Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold291
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: 746122
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 35978 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:838 original size:391 final size:389
Alignment explanation
Indices: 224--1036 Score: 1073
Period size: 391 Copynumber: 2.1 Consensus size: 389
214 TTTTTATATT
* * * *
224 AAGACGACACAATAGGTGAAACCGTCGAATTAGGCAACTGTTTCTCCTATAAAAAAATTTACAAA
1 AAGATGACACAATGGGTGAAACCGTCGAATCAGGCAACAGTTTCTCCTATAAAAAAATTTACAAA
* * * * *
289 GCTGAAGGTTACACCATTGACATGTTTTAACATTTCCAAAAACAAAAATTTTGGGGCATTACACC
66 GCCGAACGTTACACCATTGACAAGTTTTAACAATTCCAAAAACAAAAATTTTGCGGCATTACACC
*
354 CTTAAAGCCGAACATTCGCCTCTTCTTTCTCCCTTGGTTCGGTTTGCACAAAGAAAAGACGAAAA
131 CTTAAAGCCCAACATTCGCCTCTTCTTTCTCCCTTGGTTCGGTTTGCACAAAGAAAAGACGAAAA
* * * * * *
419 TGGTTTTGTTTTTGCCAGCTACTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCATTTTA
196 TGGTTTTGTCTTTACAAGCTACTCCCATTATCACTTATCTTCTATTTAAATAAATTTTCAATTTA
* * *
484 TAATTTTCATTACTAATG-TTGTAATATAACATACATGCTTCAATAAAC-GG-C-CATAAAAATT
261 TAATTTTAATTACTAATGTTTATAATATAACATACATACTTCAAT-AACTGGTCGCATAAAAATT
*
545 CTAGGTATAATTACTATGTAACCCCTTAAAATTAAGTTCTA-ATTATAAATTCTTAAGCAAAATT
325 CTAGGTATAATTACTATGTAACCCCTTAAAATTAAGTTCTAGA-TATAAATCCTTAAG-AAAATT
609 AC
388 AC
* * * *
611 AAGATGACACAATGGGTGTAACTGTCGCATCAGGCAACAGTTTC-CCATATAAAAAAAATATTTT
1 AAGATGACACAATGGGTGAAACCGTCGAATCAGGCAACAGTTTCTCC-TAT--AAAAAA-ATTTA
* * *
675 CAAAGCCGAACGTTACACCCTTGACAAGTTTTAACAATTCCAGAAACAAAAATTTTTGCGGCGTT
62 CAAAGCCGAACGTTACACCATTGACAAGTTTTAACAATTCCAAAAACAAAAA-TTTTGCGGCATT
* * **
740 ACACCCTTAAAGCCCAACGTTTC-TCTCTTCTTTCTCCCTTGGTTCGGTTTGCATGAAGAAAAGA
126 ACACCCTTAAAGCCCAAC-ATTCGCCTCTTCTTTCTCCCTTGGTTCGGTTTGCACAAAGAAAAGA
* * * *
804 TGGAAATGTTTTTGTCTTTACAAGCTATTCCCATTATCACTTATCTTCTATTTAAATAAATTTTC
190 CGAAAATGGTTTTGTCTTTACAAGCTACTCCCATTATCACTTATCTTCTATTTAAATAAATTTTC
* * *
869 AATTTATAATTTTAATTGCTAATGTTTTATAATATAGCATACATACTTCAATAACTGGTCGTATA
255 AATTTATAATTTTAATTACTAATG-TTTATAATATAACATACATACTTCAATAACTGGTCGCATA
* * * * *
934 TATATTCTAGGTATAATTACTATTTAACCCCTTTAAATTAAGTTCTAGATATAAATCCTTAAGTA
319 AAAATTCTAGGTATAATTACTATGTAACCCCTTAAAATTAAGTTCTAGATATAAATCCTTAAGAA
999 AATTAC
384 AATTAC
* * *
1005 AAGATGACACAATGAGCGAAACCGTCGTATCA
1 AAGATGACACAATGGGTGAAACCGTCGAATCA
1037 ATTTTTTTTC
Statistics
Matches: 366, Mismatches: 48, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
386 2 0.01
387 40 0.11
389 6 0.02
390 50 0.14
391 142 0.39
392 6 0.02
393 25 0.07
394 35 0.10
395 59 0.16
396 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (389 bp):
AAGATGACACAATGGGTGAAACCGTCGAATCAGGCAACAGTTTCTCCTATAAAAAAATTTACAAA
GCCGAACGTTACACCATTGACAAGTTTTAACAATTCCAAAAACAAAAATTTTGCGGCATTACACC
CTTAAAGCCCAACATTCGCCTCTTCTTTCTCCCTTGGTTCGGTTTGCACAAAGAAAAGACGAAAA
TGGTTTTGTCTTTACAAGCTACTCCCATTATCACTTATCTTCTATTTAAATAAATTTTCAATTTA
TAATTTTAATTACTAATGTTTATAATATAACATACATACTTCAATAACTGGTCGCATAAAAATTC
TAGGTATAATTACTATGTAACCCCTTAAAATTAAGTTCTAGATATAAATCCTTAAGAAAATTAC
Found at i:2179 original size:547 final size:550
Alignment explanation
Indices: 1003--3151 Score: 2639
Period size: 547 Copynumber: 3.9 Consensus size: 550
993 TAAGTAAATT
* * *
1003 ACAAGATGACACAATGAGCGAAACCGTCGTATCAATTTTTTTTCGTTAAAATTTCCTCC-ACAAC
1 ACAAGATGACACAATGGGTGAAACCGTCGTATCAATTTTTTTTTGTTAAAATTTCCTCCGACAAC
* * * *
1067 AATTTCATGATAATAATAATAATATTTTTATAATAAGACGACGCAATGGGTGAAACCGTCGAATT
66 AATTTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCATCGAATC
* * * *
1132 AGGTGGCAGTTTCTCTTATAAAAAAAATATTTTCAAAGCCGAACATTACACCTTTGACATGTTTT
131 AAGTGGCAGTTTCTCATAT-AAAAAAATATTTTCAAAGCCAAACATTACACCTTTGACAAGTTTT
* * * * * *
1197 AGCTTTTCCTAAAACAAGAATTTTTGCGGCGTTACACCCTTAAAGCCCAACGTTCCTCTCTTATT
195 AACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTCTTATT
* * * *
1262 TCTCACTTGGTTTT-GTTTGCAC-CAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCC
260 TCTCACTT-GTTTTGGTTTGCACGAAAAAAAAGATGGAAATGTTTTTGTTTTTGACATCTATTCC
* *
1325 CATTATTACTTATGTTCTATTTAATTAAAATTTCATATTATAATTTT-ATTACTAATGTTTTATA
324 CATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAATGTTTTATA
* * * * * * *
1389 ATATAGCATACATACTTACTTCAGTAATCAGCCATATATATATTCTCGGTAGAATGACTATTTAA
389 ATATAACATACATACTTACTTCAATAACCGGCC--ATATATATTCTAGGTATAATTACTATTTAA
* * * * *
1454 CCCCTTTTAACTTAAGTTCTAATTTTAAATCCTTAAGTAAATTATAAGATGACGCAATGGGTTTA
452 CCCC-TTTAAATTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTA
* * *
1519 CAGTAGTTCCATGATAAAAATAACAATATTTTATA
516 CAGCAGTTTCATGATAAAAATAATAATATTTTATA
* * * * * * *
1554 ATAAGATGATACAATGGGTGAAATCGTTGTATCAGTTTTTTTATATTAAAATTTCCTCCG-CAAC
1 ACAAGATGACACAATGGGTGAAACCGTCGTATCAATTTTTTTTTGTTAAAATTTCCTCCGACAAC
* * * * *
1618 AATTTCATGATAAAAAGAATAATATTTTTATAATAAGACGACACAGTGGGTGTAACCATCGTATG
66 AATTTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCATCGAATC
* * * * ** * *
1683 AAGTGGTAGATTCTCATATAAAAAAATA-TTTCAAACCCGAATGTTACACCCTTAACAAGTTTTA
131 AAGTGGCAGTTTCTCATATAAAAAAATATTTTCAAAGCCAAACATTACACCTTTGACAAGTTTTA
* * * * * * * * *
1747 ACAATTACAAGAACAAAAACTTTTGGGGTGTTACACCCTTAAAGCCGAATGTTCGTCTCTTCTTT
196 ACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTCTTATTT
* * *
1812 CTC-CTT-TTATTCGGTTTACACGAAAAAAAAGATGGAAGTGTTTTTGCTTTTGACATCTATTCC
261 CTCACTTGTT-TT-GGTTTGCACGAAAAAAAAGATGGAAATGTTTTTGTTTTTGACATCTATTCC
**
1875 CATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAACATTTTATA
324 CATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAATGTTTTATA
* *
1940 ATATAACATACATACTTACTTCAATAACCCGCCATATATATTCTAGG-ATAATTACTATTTAGCC
389 ATATAACATACATACTTACTTCAATAACCGGCCATATATATTCTAGGTATAATTACTATTTAACC
* * * *
2004 CCTTTCAATTAAGATCTAATTATAAATCCTTAAGCAAATTACAAGATGGCACAATGGGTTTACAA
454 CCTTTAAATTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACAG
*
2069 CAATTTCATGATAAAAATAATAATATTTTATA
519 CAGTTTCATGATAAAAATAATAATATTTTATA
* * ** * *
2101 GCAAGATGACACAACGGGTGAAACTATCGTATTAGTTTTTTTTTGTTAAAATTGT-CTCCGA-AA
1 ACAAGATGACACAATGGGTGAAACCGTCGTATCAATTTTTTTTTGTTAAAATT-TCCTCCGACAA
* * * * * * * *
2164 TAATATCATGATAAAAATAATAATATTTTTATAATAAGATGACAGAATAGGTGACATCATCGTAT
65 CAATTTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCATCGAAT
* * *
2229 CAGGTGGCAGTTTCTCATATAAAAAAATATTTTCAAAGTCAAACATTACACCGTTGACAAGTTTT
130 CAAGTGGCAGTTTCTCATATAAAAAAATATTTTCAAAGCCAAACATTACACCTTTGACAAGTTTT
*
2294 AACATTTCCAAAAACAAAAGTTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTCTTATT
195 AACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTCTTATT
* * * *
2359 TCTCCCTTGGTTTGGTTTGCACGAAGAAAAA-ATGGAAATGTTTTTGTTTTTGCCA-CGTATTCC
260 TCTCACTTGTTTTGGTTTGCACGAAAAAAAAGATGGAAATGTTTTTGTTTTTGACATC-TATTCC
* * * * * *
2422 CATTATTACTTATGTTTTATTTAATTAAATTTTCATTTTATAATTTAAATTAATAATGTTTTTTA
324 CATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAATGTTTTATA
* * *
2487 ATATAACATACATACTTTCTTCAATAACAGGCC--ATATATTCTTGGTATAATTACTATTTAACC
389 ATATAACATACATACTTACTTCAATAACCGGCCATATATATTCTAGGTATAATTACTATTTAACC
* ** *
2550 CCTTTAAATTAAGTTCTAGA-TATAAATCCTTAATCAAAACACAAGATGAGACAATGGGTTTACA
454 CCTTTAAATTAAGTTCTA-ATTATAAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACA
*
2614 GCAGTTTTATGAT--AAA-AATAATATTTTATA
518 GCAGTTTCATGATAAAAATAATAATATTTTATA
* * * * *
2644 ACAAGATGACACAATGGGTGAAACCGTTGTATCAATTTTTTTTTGTTAAAATTGCCT-CTATAGC
1 ACAAGATGACACAATGGGTGAAACCGTCGTATCAATTTTTTTTTGTTAAAATTTCCTCCGACAAC
* * * * *
2708 AAGTTCATGA-AAATAATAATAATAATAATTTTATAATAGGACGACACAATGGGAGAAACCGTCA
66 AATTTCATGATAAA-AATAATAAT-AT--TTTTATAATAAGACGACACAATGGGTGAAACCATCG
* * * *
2772 AATCAAGTGGCAGTTTCTCATATAAAAATATATTTTCAAAGCCAAACGTTACGCCTTTGACATGT
127 AATCAAGTGGCAGTTTCTCATATAAAAAAATATTTTCAAAGCCAAACATTACACCTTTGACAAGT
* * * *
2837 TTTAACATTTGCAAAAAAATAAAAATTATT---GCGCTACACCCTTAAAGCCAAACGTTCCTCTC
192 TTTAACATTT-C-CAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTC
* * * *
2899 TTATTTCTCGCTTGGTTTGGTTTGCACG-AAGAAAAGATGGAAATGTTTTTGTTTTTTAC-TACT
255 TTATTTCTCACTTGTTTTGGTTTGCACGAAAAAAAAGATGGAAATGTTTTTGTTTTTGACAT-CT
* *
2962 ATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCATTTTATAATTTTCATTACTAATGTT
319 ATTCCCATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAATGTT
* *
3027 TTACAATATAACATAC--A--TACTTCAATAACCGGCCATAAATATTCTAGGTATAATTACTATT
384 TTATAATATAACATACATACTTACTTCAATAACCGGCCATATATATTCTAGGTATAATTACTATT
* * *
3088 TAACCCCTTAAAATTCAGTTCTAATTATAAATTCTTAAGCAAATTACAAGATGACACAATGGGT
449 TAACCCCTTTAAATTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGACACAATGGGT
3152 GTAACTGTCG
Statistics
Matches: 1367, Mismatches: 203, Indels: 64
0.84 0.12 0.04
Matches are distributed among these distances:
541 15 0.01
542 6 0.00
543 159 0.12
544 10 0.01
545 165 0.12
546 179 0.13
547 329 0.24
548 136 0.10
549 109 0.08
550 90 0.07
551 169 0.12
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (550 bp):
ACAAGATGACACAATGGGTGAAACCGTCGTATCAATTTTTTTTTGTTAAAATTTCCTCCGACAAC
AATTTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCATCGAATC
AAGTGGCAGTTTCTCATATAAAAAAATATTTTCAAAGCCAAACATTACACCTTTGACAAGTTTTA
ACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGCCAAACGTTCCTCTCTTATTT
CTCACTTGTTTTGGTTTGCACGAAAAAAAAGATGGAAATGTTTTTGTTTTTGACATCTATTCCCA
TTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAATGTTTTATAAT
ATAACATACATACTTACTTCAATAACCGGCCATATATATTCTAGGTATAATTACTATTTAACCCC
TTTAAATTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACAGCA
GTTTCATGATAAAAATAATAATATTTTATA
Found at i:4134 original size:43 final size:43
Alignment explanation
Indices: 4073--4159 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
4063 CGCTATAGAC
*
4073 AACGCCACTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACA
1 AACGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTATCACA
* *
4116 AACGCCGCTAAAGCTCATGACCTTTAGCGGCGCTTTTATCACA
1 AACGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTATCACA
4159 A
1 A
4160 CCTTTAGCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AACGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTATCACA
Found at i:4162 original size:24 final size:24
Alignment explanation
Indices: 4135--4183 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4125 AAAGCTCATG
4135 ACCTTTAGCGGCGCTTTTATCACA
1 ACCTTTAGCGGCGCTTTTATCACA
4159 ACCTTTAGCGGCGCTTTTATCACA
1 ACCTTTAGCGGCGCTTTTATCACA
4183 A
1 A
4184 ACGCCGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (24 bp):
ACCTTTAGCGGCGCTTTTATCACA
Found at i:4176 original size:67 final size:68
Alignment explanation
Indices: 4093--4228 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 68
4083 AAGATCATGG
*** *
4093 CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGCTCATGACCTTTAGCGGCGC-TTTTATCA
1 CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACATGACCTTTAGCAGCGCTTTTTATCA
4157 CAA
66 CAA
4160 CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACATGACCTTTAGCAGCGCTTTTTTATC
1 CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACATGACCTTTAGCAGCGC-TTTTTATC
4225 ACAA
65 ACAA
4229 ACGCCGCTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 52 0.83
69 11 0.17
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (68 bp):
CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACATGACCTTTAGCAGCGCTTTTTATCA
CAA
Found at i:4234 original size:45 final size:42
Alignment explanation
Indices: 4158--4254 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 42
4148 CTTTTATCAC
*
4158 AACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACA
1 AACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAAACA
* * *
4200 TGACCTTTAGCAGCGCTTTTTTATCACAAACGCCGCTATAGAACA
1 -AACCTTTAGCAGCGC--TTTTATCACAAACGCCGCTAAAAAACA
4245 AACCTTTAGC
1 AACCTTTAGC
4255 GGCACTTCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 13 0.28
44 9 0.19
45 25 0.53
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
AACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAAACA
Found at i:7784 original size:14 final size:14
Alignment explanation
Indices: 7747--7784 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
7737 AGTTATGTGA
*
7747 TTTTATAAAATATT
1 TTTTATAAACTATT
7761 TTTTAT-AACTATT
1 TTTTATAAACTATT
7774 TTTTATAAACT
1 TTTTATAAACT
7785 GGATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATAAACTATT
Found at i:8351 original size:7 final size:7
Alignment explanation
Indices: 8307--8451 Score: 57
Period size: 7 Copynumber: 20.7 Consensus size: 7
8297 ACTAATTAAT
8307 CTAAACC
1 CTAAACC
*
8314 CAAAACC
1 CTAAACC
8321 CT-AACC
1 CTAAACC
*
8327 C-AACCC
1 CTAAACC
8333 CTAAATCC
