATAATTTTATCATTTCAAATATT
Found at i:851725 original size:48 final size:48
Alignment explanation
Indices: 851670--851812 Score: 189
Period size: 48 Copynumber: 3.0 Consensus size: 48
851660 ATCAAACAAT
* * *
851670 AGCAGCAGAGTGATGAAGAAAATCCAACCATGAAGGAATCGACAGAGG
1 AGCAGCAGACTGATGAAGAAAATCCAACCATGGAGGAATCAACAGAGG
* * * *
851718 AGCAGCAGACTGAT-AGAGAAAATCTAGCCATGGGGGAATCAATAGAGG
1 AGCAGCAGACTGATGA-AGAAAATCCAACCATGGAGGAATCAACAGAGG
* *
851766 AGCAGCAGACTGATGAAGAAAATCCATCCATGGAGGAACCAACAGAG
1 AGCAGCAGACTGATGAAGAAAATCCAACCATGGAGGAATCAACAGAG
851813 AAGTAGTAGG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 79 0.98
49 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (48 bp):
AGCAGCAGACTGATGAAGAAAATCCAACCATGGAGGAATCAACAGAGG
Found at i:862072 original size:8 final size:10
Alignment explanation
Indices: 862034--862067 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
862024 AGGATTAGAT
862034 AGAGAGCAAG
1 AGAGAGCAAG
862044 AGAGAGCAAG
1 AGAGAGCAAG
862054 AGAGAG-AAG
1 AGAGAGCAAG
862063 -GAGAG
1 AGAGAG
862068 AAGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.21
9 3 0.12
10 16 0.67
ACGTcount: A:0.50, C:0.06, G:0.44, T:0.00
Consensus pattern (10 bp):
AGAGAGCAAG
Found at i:869079 original size:2 final size:2
Alignment explanation
Indices: 869072--869130 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
869062 TAATCAATCG
869072 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
869114 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
869131 TATGAACTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:874318 original size:8 final size:8
Alignment explanation
Indices: 874305--874332 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
874295 TTTCTAGATC
874305 TAAAATCA
1 TAAAATCA
874313 TAAAATCA
1 TAAAATCA
874321 TAAAATCA
1 TAAAATCA
874329 TAAA
1 TAAA
874333 CTTGAAAAAA
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:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAATCA
Found at i:885240 original size:2 final size:2
Alignment explanation
Indices: 885233--885329 Score: 171
Period size: 2 Copynumber: 49.5 Consensus size: 2
885223 AATTCCTTGG
885233 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
*
885275 AT AT AT AT -T AT AT AN 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
885316 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
885330 AAGATTTTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
1 2 0.02
2 89 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:888957 original size:17 final size:17
Alignment explanation
Indices: 888935--888969 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
888925 GGATTGGATT
*
888935 GAGAGCGAGAGAGAGAA
1 GAGAGCGAAAGAGAGAA
*
888952 GAGAGCTAAAGAGAGAA
1 GAGAGCGAAAGAGAGAA
888969 G
1 G
888970 GCAAAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.43, T:0.03
Consensus pattern (17 bp):
GAGAGCGAAAGAGAGAA
Found at i:890174 original size:4 final size:4
Alignment explanation
Indices: 890165--890222 Score: 55
Period size: 4 Copynumber: 14.2 Consensus size: 4
890155 CGACCAAAGG
* * *
890165 GAAA GAAA GAAA GAAT GAAA GAAA GAAA GGAA -AAA GAATAA GAAA GAGA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-A-AA GAAA GAAA
*
890214 GAGA GAAA G
1 GAAA GAAA G
890223 CCAGAGAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 2 0.04
4 38 0.84
5 2 0.04
6 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:900958 original size:59 final size:59
Alignment explanation
Indices: 900885--901280 Score: 417
Period size: 59 Copynumber: 6.7 Consensus size: 59
900875 GAACCTGTTG
* * * * * *
900885 TAGGTTGAGCCTAGATGAAGTCTAGGAATTTTAATTTTTTAATCAAAGCTGTTTTGAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAATCTGTTTTAAGA
* * * * * * *
