Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 73
Found at i:672 original size:24 final size:24
Alignment explanation
Indices: 626--672 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
616 TGGTTCTAGA
*
626 AAATATTTTATTTTTTACTTTTAG
1 AAATATTTTATTTTTTACATTTAG
650 AAATAGTTTTATTTTTTA-ATTTA
1 AAATA-TTTTATTTTTTACATTTA
673 TTGAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
AAATATTTTATTTTTTACATTTAG
Found at i:3136 original size:23 final size:23
Alignment explanation
Indices: 3081--3136 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
3071 ACATATAATT
3081 ATAAATTA-ATTAAAAATTTAAAA
1 ATAAATTATATTAAAAA-TTAAAA
3104 ATAAATTAT-TT-AAAA-TAAAA
1 ATAAATTATATTAAAAATTAAAA
3124 AGTAAATTATATT
1 A-TAAATTATATT
3137 CGTGATCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.20
21 8 0.27
22 6 0.20
23 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAAATTATATTAAAAATTAAAA
Found at i:5414 original size:3 final size:3
Alignment explanation
Indices: 5406--5460 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
5396 GATGAGAATG
*
5406 GAA GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA G-A GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
5452 G-A GAA GAA G
1 GAA GAA GAA G
5461 GACCAGATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 6 0.13
3 41 0.87
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11964 original size:83 final size:83
Alignment explanation
Indices: 11825--11991 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
11815 TAATGAGGTC
11825 AGAAAACACTTGACCTCCAAGAAGGCAGCTAAAAAGGAAATCTTGAAGGCCCTAAAGAATTTGAA
1 AGAAAACACTTGACCTCCAAGAAGGCAGCTAAAAAGGAAATCTTGAAGGCCCTAAAGAATTTGAA
11890 ACATAAGGACAATAAGCA
66 ACATAAGGACAATAAGCA
11908 AGAAAACACTTGACCTCCAAGAAGGCAGCTAAAAAGGAAATCTTGAAGGCCCTAAAGAATTTGAA
1 AGAAAACACTTGACCTCCAAGAAGGCAGCTAAAAAGGAAATCTTGAAGGCCCTAAAGAATTTGAA
11973 ACATAAGGACAATAAGCA
66 ACATAAGGACAATAAGCA
11991 A
1 A
11992 AACGCTGTTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (83 bp):
AGAAAACACTTGACCTCCAAGAAGGCAGCTAAAAAGGAAATCTTGAAGGCCCTAAAGAATTTGAA
ACATAAGGACAATAAGCA
Found at i:14404 original size:3 final size:3
Alignment explanation
Indices: 14396--14447 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
14386 CATTTTTAAA
* *
14396 ATT ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14444 ATT A
1 ATT A
14448 CATGCCCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:18280 original size:3 final size:3
Alignment explanation
Indices: 18274--18305 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
18264 ACATTATTAT
18274 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18306 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18626 original size:52 final size:52
Alignment explanation
Indices: 18563--18959 Score: 686
Period size: 52 Copynumber: 7.6 Consensus size: 52
18553 TCGCTCTCTA
* *
18563 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
18615 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
18667 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
*
18719 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
18771 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
*
18823 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGATACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* *
18875 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
18927 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
18960 CCAACGATCG
Statistics
Matches: 325, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 325 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
Found at i:19014 original size:55 final size:55
Alignment explanation
Indices: 18955--19234 Score: 483
Period size: 55 Copynumber: 5.1 Consensus size: 55
18945 CTCGAACAAT
*
18955 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
19010 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
19065 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
19118 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
19173 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
19228 AATCTTC
1 AATCTTC
19235 TTTTGCTTCA
Statistics
Matches: 210, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
53 48 0.23
54 4 0.02
55 158 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:19164 original size:108 final size:110
Alignment explanation
Indices: 18955--19234 Score: 501
Period size: 108 Copynumber: 2.6 Consensus size: 110
18945 CTCGAACAAT
*
18955 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
19020 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
19065 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTTCATC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* *
19128 AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
19173 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
19235 TTTTGCTTCA
Statistics
Matches: 162, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