1 CTAAA-CC
8341 CTAAACC
1 CTAAACC
*
8348 CTAAATC
1 CTAAACC
*
8355 CTTAACTC
1 CTAAAC-C
* *
8363 TTAACCC
1 CTAAACC
**
8370 CTAAAGT
1 CTAAACC
8377 CT-AACC
1 CTAAACC
*
8383 CATAACCC
1 C-TAAACC
*
8391 CTAACCC
1 CTAAACC
*
8398 CCAAACC
1 CTAAACC
*
8405 TTAAATCC
1 CTAAA-CC
8413 C--AACC
1 CTAAACC
8418 CTTAAACC
1 C-TAAACC
* *
8426 ATAATCC
1 CTAAACC
*
8433 CTAATCC
1 CTAAACC
* *
8440 ATAATCC
1 CTAAACC
8447 CTAAA
1 CTAAA
8452 TCCATACCCC
Statistics
Matches: 100, Mismatches: 28, Indels: 20
0.68 0.19 0.14
Matches are distributed among these distances:
5 3 0.03
6 14 0.14
7 62 0.62
8 21 0.21
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:8424 original size:21 final size:21
Alignment explanation
Indices: 8400--8473 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
8390 CCTAACCCCC
*
8400 AAACCTTAAATCCCAACCCTT
1 AAACCTTAAATCCCAACCCAT
* *
8421 AAACCAT-AATCCCTAATCCAT
1 AAACCTTAAATCCC-AACCCAT
* * *
8442 AATCCCTAAAT-CCATACCCCCT
1 AAACCTTAAATCCCA-A-CCCAT
8464 AAACCTTAAA
1 AAACCTTAAA
8474 ATAGTAACTC
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
20 7 0.17
21 19 0.47
22 14 0.35
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCTTAAATCCCAACCCAT
Found at i:8453 original size:15 final size:15
Alignment explanation
Indices: 8420--8457 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
8410 TCCCAACCCT
8420 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
8434 T-AATCCATAATCCC
1 TAAATCCATAATCCC
8448 TAAATCCATA
1 TAAATCCATA
8458 CCCCCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:8463 original size:15 final size:15
Alignment explanation
Indices: 8414--8466 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
8404 CTTAAATCCC
*
8414 AACCCTTAAA-CCAT
1 AACCCCTAAATCCAT
*
8428 AATCCCT-AATCCAT
1 AACCCCTAAATCCAT
*
8442 AATCCCTAAATCCAT
1 AACCCCTAAATCCAT
*
8457 ACCCCCTAAA
1 AACCCCTAAA
8467 CCTTAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 2 0.06
14 16 0.48
15 15 0.45
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCCCTAAATCCAT
Found at i:8788 original size:288 final size:288
Alignment explanation
Indices: 8465--9115 Score: 1214
Period size: 288 Copynumber: 2.3 Consensus size: 288
8455 ATACCCCCTA
*
8465 AACCTTAAAATAGTAACTCCTAAACCGGCCTTAAATCTTAAATTAATCATATACCCTAAATCAAA
1 AACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAATCAAA
*
8530 AAACCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT
66 AACCCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT
*
8595 -AAAAATAATTAATCTAAACCCAAAACTTTAACCTGACCCCTGAATCTCTAAATCCTCAATCCCT
131 AAAAAATAATTAATCTAAACCCAAAACCTTAACCTGACCCCTGAATCTCTAAATCCTCAATCCCT
*
8659 AACTCTTAACCCCTAACGTCTAACCCTTAGCCCCTAAACGTTAAATCTCAACACTTAAACCATAA
196 AACTCTTAACCCCTAACGTCTAACCCCTAGCCCCTAAACGTT-AATCTCAACACTTAAACCATAA
8724 TCCCTAAATCCATATATACTCCCTAAATT
260 TCCCTAAATCCATATATACTCCCTAAATT
* *
8753 AACCTTAAAATAGTAACTCCTAAATTGGCCTTAAATCTTAAATTAATCATATACCATAAATCAAA
1 AACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAATCAAA
8818 AACCCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT
66 AACCCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT
8883 AAAAAATAATTAATCTAAACCCAAAACCTTAACCTGACCCCTGAATCTCTAAATCCTCAATCCCT
131 AAAAAATAATTAATCTAAACCCAAAACCTTAACCTGACCCCTGAATCTCTAAATCCTCAATCCCT
8948 AACTCTTAACCCCTAACGTCTAACCCCTAGCCCCTAAACGTTAATCTCAACACTTAAACCATAAT
196 AACTCTTAACCCCTAACGTCTAACCCCTAGCCCCTAAACGTTAATCTCAACACTTAAACCATAAT
9013 CCCTAAATCCATATATACTCCCTAAATT
261 CCCTAAATCCATATATACTCCCTAAATT
* *
9041 AACCTTAAAATAGTAACTCCTAAACTAGCCTTAAATCTTAAATTAATCATATACCCTAAACCAAA
1 AACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAATCAAA
9106 AACCCTAAAC
66 AACCCTAAAC
9116 TATAGTGATA
Statistics
Matches: 352, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
288 248 0.70
289 104 0.30
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (288 bp):
AACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAATCAAA
AACCCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT
AAAAAATAATTAATCTAAACCCAAAACCTTAACCTGACCCCTGAATCTCTAAATCCTCAATCCCT
AACTCTTAACCCCTAACGTCTAACCCCTAGCCCCTAAACGTTAATCTCAACACTTAAACCATAAT
CCCTAAATCCATATATACTCCCTAAATT
Found at i:8963 original size:14 final size:14
Alignment explanation
Indices: 8944--8976 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8934 AATCCTCAAT
8944 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
8958 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
8972 CCCTA
1 CCCTA
8977 GCCCCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.27, C:0.45, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:9470 original size:41 final size:41
Alignment explanation
Indices: 9408--9709 Score: 419
Period size: 41 Copynumber: 7.4 Consensus size: 41
9398 TTTTATAAAC
* * *
9408 ACGCTGCTAAATCCCAGAGCATTAGCGGCGCTTTCCCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
*
9449 ACGTCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
* ** * *
9490 ACGCCGCTAAAGCCCCGAGCATTAGAGTTGCTTTTCTAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
*
9531 ACGCCGCTAAAGCCCCGAGCATTAGCGACGC-TTCCCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
*
9571 ACGCCGCTAAAGCCCCGAGCATTAGCGGCG-TATTTCCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCT-TTCCCAAAA
* * * *
9612 AGGCCGCTAAAGCCCAGAGCATTAGCGGCACTTTCTCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
* *
9653 ACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTTTTCCAAAA
1 ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
*
9694 ACCCCGCTAAAGCCCC
1 ACGCCGCTAAAGCCCC
9710 AAAAGGACGT
Statistics
Matches: 229, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 36 0.16
41 192 0.84
42 1 0.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.18
Consensus pattern (41 bp):
ACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTCCCAAAA
Found at i:9703 original size:163 final size:163
Alignment explanation
Indices: 9408--9709 Score: 462
Period size: 163 Copynumber: 1.9 Consensus size: 163
9398 TTTTATAAAC
* * * *
9408 ACGCTGCTAAATCCCAGAGCATTAGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCCGAGCATTA
1 ACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCAGAGCATTA
* ** * *
9473 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGCATTAGAGTTGCTTTTCTAAAAACGCCGC
66 GCGGCACTTTCCCAAAAACGCCGCTAAAGCCCCGAGCATTAGAGGCGCTTTTCCAAAAACCCCGC
9538 TAAAGCCCCGAGCATTAGCGACGCTTCCCAAAA
131 TAAAGCCCCGAGCATTAGCGACGCTTCCCAAAA
* * *
9571 ACGCCGCTAAAGCCCCGAGCATTAGCGGCG-TATTTCCAAAAAGGCCGCTAAAGCCCAGAGCATT
1 ACGCCGCTAAAGCCCAGAGCATTAGCGGCGCT-TTCCCAAAAACGCCGCTAAAGCCCAGAGCATT
* *
9635 AGCGGCACTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTTTTCCAAAAACCCCG
65 AGCGGCACTTTCCCAAAAACGCCGCTAAAGCCCCGAGCATTAGAGGCGCTTTTCCAAAAACCCCG
9700 CTAAAGCCCC
130 CTAAAGCCCC
9710 AAAAGGACGT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 1 0.01
163 123 0.99
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.18
Consensus pattern (163 bp):
ACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCAGAGCATTA
GCGGCACTTTCCCAAAAACGCCGCTAAAGCCCCGAGCATTAGAGGCGCTTTTCCAAAAACCCCGC
TAAAGCCCCGAGCATTAGCGACGCTTCCCAAAA
Found at i:11238 original size:546 final size:544
Alignment explanation
Indices: 10320--11555 Score: 1702
Period size: 546 Copynumber: 2.3 Consensus size: 544
10310 TAATTACTAA
* * * * *
10320 TACTAACTTCATTAACC-GACCAGATATATATTCTAGGTATAATTTCTATTTAACCCCTTTAAAA
1 TACTTACTTCAATAACCAG-CCATATATATATT-TAGGTATAATTACTATTTAACCCCTTTAAAT
* * * *
10384 TAAGTTCTAATTATACATTCTTAAGCAAATTACAAGATGACACAAT-GATATTACAAGAGTTCCA
64 TAAGTTCTAATTATA-ATCCTTAAGCAAATTACAAGATGACACAATGGGT-TTACAACAGTTTCA
**
10448 TGATAAAAATAATAATATTTTAAACAAGATGACAAAATGGGTGAAATCGTCGTATCAATTTTTTT
127 TGATAAAAATAATAATATTTTAAACAAGATGACAAAATGGGTGAAATCGTCGTAT--ATAGTTTT
* * * * *
10513 TTTTGTTAAAATTGCCTCTGCAACAATTTCATGATAATAATAATAATATTTTTATAATAAAACGA
190 TTTTGTTAAAATTGCCTCCGAAACAATATCATGATAAAAATAATAATATTTTTATAATAAAACAA
* *
10578 CACAATGGGTGAAACCGTCAAATCAGGCAGCAGTTTCTTACATAAAAAAATATTTTCAAAGCCAA
255 CACAATGGATGAAACCGTCAAATCAGGCAGCAGTTTCTTACATAAAAAAATATTTACAAAGCCAA
* * * *
10643 ACATTACACCCTTGACAAGTTTTAACAATTCCAAGAACAAAATTTTTTGGGGCGTTACACCTTTA
320 ACATTACACCATTGACAAGTTTTAACAATTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTA
* * *
10708 AAGAT-GATTGTTCGTCTCTTCTTTCTCCCTTTGTTCGGTTTGCACGAAAAAAGGATGGAAATGT
385 AAG-TCGAATGTTCGTCTCTTC--TCTCCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGT
* *
10772 TTTTGTTTTTGCC-AGCTATTCCCATTATCATTTATGTTCTATTTAATTAAAATTTTATTTTATA
447 TTTTGTTTTTGCCTA-CTATTCCCATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATA
10836 ATTTTAATTACTAACGTTTTATAATATAACATAC
511 ATTTTAATTACTAACGTTTTATAATATAACATAC
* *
10870 TTACTTACTTCAATAACCAGCCATATATATA-TTAGGTATAATTACTATTTAGCCCCTTTCAATT
1 -TACTTACTTCAATAACCAGCCATATATATATTTAGGTATAATTACTATTTAACCCCTTTAAATT
** * *
10934 AAAATCTAATTATAATCCTTAAGCAAATTATAAGATGGCACAATGGGTTTACAACAGTTTCATGA
65 AAGTTCTAATTATAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACAACAGTTTCATGA
* *
10999 TAAAAATAATAATATTTTATAACAAGATGACACAATGGGTGAAA-CTGTTGTAT-TAGTTTTTTT
130 TAAAAATAATAATATTTTA-AACAAGATGACAAAATGGGTGAAATC-GTCGTATATAGTTTTTTT
* *
11062 TGTTAAAATTGCCTCCGAAACAATATCATGATAAAAATAATAATATTTTTATAATAAGACAACAT
193 TGTTAAAATTGCCTCCGAAACAATATCATGATAAAAATAATAATATTTTTATAATAAAACAACAC
* * * *
11127 AATGGATGAAACCGTCGAATCAGGCGGCAGTTTC-TCCTATAAAAAAATATTTACAAAGTCAAAC
258 AATGGATGAAACCGTCAAATCAGGCAGCAGTTTCTTAC-ATAAAAAAATATTTACAAAGCCAAAC
* * * * *
11191 GTTACACCATTGACATGTTTTAACATTTGCAAAAAGAAAAATTTTTGGGGCGTTACACCCTTAAA
322 ATTACACCATTGACAAGTTTTAACAATTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAA
11256 GTCGAATGTTCGTCTCTTCTCTCCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTG
387 GTCGAATGTTCGTCTCTTCTCTCCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTG
* * *
11321 TTTTTGCCTACTATTCCCATTATCACTTATGTTCTATTTAATTAAAATTTCCTTTTTTAATTTTC
452 TTTTTGCCTACTATTCCCATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTA
*
11386 ATTACTAATGTTTTATAATATAACATAC
517 ATTACTAACGTTTTATAATATAACATAC
* * *
11414 -A--TACTTCAATAACCAGTCATATATATATTTTGGGTATAATTACTATTTAACCCCTTAAAATT
1 TACTTACTTCAATAACCAGCCATATATATA-TTTAGGTATAATTACTATTTAACCCCTTTAAATT
* * * * * * *
11476 AAGTTCTAATTATAAATCCTTAATCAAATTACAAGATGACGCAATGGGTTTATAGCACTCTCATA
65 AAGTTCTAATTAT-AATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACAACAGTTTCATG
*
11541 ATAATAATAATAATA
129 ATAAAAATAATAATA
11556 ATAATAATAT
Statistics
Matches: 608, Mismatches: 67, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
540 25 0.04
542 41 0.07
543 56 0.09
544 129 0.21
545 4 0.01
546 193 0.32
548 62 0.10
549 71 0.12
550 1 0.00
551 25 0.04
552 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (544 bp):
TACTTACTTCAATAACCAGCCATATATATATTTAGGTATAATTACTATTTAACCCCTTTAAATTA
AGTTCTAATTATAATCCTTAAGCAAATTACAAGATGACACAATGGGTTTACAACAGTTTCATGAT
AAAAATAATAATATTTTAAACAAGATGACAAAATGGGTGAAATCGTCGTATATAGTTTTTTTTGT
TAAAATTGCCTCCGAAACAATATCATGATAAAAATAATAATATTTTTATAATAAAACAACACAAT
GGATGAAACCGTCAAATCAGGCAGCAGTTTCTTACATAAAAAAATATTTACAAAGCCAAACATTA
CACCATTGACAAGTTTTAACAATTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGTCG
AATGTTCGTCTCTTCTCTCCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTT
TGCCTACTATTCCCATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTA
CTAACGTTTTATAATATAACATAC
Found at i:11546 original size:3 final size:3
Alignment explanation
Indices: 11538--11564 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11528 TAGCACTCTC
11538 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
11565 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11558 original size:546 final size:541
Alignment explanation
Indices: 9882--11555 Score: 2127
Period size: 530 Copynumber: 3.1 Consensus size: 541
9872 TGGTGTAGTG
* *
9882 ATTACAAGATGGCACAATAGGTTTACAA-CAGTTTCATGATAAAAATAATAATATTTTATAACAA
1 ATTACAAGATGACACAATGGGTTTA-AAGCAG-TTCATGATAAAAATAATAATATTTTATAACAA
* * * *
9946 GATGATACAATGGGTGAAATCGTCGTATCAGTTTTTTTTTTGTTAAAATTGCCT-CAACAAGAAT
64 GATGACACAATGGGTGAAATCGTCGTATTAG--TTTTTTTTGTTAAAATTGCCTCCGA-AACAAT
** *
10010 TTCATGATAAAAGGAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCGTCGTATCAGG
126 TTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCGTCGAATCAGG
* * * *
10075 TGGCAGTTTCTCATATAAAAAAATATTTTTAAAGCCGAACGTTACACCCTTGACATGTTTTAACA
191 CGGCAGTTTCTCCTATAAAAAAATATTTTCAAAGCCAAACGTTACACCCTTGACATGTTTTAAC-
* * * *
10140 ATTTCAAAAATAAAAACTTTAGGGGCGTTACACCCTAAAAGTCGAATGTTTC-TCTCTTCTTTCT
255 ATTTCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGTCGAATG-TTCGTCTCTTC-TTCT