900944 TAGGTCAAGGCTAGATTAAGTCT-GAAATTTTCAATTTTTTATATTGAACCTGTTCTAAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAA-TTTCAATTTTTTA-ATCGAATCTGTTTTAAGA
* *
901004 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATCTTTTAATCGAA-CTTGTTTTGAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAATC-TGTTTTAAGA
* *
901063 TAGGTCGAGCCTAGATTAAGTCTAGGAATTGCAA-TTTTTATATCGAATCTGTTTTAAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTA-ATCGAATCTGTTTTAAGA
* * *
901122 TAGGTCGAGCCTAGATCAAATCTAGGCATGTCAATTTTTTAAATCGAATCTGTTTTAAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTT-AATCGAATCTGTTTTAAGA
* * * * *
901182 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTTAATTTTTAAATTGAA-CTTGTCTTGAGA
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAATC-TGTTTTAAGA
* * * *
901241 TAAGTCGTA-CCTAAATCAAG-CTTAGAAATTTCATTTTTTT
1 TAGGTCG-AGCCTAGATCAAGTC-TAGGAATTTCAATTTTTT
901281 TTAACTTAGT
Statistics
Matches: 284, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
58 11 0.04
59 164 0.58
60 105 0.37
61 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (59 bp):
TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAATCTGTTTTAAGA
Found at i:901098 original size:119 final size:118
Alignment explanation
Indices: 900885--901280 Score: 453
Period size: 119 Copynumber: 3.3 Consensus size: 118
900875 GAACCTGTTG
* * * *
900885 TAGGTTGAGCCTAGATGAAGTCTAGGAATTTTAATTTTTTAATCAAAGC-TGTTTTGAGATAGGT
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAA-CTTGTTTTGAGATAGGT
* * *
900949 CAAGGCTAGATTAAGTCT-GAAATTTTCAATTTTTTATATTGAACCTGTTCTAAGA
65 CGAGCCTAGATTAAGTCTAGGAA-TTTCAA-TTTTTATATTGAACCTGTTCTAAGA
*
901004 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATCTTTTAATCGAACTTGTTTTGAGATAGGTC
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAACTTGTTTTGAGATAGGTC
* * * *
901069 GAGCCTAGATTAAGTCTAGGAATTGCAATTTTTATATCGAATCTGTTTTAAGA
66 GAGCCTAGATTAAGTCTAGGAATTTCAATTTTTATATTGAACCTGTTCTAAGA
* * * *
901122 TAGGTCGAGCCTAGATCAAATCTAGGCATGTCAATTTTTTAAATCGAA-TCTGTTTTAAGATAGG
1 TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTT-AATCGAACT-TGTTTTGAGATAGG
* * * * *
901186 TCGAGCCTAGATCAAGTCTAGGAATTTTAATTTTTAAATTGAACTTG-TCTTGAGA
64 TCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTATATTGAACCTGTTC-TAAGA
* * * *
901241 TAAGTCGTA-CCTAAATCAAG-CTTAGAAATTTCATTTTTTT
1 TAGGTCG-AGCCTAGATCAAGTC-TAGGAATTTCAATTTTTT
901281 TTAACTTAGT
Statistics
Matches: 237, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
118 62 0.26
119 171 0.72
120 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (118 bp):
TAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTTAATCGAACTTGTTTTGAGATAGGTC
GAGCCTAGATTAAGTCTAGGAATTTCAATTTTTATATTGAACCTGTTCTAAGA
Found at i:901190 original size:178 final size:178
Alignment explanation
Indices: 900885--901247 Score: 480
Period size: 178 Copynumber: 2.0 Consensus size: 178
900875 GAACCTGTTG
* ** *
900885 TAGGTTGAGCCTAGATGAAGTCTAGGAATTTTAATTTTTTAATCAAAGCTGTTTTGAGATAGGTC
1 TAGGTCGAGCCTAGATGAAGTCTAGGAATTGCAATTTTTTAATCAAAGCTGTTTTAAGATAGGTC
* * * * * *
900950 AAGGCTAGATTAAGTCTGAAATTTTCAATTTTTTATATTGAACCTGTTCTAAGATAGGTCGAGCC
66 AAGCCTAGATCAAATCTGAAATTGTCAATTTTTTAAATCGAACCTGTTCTAAGATAGGTCGAGCC
*
901015 TAGATCAAGTCTAGGAATTTCAATCTTTT-AATCGAACTTGTTTTGAGA
131 TAGATCAAGTCTAGGAATTTCAAT-TTTTAAATCGAACTTGTCTTGAGA
* * *
901063 TAGGTCGAGCCTAGATTAAGTCTAGGAATTGCAA-TTTTTATATCGAATCTGTTTTAAGATAGGT
1 TAGGTCGAGCCTAGATGAAGTCTAGGAATTGCAATTTTTTA-ATCAAAGCTGTTTTAAGATAGGT
* ** * *
901127 CGAGCCTAGATCAAATCTAGGCA-TGTCAATTTTTTAAATCGAATCTGTTTTAAGATAGGTCGAG
65 CAAGCCTAGATCAAATCT-GAAATTGTCAATTTTTTAAATCGAACCTGTTCTAAGATAGGTCGAG
* *
901191 CCTAGATCAAGTCTAGGAATTTTAATTTTTAAATTGAACTTGTCTTGAGA
129 CCTAGATCAAGTCTAGGAATTTCAATTTTTAAATCGAACTTGTCTTGAGA
*
901241 TAAGTCG
1 TAGGTCG
901248 TACCTAAATC
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
177 10 0.06
178 148 0.93