108 102 0.63
109 4 0.02
110 56 0.35
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (110 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:20550 original size:14 final size:13
Alignment explanation
Indices: 20522--20565 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
20512 CCTTTTATTA
*
20522 TTTTTT-TTGTTT
1 TTTTTTCTTCTTT
20534 TTTTTTCTTCTTCT
1 TTTTTTCTTCTT-T
20548 TTTTTTCTTCTTT
1 TTTTTTCTTCTTT
20561 TTTTT
1 TTTTT
20566 ATTTTTTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 6 0.21
13 10 0.34
14 13 0.45
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTCTTT
Found at i:20602 original size:22 final size:22
Alignment explanation
Indices: 20574--20617 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20564 TTATTTTTTC
*
20574 CATTTTTT-ATATTTTTCTATTT
1 CATTTTTTCAT-TTTTTCCATTT
20596 CATTTTTTCATTTTTTCCATTT
1 CATTTTTTCATTTTTTCCATTT
20618 TTTTCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (22 bp):
CATTTTTTCATTTTTTCCATTT
Found at i:20602 original size:39 final size:38
Alignment explanation
Indices: 20559--20633 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 38
20549 TTTTTCTTCT
*
20559 TTTTTTTATTTTTTCCATTTTTTAT-ATTTTTCTATTTCA
1 TTTTTTCATTTTTTCCATTTTTT-TCATTTTTC-ATTTCA
20598 TTTTTTCATTTTTTCCATTTTTTTCATTTTTCATTT
1 TTTTTTCATTTTTTCCATTTTTTTCATTTTTCATTT
20634 TTTTTTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (38 bp):
TTTTTTCATTTTTTCCATTTTTTTCATTTTTCATTTCA
Found at i:20616 original size:9 final size:8
Alignment explanation
Indices: 20559--20636 Score: 74
Period size: 8 Copynumber: 9.8 Consensus size: 8
20549 TTTTTCTTCT
*
20559 TTTTTTTA
1 TTTTTTCA
20567 TTTTTTCCA
1 TTTTTT-CA
20576 TTTTTT-A
1 TTTTTTCA
20583 TATTTTTC-
1 T-TTTTTCA
*
20591 -TATTTCA
1 TTTTTTCA
20598 TTTTTTCA
1 TTTTTTCA
20606 TTTTTTCCA
1 TTTTTT-CA
20615 TTTTTTTCA
1 -TTTTTTCA
20624 -TTTTTCA
1 TTTTTTCA
20631 TTTTTT
1 TTTTTT
20637 TTTATCTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
6 5 0.08
7 9 0.15
8 28 0.47
9 11 0.19
10 6 0.10
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:20637 original size:9 final size:9
Alignment explanation
Indices: 20549--20637 Score: 62
Period size: 9 Copynumber: 9.8 Consensus size: 9
20539 TCTTCTTCTT
20549 TTTTTCTTC-
1 TTTTT-TTCA
*
20558 TTTTTTTTA
1 TTTTTTTCA
*
20567 TTTTTTCCA
1 TTTTTTTCA
20576 TTTTTTAT-A
1 TTTTTT-TCA
20585 TTTTTCTATTTCA
1 --TTT-T-TTTCA
20598 -TTTTTTCA
1 TTTTTTTCA
*
20606 TTTTTTCCA
1 TTTTTTTCA
20615 TTTTTTTCA
1 TTTTTTTCA
20624 --TTTTTCA
1 TTTTTTTCA
20631 TTTTTTT
1 TTTTTTT
20638 TTATCTTTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
7 7 0.11
8 7 0.11
9 40 0.62
10 2 0.03
11 3 0.05
12 2 0.03
13 3 0.05
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:29374 original size:3 final size:3
Alignment explanation
Indices: 29368--29399 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
29358 ACATTATTAT
29368 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
29400 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:29778 original size:23 final size:23
Alignment explanation
Indices: 29751--29797 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
29741 TATTAATTGC
29751 ACTTTTATTTTATTTACATTATT
1 ACTTTTATTTTATTTACATTATT
*
29774 ACTTTTATTTTATTTATATTATT
1 ACTTTTATTTTATTTACATTATT
29797 A
1 A
29798 TTGTCGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
ACTTTTATTTTATTTACATTATT
Found at i:32531 original size:3 final size:3
Alignment explanation
Indices: 32525--32567 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
32515 TATGTAACAT
32525 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
32568 TTTATAATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32905 original size:55 final size:56
Alignment explanation
Indices: 32809--33634 Score: 612
Period size: 55 Copynumber: 15.3 Consensus size: 56
32799 TCGCTCCTGA
* * ** * *
32809 AGTATGGAACTCGAACAGTCTTCTGCCAAT-GGGTTCGTTCCCTCTTTCTTTCAAGG
1 AGTATAGAACTCGAACAATCTTC-AACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* * * * * * * *
32865 AGTATAGAACTCAAAC-ATCTTCAACACTCGTGTTTGTTCCCT-ATTCCTTCAGAG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* ** ** * * *
32919 AGTATA-AGACTTGAACAATCTTCAACAATCATG-TCTTTTCCCTATTCCTTT-AGAG
1 AGTATAGA-ACTCGAACAATCTTCAACAATCGGGTTC-GCTCCCTCTTTCTTTCAGGG
* ** * * *
32974 AGTATA-AGACTCGAACAATCTTCAACTATC-ATTTCTGCTCCCT-ATTCCTTCAGAG
1 AGTATAGA-ACTCGAACAATCTTCAACAATCGGGTTC-GCTCCCTCTTTCTTTCAGGG
** * *
33029 AGTAT-GAGACTCGAACAATCTTCTTC-TTACGGGTTCGCTCCCTCTTTC-TTCAGAG
1 AGTATAGA-ACTCGAACAATCTTCAACAAT-CGGGTTCGCTCCCTCTTTCTTTCAGGG
* *** * * *
33084 AGTATAGAACTCGAA-TATCTTTTTCAAACGGGTTTGCTCCCTCTTTCTCT-AGGG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* * ** * * * *
33138 AGTATAAAACTCGGAC-ATCTTCTTCAAACGGGTTTGCTTCCTCTTTCTTT-AGGA
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
*