* * * *
10204 CCCTTGGTTCGGTATGCACGAAGAAAAGATGGAAATATTTTTGTTTTTACCACCTATTCCCATTA
318 CCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTA
*
10269 TCACTTATGTTCTATTTAATTAAATTTTCATTTTATAATTTTAATTAC---------T-A-AT-A
383 TCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAAGTTTTATAATATAA
* * * *
10322 C-T--A-ACTTCATTAACC-GACCAGATATATATTCTAGGTATAATTTCTATTTAACCCCTTTAA
448 CATACATACTTCAATAACCAG-CCATATATATATTTTAGGTATAATTACTATTTAACCCC-TTAA
* *
10382 AA-TAAGTTCTAATTATACATTCTTAAGCAA
511 AATTAAGTTCTAATTATAAATCCTTAAGCAA
*
10412 ATTACAAGATGACACAAT-GATATTACAAG-AGTTCCATGATAAAAATAATAATATTTTA-AACA
1 ATTACAAGATGACACAATGGGT-TTA-AAGCAGTT-CATGATAAAAATAATAATATTTTATAACA
* ** * *
10474 AGATGACAAAATGGGTGAAATCGTCGTATCAATTTTTTTTTTTGTTAAAATTGCCTCTGCAACAA
63 AGATGACACAATGGGTGAAATCGTCGTAT---TAGTTTTTTTTGTTAAAATTGCCTCCGAAACAA
* * *
10539 TTTCATGATAATAATAATAATATTTTTATAATAAAACGACACAATGGGTGAAACCGTCAAATCAG
125 TTTCATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCGTCGAATCAG
* * * *
10604 GCAGCAGTTTCTTAC-ATAAAAAAATATTTTCAAAGCCAAACATTACACCCTTGACAAGTTTTAA
190 GCGGCAGTTTC-TCCTATAAAAAAATATTTTCAAAGCCAAACGTTACACCCTTGACATGTTTTAA
* * * * *
10668 CAATTCCAAGAACAAAATTTTTTGGGGCGTTACACCTTTAAAGAT-GATTGTTCGTCTCTTCTTT
254 C-ATTTCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAG-TCGAATGTTCGTCTCTTC-TT
* * *
10732 CTCCCTTTGTTCGGTTTGCACGAAAAAAGGATGGAAATGTTTTTGTTTTTGCCAGCTATTCCCAT
316 CTCCCTTGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCAT
* *
10797 TATCATTTATGTTCTATTTAATTAAAATTTTATTTTATAATTTTAATTACTAACGTTTTATAATA
381 TATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAA-GTTTTATAATA
*
10862 TAACATACTTACTTACTTCAATAACCAGCCATATATATA--TTAGGTATAATTACTATTTAGCCC
445 TAACATAC--A--TACTTCAATAACCAGCCATATATATATTTTAGGTATAATTACTATTTAACCC
** **
10925 CTTTCAATTAAAATCTAATTAT-AATCCTTAAGCAA
506 CTTAAAATTAAGTTCTAATTATAAATCCTTAAGCAA
* *
10960 ATTATAAGATGGCACAATGGGTTTACAA-CAGTTTCATGATAAAAATAATAATATTTTATAACAA
1 ATTACAAGATGACACAATGGGTTTA-AAGCAG-TTCATGATAAAAATAATAATATTTTATAACAA
* *
11024 GATGACACAATGGGTGAAA-CTGTTGTATTAGTTTTTTTTGTTAAAATTGCCTCCGAAACAATAT
64 GATGACACAATGGGTGAAATC-GTCGTATTAGTTTTTTTTGTTAAAATTGCCTCCGAAACAATTT
* * *
11088 CATGATAAAAATAATAATATTTTTATAATAAGACAACATAATGGATGAAACCGTCGAATCAGGCG
128 CATGATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCGTCGAATCAGGCG
* * *
11153 GCAGTTTCTCCTATAAAAAAATATTTACAAAGTCAAACGTTACACCATTGACATGTTTTAACATT
193 GCAGTTTCTCCTATAAAAAAATATTTTCAAAGCCAAACGTTACACCCTTGACATGTTTTAACATT
*
11218 TGCAAAAAGAAAAATTTTTGGGGCGTTACACCCTTAAAGTCGAATGTTCGTCTCTTC-TCTCCCT
258 T-CAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGTCGAATGTTCGTCTCTTCTTCTCCCT
11282 TGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTTTGCCTA-CTATTCCCATTATCA
322 TGGTTCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTTTGCC-ACCTATTCCCATTATCA
* * *
11346 CTTATGTTCTATTTAATTAAAATTTCCTTTTTTAATTTTCATTACTAATGTTTTATAATATAACA
386 CTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAA-GTTTTATAATATAACA
* *
11411 TACATACTTCAATAACCAGTCATATATATATTTTGGGTATAATTACTATTTAACCCCTTAAAATT
450 TACATACTTCAATAACCAGCCATATATATATTTTAGGTATAATTACTATTTAACCCCTTAAAATT
*
11476 AAGTTCTAATTATAAATCCTTAATCAA
515 AAGTTCTAATTATAAATCCTTAAGCAA
* * * * *
11503 ATTACAAGATGACGCAATGGGTTTATAGCACTCTCATAATAATAATAATAATA
1 ATTACAAGATGACACAATGGGTTTAAAGCAGT-TCATGATAAAAATAATAATA
11556 ATAATAATAT
Statistics
Matches: 990, Mismatches: 107, Indels: 81
0.84 0.09 0.07
Matches are distributed among these distances:
529 38 0.04
530 341 0.34
531 2 0.00
540 26 0.03
541 1 0.00
542 45 0.05
543 56 0.06
544 130 0.13
545 7 0.01
546 190 0.19
548 65 0.07
549 67 0.07
551 21 0.02
552 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (541 bp):
ATTACAAGATGACACAATGGGTTTAAAGCAGTTCATGATAAAAATAATAATATTTTATAACAAGA
TGACACAATGGGTGAAATCGTCGTATTAGTTTTTTTTGTTAAAATTGCCTCCGAAACAATTTCAT
GATAAAAATAATAATATTTTTATAATAAGACGACACAATGGGTGAAACCGTCGAATCAGGCGGCA
GTTTCTCCTATAAAAAAATATTTTCAAAGCCAAACGTTACACCCTTGACATGTTTTAACATTTCA
AAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGTCGAATGTTCGTCTCTTCTTCTCCCTTGGT
TCGGTTTGCACGAAAAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACTTAT
GTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTACTAAGTTTTATAATATAACATACATA
CTTCAATAACCAGCCATATATATATTTTAGGTATAATTACTATTTAACCCCTTAAAATTAAGTTC
TAATTATAAATCCTTAAGCAA
Found at i:14426 original size:19 final size:19
Alignment explanation
Indices: 14402--14476 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
14392 AATCTTCAAG
*
14402 GATATGCAAGCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14421 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
14440 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
14461 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
14477 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14448 original size:21 final size:21
Alignment explanation
Indices: 14403--14465 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
14393 ATCTTCAAGG
*
14403 ATATGCAAGCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
14422 ATATGCAATTTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
14443 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
14464 AT
1 AT
14466 GTAATCTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 17 0.44
21 22 0.56
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:14701 original size:19 final size:21
Alignment explanation
Indices: 14677--14715 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14667 CTTATTGTTT
*
14677 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
14696 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
14716 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:15151 original size:4 final size:4
Alignment explanation
Indices: 15100--15167 Score: 57
Period size: 4 Copynumber: 17.0 Consensus size: 4
15090 AATTATTTCT
* * * * * * *
15100 TTTA TTTT TTTA ATTA GTT- TTTA TTTA TATA TATA TTTG TTGTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
15148 TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
15168 AAACAAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 2 0.04
4 47 0.90
5 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:21229 original size:44 final size:44
Alignment explanation
Indices: 21181--21497 Score: 160
Period size: 44 Copynumber: 7.2 Consensus size: 44
21171 AGGATCGTAG
* *
21181 ATCTTATCACCCTAAGCAGTAGTGGAGTAGATTGAGGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
* * * * **
21225 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACGGCAA
** * * * * * * * ** * *
21269 GCCTTGTTTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
*
21313 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAGGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
* * * * **
21357 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACGGCAA
** * * * * * ** * *
21401 GCCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
* *
21445 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
*
21489 ATCATATCT
1 ATCTTATCT
21498 TTCGAAGATA
Statistics
Matches: 186, Mismatches: 75, Indels: 24
0.65 0.26 0.08
Matches are distributed among these distances:
42 8 0.04
43 12 0.06
44 151 0.81
45 10 0.05
46 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCAA
Found at i:21372 original size:132 final size:132
Alignment explanation
Indices: 21135--21547 Score: 684
Period size: 132 Copynumber: 3.1 Consensus size: 132
21125 GTGAAACACT
* * *
21135 AAGCCTTGTCTCCCTGAGCAACAGAGGAGTAGGTT-AAGGATCGTAGATCTTATCACCCTAAGCA
1 AAGCCTTGTCTCCCTGAGCAGCAGAGGAGTAGGTTGAA-GATTGTAGATCTTATCTCCCTAAGCA
21199 GTAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
65 GTAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
21264 ACC
130 ACC
* * *
21267 AAGCCTTGTTTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGAGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
21332 TAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21397 CC
131 CC
* *
21399 AAGCCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGAGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * * *
21464 TAGTGGAGAAGATTGAAGACGGAAAATCATATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCTA
66 TAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21529 CC
131 CC
21531 AAGCCTTGTCTCCCTGA
1 AAGCCTTGTCTCCCTGA
21548 AGTTGTAGTG
Statistics
Matches: 264, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
132 262 0.99
133 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGAGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGTAGATTGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:21667 original size:44 final size:43
Alignment explanation
Indices: 21616--22338 Score: 275
Period size: 44 Copynumber: 16.7 Consensus size: 43
21606 GATCGCATCT
21616 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
21660 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * * * **
21705 AATCTTATCTCCCTGAGGTTGCAATGGAGAAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CA
* * * ** * * *
21750 A-TCCTATCTTCCTGAAGTTGCAGTAGAGTGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * * *
21792 GGATCTTATCTCTCTAAAGTTGTAG-AGAGCAGA-T-CGCATCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * *
21833 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * * * ** *
21878 AATCATATCTCCCTGAAGTCGCAGAGGAGCAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * * * * *
21923 A-TCCTA-CTCGCTGAAGTTGCAGT-GAGCGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * * *
21963 GGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
22004 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
22048 AGTCTTATC-CTCCTGAAGTTGCAGT-AAGCCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCA
* * * * * *
22093 AATCTTATCTCCCTGAGGTTGCAGTGGGGCATACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
* * * * * *
22137 AATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * *
22179 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCA-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
22222 AGTCTTATCTTCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * * * * * *
22267 AGCCTTATCCCCCTGAAATTGCAGTGGGGCATACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
* * * *
22311 AATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
22339 TGGATTAGAG
Statistics
Matches: 504, Mismatches: 132, Indels: 87
0.70 0.18 0.12
Matches are distributed among these distances:
39 1 0.00
40 41 0.08
41 44 0.09
42 27 0.05
43 68 0.13
44 180 0.36
45 135 0.27
46 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:21726 original size:89 final size:86
Alignment explanation
Indices: 21618--21911 Score: 253
Period size: 89 Copynumber: 3.4 Consensus size: 86
21608 TCGCATCTAG
*
21618 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAG-CAGCAAGTCTTATCCTCCTGAAGTTGCA
21683 GTGAGGCAGACTGAAGATGGCAAA
64 GTGAGGCAGACTGAAGATGG-AAA
* * * * * *
21707 TCTTATCTCCCTGAGGTTGCAATGGAGAAGATTAAAGCCGACAA-TCCTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AAGCAG-CAAGTCTTATCCTCCTGAAGTTGC
* *
21771 AGTAGAGTG--GA-TTAAAACCTTGG--A
63 AGT-GAG-GCAGACTGAAGA---TGGAAA
* * * * * * *
21795 TCTTATCTCTCTAAAGTTGTAG-AGAGCAGAT-CGCATCAAGTCTTATCCTCCTAAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAGCAAGTCTTATCCTCCTGAAGTTGCAGT
21858 GAGGCAGACTGAAGATGGAAAA
66 GAGGCAGACTGAAGATGG-AAA
* * *
21880 TCATATCTCCCTGAAGTCGCAGAGGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
21912 TAAAGCCGGT
Statistics
Matches: 159, Mismatches: 31, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
82 4 0.03
83 6 0.04
84 24 0.15
85 22 0.14
86 9 0.06
87 6 0.04
88 22 0.14
89 53 0.33
90 9 0.06
91 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAGCAAGTCTTATCCTCCTGAAGTTGCAGT
GAGGCAGACTGAAGATGGAAA
Found at i:22038 original size:171 final size:173
Alignment explanation
Indices: 21658--22038 Score: 558
Period size: 173 Copynumber: 2.2 Consensus size: 173
21648 ACTAAGTAAG
* * *
21658 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAGG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGAAG
* *
21723 TTGCAATGGAGAAGATTAAAGCCGACAATCCTATCTTCCTGAAGTTGCAGTAGAGTGGATTAAAA
66 TCGCAATGGAGAAGATTAAAGCCGACAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAA
**
21788 CCTTGGATCTTATCTCTCTAAAGTTGTAGAGAGCAGATCGCAT
131 CCTTGGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
*
21831 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGAAG
* **
21896 TCGCAGA-GGAGCAGATTAAAGCCGGTAATCCTA-C-TCGCTGAAGTTGCAGT-GAGCGGATTAA