179 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (178 bp):
TAGGTCGAGCCTAGATGAAGTCTAGGAATTGCAATTTTTTAATCAAAGCTGTTTTAAGATAGGTC
AAGCCTAGATCAAATCTGAAATTGTCAATTTTTTAAATCGAACCTGTTCTAAGATAGGTCGAGCC
TAGATCAAGTCTAGGAATTTCAATTTTTAAATCGAACTTGTCTTGAGA
Found at i:904887 original size:28 final size:27
Alignment explanation
Indices: 904851--904903 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
904841 ATATCCTGGT
*
904851 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
904878 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
904904 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:904971 original size:20 final size:20
Alignment explanation
Indices: 904948--904993 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
904938 CTTCTAAACC
904948 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
904968 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
904988 TCAAAT
1 TCAAAT
904994 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:909505 original size:16 final size:17
Alignment explanation
Indices: 909480--909512 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
909470 GTTTCCTTAA
909480 TTATTATTTA-TTTATT
1 TTATTATTTACTTTATT
*
909496 TTATTCTTTACTTTATT
1 TTATTATTTACTTTATT
909513 AGCAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTTACTTTATT
Found at i:914667 original size:79 final size:79
Alignment explanation
Indices: 914536--914694 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
914526 GATGCTTCAG
*
914536 CTAGCAACCCATGTATATAATATGGGGTATTGTATATATGACTAGTAATGAATGAAATAAAAATA
1 CTAGCAACCCATGTATATAATATGGGGTATTGTATATATGACTAGTAATGAATGAAACAAAAATA
*
914601 CGGTTGATTCTCTA
66 CGGCTGATTCTCTA
914615 CTAGCAACCCATGTATATAATATGGGGTATTGTATATATGACTAGTAATGAATGAAACAAAAATA
1 CTAGCAACCCATGTATATAATATGGGGTATTGTATATATGACTAGTAATGAATGAAACAAAAATA
914680 CGGCTGATTCTCTA
66 CGGCTGATTCTCTA
914694 C
1 C
914695 ATTATTCCTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (79 bp):
CTAGCAACCCATGTATATAATATGGGGTATTGTATATATGACTAGTAATGAATGAAACAAAAATA
CGGCTGATTCTCTA
Found at i:921535 original size:19 final size:19
Alignment explanation
Indices: 921511--921548 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
921501 CTGTCAAACC
*
921511 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
921530 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
921549 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:923714 original size:14 final size:15
Alignment explanation
Indices: 923685--923718 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
923675 CTACCGGCAG
923685 AAAGAGAAAAGAAAA
1 AAAGAGAAAAGAAAA
*
923700 AAAGAG-AAGGAAAA
1 AAAGAGAAAAGAAAA
923714 AAAGA
1 AAAGA
923719 AAGAGAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAAGAAAA
Found at i:923723 original size:18 final size:18
Alignment explanation
Indices: 923683--923730 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
923673 GGCTACCGGC
*
923683 AGAAAGAGAA--AAGAAA
1 AGAAAGAGAAGGAAAAAA
923699 A-AAAGAGAAGGAAAAAA
1 AGAAAGAGAAGGAAAAAA
*
923716 AGAAAGAGAGGGAAA
1 AGAAAGAGAAGGAAA
923731 GAAGCGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 1 0.04
17 6 0.22
18 12 0.44
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AGAAAGAGAAGGAAAAAA
Found at i:923833 original size:25 final size:25
Alignment explanation
Indices: 923805--923852 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
923795 AAAGAGAGAT
923805 AGAGA-AAAAAAAGAGAAGAAGGAAA
1 AGAGAGAAAAAAAGA-AAGAAGGAAA
* *
923830 AGAGAGAAAGAAAGAAGGAAGGA
1 AGAGAGAAAAAAAGAAAGAAGGA
923853 GAACCACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (25 bp):
AGAGAGAAAAAAAGAAAGAAGGAAA
Found at i:923902 original size:13 final size:14
Alignment explanation
Indices: 923879--923917 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
923869 AGGGAAAGAG
923879 AGAAGGAAAGAAAAA