33192 AGTATAGAACTCGAACAATCTTC-A-AA-CGGGTTCGCT--CTCTCTCTTT-AGGG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* * ** * * *
33242 AGTATGGAACTCGAA-TATCTTCTTC-TTACGAGTTCGCTCCCTCTTTCTCT-AGGG
1 AGTATAGAACTCGAACAATCTTCAACAAT-CGGGTTCGCTCCCTCTTTCTTTCAGGG
* ** *
33296 AGTATAGAACTCGGAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTC-TTCAGGG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* *
33350 AGTATAGAACTCGAA-AATCTTC-A-AA-CGGGTTCGCTCCTTCTTTC-TTCAAGG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
*
33401 AGTATAAAACTCGAACAATCTTCTGAA-AAT-GGGTTCGCTCCCTCTTTC-TTCAGGG
1 AGTATAGAACTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
*
33456 AGTATAGAACTCGAACAATCTTCTGAA-AA-CGGGTTCGCTCCCTTTTTC-TTCAGGG
1 AGTATAGAACTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
33511 AGTATAGAACTCGAACAATCTTCTGAA-AAT-GGGTTCGCTCCCTCTTTC-TTCAGGG
1 AGTATAGAACTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
* *
33566 AGTATAGAACTCAAACAATCTTC-A-AA-CGGGTTTGCTCCCTC--TCTTT-AGGG
1 AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
33616 AGTATAGAACTCGAACAAT
1 AGTATAGAACTCGAACAAT
33635 AATCTTTCTA
Statistics
Matches: 654, Mismatches: 81, Indels: 76
0.81 0.10 0.09
Matches are distributed among these distances:
49 6 0.01
50 50 0.08
51 40 0.06
52 43 0.07
53 4 0.01
54 195 0.30
55 290 0.44
56 26 0.04
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (56 bp):
AGTATAGAACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTTCAGGG
Found at i:33084 original size:110 final size:110
Alignment explanation
Indices: 32809--33634 Score: 692
Period size: 110 Copynumber: 7.7 Consensus size: 110
32799 TCGCTCCTGA
* * * * * *
32809 AGTATGGAACTCGAACAGTCTTCTGCCAATGGGTTCGTTCCCTCTTTCTTTCA-AGGAGTATAGA
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTC-TTCAGA-GAGTATAGA
* * * * * * * *
32873 ACTCAAAC-ATCTTCAACACTCGTGTTTGTTCCCTATTCCTTCAGAG
64 ACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
* ** * ** ** * * *
32919 AGTATA-AGACTTGAACAATCTTCAACAATCATG-TCTTTTCCCTATTCCTTTAGAGAGTATA-A
1 AGTATAGA-ACTCGAACAATCTTCTTCAAACGGGTTC-GCTCCCTCTTTCTTCAGAGAGTATAGA
* ** * * *
32981 GACTCGAACAATCTTCAACTATC-ATTTCTGCTCCCTATTCCTTCAGAG
64 -ACTCGAACAATCTTCAACAATCGGGTTC-GCTCCCTCTTTCTTCAGGG
**
33029 AGTAT-GAGACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGAA
1 AGTATAGA-ACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGAA
* *** * *
33093 CTCGAA-TATCTTTTTCAAACGGGTTTGCTCCCTCTTTC-TCTAGGG
65 CTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTC-AGGG
* * * * *
33138 AGTATAAAACTCGGAC-ATCTTCTTCAAACGGGTTTGCTTCCTCTTTCTTTAG-GAAGTATAGAA
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGAG-AGTATAGAA
* *
33201 CTCGAACAATCTTC-A-AA-CGGGTTCGCT--CTCTCTCTTTAGGG
65 CTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
* * ** * *
33242 AGTATGGAACTCGAA-TATCTTCTTCTTACGAGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAA
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AGAGAGTATAGAA
* ** *
33305 CTCGGAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGG
65 CTCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
* *
33350 AGTATAGAACTCGAA-AA---TCTTCAAACGGGTTCGCTCCTTCTTTCTTCA-AGGAGTATAAAA
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGA-GAGTATAGAA
33410 CTCGAACAATCTTCTGAA-AAT-GGGTTCGCTCCCTCTTTCTTCAGGG
65 CTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
** * *
33456 AGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAAC
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGAAC
33521 TCGAACAATCTTCTGAA-AAT-GGGTTCGCTCCCTCTTTCTTCAGGG
66 TCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
* * * *
33566 AGTATAGAACTCAAACAA---TCTTCAAACGGGTTTGCTCCCTC--TCTTTAGGGAGTATAGAAC
1 AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGAAC
33626 TCGAACAAT
66 TCGAACAAT
33635 AATCTTTCTA
Statistics
Matches: 587, Mismatches: 96, Indels: 71
0.78 0.13 0.09
Matches are distributed among these distances:
103 7 0.01
104 65 0.11
105 70 0.12
106 67 0.11
107 26 0.04
108 76 0.13
109 60 0.10
110 213 0.36
111 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (110 bp):
AGTATAGAACTCGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGAAC
TCGAACAATCTTCAACAATCGGGTTCGCTCCCTCTTTCTTCAGGG
Found at i:33126 original size:54 final size:54
Alignment explanation
Indices: 33010--33630 Score: 689
Period size: 55 Copynumber: 11.6 Consensus size: 54
33000 TATCATTTCT
* * * **
33010 GCTCCCTATTCCTTCAGAGAGTAT-GAGACTCGAACAATCTTCTTCTTACGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTCTTCAAACGGGTTC
* * * *
33065 GCTCCCTCTTTCTTCAGAGAGTATAGAACTCGAATATCTTTTTCAAACGGGTTT
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
* * * *
33119 GCTCCCTCTTTC-TCTAGGGAGTATAAAACTCGGACATCTTCTTCAAACGGGTTT
1 GCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
* * *
33173 GCTTCCTCTTTCTTTAGGAAGTATAGAACTCGAACAA---TCTTCAAACGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCTTCAAACGGGTTC
* * * * ** *
33225 GCT--CTCTCTCTTTAGGGAGTATGGAACTCGAATATCTTCTTCTTACGAGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
* *
33277 GCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTC
1 GCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
33331 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAA---TCTTCAAACGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
* * * ** *
33382 GCTCCTTCTTTCTTCAAGGAGTATAAAACTCGAACAATCTTCTGAAAATGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCTTCAAACGGGTTC
**
33437 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCTTCAAACGGGTTC
* ** *
33492 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTC
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCTTCAAACGGGTTC
* *
33547 GCTCCCTCTTTCTTCAGGGAGTATAGAACTC--AAA-CAATCTTCAAACGGGTTT
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATC-TTCTTCAAACGGGTTC
*
33599 GCTCCCTC--TCTTTAGGGAGTATAGAACTCGAA
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA
33631 CAATAATCTT
Statistics
Matches: 493, Mismatches: 55, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.00
50 46 0.09
51 47 0.10
52 56 0.11
53 4 0.01
54 158 0.32
55 179 0.36
56 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTC
Found at i:33279 original size:212 final size:209
Alignment explanation
Indices: 33021--33634 Score: 772
Period size: 212 Copynumber: 2.9 Consensus size: 209
33011 CTCCCTATTC
* *
33021 CTTCAGAGAGTATGAGACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGAGAG
1 CTTCAGGGAGTATGA-ACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAG
* * * *
33086 TATAGAACTCGAATATCTTTTTCAAACGGGTTTGCTCCCTCTTTC-TCTAGGGAGTATAAAACTC
65 TATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTC
*
33150 GGACATCTTCTTCAAACGGGTTTGCTTCCTCTTTCTTTAGGAAGTATAGAACTCGAACAATCTTC
129 -GACA--ATCTTCAAACGGGTTTGC-TCCTCTTTCTTTAGG-AGTATAGAACTCGAACAATCTTC
33215 -AAACGGGTTCGCT-CTCTCT
189 AAAACGGGTTCGCTCCTCTCT
* * *
33234 CTTTAGGGAGTATGGAACTCGAA-TATCTTCTTCTTACGAGTTCGCTCCCTCTTTC-TCTAGGGA
1 CTTCAGGGAGTAT-GAACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGGA
* *
33297 GTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC
64 GTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC
* * * *
33362 GAAAATCTTCAAACGGGTTCGCTCCTTCTTTCTTCAAGGAGTATAAAACTCGAACAATCTTCTGA
129 GACAATCTTCAAACGGGTTTGCTCC-TCTTTCTT-TAGGAGTATAGAACTCGAACAATCTTC--A
* *
33427 AAATGGGTTCGCTCCCTCTTT
190 AAACGGGTTCGCT-CCTCTCT
**** *
33448 CTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTTTTTCTTCAGGGAG
1 CTTCAGGGAGTAT-GAACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAG
** *
33513 TATAGAACTCGAACAATCTTCTGAAAATGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC
65 TATAGAACTCGAA-AATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC
* *
33578 AAACAATCTTCAAACGGGTTTGCTCC-CTCTCTTTAGGGAGTATAGAACTCGAACAAT
129 -GACAATCTTCAAACGGGTTTGCTCCTCTTTCTTTA-GGAGTATAGAACTCGAACAAT
33635 AATCTTTCTA
Statistics
Matches: 349, Mismatches: 37, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
208 3 0.01
209 46 0.13
210 3 0.01
211 5 0.01
212 103 0.30
213 20 0.06
214 29 0.08
215 69 0.20
216 49 0.14
217 22 0.06
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (209 bp):
CTTCAGGGAGTATGAACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGT
ATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGA
CAATCTTCAAACGGGTTTGCTCCTCTTTCTTTAGGAGTATAGAACTCGAACAATCTTCAAAACGG
GTTCGCTCCTCTCT
Found at i:33478 original size:158 final size:159
Alignment explanation
Indices: 33010--33632 Score: 694
Period size: 158 Copynumber: 3.9 Consensus size: 159
33000 TATCATTTCT
* * * **
33010 GCTCCCTATTCCTTCAGAGAGTAT-GAGACTCGAACAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAA---TCTTCAAACGGGTTCGCTCCCTCT
* * *
33074 TTCTTC-AGAGAGTATAGAACTCGAATATCTTTTTCAAACGGGTTTGCTCCCTCTTTCTCTAGGG
62 TTCTTCAAG-GAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
* * * *
33138 AGTATAAAACTCGGACATCTTCTTCAAACGGGTTT
126 AGTATAGAACTCGAACA-CATCTTCAAACGGGTTC
* * * *
33173 GCTTCCTCTTTCTTTAGGAAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCT--CTCTCTCT
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCT
* * * * ** *
33236 TTAGGGAGTATGGAACTCGAATATCTTCTTCTTACGAGTTCGCTCCCTCTTTCTCTAGGGAGTAT
66 TCAAGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTAT
* *
33301 AGAACTCGGACATCTTCTTCAAACGGGTTC
131 AGAACTCGAACA-CATCTTCAAACGGGTTC
*
33331 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCAAACGGGTTCGCTCCTTCTTTCT
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCT
* ** *
33395 TCAAGGAGTATAAAACTCGAACAATCTTCTGAAAATGGGTTCGCTCCCTCTTTCT-TCAGGGAGT
66 TCAAGGAGTATAGAACTCGAA-AATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGT
33459 ATAGAACTCGAACA-ATCTTCTGAAAACGGGTTC
129 ATAGAACTCGAACACATCTTC---AAACGGGTTC
* *
33492 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTCGCTCCCTCTT
1 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTC---AAACGGGTTCGCTCCCTCTT
* * * *
33557 TCTTCAGGGAGTATAGAACTC--AAA-CAATCTTCAAACGGGTTTGCTCCCTC--TCTTTAGGGA
63 TCTTCAAGGAGTATAGAACTCGAAAATC-TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGA
33617 GTATAGAACTCGAACA
127 GTATAGAACTCGAACA
33633 ATAATCTTTC
Statistics
Matches: 398, Mismatches: 47, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
157 20 0.05
158 126 0.32
159 25 0.06
160 86 0.22
161 45 0.11
162 28 0.07
163 29 0.07
164 2 0.01
165 37 0.09
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (159 bp):
GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCT
TCAAGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTAT
AGAACTCGAACACATCTTCAAACGGGTTC
Found at i:33677 original size:52 final size:52
Alignment explanation
Indices: 33620--33951 Score: 583
Period size: 52 Copynumber: 6.4 Consensus size: 52
33610 TTAGGGAGTA
* * *
33620 TAGAACTCGAACAATAATCTTTCTACGAGACTGCCCAATTTTCTTCAGGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
33672 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
* * *
33724 TAGAACTCGAAAAATAATCTTCTTACGGGTCTGCCCAATTTTCTTCAAGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
33776 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
* **
33828 TAGAACTCGAACAATAATCTTCCTACGAGAATGCCCAATTTTCTTCAGGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
33880 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
1 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
33932 TAGAACTCGAACAATAATCT
1 TAGAACTCGAACAATAATCT
33952 CCAACGATCA
Statistics
Matches: 265, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 265 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (52 bp):
TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
Found at i:33900 original size:28 final size:28
Alignment explanation
Indices: 33817--33901 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
33807 TGCCCAATTT
33817 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTCAGGGACTAGAACTCGAACAATAA
** * ** **
33845 TCTTC--CTACGAGAA-T-GCCCAATTT
1 TCTTCAGGGACTAGAACTCGAACAATAA
33869 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTCAGGGACTAGAACTCGAACAATAA
33897 TCTTC
1 TCTTC
33902 CTACGGGTCT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
26 12 0.31
27 1 0.03
28 15 0.38
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (28 bp):
TCTTCAGGGACTAGAACTCGAACAATAA
Found at i:34006 original size:55 final size:55
Alignment explanation
Indices: 33947--34335 Score: 606
Period size: 55 Copynumber: 7.1 Consensus size: 55
33937 CTCGAACAAT
* *
33947 AATCTCCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
34002 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
34057 AATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
34110 AATCTTCATCAATCGCGGCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
34165 AATCTTCAACGATCGCGTCTGCCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTG-CCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
34219 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
34274 AATCTTCAACGATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
34329 AATCTTC
1 AATCTTC
34336 TTTTGCTTCA
Statistics
Matches: 302, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
53 73 0.24
54 26 0.09
55 176 0.58
56 27 0.09
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:34247 original size:109 final size:110
Alignment explanation
Indices: 33944--34335 Score: 657
Period size: 109 Copynumber: 3.6 Consensus size: 110
33934 GAACTCGAAC
* *
33944 AATAATCTCCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
* *
34009 AACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCG
66 ATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
* * *
34054 AACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTTC
1 AATAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
*
34117 ATCAATCGCGGCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
66 ATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
*
34162 AATAATCTTCAACGATCGCGTCTGCCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTT
1 AATAATCTTCAACGATCGCGTCTG-CCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTT
34225 CATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
65 CATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
*
34271 AATAATCTTCAACGATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
34336 TTTTGCTTCA
Statistics
Matches: 266, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
108 99 0.37
109 111 0.42
110 56 0.21
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (110 bp):
AATAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
ATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
Found at i:35645 original size:19 final size:19
Alignment explanation
Indices: 35616--35670 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 19