66 TCGCA-ATGGAGAAGATTAAAGCCGACAATCCTATCTTC-CTGAAGTTGCAGTAGAGCGGATTAA
*
21957 AACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
129 AACCTTGGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
* *
22002 CTAGTCTTAT-CTCCCTGAAGTTACAGTG-GAGCAGACT
1 CAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACT
22039 AAGTAATCAA
Statistics
Matches: 189, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
170 3 0.02
171 83 0.44
172 14 0.07
173 88 0.47
174 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (173 bp):
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGAAG
TCGCAATGGAGAAGATTAAAGCCGACAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAA
CCTTGGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
Found at i:22055 original size:215 final size:219
Alignment explanation
Indices: 21829--22297 Score: 606
Period size: 215 Copynumber: 2.2 Consensus size: 219
21819 AGCAGATCGC
21829 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGA
1 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGA
* ***** *
21894 AGTCGCAGAGGAGCAGATTAAAGCCGGTAATCCT-ACTCGCTGAAGTTGCAGT-GAGCGGATTAA
66 AGTCGCAGAGGAGCAGACTAAAGAAACAAATCCTGACTCCCTGAAGTTGCAGTGGAGCGGATTAA
*** * *
21957 AACCTTGGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATCTAGTCTTATCTCCCTGAA
131 AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCGAGTCTTATCTCCCTGAA
*
22021 GTTACAGTGGAGCAGACT-AAGTA
196 GTTACAGTGGAGCAGACTCAAGAA
* * * * *
22044 ATCAAGTCTTATCCTCCTGAAGTTGCAGTAAGCCAGACTGAAGATGGCAAATCTTATCTCCCTGA
1 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGA
* * * * * * *
22109 GGTTGCAGTGGGGCATACTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAA
66 AGTCGCAGAGGAGCAGACTAAAGAAACAAATCCTGACTCCCTGAAGTTGCAGTGGAGCGGATTAA
* * *
22174 AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCGAGTCTTATCTTCCTGAA
131 AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCGAGTCTTATCTCCCTGAA
22239 GTTACAGTGGAGCAGACTCAAGAA
196 GTTACAGTGGAGCAGACTCAAGAA
* * * *
22263 AGCAAGCCTTATCCCCCTGAAA-TTGCAGTGGGGCA
1 ATCAAGTCTTATCCTCCT-AAAGTTGCAGTGAGGCA
22298 TACTAAATAA
Statistics
Matches: 214, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
215 82 0.38
216 16 0.07
217 38 0.18
218 47 0.22
219 29 0.14
220 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (219 bp):
ATCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCATATCTCCCTGA
AGTCGCAGAGGAGCAGACTAAAGAAACAAATCCTGACTCCCTGAAGTTGCAGTGGAGCGGATTAA
AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCGAGTCTTATCTCCCTGAA
GTTACAGTGGAGCAGACTCAAGAA
Found at i:22689 original size:22 final size:23
Alignment explanation
Indices: 22661--22705 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22651 ATGCAATCTT
*
22661 AGATATGA-TATGTAGTCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
22683 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
22706 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:22715 original size:22 final size:23
Alignment explanation
Indices: 22671--22715 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22661 AGATATGATA
* *
22671 TGTAGTCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
22694 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
22716 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:23366 original size:4 final size:4
Alignment explanation
Indices: 23315--23382 Score: 57
Period size: 4 Copynumber: 17.0 Consensus size: 4
23305 AATTATTTCT
* * * * * * *
23315 TTTA TTTT TTTA ATTA GTT- TTTA TTTA TATA TATA TTTG TTGTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
23363 TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
23383 AAACAAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 2 0.04
4 47 0.90
5 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:24672 original size:3 final size:3
Alignment explanation
Indices: 24666--24705 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
24656 TTTTTTTGTC
24666 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
24706 TGGCAATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:28938 original size:16 final size:17
Alignment explanation
Indices: 28917--28959 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
28907 CATATGTGTC
28917 ATAATTCAATATATTTT
1 ATAATTCAATATATTTT
*
28934 A-AATTCGAT-TATTTT
1 ATAATTCAATATATTTT
*
28949 ATAAGTCAATA
1 ATAATTCAATA
28960 CAACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (17 bp):
ATAATTCAATATATTTT
Found at i:39708 original size:17 final size:17
Alignment explanation
Indices: 39663--39702 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
39653 TAAACAACTA
*
39663 AAAAAGTATTAAAAATTTT
1 AAAAAGTA-T-AAAATTAT
39682 AAAAAGTATAAAATTAT
1 AAAAAGTATAAAATTAT
39699 AAAA
1 AAAA
39703 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAAGTATAAAATTAT
Found at i:43948 original size:51 final size:52
Alignment explanation
Indices: 43893--44001 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 52
43883 TTTCTCCTCC
* *
43893 CATTTCTTTACCG-ATT-CTCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
1 CATTT-TTTACCGTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTAT
*** *
43944 CATTTTTTGTGGTTTTTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTAT
1 CATTTTTTACCG-TATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTAT
43997 CATTT
1 CATTT
44002 ATTGTGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 4 0.08
51 5 0.10
52 2 0.04
53 38 0.78
ACGTcount: A:0.08, C:0.25, G:0.09, T:0.58
Consensus pattern (52 bp):
CATTTTTTACCGTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTAT
Found at i:43973 original size:53 final size:53
Alignment explanation
Indices: 43910--44013 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
43900 TTACCGATTC
* *
43910 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTTTGTGGTTTTTGA
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTATCATTTATTGTGGTTTTTGA
43963 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTATCATTTATTGTGGTTTTT
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTATCATTTATTGTGGTTTTT
44014 AAAATCCACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.07, C:0.21, G:0.12, T:0.61
Consensus pattern (53 bp):
TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTATCATTTATTGTGGTTTTTGA
Found at i:47141 original size:14 final size:15
Alignment explanation
Indices: 47115--47147 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
47105 GAAGAACTTC
47115 TATTTTCTATTAAAA
1 TATTTTCTATTAAAA
47130 TATTTT-TATTAAAA
1 TATTTTCTATTAAAA
47144 TATT
1 TATT
47148 ATTAAGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTCTATTAAAA
Found at i:49992 original size:29 final size:29
Alignment explanation
Indices: 49960--50015 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
49950 GAATTGAATC
*
49960 AAATC-AAATATCATATATATAATTACATA
1 AAATCAAAAT-TCATATATAAAATTACATA
*
49989 AAATCAAAATTCATGTATAAAATTACA
1 AAATCAAAATTCATATATAAAATTACA
50016 CATTAGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATCAAAATTCATATATAAAATTACATA
Found at i:54786 original size:22 final size:25
Alignment explanation
Indices: 54738--54792 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
54728 AGGACGAACG
54738 AACGAAAAAAGAGAAATAGCAGCAAA
1 AACG-AAAAAGAGAAATAGCAGCAAA
54764 AA-GAAAAAGA-AAATAAG-AG-AAA
1 AACGAAAAAGAGAAAT-AGCAGCAAA
54786 AACGAAA
1 AACGAAA
54793 TACATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 9 0.33
25 1 0.04
26 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (25 bp):
AACGAAAAAGAGAAATAGCAGCAAA
Found at i:54941 original size:18 final size:19
Alignment explanation
Indices: 54920--54955 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
54910 TTTTCTGCAT
54920 CTTTCGCTTTTT-TTTTTA
1 CTTTCGCTTTTTCTTTTTA
*
54938 CTTTCGGTTTTTCTTTTT
1 CTTTCGCTTTTTCTTTTT
54956 TGTTCGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.03, C:0.17, G:0.08, T:0.72
Consensus pattern (19 bp):
CTTTCGCTTTTTCTTTTTA
Found at i:61937 original size:43 final size:43
Alignment explanation
Indices: 61833--61946 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
61823 TGTGTTTTTG
* * * * *
61833 TGTAAGACCACGTCTGGGACGTTGGCATCAATTTCTGTTTTCG
1 TGTAAGACCACTTCTGGGACGTTGGCATCAATCTCTGATTACA
* * *
61876 TGTAAGACC-CTATATGGGACAG-TGGCATCGATCTGTGATTACA
1 TGTAAGACCACT-TCTGGGAC-GTTGGCATCAATCTCTGATTACA
*
61919 TGTAAGACCACTTCTGGGACGTTTGCAT
1 TGTAAGACCACTTCTGGGACGTTGGCAT
61947 TGTACGAGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.04
43 52 0.91
44 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACTTCTGGGACGTTGGCATCAATCTCTGATTACA
Found at i:65401 original size:172 final size:172
Alignment explanation
Indices: 65110--65454 Score: 618
Period size: 172 Copynumber: 2.0 Consensus size: 172
65100 GCTACCAATT
65110 TTTAAGCTTGGAAAATCAGTAGAATTGTGATGACGTTTTGGATGGGATCTTGACATTTCTGGGTT
1 TTTAAGCTTGGAAAATCAGTAGAATTGTGATGACGTTTTGGATGGGATCTTGACATTTCTGGGTT
* * * *
65175 GAAATGTCTTCATGGAGTTCGAAGGTCTATCTTTTAGCTTCAAAATTCACTTTGAATAACTTGAT
66 GAAATGTCTTCATAGAGTTCGAAGATCTATATTTTAGCTTCAAAATTAACTTTGAATAACTTGAT
65240 TTTGAGTTCAGGAGCTCAAGTTATGATCATTCTAGTGAAGAC
131 TTTGAGTTCAGGAGCTCAAGTTATGATCATTCTAGTGAAGAC
65282 TTTAAGCTTGGAAAATCAGTAGAATTGTGATGACGTTTTGGATGGGATCTTGACATTTCTGGGTT
1 TTTAAGCTTGGAAAATCAGTAGAATTGTGATGACGTTTTGGATGGGATCTTGACATTTCTGGGTT
* * *
65347 GAGATGTCTTCGTAGAGTTCGAATATCTATATTTTAGCTTCAAAATTAACTTTGAATAACTTGAT
66 GAAATGTCTTCATAGAGTTCGAAGATCTATATTTTAGCTTCAAAATTAACTTTGAATAACTTGAT
*
65412 TTTGAGTTCAGGAGCTCAAGTTTTGATCATTCTAGTGAAGAC
131 TTTGAGTTCAGGAGCTCAAGTTATGATCATTCTAGTGAAGAC
65454 T
1 T
65455 GCGCAAGTAG
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 165 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (172 bp):
TTTAAGCTTGGAAAATCAGTAGAATTGTGATGACGTTTTGGATGGGATCTTGACATTTCTGGGTT
GAAATGTCTTCATAGAGTTCGAAGATCTATATTTTAGCTTCAAAATTAACTTTGAATAACTTGAT
TTTGAGTTCAGGAGCTCAAGTTATGATCATTCTAGTGAAGAC
Found at i:70507 original size:9 final size:9
Alignment explanation
Indices: 70493--70560 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
70483 TTTGGTTAAA
70493 AATTACCCG
1 AATTACCCG
70502 AATTACCCG
1 AATTACCCG
*
70511 AATTAACCG
1 AATTACCCG
*
70520 AATTAACCG
1 AATTACCCG
70529 AATTA-CCG
1 AATTACCCG
*
70537 AAAAATACCCG
1 --AATTACCCG
70548 AATTACCCG
1 AATTACCCG
70557 AATT
1 AATT
70561 TTTTTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
8 3 0.06
9 43 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:72090 original size:13 final size:13
Alignment explanation
Indices: 72072--72096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72062 ATTTACAAGA
72072 TTACATAATCAAT
1 TTACATAATCAAT
72085 TTACATAATCAA
1 TTACATAATCAA
72097 ATCAAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:77645 original size:13 final size:13
Alignment explanation
Indices: 77627--77720 Score: 107
Period size: 13 Copynumber: 7.1 Consensus size: 13
77617 ATTTTTAATG
77627 TAATATACTGTTT
1 TAATATACTGTTT
77640 TAATATACTGTTAT
1 TAATATACTGTT-T
* *
77654 AAATATACTTTTT
1 TAATATACTGTTT
*
77667 TAATATATTGTTT
1 TAATATACTGTTT
* *
77680 TAATACACTATTAT
1 TAATATACTGTT-T
*
77694 AAATATACTGTTT
1 TAATATACTGTTT
*
77707 TAATATAATGTTT
1 TAATATACTGTTT
77720 T
1 T
77721 GACTTTTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
13 45 0.68
14 21 0.32
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:77658 original size:27 final size:26
Alignment explanation
Indices: 77627--77720 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
77617 ATTTTTAATG
77627 TAATATACTGTTTTAATATACTGTTAT
1 TAATATACTGTTTTAATATACTGTT-T
* * *
77654 AAATATACTTTTTTAATATATTGTTT
1 TAATATACTGTTTTAATATACTGTTT
* * *
77680 TAATACACTATTATAAATATACTGTTT
1 TAATATACTGTT-TTAATATACTGTTT
*
77707 TAATATAATGTTTT
1 TAATATACTGTTTT
77721 GACTTTTAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
26 11 0.20
27 43 0.80
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (26 bp):
TAATATACTGTTTTAATATACTGTTT
Found at i:77672 original size:40 final size:40
Alignment explanation
Indices: 77627--77720 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
77617 ATTTTTAATG
* * * *
77627 TAATATACTGTTTTAATATACTGTTATAAATATACTTTTT
1 TAATATAATGTTTTAATACACTATTATAAATATACTGTTT
*
77667 TAATATATTGTTTTAATACACTATTATAAATATACTGTTT
1 TAATATAATGTTTTAATACACTATTATAAATATACTGTTT
77707 TAATATAATGTTTT
1 TAATATAATGTTTT
77721 GACTTTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (40 bp):
TAATATAATGTTTTAATACACTATTATAAATATACTGTTT
Found at i:80176 original size:9 final size:9
Alignment explanation