1 AGAA-GAAAGAAAAA
923894 AGAAG-AAG-AAAA
1 AGAAGAAAGAAAAA
923906 AGAAGAAAGAAA
1 AGAAGAAAGAAA
923918 GAGGGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.41
13 6 0.27
14 3 0.14
15 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAGAAAGAAAAA
Found at i:929628 original size:18 final size:18
Alignment explanation
Indices: 929605--929642 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
929595 TCAAAAGAAG
* *
929605 AAAAAAGAAGAAGGAAAA
1 AAAAAAGAAAAAAGAAAA
929623 AAAAAAGAAAAAAGAAAA
1 AAAAAAGAAAAAAGAAAA
929641 AA
1 AA
929643 CATAGAAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAAAA
Found at i:932742 original size:20 final size:20
Alignment explanation
Indices: 932719--932764 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
932709 CTTCTAAACC
932719 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
932739 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
932759 TCAAAT
1 TCAAAT
932765 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:934289 original size:22 final size:22
Alignment explanation
Indices: 934254--934314 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
934244 GAACTACCTT
934254 TTCTTCAAAAACCTCTGGGTACA
1 TTCTTC-AAAACCTCTGGGTACA
** *
934277 TTCTTCAAAACCTCCAGGTATA
1 TTCTTCAAAACCTCTGGGTACA
*
934299 TTCTCCAAAACCTCTG
1 TTCTTCAAAACCTCTG
934315 AGTAATTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.31
Consensus pattern (22 bp):
TTCTTCAAAACCTCTGGGTACA
Found at i:934459 original size:102 final size:102
Alignment explanation
Indices: 934277--934616 Score: 440
Period size: 102 Copynumber: 3.4 Consensus size: 102
934267 TCTGGGTACA
** *
934277 TTCTTC-AAAACCTCCAGGTATATTCTCCAAAACC-TCTGAGTAATTAGTTTTAAGATTTCTTCA
1 TTCTTCTAAAACCTCTGGGTATATTCTCTAAAACCTTC-GAGTAATTAGTTTTAAGATTTCTTCA
**
934340 AAGTTATATAGCCTCATTCTGAGATGAGGAACAACATT
65 AAGTTACGTAGCCTCATTCTGAGATGAGGAACAACATT
*
934378 TTCTTCTAAAACCTCTGGGTATATTCTCTAAAACCTTCGGGTAATTAGTTTTAAGATTTCTTCAA
1 TTCTTCTAAAACCTCTGGGTATATTCTCTAAAACCTTCGAGTAATTAGTTTTAAGATTTCTTCAA
*
934443 AGTTACGTAGCCTCATTCTGAGATGATGAACAACCA-T
66 AGTTACGTAGCCTCATTCTGAGATGAGGAACAA-CATT
* * * * *
934480 TTCTTTTAAAACGTCTGGGTATATTCTGC-AAAACCTTTGAGTAATTAGTTTTAAGATTTTTTTA
1 TTCTTCTAAAACCTCTGGGTATATTCT-CTAAAACCTTCGAGTAATTAGTTTTAAGATTTCTTCA
* * * *
934544 AAGTTACGTAACCTCATTCTGAGATAAGGAATAACCTT
65 AAGTTACGTAGCCTCATTCTGAGATGAGGAACAACATT
* *
934582 TTCTTCTAAAACCT-TCGGGTACA-TCTTTAAAACCT
1 TTCTTCTAAAACCTCT-GGGTATATTCTCTAAAACCT
934617 CTGGGTATAT
Statistics
Matches: 210, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
101 18 0.09
102 187 0.89
103 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (102 bp):
TTCTTCTAAAACCTCTGGGTATATTCTCTAAAACCTTCGAGTAATTAGTTTTAAGATTTCTTCAA
AGTTACGTAGCCTCATTCTGAGATGAGGAACAACATT
Found at i:934662 original size:225 final size:223
Alignment explanation
Indices: 934379--935095 Score: 974
Period size: 225 Copynumber: 3.2 Consensus size: 223
934369 AACAACATTT
* * *
934379 TCTTCTAAAACCTCTGGGTATATTCTCTAAAACCTTCGGGTAATTAGTTT-TAAGATTTCTTCAA
1 TCTTC-AAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCT-AGATTTCTTCAA
* * * * *
934443 AGTTACGT-AGCCTCATTCTGAGATGATGAACAACCATTTCTTTTAAAACGTCTGGGTATATTCT
64 AGTTACGTGA-CCTCATTATGAGATGAAGAACAACCTTTTCTTCTAAAACCTCT-GGTATATTCT
*
934507 GCAAAACCTTTGAGTAATTAGTTTTAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATAAG
127 -CAAAACCTTTGAGTAATTAGTTTTAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATGAG
* *
934572 GAATAACCTTTTCTTCTAAAACCTTCGGGTACA
191 GAACAACCTTTTCTTCTAAAACCTCCGGGTACA
*
934605 TCTTTAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAAG
1 TCTTCAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAAG
* * * *
934670 TTACGTGACCTAATTATGAGATGAGGAATAACCTTTTCTTCTAAAACCTCATAGTATATTCTCTA
66 TTACGTGACCTCATTATGAGATGAAGAACAACCTTTTCTTCTAAAACCTC-TGGTATATTCTC-A