35606 TGAACCCCCT
35616 TTTA-TTTTT-TTTTTTT-
1 TTTATTTTTTCTTTTTTTC
35632 TTT-TTTTTTCTTTTTTTC
1 TTTATTTTTTCTTTTTTTC
*
35650 TTTATTTTTTCCATTTTTTC
1 TTTATTTTTT-CTTTTTTTC
35670 T
1 T
35671 ATTTTTCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 3 0.09
19 6 0.18
20 9 0.27
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTATTTTTTCTTTTTTTC
Found at i:35658 original size:28 final size:27
Alignment explanation
Indices: 35620--35706 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 27
35610 CCCCCTTTTA
35620 TTTTTT-TTTTTTTTT---TTTTTTCT
1 TTTTTTCTTTTTTTTTCCATTTTTTCT
35643 TTTTTTCTTTATTTTTTCCATTTTTTCT
1 TTTTTTCTTT-TTTTTTCCATTTTTTCT
* *
35671 ATTTTTCTATTTCATTTTTTCA-TTTTTCAT
1 TTTTTTCT-TTT--TTTTTCCATTTTTTC-T
35701 TTTTTT
1 TTTTTT
35707 TATCTTTAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
23 6 0.12
24 3 0.06
25 6 0.12
28 16 0.31
29 8 0.15
30 13 0.25
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (27 bp):
TTTTTTCTTTTTTTTTCCATTTTTTCT
Found at i:35676 original size:1 final size:1
Alignment explanation
Indices: 35615--35659 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
35605 TTGAACCCCC
* * * *
35615 TTTTATTTTTTTTTTTTTTTTTTTTTCTTTTTTTCTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35660 CCATTTTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.04, C:0.04, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:35686 original size:22 final size:20
Alignment explanation
Indices: 35661--35702 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
35651 TTATTTTTTC
35661 CATTTTTTCTATTTTTCTATTT
1 CATTTTTTC-ATTTTTC-ATTT
35683 CATTTTTTCATTTTTCATTT
1 CATTTTTTCATTTTTCATTT
35703 TTTTTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (20 bp):
CATTTTTTCATTTTTCATTT
Found at i:35705 original size:8 final size:8
Alignment explanation
Indices: 35653--35705 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
35643 TTTTTTCTTT
35653 ATTTTTTCC
1 ATTTTTT-C
35662 ATTTTTTC
1 ATTTTTTC
35670 -TATTTTTC
1 AT-TTTTTC
*
35678 --TATTTC
1 ATTTTTTC
35684 ATTTTTTC
1 ATTTTTTC
35692 A-TTTTTC
1 ATTTTTTC
35699 ATTTTTT
1 ATTTTTT
35706 TTATCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 5 0.13
7 8 0.21
8 18 0.47
9 7 0.18
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTTC
Found at i:36842 original size:3 final size:3
Alignment explanation
Indices: 36828--36862 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
36818 GTACCAAGGC
36828 CTT CTAT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT C
36863 AATACTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:44281 original size:3 final size:3
Alignment explanation
Indices: 44275--44312 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
44265 TATGTAACAT
44275 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44313 TATATTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46232 original size:46 final size:46
Alignment explanation
Indices: 46146--46233 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
46136 TGATTTCATT
**
46146 TTTTTATAAACAAAGCATGGAACCAGAAATCATGTTGTTAGGTTAA
1 TTTTTATAAACAAAGCATGGAACCAGAAATCATGAGGTTAGGTTAA
* * *
46192 TTTTTCTAAATAAAGCATGGAACTAGAAATCATGAGGTTAGG
1 TTTTTATAAACAAAGCATGGAACCAGAAATCATGAGGTTAGG
46234 ATTTATACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (46 bp):
TTTTTATAAACAAAGCATGGAACCAGAAATCATGAGGTTAGGTTAA
Found at i:50414 original size:150 final size:151
Alignment explanation
Indices: 50236--50536 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 151
50226 CCCTCTAGAG
50236 CAAATGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAACCTATTATATTATTATATACAA
1 CAAATGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAACCTATTATATTATTATATACAA
50301 TAAAACTTTCCCTCTAGAGCAATTGGTTAATCGCCCCAGCTTTATGGATAAGTTTCAACTAA-CT
66 TAAAACTTTCCCTCTAGAGCAATTGGTTAATCGCCCCAGCTTTATGGATAAGTTTCAACTAACCT
50365 GATAAAGGTGATTATATTATT
131 GATAAAGGTGATTATATTATT
50386 CAAATGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAACCTATTATATTATTATATACAA
1 CAAATGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAACCTATTATATTATTATATACAA
50451 TAAAACTTTCCCTCTAGAGCAATTGGTTAATCGCCCCAGCTTTATGGATAAGTTTCAACTAACCT
66 TAAAACTTTCCCTCTAGAGCAATTGGTTAATCGCCCCAGCTTTATGGATAAGTTTCAACTAACCT
50516 GATAAAGGTGATTATATTATT
131 GATAAAGGTGATTATATTATT
50537 ATATACAATA
Statistics
Matches: 150, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 127 0.85
151 23 0.15
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (151 bp):
CAAATGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAACCTATTATATTATTATATACAA
TAAAACTTTCCCTCTAGAGCAATTGGTTAATCGCCCCAGCTTTATGGATAAGTTTCAACTAACCT
GATAAAGGTGATTATATTATT
Found at i:55001 original size:22 final size:22
Alignment explanation
Indices: 54973--55051 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
54963 ACATCTACAT
*
54973 TCTTCAAAGATGATAGATTATC
1 TCTTCAAAGATGATAGATTCTC
* *
54995 TCTTCAAATATGGTAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
55017 TCTTAAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
55039 TTTTCAAAGATGA
1 TCTTCAAAGATGA
55052 AAACCTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:56047 original size:47 final size:47
Alignment explanation
Indices: 55721--56450 Score: 1047
Period size: 45 Copynumber: 15.8 Consensus size: 47
55711 CTATTTCTCA
55721 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
55766 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
55811 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
55856 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
55901 CAACTGTAAGCCCTTTAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
55946 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
55991 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * *
56038 TATCTGTAAGCCCTTTAGTGCATGATGTTTTC--AAAACCTTCGGGC
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
56083 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
*
56130 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATG-TTTT-CAAAAAACCTTCGGGT
* * * *
56179 CATATGTAAGACCTTCAGTGTAGGATGTTTTCAAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAA-CCTTCGGGT
* * * *
56227 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
56274 CATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * * *
56321 CATCTGTAAGACCTTCAATGCAGGATGTTTTCAAAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
56368 CATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* **
56415 CATCTGTAAGACCTTCAGTGCAAAATGTTTTCAAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
56451 CTGATTTAAG
Statistics
Matches: 643, Mismatches: 35, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
45 294 0.46
47 260 0.40
48 52 0.08
49 37 0.06
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (47 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
Found at i:56694 original size:3 final size:3
Alignment explanation
Indices: 56686--56740 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
56676 CATTTTTAAA
* * * *
56686 ATT ATT ATT -TT TTT ATT ATT ATA AAT ATT ATT ATT ATT AAAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
56731 ATT ATT ATT A
1 ATT ATT ATT A
56741 CAGACCCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:56715 original size:26 final size:23
Alignment explanation
Indices: 56669--56720 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 23
56659 GTAGACACTA
56669 ATTTTTTCATTTTTAAAATTATT
1 ATTTTTTCATTTTTAAAATTATT
*
56692 ATTTTTTTATTATTATAAATATTATT
1 ATTTTTTCATT-TT-TAAA-ATTATT
56718 ATT
1 ATT
56721 ATTAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 2 0.08
25 4 0.16
26 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTTTCATTTTTAAAATTATT
Found at i:56728 original size:16 final size:16
Alignment explanation
Indices: 56698--56740 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
56688 TATTATTTTT
56698 TTATTATTA-TAAATA
1 TTATTATTATTAAATA
56713 TTATTATTATTAAATA
1 TTATTATTATTAAATA
56729 TTATTATTATTA
1 TTATTATTATTA
56741 CAGACCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATTATTAAATA
Found at i:58677 original size:2 final size:2
Alignment explanation
Indices: 58670--58700 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58660 TAATAAATAA
58670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58701 GTTTTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59870 original size:28 final size:27
Alignment explanation
Indices: 59818--59877 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
59808 ATTATAACAG
* *
59818 TGACCTAAATAGAAAAACTATAAATTA
1 TGACCAAAATAGAAAAACTAAAAATTA
59845 TGACCAAAATAAGAAAAA-TCAAAAATTA
1 TGACCAAAAT-AGAAAAACT-AAAAATTA
*
59873 AGACC
1 TGACC
59878 CCAAGCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (27 bp):
TGACCAAAATAGAAAAACTAAAAATTA
Found at i:61373 original size:19 final size:17
Alignment explanation
Indices: 61321--61374 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
61311 TGAAAGGAAC
61321 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* * *
61338 AACTTTTTC-CTTTATG
1 AAGTTCTTCTCATTATG
61354 ACGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
61373 AA
1 AA
61375 CTCTTCTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:61381 original size:19 final size:18
Alignment explanation
Indices: 61324--61381 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
61314 AAGGAACAAG
61324 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
* *
61342 TT-TTC-CTTTATG-ACGAG
1 TTCTTCTCATTATGAAC--T
61359 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
61377 CTTCT
1 -TTCT
61382 GGAAATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 5 0.17
18 5 0.17
19 10 0.33
20 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.50
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:61601 original size:89 final size:92