Indices: 80162--80210 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
80152 GGTTGCAAAA
80162 AGGACGATG
1 AGGACGATG
*
80171 AGGACGGTG
1 AGGACGATG
*
80180 AGGACGACG
1 AGGACGATG
*
80189 ACGACGATG
1 AGGACGATG
80198 AGGACGATG
1 AGGACGATG
80207 AGGA
1 AGGA
80211 TGGTGATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.45, T:0.08
Consensus pattern (9 bp):
AGGACGATG
Found at i:80185 original size:18 final size:18
Alignment explanation
Indices: 80162--80216 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
80152 GGTTGCAAAA
80162 AGGACGATGAGGACGGTG
1 AGGACGATGAGGACGGTG
* * *
80180 AGGACGACGACGACGATG
1 AGGACGATGAGGACGGTG
*
80198 AGGACGATGAGGATGGTG
1 AGGACGATGAGGACGGTG
80216 A
1 A
80217 TGTTTCTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.45, T:0.11
Consensus pattern (18 bp):
AGGACGATGAGGACGGTG
Found at i:94602 original size:31 final size:32
Alignment explanation
Indices: 94511--94608 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 32
94501 AAGTTACAAA
* *
94511 TTTAGTCCC-TGTACTTTT--ATTTGATCAAT
1 TTTAGTCCCTTGTACTTTTAAAATTGATAAAT
*
94540 TTTAGT-CCTTGTACTTTTTAAATTGATAAAT
1 TTTAGTCCCTTGTACTTTTAAAATTGATAAAT
94571 TTTAGTCCCTT-TACTTTTCAAAAATT-A-AAAT
1 TTTAGTCCCTTGTACTTTT--AAAATTGATAAAT
94602 TTTAGTC
1 TTTAGTC
94609 TTTACCCAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.03
29 15 0.25
31 33 0.55
32 5 0.08
33 5 0.08
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (32 bp):
TTTAGTCCCTTGTACTTTTAAAATTGATAAAT
Found at i:97115 original size:16 final size:16
Alignment explanation
Indices: 97094--97125 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97084 GTTTTGTTGC
*
97094 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
97110 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
97126 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:97409 original size:51 final size:52
Alignment explanation
Indices: 97351--97587 Score: 222
Period size: 51 Copynumber: 4.6 Consensus size: 52
97341 TCGGTTCACA
97351 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATTC-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-CAGCTATTCAGATACACG
* * * * * *
97402 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTTTGCA--
1 TAGTAGCCTGCACATAGTACTACACATGTGACCACAGCTATTCAG-ATACACG
*
97453 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTA-TCTA-ATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-CAGCTATTC-AGATACACG
* * * * * *
97504 TAGTAGCCTGCACATAGTACTAAACACGTGATCGA-AGCTATTC-GGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCACAGCTATTCAGATACACG
* * *
97555 TAGTAGCCTACACATAGTACTACATATGCGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
97588 CCAATACCAA
Statistics
Matches: 150, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
49 3 0.02
50 4 0.03
51 134 0.89
52 6 0.04
53 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCACAGCTATTCAGATACACG
Found at i:97525 original size:102 final size:102
Alignment explanation
Indices: 97349--97587 Score: 363
Period size: 102 Copynumber: 2.3 Consensus size: 102
97339 TATCGGTTCA
*
97349 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCAATACACGTAGTAGCCTGCA
* **
97414 CATAGTACTACACACGTGATCAAAGCTATCCAGTTTG
66 CATAGTACTAAACACGTGATCAAAGCTATCCAGTACG
*
97451 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTA-TCTAATACATGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTC-AATACACGTAGTAGCCTGC
* * *
97515 ACATAGTACTAAACACGTGATCGAAGCTATTCGGTACG
65 ACATAGTACTAAACACGTGATCAAAGCTATCCAGTACG
* * *
97553 CATAGTAGCCTACACATAGTACTACATATGCGACC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACC
97588 CCAATACCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 2 0.02
102 123 0.98
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCAATACACGTAGTAGCCTGCA
CATAGTACTAAACACGTGATCAAAGCTATCCAGTACG
Found at i:98756 original size:19 final size:19
Alignment explanation
Indices: 98732--98768 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98722 AGGGTCACTC
*
98732 TAAAATAGCGTTGTTCCTT
1 TAAAATAGCGTAGTTCCTT
*
98751 TAAAATAGTGTAGTTCCT
1 TAAAATAGCGTAGTTCCT
98769 ATTTTCATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (19 bp):
TAAAATAGCGTAGTTCCTT
Found at i:100354 original size:43 final size:43
Alignment explanation
Indices: 100296--100518 Score: 267
Period size: 43 Copynumber: 5.2 Consensus size: 43
100286 TTTTAGCAAT
* * *
100296 AAACCCCGCTATAGAACAAGACCTTTAGCGGCGCATTTCACAC
1 AAACGCCGCAATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
* *
100339 AAACGCCGCAATAGAACAAGACCTTTAGCGGCACTTTTTACAC
1 AAACGCCGCAATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
** *
100382 AAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTC-CTAC
1 AAACGCCGCAATAGAACAAGACCTTTAGCGGCGCTTTTCAC-AC
* *
100425 AAACGCCGCTAA-AGATCATGACCTTTAGCGGCGCTTTTC-CTAC
1 AAACGCCGC-AATAGAACAAGACCTTTAGCGGCGCTTTTCAC-AC
* *
100468 AAACGCCGCTAA-ATATC-AGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGC-AATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
100510 AAACGCCGC
1 AAACGCCGC
100519 TAATTACACA
Statistics
Matches: 162, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 32 0.20
43 129 0.80
44 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCAATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
Found at i:100406 original size:86 final size:86
Alignment explanation
Indices: 100296--100521 Score: 298
Period size: 86 Copynumber: 2.6 Consensus size: 86
100286 TTTTAGCAAT
* *
100296 AAACCCCGCTATAGAACAAGACCTTTAGCGGCGCATTTCACACAAACGCCGC-AATAGAACAAGA
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA-AGAACAAGA
100360 CCTTTAGCGGCACTTTTTAC-AC
65 CCTTTAGCGGCAC-TTTTACTAC
* * * *
100382 AAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTC-CTACAAACGCCGCTAAAGATCATGA
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCAC-ACAAACGCCGCTAAAGAACAAGA
* *
100446 CCTTTAGCGGCGCTTTTCCTAC
65 CCTTTAGCGGCACTTTTACTAC
* * *
100468 AAACGCCGCTAAATATC-AGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
100522 TTACACAAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
85 40 0.33
86 81 0.66
87 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACAAGAC
CTTTAGCGGCACTTTTACTAC
Found at i:100594 original size:43 final size:42
Alignment explanation
Indices: 100545--100667 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 42
100535 TTATAGAACA
*
100545 AGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGATC
1 AGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGATC
*
100587 ATGACCTTTAGCGGCGCTTTTCCTA-ACAACGCCGCTAAATATC
1 A-GACCTTTAGCGGCGCTTTTCCTACA-AACGCCGCTAAAGATC
100630 AGACCTTTAGCGGCGCTTTTCAC-ACAAACGCCGCTAAA
1 AGACCTTTAGCGGCGCTTTTC-CTACAAACGCCGCTAAA
100668 AACATATCTT
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
42 35 0.47
43 40 0.53
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (42 bp):
AGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGATC
Found at i:100650 original size:145 final size:146
Alignment explanation
Indices: 100376--100666 Score: 559
Period size: 145 Copynumber: 2.0 Consensus size: 146
100366 GCGGCACTTT
100376 TTACACAAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAT
1 TTACACAAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAT
100441 CATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAATATCAGACCTTTAGCGGCGCTTTTC
66 CATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAATATCAGACCTTTAGCGGCGCTTTTC
100506 ACACAAACGCCGCTAA
131 ACACAAACGCCGCTAA
100522 TTACACAAAC-CCGTTATAGAACAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAT
1 TTACACAAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAT
100586 CATGACCTTTAGCGGCGCTTTTCCTA-ACAACGCCGCTAAATATCAGACCTTTAGCGGCGCTTTT
66 CATGACCTTTAGCGGCGCTTTTCCTACA-AACGCCGCTAAATATCAGACCTTTAGCGGCGCTTTT
100650 CACACAAACGCCGCTAA
130 CACACAAACGCCGCTAA
100667 AAACATATCT
Statistics
Matches: 144, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
144 1 0.01
145 133 0.92
146 10 0.07
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (146 bp):
TTACACAAACGCCGTTATAGAACAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAT
CATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAATATCAGACCTTTAGCGGCGCTTTTC
ACACAAACGCCGCTAA
Found at i:105636 original size:7 final size:7
Alignment explanation
Indices: 105624--105756 Score: 74
Period size: 7 Copynumber: 18.7 Consensus size: 7
105614 ACTAGTTAAT
105624 CTAAACC
1 CTAAACC
105631 CTAAACC
1 CTAAACC
*
105638 ATAAA-C
1 CTAAACC
105644 CTAAACC
1 CTAAACC
105651 CTAAAACC
1 CT-AAACC
105659 CTAAACC
1 CTAAACC
* *
105666 CTTAACA
1 CTAAACC
105673 C-ATAACC
1 CTA-AACC
105680 TCTAAACC
1 -CTAAACC
*
105688 TTAAACC
1 CTAAACC
*
105695 C-CAACC
1 CTAAACC
*
105701 TTTAAACC
1 -CTAAACC
*
105709 ATAAACC
1 CTAAACC
* *
105716 ATAAATC
1 CTAAACC
* *
105723 ATAACCC
1 CTAAACC
105730 CTAAACC
1 CTAAACC
*
105737 CATAATCC
1 C-TAAACC
*
105745 ATAAACC
1 CTAAACC
*
105752 TTAAA
1 CTAAA
105757 ATAGTAACTC
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
6 9 0.09
7 66 0.68
8 21 0.22
9 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:105644 original size:14 final size:14
Alignment explanation
Indices: 105624--105814 Score: 95
Period size: 14 Copynumber: 13.4 Consensus size: 14
105614 ACTAGTTAAT
*
105624 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
105638 ATAAACC-TAAACC
1 CTAAACCATAAACC
*
105651 CTAAAACCCTAAACC
1 CT-AAACCATAAACC
*
105666 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
105680 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* *
105695 C-CAACCTTTAAACC
1 CTAAACC-ATAAACC
* *
105709 ATAAACCATAAATC
1 CTAAACCATAAACC
* * *
105723 ATAACCCCTAAACC
1 CTAAACCATAAACC
*
105737 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
105752 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
** *
105767 CTAAACTTTAAACT
1 CTAAACCATAAACC
*
105781 CTAAACCATATACC
1 CTAAACCATAAACC
*
105795 CTAAACCAAAAACC
1 CTAAACCATAAACC
*
105809 TTAAAC
1 CTAAAC
105815 TATAGTGATA
Statistics
Matches: 135, Mismatches: 29, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
12 3 0.02
13 11 0.08
14 77 0.57
15 42 0.31
17 2 0.01
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:106176 original size:39 final size:37
Alignment explanation
Indices: 106122--106354 Score: 186
Period size: 41 Copynumber: 5.9 Consensus size: 37
106112 AAATTTTTTT
*
106122 GCGGCGCTTTTTCAAAAAAACGCCGCTAATAGAGCATTA
1 GCGGCGCTTCTTC--AAAAACGCCGCTAATAGAGCATTA
*
106161 GCGGCGCTTATTCAAAAACGCCGCTAA-AGCCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAATA-----GAGCATTA
*
106202 GCGGCGCTTCTTTAAAAACGCCGCTAAAATAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCT--AATAGAGCATTA
*
106241 GCGGCGCTTCTTCAAAAACGCCGCTAACGCCCT-GAGCACTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAA-----TAGAGCATTA
* * *
106282 GCGGCGATT-TTCCAAAAACGGCGCTAAAGACACGAGCATTA
1 GCGGCGCTTCTT-CAAAAACGCCGCT--A-ATA-GAGCATTA
* *
106323 GCGGCGCTTTTTCAAAAACACCGCTAA-AGAGC
1 GCGGCGCTTCTTCAAAAACGCCGCTAATAGAGC
106355 CGAGCATTAG
Statistics
Matches: 162, Mismatches: 12, Indels: 43
0.75 0.06 0.20
Matches are distributed among these distances:
36 5 0.03
37 17 0.10
38 1 0.01
39 45 0.28
40 2 0.01
41 84 0.52
42 3 0.02
43 3 0.02
44 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (37 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAATAGAGCATTA
Found at i:106208 original size:41 final size:40
Alignment explanation
Indices: 106153--106393 Score: 258
Period size: 41 Copynumber: 6.0 Consensus size: 40
106143 GCCGCTAATA
106153 GAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGCCCT
* *
106194 GAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAA---AT
1 GAGCATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGCCCT
*
106232 AGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAACGCCCT
1 -GAGCATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGCCCT
* * * *
106274 GAGCACTAGCGGCGATTTTCCAAAAACGGCGCTAAAGACAC-
1 GAGCATTAGCGGCGCTTTT-CAAAAACGCCGCTAAAG-CCCT
* *
106315 GAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGAGCC-
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAG-CCCT
* * * *
106356 GAGCATTAGCGACGCTTTTTAAAAAAGCCACTAAAGCC
1 GAGCATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCC
106394 TCGAAAACTC
Statistics
Matches: 170, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 35 0.21
40 19 0.11
41 108 0.64
42 7 0.04
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCT
Found at i:106210 original size:80 final size:79
Alignment explanation
Indices: 106122--106390 Score: 321