* *
934735 AAACCTCT-AGGTAATTAGTTTTAAGATTTTTTTAAAGTTATGTAACCTCATTCTGAGATGAGGA
129 AAACCTTTGA-GTAATTAGTTTTAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATGAGGA
* * *
934799 ACAATCTTTTCTTCTAAAATCTCCGGATACA
193 ACAACCTTTTCTTCTAAAACCTCCGGGTACA
* * *
934830 TCTTCAAAACCTTTTGGTATATTCTCCAAAACCTCTAGGTAATTAGTTTCTAGATTTCTTCAAAG
1 TCTTCAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAAG
* *
934895 TTACGTGACCTCATTTTGAGATGAAGAACAACCTTTTCTTCTAAAACCTCCAGGTATATTCTCCA
66 TTACGTGACCTCATTATGAGATGAAGAACAACCTTTTCTTCTAAAACCT-CTGGTATATTCT-CA
* * *
934960 AAACCTTTGGGTAATTAATTTCAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATGAGGAA
129 AAACCTTTGAGTAATTAGTTTTAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATGAGGAA
* **
935025 CAACTTTTTCTT-TCAAAACCTCCAAGTACA
194 CAACCTTTTCTTCT-AAAACCTCCGGGTACA
* * * * *
935055 TCTTCAAAACTTTTGGGTACATTCTTCAAAACTTCCAGGTA
1 TCTTCAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTA
935096 TATTCTCCAA
Statistics
Matches: 435, Mismatches: 47, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
224 3 0.01
225 423 0.97
226 9 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (223 bp):
TCTTCAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAAG
TTACGTGACCTCATTATGAGATGAAGAACAACCTTTTCTTCTAAAACCTCTGGTATATTCTCAAA
ACCTTTGAGTAATTAGTTTTAAGATTTTTTTAAAGTTACGTAACCTCATTCTGAGATGAGGAACA
ACCTTTTCTTCTAAAACCTCCGGGTACA
Found at i:934703 original size:123 final size:123
Alignment explanation
Indices: 934484--934718 Score: 348
Period size: 123 Copynumber: 1.9 Consensus size: 123
934474 AACCATTTCT
* * ** * *
934484 TTTAAAACGTCTGGGTATATTCTGCAAAACCTTTGAGTAATTAGTTTTAAGATTTTTTTAAAGTT
1 TTTAAAACCTCTGGGTATATTCTCCAAAACCTCAGAGTAATTAGTTTTAAGATTTCTTCAAAGTT
* *
934549 ACGTAACCTCATTCTGAGATAAGGAATAACCTTTTCTTCTAAAACCTTCGGGTACATC
66 ACGTAACCTAATTATGAGATAAGGAATAACCTTTTCTTCTAAAACCTTCGGGTACATC
934607 TTTAAAACCTCTGGGTATATTCTCCAAAACCTCCAG-GTAATTAGTTTCT-AGATTTCTTCAAAG
1 TTTAAAACCTCTGGGTATATTCTCCAAAACCT-CAGAGTAATTAGTTT-TAAGATTTCTTCAAAG
* *
934670 TTACGTGACCTAATTATGAGATGAGGAATAACCTTTTCTTCTAAAACCT
64 TTACGTAACCTAATTATGAGATAAGGAATAACCTTTTCTTCTAAAACCT
934719 CATAGTATAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
123 98 0.98
124 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (123 bp):
TTTAAAACCTCTGGGTATATTCTCCAAAACCTCAGAGTAATTAGTTTTAAGATTTCTTCAAAGTT
ACGTAACCTAATTATGAGATAAGGAATAACCTTTTCTTCTAAAACCTTCGGGTACATC
Found at i:934792 original size:102 final size:102
Alignment explanation
Indices: 934605--934817 Score: 288
Period size: 102 Copynumber: 2.1 Consensus size: 102
934595 TTCGGGTACA
*
934605 TCTT-TAAAACCTCTGGGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAA
1 TCTTCTAAAACCTCTGAGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAA
* *
934669 GTTACGTGACCTAATTATGAGATGAGGAATAACCTTT
66 GTTACGTAACCTAATTATGAGATGAGGAACAACCTTT
* * * *
934706 TCTTCTAAAACCTCAT-AGTATATTCTCTAAAACCTCTAGGTAATTAGTTT-TAAGATTTTTTTA
1 TCTTCTAAAACCTC-TGAGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCT-AGATTTCTTCA
* * * *
934769 AAGTTATGTAACCTCATTCTGAGATGAGGAACAATCTTT
64 AAGTTACGTAACCTAATTATGAGATGAGGAACAACCTTT
934808 TCTTCTAAAA
1 TCTTCTAAAA
934818 TCTCCGGATA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
101 5 0.05
102 92 0.94
103 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (102 bp):
TCTTCTAAAACCTCTGAGTATATTCTCCAAAACCTCCAGGTAATTAGTTTCTAGATTTCTTCAAA
GTTACGTAACCTAATTATGAGATGAGGAACAACCTTT
Found at i:934931 original size:123 final size:124
Alignment explanation
Indices: 934723--934972 Score: 353
Period size: 123 Copynumber: 2.0 Consensus size: 124
934713 AAACCTCATA
* * * *
934723 GTATATTCTCTAAAACCTCTAGGTAATTAGTTTTAAGATTTTTTTAAAGTTATGTAACCTCATTC
1 GTATATTCTCCAAAACCTCTAGGTAATTAGTTTTAAGATTTCTTCAAAGTTACGTAACCTCATTC
* * * * *
934788 TGAGATGAGGAACAATCTTTTCTTCTAAAATCTCC-GG-ATACATCTTCAAAACCTTTTG