Period size: 80 Copynumber: 3.4 Consensus size: 79
106112 AAATTTTTTT
106122 GCGGCGCTTTTTCAAAAAAACGCCGCT-AATAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCT
1 GCGGCGCTTTTT--AAAAAACGCCGCTAAATAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCT
106186 AAAGCCCTGAGCATTA
64 AAAGCCCTGAGCATTA
*
106202 GCGGCGCTTCTTT-AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
1 GCGGCGCTT-TTTAAAAAACGCCGCT-AAATAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCT
* *
106266 AACGCCCTGAGCACTA
64 AAAGCCCTGAGCATTA
* ** * * * *
106282 GCGGCGATTTTCCAAAAACGGCGCTAAAGACACGAGCATTAGCGGCGCTTTTTCAAAAACACCGC
1 GCGGCGCTTTTTAAAAAACGCCGCT-AA-ATA-GAGCATTAGCGGCGCTTATTCAAAAACGCCGC
*
106347 TAAAGAGCC-GAGCATTA
63 TAAAG-CCCTGAGCATTA
* *
106364 GCGACGCTTTTTAAAAAA-GCCACTAAA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAA
106391 GCCTCGAAAA
Statistics
Matches: 164, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
78 12 0.07
79 3 0.02
80 83 0.51
81 9 0.05
82 55 0.34
83 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (79 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAATAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAA
AGCCCTGAGCATTA
Found at i:106490 original size:39 final size:39
Alignment explanation
Indices: 106442--106555 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 39
106432 CGCTTATTGG
106442 AAAA-CGCCGCTAATGCTTATTTTTAGCGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTTATTTTTAGCGGCGTTTTCCA
* * * ***
106480 AAAAGTGCCGCTAATACTTGATCTTTAGCGGCGTTTTTTT
1 AAAAGCGCCGCTAATGCTT-ATTTTTAGCGGCGTTTTCCA
* * *
106520 TAAAGCGCCGCTAATGATTATTTTTAGTGGCGTTTT
1 AAAAGCGCCGCTAATGCTTATTTTTAGCGGCGTTTT
106556 TTATCCAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
38 4 0.06
39 27 0.44
40 31 0.50
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTTATTTTTAGCGGCGTTTTCCA
Found at i:106569 original size:40 final size:40
Alignment explanation
Indices: 106442--106573 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 40
106432 CGCTTATTGG
* **
106442 AAAA-CGCCGCTAATGCTTATTTTTAGCGGCGTTTTCCA-
1 AAAAGCGCCGCTAATGATTATTTTTAGCGGCGTTTTTTAT
* *
106480 AAAAGTGCCGCTAAT-ACTTGATCTTTAGCGGCGTTTTTT-T
1 AAAAGCGCCGCTAATGA-TT-ATTTTTAGCGGCGTTTTTTAT
* *
106520 TAAAGCGCCGCTAATGATTATTTTTAGTGGCGTTTTTTAT
1 AAAAGCGCCGCTAATGATTATTTTTAGCGGCGTTTTTTAT
*
106560 CCAAA-CGCCGCTAA
1 -AAAAGCGCCGCTAA
106574 AAGTCTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 41 0.53
41 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGATTATTTTTAGCGGCGTTTTTTAT
Found at i:109261 original size:21 final size:21
Alignment explanation
Indices: 109237--109277 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109227 CAAGGACAGC
*
109237 AGAAATAGAAGCAGAAATAGT
1 AGAAACAGAAGCAGAAATAGT
*
109258 AGAAACAGAAGCAGGAATAG
1 AGAAACAGAAGCAGAAATAG
109278 CGACAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.27, T:0.10
Consensus pattern (21 bp):
AGAAACAGAAGCAGAAATAGT
Found at i:114076 original size:19 final size:20
Alignment explanation
Indices: 114040--114087 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
114030 CAAGATTGCA
*
114040 TATGTAAAATATATTTGTTT
1 TATGTAAAATAGATTTGTTT
114060 TATGTAAAA-AGATTTGTTT
1 TATGTAAAATAGATTTGTTT
114079 TATAGTAAA
1 TAT-GTAAA
114088 GTTGTTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (20 bp):
TATGTAAAATAGATTTGTTT
Found at i:114164 original size:19 final size:19
Alignment explanation
Indices: 114130--114180 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
114120 CATCTTTTTT
114130 CATT-CATTTCATTCAT-TAG
1 CATTACATTTCA-TCATAT-G
114149 CATTACATTTCATCATATG
1 CATTACATTTCATCATATG
*
114168 CATTAAATTTCAT
1 CATTACATTTCAT
114181 AAAAAAAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (19 bp):
CATTACATTTCATCATATG
Found at i:122234 original size:88 final size:88
Alignment explanation
Indices: 122124--122595 Score: 407
Period size: 88 Copynumber: 5.3 Consensus size: 88
122114 CATCATAACG
* *
122124 AATCTTATCTCCCTAAAGTTGTAGTGGATTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
*
122189 CAGTGGAGTAGATTAAAGCCACA
66 CAGTGGAGTAGATTAAAGCTACA
* * * * *
122212 AATCATATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
* *
122277 TAGTGGA-TCAGATTAAAACTACA
66 CAGTGGAGT-AGATTAAAGCTACA
* * *
122300 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCTTCAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTA-CAAATCTTATCTCCCTGAAGTT
* *
122365 GCAGTGGAGCAGATTGAAGCTACA
65 GCAGTGGAGTAGATTAAAGCTACA
** * * * * * * **
122389 AATCTTATCTCATTGAAGTTGCAATAGACTAGATTGAAGCGATAAATCCCATAC-CTCC-GAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTTAT-CTC-CCTGAAGT
* * * * *
122452 TGTAGAT-G-CTCAAATTAAATTTACCGTAGCG
64 TGCAG-TGGAGT-AGATT-AA---AGC-TA-CA
* * * * * * * **
122483 AGTCTTATCTCCCTGAAGTTGCAGCGGAATCGATTAAAGCTACGAATCTTATCTCCCAAAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
*
122548 CAGTGGAGTAGATTAAAACTACA
66 CAGTGGAGTAGATTAAAGCTACA
* *
122571 ATTCCTATAC-CCCTGAAGTTGTAGT
1 AATCTTAT-CTCCCTGAAGTTGTAGT
122596 AGGTTAAAAT
Statistics
Matches: 300, Mismatches: 66, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
87 1 0.00
88 153 0.51
89 80 0.27
90 2 0.01
92 2 0.01
93 8 0.03
94 53 0.18
95 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATTAAAGCTACA
Found at i:122411 original size:44 final size:44
Alignment explanation
Indices: 122124--122409 Score: 374
Period size: 44 Copynumber: 6.5 Consensus size: 44
122114 CATCATAACG
* **
122124 AATCTTATCTCCCTAAAGTTGTAGTGGATTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * *
122168 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * *
122212 AATCATATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
122256 AATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAACTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* *
122300 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA-CA
* * *
122345 AATCTTATCTCCTTCAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
**
122389 AATCTTATCTCATTGAAGTTG
1 AATCTTATCTCCCTGAAGTTG
122410 CAATAGACTA
Statistics
Matches: 215, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 176 0.82
45 39 0.18
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
Found at i:122451 original size:133 final size:132
Alignment explanation
Indices: 122124--122456 Score: 312
Period size: 133 Copynumber: 2.5 Consensus size: 132
122114 CATCATAACG
* * * * * * * * * * *
122124 AATCTTATCTCCCTAAAGTTGTAGTGGATTAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCACTGAAGTTGCAATAGATCAGATTAAAACGACAAATCATACCTCCCTGAAGTTG
* * * *
122189 CAGTGGAGTAGATTAAAGCCACAAATCATATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGCCA
66 TAGTGGAGTAGATTAAAGACACAAATCATATCTCCCTCAAGTTGCAGTGAAGCAGATTAAAGCCA
122254 CA
131 CA
* * * * * * *
122256 AATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAACTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCACTGAAGTTGCAATAGATCAGATTAAAACGACAAATCATACCTCCCTGAAGTTG
* * * * * * *
122321 TAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCTTCAAGTTGCAGTGGAGCAGATTGAAGCT
66 TAGTGGAGTAGATTAAAGACA-CAAATCATATCTCCCTCAAGTTGCAGTGAAGCAGATTAAAGCC
122386 ACA
130 ACA
* * * *
122389 AATCTTATCTCATTGAAGTTGCAATAGA-CTAGATTGAAGCGATAAATCCCATACCT-CC-GAAG
1 AATCTTATCTCACTGAAGTTGCAATAGATC-AGATTAAAACGACAAAT--CATACCTCCCTGAAG
122451 TTGTAG
63 TTGTAG
122457 ATGCTCAAAT
Statistics
Matches: 171, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
132 79 0.46
133 85 0.50
134 2 0.01
135 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (132 bp):
AATCTTATCTCACTGAAGTTGCAATAGATCAGATTAAAACGACAAATCATACCTCCCTGAAGTTG
TAGTGGAGTAGATTAAAGACACAAATCATATCTCCCTCAAGTTGCAGTGAAGCAGATTAAAGCCA
CA
Found at i:122590 original size:44 final size:44
Alignment explanation
Indices: 122121--122591 Score: 148
Period size: 44 Copynumber: 10.5 Consensus size: 44
122111 AGTCATCATA
* * * * * * *
122121 ACGAATCTTATCTCCCTAAAGTTGTAGTGGATTAGATTGAAGCT
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
* * * * * *
122165 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCC
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
* * * * * * *
122209 ACAAATCATATCTCCCTGAAGTTGTAG-TGAAGCAGATTAAAGCC
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAA-TAGATTAAAACT
* * * *
122253 ACAAATCTTATCTCCCTGAAGTTGTAGTGG-ATCAGATTAAAACT
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAAT-AGATTAAAACT
* * * * * *
122297 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGA-T
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATT-AAAACT
* * * * * ** * *
122341 AGCAAATCTTATCTCCTTCAAGTTGCAGTGGAGCAGATTGAAGCT
1 A-CGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
* * ** *** * * * *
122386 ACAAATCTTATCTCATTGAAGTTGCAATAGACTAGATTGAAGCG
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
** * * ** * *
122430 ATAAATCCCATAC-CTCC-GAAGTTGTAGATG-CTCAAATTAAATTTACCGT
1 ACGAATCCTAT-CTC-CCTGAAGTTGCAGCGGAAT-AGATTAAA---A-C-T
* * * *
122479 AGCGAGTCTTATCTCCCTGAAGTTGCAGCGGAATCGATTAAAGCT
1 A-CGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
* ** * *
122524 ACGAATCTTATCTCCCAAAAGTTGCAGTGGAGTAGATTAAAACT
1 ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
122568 AC-AATTCCTATAC-CCCTGAAGTTG
1 ACGAA-TCCTAT-CTCCCTGAAGTTG
122592 TAGTAGGTTA
Statistics
Matches: 339, Mismatches: 67, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
43 6 0.02
44 260 0.77
45 44 0.13
46 1 0.00
48 1 0.00
49 4 0.01
50 22 0.06
51 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
ACGAATCCTATCTCCCTGAAGTTGCAGCGGAATAGATTAAAACT
Found at i:123068 original size:21 final size:21
Alignment explanation
Indices: 123042--123081 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
123032 AGAAATAAGG
*
123042 ATAGTAGAAATGAAAGTAGAA
1 ATAGTAAAAATGAAAGTAGAA
*
123063 ATAGTAAAAATGGAAGTAG
1 ATAGTAAAAATGAAAGTAG
123082 GAACAACGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (21 bp):
ATAGTAAAAATGAAAGTAGAA
Found at i:133071 original size:9 final size:9
Alignment explanation
Indices: 133054--133084 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
133044 TCGAGTTGAT
133054 TCGAATAAC
1 TCGAATAAC
*
133063 TCGATTAAC
1 TCGAATAAC
133072 TCGAATAAC
1 TCGAATAAC
133081 TCGA
1 TCGA
133085 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:134517 original size:31 final size:31
Alignment explanation
Indices: 134457--134587 Score: 101
Period size: 32 Copynumber: 4.3 Consensus size: 31
134447 AAGAAAGCTT
134457 AGGTACCAAATTAGGAAAAAAATACCAAGTTC
1 AGGTACCAAATTAGGAAAAAAATA-CAAGTTC
**
134489 AGGTACCAAATTAGGAAAAAGCGT-CAAGTTC
1 AGGTACCAAATTAGGAAAAA-AATACAAGTTC
* * * *** * *
134520 AGATGCTAAATT-GGGCCAAAATAAAAGTTT
1 AGGTACCAAATTAGGAAAAAAATACAAGTTC
*
134550 AGGTACCAAATTA--AAAAAAAT-CAAGTTT
1 AGGTACCAAATTAGGAAAAAAATACAAGTTC
*
134578 AGATACCAAA
1 AGGTACCAAA
134588 AATTATATTA
Statistics
Matches: 76, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
28 15 0.20
29 6 0.08
30 18 0.24
31 16 0.21
32 20 0.26
33 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (31 bp):
AGGTACCAAATTAGGAAAAAAATACAAGTTC
Found at i:139702 original size:19 final size:19
Alignment explanation
Indices: 139675--139716 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
139665 CTCGTTAATG
* *
139675 GTGTTTGATTAGTGGAATT
1 GTGTCTGATTAGTGGAACT
139694 GTGTCTGATTAGTGGAACT
1 GTGTCTGATTAGTGGAACT
139713 GTGT
1 GTGT
139717 GTGCATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.33, T:0.43
Consensus pattern (19 bp):
GTGTCTGATTAGTGGAACT
Found at i:144399 original size:24 final size:23
Alignment explanation
Indices: 144354--144402 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
144344 GATTTATCTC
*
144354 ATTTTTATTGGCAGCTTGTCTGT
1 ATTTTTATTGGCAGATTGTCTGT
* *
144377 ATTTTTATTGGTAGGATTTTCTGT
1 ATTTTTATTGGCA-GATTGTCTGT
144401 AT
1 AT
144403 ATTGTTATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.55
Consensus pattern (23 bp):
ATTTTTATTGGCAGATTGTCTGT
Found at i:147806 original size:3 final size:3
Alignment explanation
Indices: 147798--147898 Score: 150
Period size: 3 Copynumber: 33.7 Consensus size: 3
147788 TAGACCGACA
*
147798 AAG AAG AAG AA- AGAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
147843 AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
147891 GAG AAG AA
1 AAG AAG AA
147899 ATGGACGCAC
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 1 0.01
3 88 0.98
4 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:154002 original size:12 final size:13
Alignment explanation