66 TGAGATGAAGAACAACCTTTTCTTCTAAAACCTCCAGGTATA-ATCTCCAAAACCTTTGG
*
934846 GTATATTCTCCAAAACCTCTAGGTAATTAGTTTCT-AGATTTCTTCAAAGTTACGTGACCTCATT
1 GTATATTCTCCAAAACCTCTAGGTAATTAGTTT-TAAGATTTCTTCAAAGTTACGTAACCTCATT
* *
934910 TTGAGATGAAGAACAACCTTTTCTTCTAAAACCTCCAGGTATATTCTCCAAAACCTTTGG
65 CTGAGATGAAGAACAACCTTTTCTTCTAAAACCTCCAGGTATAATCTCCAAAACCTTTGG
934970 GTA
1 GTA
934973 ATTAATTTCA
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
123 89 0.79
124 20 0.18
125 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (124 bp):
GTATATTCTCCAAAACCTCTAGGTAATTAGTTTTAAGATTTCTTCAAAGTTACGTAACCTCATTC
TGAGATGAAGAACAACCTTTTCTTCTAAAACCTCCAGGTATAATCTCCAAAACCTTTGG
Found at i:935011 original size:102 final size:102
Alignment explanation
Indices: 934845--935073 Score: 309
Period size: 102 Copynumber: 2.3 Consensus size: 102
934835 AAAACCTTTT
* * * * *
934845 GGTATATTCTCCAAAACCTCTAGGTAATTAGTTTCTAGATTTCTTCAAAGTTACGTGACCTCATT
1 GGTATATTCTCCAAAACCTTTGGGTAATTAATTTCAAGATTTCTTCAAAGTTACGTAACCTCATT
*
934910 TTGAGATGAAGAACAACCTTTTC-TTCTAAAACCTCCA
66 CTGAGATGAAGAACAACCTTTTCTTTC-AAAACCTCCA
* *
934947 GGTATATTCTCCAAAACCTTTGGGTAATTAATTTCAAGATTTTTTTAAAGTTACGTAACCTCATT
1 GGTATATTCTCCAAAACCTTTGGGTAATTAATTTCAAGATTTCTTCAAAGTTACGTAACCTCATT
* *
935012 CTGAGATGAGGAACAACTTTTTCTTTCAAAACCTCCA
66 CTGAGATGAAGAACAACCTTTTCTTTCAAAACCTCCA
* * * *
935049 AGTACA-TCTTCAAAACTTTTGGGTA
1 GGTATATTCTCCAAAACCTTTGGGTA
935074 CATTCTTCAA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 17 0.15
102 92 0.82
103 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (102 bp):
GGTATATTCTCCAAAACCTTTGGGTAATTAATTTCAAGATTTCTTCAAAGTTACGTAACCTCATT
CTGAGATGAAGAACAACCTTTTCTTTCAAAACCTCCA
Found at i:935083 original size:22 final size:22
Alignment explanation
Indices: 935036--935112 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
935026 AACTTTTTCT
* * *
935036 TTCAAAACCTCCAAGTACA-TC
1 TTCAAAACTTTCAGGTACATTC
**
935057 TTCAAAACTTTTGGGTACATTC
1 TTCAAAACTTTCAGGTACATTC
* *
935079 TTCAAAACTTCCAGGTATATTC
1 TTCAAAACTTTCAGGTACATTC
*
935101 TCCAAAACTTTC
1 TTCAAAACTTTC
935113 GAGTAATTAG
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
21 14 0.32
22 30 0.68
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (22 bp):
TTCAAAACTTTCAGGTACATTC
Found at i:935119 original size:145 final size:147
Alignment explanation
Indices: 934930--935240 Score: 436
Period size: 145 Copynumber: 2.1 Consensus size: 147
934920 GAACAACCTT
* * *
934930 TTCTTCTAAAACCTCCAGGTATATTCTCCAAAACCTTTGGGTAATTAATTTCAAGATTTTTTTAA
1 TTCTTCTAAAACCTCCAGGTATATTCTCCAAAACCTTTGAGTAATTAATTTCAAGATTTCTTCAA
* * *
934995 AGTTACGTAACCTCATTCTGAGATGAGGAACAAC-TTTTTCTT-TCAAAACCTCCAAGTACATCT
66 AATTACGTAACCTCATTCTGAGATGAGAAACAACTTTTTTCTTCT-AAAACCTCCAAGAACATCT
* *
935058 TCAAAACTTTTGGGTACA
130 TCAAAACCTCTGGGTACA
* * *
935076 TTCTTC-AAAACTTCCAGGTATATTCTCCAAAA-CTTTCGAGTAATTAGTTTTAAGATTTCTTCA
1 TTCTTCTAAAACCTCCAGGTATATTCTCCAAAACCTTT-GAGTAATTAATTTCAAGATTTCTTCA
**
935139 AAATTACGTGGCCTCATTCTGAGATGAGAAACAACTTTTTTCTTCTAAAACCTCCAAGAACATCT
65 AAATTACGTAACCTCATTCTGAGATGAGAAACAACTTTTTTCTTCTAAAACCTCCAAGAACATCT
935204 TCAAAACCTCTGGGTACA
130 TCAAAACCTCTGGGTACA
*
935222 TTC--CTAAAACCTCAAGGTA
1 TTCTTCTAAAACCTCCAGGTA
935241 ATTAGTTTGA
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
144 5 0.03
145 89 0.61
146 51 0.35
147 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (147 bp):
TTCTTCTAAAACCTCCAGGTATATTCTCCAAAACCTTTGAGTAATTAATTTCAAGATTTCTTCAA
AATTACGTAACCTCATTCTGAGATGAGAAACAACTTTTTTCTTCTAAAACCTCCAAGAACATCTT
CAAAACCTCTGGGTACA
Found at i:935276 original size:123 final size:122
Alignment explanation
Indices: 935115--935335 Score: 334
Period size: 123 Copynumber: 1.8 Consensus size: 122
935105 AAACTTTCGA
* * * * *
935115 GTAATTAGTTTTAAGATTTCTTCAAAATTACGTGGCCTCATTCTGAGATGAGAAACAACTTTTTT
1 GTAATTAGTTTGAAGATTTCTTCAAAATTACATAGCCTCATTCTAAGATGAGAAACAAC-ATTTT
935180 CTTCTAAAACCTCCAAGAACATCTTCAAAACCTCTGGGTACATTCCTAAAACCTCAAG
65 CTTCTAAAACCTCCAAGAACATCTTCAAAACCTCTGGGTACATTCCTAAAACCTCAAG
* * *
935238 GTAATTAGTTTGAAGATTTCTTTAAAGTTACATAGCCTCATTCTAAGATGAGGAACAACATTTTC
1 GTAATTAGTTTGAAGATTTCTTCAAAATTACATAGCCTCATTCTAAGATGAGAAACAACATTTTC
* * *
935303 TTCTAAAACCTCTAGGTACATCTTCAAAACCTC
66 TTCTAAAACCTCCAAGAACATCTTCAAAACCTC
935336 CAGGTAATCG
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
122 35 0.40
123 52 0.60
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (122 bp):
GTAATTAGTTTGAAGATTTCTTCAAAATTACATAGCCTCATTCTAAGATGAGAAACAACATTTTC
TTCTAAAACCTCCAAGAACATCTTCAAAACCTCTGGGTACATTCCTAAAACCTCAAG
Found at i:935321 original size:101 final size:100
Alignment explanation
Indices: 935201--935392 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 100
935191 TCCAAGAACA
* * * * *
935201 TCTTCAAAACCTCTGGGTACATTCCT-AAAACCTCAAGGTAATTAGTTTGAAGATTTCTTTAAAG
1 TCTTCAAAACCTCTAGGTACA-TCCTCAAAACCTCAAGGTAATCAGCTTCAAGAATTCTTTAAAG
935265 TTACATAGCCTCATTCTAAGATGAGGAACAACATTT
65 TTACATAGCCTCATTCTAAGATGAGGAACAACATTT
* * * *
935301 TCTTCTAAAACCTCTAGGTACATCTTCAAAACCTCCAGGTAATCGGCTTCAAGAATTCTTTTAAG
1 TCTTC-AAAACCTCTAGGTACATCCTCAAAACCTCAAGGTAATCAGCTTCAAGAATTCTTTAAAG
* * *
935366 TTACATAGCCTCGTTTTGAGATGAGGA
65 TTACATAGCCTCATTCTAAGATGAGGA
935393 GCTTTTCTGA
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 8 0.10
101 70 0.90
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (100 bp):
TCTTCAAAACCTCTAGGTACATCCTCAAAACCTCAAGGTAATCAGCTTCAAGAATTCTTTAAAGT
TACATAGCCTCATTCTAAGATGAGGAACAACATTT
Found at i:935332 original size:21 final size:22
Alignment explanation
Indices: 935301--935341 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
935291 AACAACATTT
*
935301 TCTTCTAAAACCTCTAGGTACA
1 TCTTCTAAAACCTCCAGGTACA
935323 TCTTC-AAAACCTCCAGGTA
1 TCTTCTAAAACCTCCAGGTA
935342 ATCGGCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (22 bp):
TCTTCTAAAACCTCCAGGTACA
Found at i:935587 original size:15 final size:16
Alignment explanation
Indices: 935536--935588 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
935526 ATGTATTTAT
935536 AATAATATAA-AAATAA
1 AATAA-ATAATAAATAA
935552 TAATAAATAATAAATAA
1 -AATAAATAATAAATAA
935569 AATAAA-AATGAAA-AA
1 AATAAATAAT-AAATAA
935584 AATAA
1 AATAA
935589 TAAAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.29
16 13 0.38
17 11 0.32
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:935594 original size:11 final size:11
Alignment explanation
Indices: 935536--935596 Score: 61
Period size: 11 Copynumber: 5.2 Consensus size: 11
935526 ATGTATTTAT
*
935536 AATAATATAAA
1 AATAATAAAAA
935547 AATAATAATAAA
1 AATAATAA-AAA
935559 TAATAAATAAAATA
1 -AAT-AATAAAA-A
935573 AA-AATGAAAAA
1 AATAAT-AAAAA
935584 AATAATAAAAA
1 AATAATAAAAA
935595 AA
1 AA
935597 GAGAGATAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
11 20 0.47
12 10 0.23
13 7 0.16
14 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:948511 original size:31 final size:31
Alignment explanation
Indices: 948447--948548 Score: 118
Period size: 31 Copynumber: 3.3 Consensus size: 31
948437 ATGTTAGCAT
* * *
948447 TGACGTGACACTGACATG-G-CACCAACATAA
1 TGACGTGACA-TGTCATGTGACACTAACATGA
948477 TGACGTGACATGTCATGTGACACTAACATGA
1 TGACGTGACATGTCATGTGACACTAACATGA
* *
948508 TGACGTGACATGTAATGTGACACTAATATGA
1 TGACGTGACATGTCATGTGACACTAACATGA
* *
948539 TAATGTGACA
1 TGACGTGACA
948549 ATGCCGAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 6 0.10
30 11 0.17
31 46 0.73
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (31 bp):
TGACGTGACATGTCATGTGACACTAACATGA
Found at i:950102 original size:24 final size:24
Alignment explanation
Indices: 950047--950110 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