Indices: 153975--154018 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
153965 ATCAAAACAC
153975 ATAAATATAATACA
1 ATAAATAT-ATACA
153989 ATAAATAT-TACA
1 ATAAATATATACA
154001 ATAAATATAGTACA
1 ATAAATATA-TACA
154015 ATAA
1 ATAA
154019 TATCATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.43
14 16 0.57
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (13 bp):
ATAAATATATACA
Found at i:154004 original size:26 final size:28
Alignment explanation
Indices: 153975--154029 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
153965 ATCAAAACAC
153975 ATAAATATAATACAATAA-AT-ATTACA
1 ATAAATATAATACAATAATATCATTACA
*
154001 ATAAATATAGTACAATAATATCATTACA
1 ATAAATATAATACAATAATATCATTACA
154029 A
1 A
154030 AAAAACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.65
27 2 0.08
28 7 0.27
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (28 bp):
ATAAATATAATACAATAATATCATTACA
Found at i:154028 original size:14 final size:13
Alignment explanation
Indices: 153978--154029 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
153968 AAAACACATA
*
153978 AATATAATACAAT
1 AATATATTACAAT
153991 AA-ATATTACAAT
1 AATATATTACAAT
*
154003 AAATATAGTACAAT
1 -AATATATTACAAT
154017 AATATCATTACAA
1 AATAT-ATTACAA
154030 AAAAACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 9 0.27
13 9 0.27
14 15 0.45
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (13 bp):
AATATATTACAAT
Found at i:154264 original size:3 final size:3
Alignment explanation
Indices: 154258--154297 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
154248 ATTTGCATCG
154258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
154298 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:163391 original size:16 final size:16
Alignment explanation
Indices: 163372--163416 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
163362 ACCTTCCTTT
*
163372 CTTACAAAACTAATAC
1 CTTACAAAAATAATAC
163388 CTTACAAAAATAATAC
1 CTTACAAAAATAATAC
163404 CTTACAAAAATAA
1 CTTACAAAAATAA
163417 ATCAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (16 bp):
CTTACAAAAATAATAC
Found at i:174502 original size:6 final size:7
Alignment explanation
Indices: 174470--174516 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
174460 CAAAAGCACA
174470 AAAAAAT
1 AAAAAAT
174477 CAAAAAA-
1 -AAAAAAT
*
174484 ACAAAAT
1 AAAAAAT
174491 GAAAAAAT
1 -AAAAAAT
174499 AAAAAAT
1 AAAAAAT
174506 AAAAAAT
1 AAAAAAT
174513 AAAA
1 AAAA
174517 GTCTATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.14
7 18 0.51
8 12 0.34
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:174893 original size:13 final size:12
Alignment explanation
Indices: 174860--174893 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
174850 AGAGGACAGA
174860 TTTTTTATATTT
1 TTTTTTATATTT
174872 TTCTTTTATATTT
1 TT-TTTTATATTT
174885 TTTTGTTAT
1 TTTT-TTAT
174894 TTCGGCTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTT
Found at i:175649 original size:3 final size:3
Alignment explanation
Indices: 175641--175696 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
175631 ATTAATTAAT
* *
175641 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA CTC TTA TTA TTA TTGA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
175688 -TA TTA TTA T
1 TTA TTA TTA T
175697 ATTTGGTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:175662 original size:28 final size:28
Alignment explanation
Indices: 175630--175699 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
175620 TTATCTTTGC
*
175630 TATTAATTAAT-TTATTATTATTATTATT
1 TATT-ATTAATATTACTATTATTATTATT
* *
175658 TATTATTATTATTACTCTTATTATTATT
1 TATTATTAATATTACTATTATTATTATT
175686 GATATTATT-ATATT
1 --TATTATTAATATT
175700 TGGTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.14
28 19 0.54
29 4 0.11
30 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (28 bp):
TATTATTAATATTACTATTATTATTATT
Found at i:178142 original size:19 final size:19
Alignment explanation
Indices: 178118--178164 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
178108 TCAACACCTT
*
178118 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
178137 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
178156 TATGCATTA
1 TTTGCATTA
178165 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:180076 original size:16 final size:16
Alignment explanation
Indices: 180057--180100 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
180047 AAATGATTGA
180057 AGAAGAAAAGAAAAAG
1 AGAAGAAAAGAAAAAG
*
180073 AGAAGGAAA-AAAAA-
1 AGAAGAAAAGAAAAAG
180087 AG--GAAAAGAAAAAG
1 AGAAGAAAAGAAAAAG
180101 GAGAGGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.17
13 5 0.21
14 2 0.08
15 5 0.21
16 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAGAAAAAG
Found at i:180082 original size:11 final size:11
Alignment explanation
Indices: 180059--180098 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
180049 ATGATTGAAG
*
180059 AAGAAAAGAAA
1 AAGAAAAGGAA
*
180070 AAGAGAAGGAA
1 AAGAAAAGGAA
*
180081 AAAAAAAGGAA
1 AAGAAAAGGAA
180092 AAGAAAA
1 AAGAAAA
180099 AGGAGAGGGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAAGGAA
Found at i:180541 original size:21 final size:21
Alignment explanation
Indices: 180515--180557 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
180505 ATAAAAATAT
180515 TGTGGGGAAAATGACTAAGAC
1 TGTGGGGAAAATGACTAAGAC
180536 TGTGGGGAAAATGACTAAGAC
1 TGTGGGGAAAATGACTAAGAC
180557 T
1 T
180558 TACAAGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (21 bp):
TGTGGGGAAAATGACTAAGAC
Found at i:181141 original size:45 final size:49
Alignment explanation
Indices: 181073--181193 Score: 160
Period size: 45 Copynumber: 2.5 Consensus size: 49
181063 AAGGAGAAGG
* * *
181073 GACCAAGGTGAAAACCCGTAAAGGGCGCTTTGAGTCCT-AAAAA-GA-A
1 GACCAATGTGAAAACCCGCAAAGGGCGATTTGAGTCCTAAAAAAGGATA
*
181119 -ACCAATGTGAAAACTCGCAAAGGGCGATTTGAGTCCTAAAAAAAAGGATA
1 GACCAATGTGAAAACCCGCAAAGGGCGATTTGAGTCCT--AAAAAAGGATA
181169 GACCAATGTGAAAACCCGCAAAGGG
1 GACCAATGTGAAAACCCGCAAAGGG
181194 TGTCTTGAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
45 33 0.52
48 5 0.08
49 2 0.03
50 1 0.02
51 23 0.36
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (49 bp):
GACCAATGTGAAAACCCGCAAAGGGCGATTTGAGTCCTAAAAAAGGATA
Found at i:182128 original size:24 final size:24
Alignment explanation
Indices: 182081--182128 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
182071 AGTACTGTGC
**
182081 ATTGAACCTTGAAGATTATGGTGG
1 ATTGAACCTTGAAGATTACAGTGG
182105 ATTGAACCTTGAAGATTACAGTGG
1 ATTGAACCTTGAAGATTACAGTGG
182129 GGGCAATCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (24 bp):
ATTGAACCTTGAAGATTACAGTGG
Found at i:182553 original size:44 final size:44
Alignment explanation
Indices: 182505--183102 Score: 352
Period size: 44 Copynumber: 13.6 Consensus size: 44
182495 CCAATAATCC
* *
182505 TATCTCCCTGAAGTTACAGTGGATCAGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * **
182549 TATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGAAAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAGTCT
* * * ** * *
182594 TATCCCCCTAAATTTGCAGTGGAATAAATTGAAGAAGATGGT-GAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-AAG-T--TACAAGTCT
** * * * *
182642 TATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* * **
182686 TATCTCCTTGAAGTTAC-GTGGAGTGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * ** * *
182729 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGTAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* *
182773 TATCTCCCTGAAGTTTCAGTGGAGCGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * * **
182817 TATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* * ** * *
182862 TATC-CTCCTGAAGTTGCAGTGGAGTAGACTAAAGCCA-ATAATCC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* * * * * *
182906 TATCTCTCTGAAGTTACAGTGGAGCGGATTGAAG-T-GAAGTGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * *
182948 TATCTCCCTAAAGTTGCAGT-GA-C----TAATGATAGCGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-C-AAGTCT
* * * * * *
182987 TATTTCCCTGAAGCTGCGGTGGAACAAATTAAAGCTATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CA-AG-TCT
* * * * *
183034 TATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA-TGACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
183075 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
183103 CTGAAAATAG
Statistics
Matches: 418, Mismatches: 105, Indels: 65
0.71 0.18 0.11
Matches are distributed among these distances:
36 3 0.01
37 1 0.00
39 18 0.04
40 5 0.01
41 32 0.08
42 22 0.05
43 40 0.10
44 158 0.38
45 83 0.20
46 2 0.00
47 24 0.06
48 28 0.07
49 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
Found at i:182830 original size:88 final size:88
Alignment explanation
Indices: 182499--182939 Score: 390
Period size: 89 Copynumber: 5.0 Consensus size: 88
182489 TTAAAGCCAA
* *
182499 TAATCCTATCTCCCTGAAGTTACAGTGGATCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTT
1 TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
* *
182564 GCAGTGGAGCAGATTGAAGAAAA
66 GCAGTGGAGCAGACTGAAGAAAG
* * * * * * ** * * **
182587 CAAGTCTTATCCCCCTAAATTTGCAGTGGAATAAATTGAAGAAGATGGT-GAA-TCTTATCTCTT
1 TAA-TCCTATCTCCCTGAAGTTACAGTGGAGCAGATT--A-AAG-T--TACAAGTCTTATCTCCC
* * * *
182650 TGAAGTTGCAGTAGAGCAGATTAAAGCTAA-
59 TGAAGTTGCAGTGGAGCAGACTGAAG-AAAG
* **
182680 TAATCCTATCTCCTTGAAGTTAC-GTGGAGTGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
1 TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
182744 GCAGTGGAGCAGACTGAAGAAAG
66 GCAGTGGAGCAGACTGAAGAAAG
* *
182767 TAATCCTATCTCCCTGAAGTTTCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
1 TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
*
182832 GCAGTGGAGCAAACTGAAGAAAG
66 GCAGTGGAGCAGACTGAAGAAAG
* * * * * ** * * *
182855 CAAGTCTTATC-CTCCTGAAGTTGCAGTGGAGTAGACTAAAGCCA-ATAATCCTATCTCTCTGAA
1 TAA-TCCTATCTC-CCTGAAGTTACAGTGGAGCAGATTAAAGTTACA-AGTCTTATCTCCCTGAA
* * *
182918 GTTACAGTGGAGCGGATTGAAG
63 GTTGCAGTGGAGCAGACTGAAG
182940 TGAAGTGTTA
Statistics
Matches: 288, Mismatches: 50, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
85 1 0.00
86 4 0.01
87 54 0.19
88 71 0.25
89 89 0.31
91 10 0.03
92 17 0.06
93 37 0.13
94 4 0.01
95 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (88 bp):
TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTGAAGAAAG
Found at i:183087 original size:41 final size:40
Alignment explanation
Indices: 183030--183180 Score: 133
Period size: 41 Copynumber: 3.6 Consensus size: 40
183020 GCTATCACAG
*
183030 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CATGACAA
* *
183071 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACATGACAA
* * * *
183110 TAGCGGGTCTTATCTCTCTAAAGTTGTAGTAGAGCAGACCATAACAA
1 -A-----TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CATGACAA
* * *
183157 GTCCTATCCCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
183181 GGCTTAGATT
Statistics
Matches: 87, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
39 5 0.06
40 2 0.02
41 48 0.55
45 27 0.31
46 1 0.01
47 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACATGACAA
Found at i:183121 original size:86 final size:86
Alignment explanation
Indices: 182721--183182 Score: 318
Period size: 86 Copynumber: 5.3 Consensus size: 86
182711 GATTAAAGTT
* * * *
182721 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA-AGTAA-TCCTATCTCCCTGA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-AATAGCAAGTCTTATCTCTCTGA
* * * *
182784 AGTTTCAGTGGAGCGGATTAAAGTT
65 AGTTGCAGTAGAGCAGA-T-AA-TG
* *
182809 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAA-AGCAAGTCTTATC-CTCCTG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-AATAGCAAGTCTTATCTCT-CTG
* * *
182872 AAGTTGCAGTGGAGTAGACTAAAG
64 AAGTTGCAGTAGAGCAGA-TAATG
* * * * * * * * * *
182896 CCAATAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTG-AAGT-G-AAGTGTTATCTCCCTA
1 AC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTCTCTG
*
182958 AAGTTGCAGT-GA-CTA-ATGAT-
64 AAGTTGCAGTAGAGC-AGATAATG
* * * * * * * * *
182978 AGCGAATCTTATTTCCCTGAAGCTGCGGTGGAACA-AATTAAAGCTATCACAGATCTTATCTCTC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATAGCA-AG-TCTTATCTCTC
*
183042 TGAAGTTGCAGTAGAGCAGATCATG
62 TGAAGTTGCAGTAGAGCAGATAATG
** *
183067 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCGGGTCTTATCTCTCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTCTCTGAA
* ** *
183132 GTTGTAGTAGAGCAGACCATA
66 GTTGCAGTAGAGCAGATAATG
* * *
183153 ACAAGTCCTATCCCCCTGAAGTTGCAGTGG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGG
183183 CTTAGATTGA
Statistics
Matches: 294, Mismatches: 61, Indels: 40
0.74 0.15 0.10
Matches are distributed among these distances:
80 2 0.01
81 25 0.09
82 1 0.00
83 3 0.01
84 2 0.01
85 5 0.02
86 100 0.34
87 8 0.03
88 88 0.30
89 60 0.20
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (86 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTCTCTGAA
GTTGCAGTAGAGCAGATAATG
Found at i:183615 original size:17 final size:17
Alignment explanation
Indices: 183579--183612 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
183569 ATAAAGAATA
*
183579 AAAGTCCATTTACAATT
1 AAAGTCCAATTACAATT
183596 AAAGTCCAAATTACAAT
1 AAAGTCC-AATTACAAT
183613 AAACCCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAGTCCAATTACAATT
Found at i:184712 original size:3 final size:3
Alignment explanation
Indices: 184704--184756 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
184694 ATTAATTAAT
* *
184704 TTA TTA TTA TTA TTA TTTA TTA TTA TTA CTC TTA TTA TTA TTGA -TA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
184750 TTA TTA T
1 TTA TTA T
184757 ATTTGGTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 1 0.02
3 38 0.88
4 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:187469 original size:21 final size:21
Alignment explanation
Indices: 187443--187489 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
187433 TAACCCCACC
*
187443 TTTGACCATCATCATAACAAT
1 TTTGACCATCACCATAACAAT
*
187464 TTTGACCATCACCATAACTAT
1 TTTGACCATCACCATAACAAT
187485 TTTGA
1 TTTGA
187490 TCAAGGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (21 bp):
TTTGACCATCACCATAACAAT
Found at i:190823 original size:22 final size:23
Alignment explanation
Indices: 190798--190858 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
190788 TTTGATAATT
190798 ATATTTTAATATAATTA-TAAAA
1 ATATTTTAATATAATTATTAAAA
* **
190820 ATATTTTAATAAAATGTATTAATG
1 ATATTTTAATATAAT-TATTAAAA
190844 A-ATTTTAATATAATT
1 ATATTTTAATATAATT
190859 TATGATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.45
23 14 0.42
24 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
ATATTTTAATATAATTATTAAAA
Found at i:190867 original size:25 final size:24
Alignment explanation
Indices: 190771--190874 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 24
190761 AATATATTAC
* *
190771 ATAATTATAATTATTATTT-TGATA
1 ATAATTTTAA-TATAATTTATGATA
* *
190795 ATTATATTTTAATATAA-TTATAAAA
1 A-TA-ATTTTAATATAATTTATGATA
* *
190820 AT-ATTTTAATAAAATGTAT--TA
1 ATAATTTTAATATAATTTATGATA
190841 ATGAATTTTAATATAATTTATGATA
1 AT-AATTTTAATATAATTTATGATA
*
190866 ATAAATTTA
1 ATAATTTTA
190875 TATTTTTAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
21 3 0.05
22 11 0.18
23 18 0.29
24 10 0.16
25 14 0.23
26 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATAATTTTAATATAATTTATGATA
Found at i:195412 original size:12 final size:12
Alignment explanation
Indices: 195386--195432 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
195376 TTAGCAATTT
*
195386 ATTTTTATTAT-
1 ATTTTTATTTTC
195397 ATTTTTATTTTC
1 ATTTTTATTTTC
* *
195409 ATTTTTAGTTTA
1 ATTTTTATTTTC
*
195421 ATTTTTGTTTTC
1 ATTTTTATTTTC
195433 TAATTTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (12 bp):
ATTTTTATTTTC
Found at i:195449 original size:11 final size:11
Alignment explanation
Indices: 195383--195431 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
195373 AATTTAGCAA
195383 TTTATTTTTAT
1 TTTATTTTTAT
*
195394 TATATTTTTAT
1 TTTATTTTTAT
195405 TTTCATTTTTAGT
1 TTT-ATTTTTA-T
* *
195418 TTAATTTTTGT
1 TTTATTTTTAT
195429 TTT
1 TTT
195432 CTAATTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 15 0.48
12 13 0.42
13 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:199341 original size:21 final size:21
Alignment explanation
Indices: 199317--199372 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
199307 TTCTTGTCTA
199317 TTATTATTCTTATTACTT-ATT
1 TTATTATTCTTATTA-TTCATT
199338 TTATT-TTC-T-TTATTCATT
1 TTATTATTCTTATTATTCATT
199356 TT-TTATTCTCTATTATT
1 TTATTATTCT-TATTATT
199373 TTCTATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
17 4 0.13
18 11 0.37
19 1 0.03
20 4 0.13
21 10 0.33
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTATTCTTATTATTCATT
Found at i:199356 original size:18 final size:17
Alignment explanation
Indices: 199333--199381 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
199323 TTCTTATTAC
*
199333 TTATTTTATT-TTCTTTA
1 TTATTTT-TTATTCTCTA
199350 TTCATTTTTTATTCTCTA
1 TT-ATTTTTTATTCTCTA
*
199368 TTATTTTCTATTCT
1 TTATTTTTTATTCT
199382 TAGTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTTATTCTCTA
Found at i:199388 original size:17 final size:17
Alignment explanation
Indices: 199333--199381 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
199323 TTCTTATTAC
* * *
199333 TTATTTTATTTTCTTTA
1 TTATTTTCTATTCTCTA
*
199350 TTCATTTTTTATTCTCTA
1 TT-ATTTTCTATTCTCTA
199368 TTATTTTCTATTCT
1 TTATTTTCTATTCT
199382 TAGTTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTCTATTCTCTA
Found at i:199396 original size:52 final size:52
Alignment explanation
Indices: 199294--199396 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 52
199284 TTCTTTATTA
* * * *
199294 TTTATTTATTTGTTTCTTGTCTATTATTATTCTTATTACTTATTTTATTTTC
1 TTTATTCATTTGTTTATTCTCTATTATTATTCTTATTACTTATATTATTTTC
* *
199346 TTTATTCATTT-TTTATTCTCTATTATT-TTCTATTCTTAGTTATATTATTTT
1 TTTATTCATTTGTTTATTCTCTATTATTATTC--TTATTACTTATATTATTTT
199397 ATTTTTCTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
50 3 0.07
51 14 0.33
52 26 0.60
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (52 bp):
TTTATTCATTTGTTTATTCTCTATTATTATTCTTATTACTTATATTATTTTC
Found at i:199398 original size:48 final size:51
Alignment explanation
Indices: 199289--199399 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
199279 CTATTTTCTT
* * * *
199289 TATTA-TTTATTTATTTGTTTCTTGTCTATTATTATTCTTATTACTTATTT
1 TATTATTTTATTCATTTGTTTATTCTCTATTATTATTCTTATTACTTATTA
*
199339 TATTTTCTTTATTCATTT-TTTATTCTCTATTATT-TTC-TATT-CTTAGTTA
1 TATTAT-TTTATTCATTTGTTTATTCTCTATTATTATTCTTATTACTTA-TTA
199388 TATTATTTTATT
1 TATTATTTTATT
199400 TTTCTGGTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
48 10 0.19
49 11 0.21
50 7 0.13
51 14 0.27
52 10 0.19
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.68
Consensus pattern (51 bp):
TATTATTTTATTCATTTGTTTATTCTCTATTATTATTCTTATTACTTATTA
Found at i:201013 original size:6 final size:6
Alignment explanation
Indices: 201002--201040 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
200992 AGTTTATTTG
* * *
201002 TTTTAT TTTTAT TTTTAT GTTTAT ATTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
201041 CTTAGACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:204329 original size:20 final size:21
Alignment explanation
Indices: 204306--204351 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
204296 TCTAAAATCG
*
204306 ATTAAACAATA-ATCCAAAAA
1 ATTAAAAAATATATCCAAAAA
* *
204326 ATTAAAAAATATTTTCAAAAA
1 ATTAAAAAATATATCCAAAAA
204347 ATTAA
1 ATTAA
204352 TTTTAAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTAAAAAATATATCCAAAAA
Found at i:212956 original size:49 final size:49
Alignment explanation
Indices: 212897--212994 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
212887 CCTAAAATCT
212897 CTTCAAAACTCCAAGTTGATGCAGAAGGAAGGCAAGCTAAAATTGCAGC
1 CTTCAAAACTCCAAGTTGATGCAGAAGGAAGGCAAGCTAAAATTGCAGC
*
212946 CTTCAAAACTCCAAGTTGATGCAGAAGGAAGGCAAGTTAAAATTGCAGC
1 CTTCAAAACTCCAAGTTGATGCAGAAGGAAGGCAAGCTAAAATTGCAGC
212995 AGCAGAAGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (49 bp):
CTTCAAAACTCCAAGTTGATGCAGAAGGAAGGCAAGCTAAAATTGCAGC
Found at i:217902 original size:63 final size:63
Alignment explanation
Indices: 217820--217973 Score: 272
Period size: 63 Copynumber: 2.4 Consensus size: 63
217810 AGGTTAATGT
217820 AAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTATCTGA
1 AAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTATCTGA
* * *
217883 AAAAACAGATTCCTCCTTATTTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTGTCTGA
1 AAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTATCTGA
*
217946 AAAAGCAGATTCCTTCTTATCTGCTTAT
1 AAAAGCAGATTCCTCCTTATCTGCTTAT
217974 CTTAATCCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (63 bp):
AAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTATCTGA
Found at i:222474 original size:31 final size:31
Alignment explanation
Indices: 222439--222501 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
222429 CATACTTTGG
*
222439 GGACCTATTTCTTTCAGCTTATTCATGAGAC
1 GGACCTATTTCTTTCAGCTTACTCATGAGAC
222470 GGACCTATTTCTTTCAGCTTACTCATGAGAC
1 GGACCTATTTCTTTCAGCTTACTCATGAGAC
222501 G
1 G
222502 ATTTACAGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (31 bp):
GGACCTATTTCTTTCAGCTTACTCATGAGAC
Found at i:226567 original size:13 final size:13
Alignment explanation
Indices: 226549--226574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
226539 GAGTTGATGA
226549 ATCCTATTTTATT
1 ATCCTATTTTATT
226562 ATCCTATTTTATT
1 ATCCTATTTTATT
226575 CGAAAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
ATCCTATTTTATT
Found at i:232755 original size:129 final size:130
Alignment explanation
Indices: 232547--232808 Score: 499
Period size: 129 Copynumber: 2.0 Consensus size: 130
232537 CTTATAATAT
232547 TTAAGTTCACAGTTCAAATAATCTATAACTTTAATTATAAAAAACTTATATAAACTTAATTTGGA
1 TTAAGTTCACAGTTCAAATAATCTATAACTTTAATTATAAAAAACTTATATAAACTTAATTTGGA
*
232612 AAAAGATTTATGCTAGGTTATATCCCCGTTTCATAATATGTAAATTAACTCAATATAATATAAAA
66 AAAAGATTTATGCTAGGTTATATCCCCGTTTCAAAATATGTAAATTAACTCAATATAATATAAAA
232677 TTAAGTTCACAG-TCAAATAATCTATAACTTTAATTATAAAAAACTTATATAAACTTAATTTGGA
1 TTAAGTTCACAGTTCAAATAATCTATAACTTTAATTATAAAAAACTTATATAAACTTAATTTGGA
*
232741 AAAAGATTTATGCTAGGTTATATCCCCGTTTTAAAATATGTAAATTAACTCAATATAATATAAAA
66 AAAAGATTTATGCTAGGTTATATCCCCGTTTCAAAATATGTAAATTAACTCAATATAATATAAAA
232806 TTA
1 TTA
232809 TAATATTTAA
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 118 0.91
130 12 0.09
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (130 bp):
TTAAGTTCACAGTTCAAATAATCTATAACTTTAATTATAAAAAACTTATATAAACTTAATTTGGA
AAAAGATTTATGCTAGGTTATATCCCCGTTTCAAAATATGTAAATTAACTCAATATAATATAAAA
Found at i:239096 original size:2 final size:2
Alignment explanation
Indices: 239089--239118 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
239079 GGTAAGGTGA
239089 AG 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 AG
239119 CCTTCTATGG
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):
AG
Found at i:249182 original size:21 final size:21
Alignment explanation
Indices: 249158--249208 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
249148 GGTACAACTT
* *
249158 GAAGAAGAGGCGGCAGCGAGG
1 GAAGCAGAGGCGGCAGCGAGA
* *
249179 GAAGCGGAGGCTGCAGCGAGA
1 GAAGCAGAGGCGGCAGCGAGA
249200 GAAGCAGAG
1 GAAGCAGAG
249209 CAGAGCAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.49, T:0.02
Consensus pattern (21 bp):
GAAGCAGAGGCGGCAGCGAGA
Found at i:249626 original size:42 final size:42
Alignment explanation
Indices: 249568--249765 Score: 263
Period size: 42 Copynumber: 4.7 Consensus size: 42
249558 GCGTTTTTGT
*
249568 AAAAAAA-GCTGCTAAAGAACATGTTCTTTAAAGGAGCTTAG
1 AAAAAAACGCTGCTAAAGAACATGTTCTTTAAAGGCGCTTAG
* *
249609 AAAAAAACGTTGCTAAAGAACATGTTCTTTAAAGGTGCTTAG
1 AAAAAAACGCTGCTAAAGAACATGTTCTTTAAAGGCGCTTAG
* * **
249651 AAAAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCTGCTAAAGAACATGTTCTTTAAAGGCGCTTAG
* * * *
249693 AGAAAAATGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCTGCTAAAGAACATGTTCTTTAAAGGCGCTTAG
* * *
249735 AAGAAAACGCCGCTAAAGACCATGTTCTTTA
1 AAAAAAACGCTGCTAAAGAACATGTTCTTTA
249766 GCGGCGTTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 7 0.05
42 133 0.95
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCTGCTAAAGAACATGTTCTTTAAAGGCGCTTAG
Found at i:252452 original size:31 final size:31
Alignment explanation
Indices: 252414--252575 Score: 324
Period size: 31 Copynumber: 5.2 Consensus size: 31
252404 GTGAATATTG
252414 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
252445 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
252476 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
252507 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
252538 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
252569 TAAATCC
1 TAAATCC
252576 CTTAGTACTC
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (31 bp):
TAAATCCTAAAGGATAAGATTGTATAGAGTT
Done.