950037 TATTTAAAAT
* *
950047 TAATGAGTATAATAATATTAACAA
1 TAATGAATATAATAATAATAACAA
*
950071 TAATGAATATAATAATAATAATAA
1 TAATGAATATAATAATAATAACAA
950095 CTAA-GAATATATATAA
1 -TAATGAATATA-ATAA
950111 AAGAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 28 0.80
25 7 0.20
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (24 bp):
TAATGAATATAATAATAATAACAA
Found at i:950268 original size:14 final size:14
Alignment explanation
Indices: 950245--950277 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
950235 AGAAAATATG
950245 ATAT-AATATAAAA
1 ATATAAATATAAAA
*
950258 TTATAAATATAAAA
1 ATATAAATATAAAA
950272 ATATAA
1 ATATAA
950278 TGGTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAAATATAAAA
Found at i:950569 original size:23 final size:25
Alignment explanation
Indices: 950525--950570 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
950515 ATTTAAACAA
*
950525 TTATTGCAAATAAAAGATTAGTTGT
1 TTATTGCAAATAAAAGAATAGTTGT
*
950550 TTATT-CAAA-AAAATAATAGTT
1 TTATTGCAAATAAAAGAATAGTT
950571 CAATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 4 0.21
25 5 0.26
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (25 bp):
TTATTGCAAATAAAAGAATAGTTGT
Found at i:953765 original size:21 final size:22
Alignment explanation
Indices: 953722--953775 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
953712 AATTATTTTT
* *
953722 ATTTTTTTCTTTTTATCTTTTAA
1 ATTTTTTTATTTTTATCTATT-A
953745 ATTTTTTTATTTTT-T-TATTA
1 ATTTTTTTATTTTTATCTATTA
953765 ATTTTTATTAT
1 ATTTTT-TTAT
953776 ATATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 7 0.25
22 1 0.04
23 13 0.46
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTTTATTTTTATCTATTA
Found at i:956996 original size:2 final size:2
Alignment explanation
Indices: 956989--957014 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
956979 ACATTCAATC
956989 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
957015 TATGAACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:967123 original size:17 final size:18
Alignment explanation
Indices: 967097--967134 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
967087 AAAATTATTC
*
967097 AATAAAAATA-ATAAATA
1 AATAAAAATAGATAAAAA
*
967114 AATAACAATAGATAAAAA
1 AATAAAAATAGATAAAAA
967132 AAT
1 AAT
967135 GATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAAAATAGATAAAAA
Found at i:967435 original size:17 final size:16
Alignment explanation
Indices: 967415--967479 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
967405 TTGCTTACGA
*
967415 AAAAATATAATAATAAT
1 AAAAATATAAAAAT-AT
967432 AAAAATATAAAAATAT
1 AAAAATATAAAAATAT
*
967448 AAAAAAAATAAAACATA-
1 -AAAAATATAAAA-ATAT
967465 AAAGAATCATAAAAA
1 AAA-AAT-ATAAAAA
967480 AAATAAGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.12
17 27 0.66
18 9 0.22
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAAATATAAAAATAT
Found at i:967441 original size:8 final size:8
Alignment explanation
Indices: 967415--967479 Score: 60
Period size: 8 Copynumber: 7.6 Consensus size: 8
967405 TTGCTTACGA
967415 AAAAATAT
1 AAAAATAT
*
967423 AATAATAAT
1 AAAAAT-AT
967432 AAAAATAT
1 AAAAATAT
967440 AAAAATAT
1 AAAAATAT
*
967448 AAAAAAAAT
1 -AAAAATAT
967457 AAAACATA-
1 AAAA-ATAT
967465 AAAGAATCAT
1 AAA-AAT-AT
967475 AAAAA
1 AAAAA
967480 AAATAAGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
8 24 0.51
9 20 0.43
10 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (8 bp):
AAAAATAT
Found at i:967585 original size:18 final size:19
Alignment explanation
Indices: 967562--967597 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
967552 ATCTAGAATT
*
967562 AAAATG-TAAGGTATAAAG
1 AAAATGATAAGGAATAAAG
967580 AAAATGATAAGGAATAAA
1 AAAATGATAAGGAATAAA
967598 ATAGAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (19 bp):
AAAATGATAAGGAATAAAG
Done.