Alignment explanation
Indices: 61444--61618 Score: 293
Period size: 89 Copynumber: 1.9 Consensus size: 92
61434 GAGTGATAGG
*
61444 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
61509 CTCTCCATTGGAAACACTGATGTGAGA
66 CTCTCCATTGGAAACACTGATGTGAGA
* **
61536 TCGAACAAGTTCTTCTCATTATGAACTT-TT-TTTCTCGTT-GGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
61598 CTCTCCATTGGAAACACTGAT
66 CTCTCCATTGGAAACACTGAT
61619 CCATCTCCTT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
89 44 0.56
90 6 0.08
91 2 0.03
92 27 0.34
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (92 bp):
TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
CTCTCCATTGGAAACACTGATGTGAGA
Found at i:62370 original size:64 final size:60
Alignment explanation
Indices: 62196--62386 Score: 179
Period size: 64 Copynumber: 3.0 Consensus size: 60
62186 CTCAAGGAGA
* * * *
62196 CAAAATTTGTTTCAAGA-AAACCATCTTAAGAGAGACAAAACATTTTTTCAAGAGAAACTATCT
1 CAAAATTTGTTTCAAGAGAAA--ATCTCAAGGGAGAC-AAA-ATTATTTCAAGGGAAACTATCT
* * * * *
62259 CAAAAACTTGTTTCAAAAGAAACTGTCAAGGGAGACAAAATCATTTCAAGGGAAACGT-TCT
1 C-AAAATTTGTTTCAAGAGAAAATCTCAAGGGAGACAAAATTATTTCAAGGGAAAC-TATCT
* *
62320 CAAAATTTTGTGTTCAAGAGAAATTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCT
1 CAAAA-TTTGT-TTCAAGAGAAA--ATCTCAAGGGAGACAAAATTATTTCAAGGGAAACTATCT
62384 CAA
1 CAA
62387 GAGAGACAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
60 4 0.04
61 22 0.21
62 14 0.13
63 12 0.11
64 50 0.48
65 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (60 bp):
CAAAATTTGTTTCAAGAGAAAATCTCAAGGGAGACAAAATTATTTCAAGGGAAACTATCT
Found at i:62385 original size:35 final size:35
Alignment explanation
Indices: 62327--62606 Score: 330
Period size: 35 Copynumber: 7.9 Consensus size: 35
62317 TCTCAAAATT
* * *
62327 TTGTGTTCAAGAGAAATTATCTCAAGGGAGACAAAA
1 TTGT-TTCAAGGGAAACTGTCTCAAGGGAGACAAAA
*
62363 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
62398 TTTGTTTCAACGGAAACTGTCTCAAGAGAGATAAAA
1 -TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
** *
62434 TTG-TTCAAGGG-AACTGTCTCAAGAAAGACAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* **
62467 TTGTTTCATGGGAAACAATCTCAAGGGAGACAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
*
62502 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAT
1 -TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * * *
62538 TTGTTTCAAGGGAAACTATCTCAAGTGAGATAAATCTT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAA---A
62576 TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
62607 TCAAGGGAAA
Statistics
Matches: 211, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
33 22 0.10
34 14 0.07
35 78 0.37
36 68 0.32
38 29 0.14
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
Found at i:62438 original size:71 final size:70
Alignment explanation
Indices: 62326--62606 Score: 368
Period size: 71 Copynumber: 4.0 Consensus size: 70
62316 TTCTCAAAAT
* *
62326 TTTGTGTTCAAGAGAAATTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGT-TTCAAGGGAAACTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCTCAAGAGA
62391 GACAAAA
65 GAC-AAA
* * * * *
62398 TTTGTTTCAACGGAAACTGTCTCAAGAGAGATAAAATTG-TTCAAGGG-AACTGTCTCAAGAAAG
1 TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCTCAAGAGAG
62461 ACAAA
66 ACAAA
* * *
62466 TTTGTTTCATGGGAAACAATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGA
1 TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA-TTGTTTCAAGGGAAACTGTCTCAAGAGA
62531 GACAAA
65 GACAAA
* * * *
62537 TTTGTTTCAAGGGAAACTATCTCAAGTGAGATAAATCTTTTGTTTCAAGGGAAACTGTCTCAAGG
1 TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAA---ATTGTTTCAAGGGAAACTGTCTCAAGA
62602 GAGAC
63 GAGAC
62607 TCAAGGGAAA
Statistics
Matches: 183, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
68 33 0.18
69 20 0.11
70 16 0.09
71 78 0.43
72 5 0.03
73 31 0.17
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (70 bp):
TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAA
Found at i:62471 original size:104 final size:106
Alignment explanation
Indices: 62327--62606 Score: 366
Period size: 104 Copynumber: 2.6 Consensus size: 106
62317 TCTCAAAATT
* * * * *
62327 TTGTGTTCAAGAGAAATTATCTCAAGGGAGACAAAATTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGT-TTCAAGGGAAACTATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
*
62392 ACAAAATTTGTTTCAACGGAAACTGTCTCAAGAGAGATAAAA
65 ACAAAATTTGTTTCAACGGAAACTGTCTCAAGAGAGACAAAA
* * * **
62434 TTG-TTCAAGGG-AACTGTCTCAAGAAAGACAAATTTGTTTCATGGGAAACAATCTCAAGGGAGA
1 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
* * *
62497 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAT
66 CAAAATTTGTTTCAACGGAAACTGTCTCAAGAGAGACAAAA
* *
62538 TTGTTTCAAGGGAAACTATCTCAAGTGAGATAAATCTTTTGTTTCAAGGGAAACTGTCTCAAGGG
1 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAA---TTTGTTTCAAGGGAAACTGTCTCAAGGG
62603 AGAC
63 AGAC
62607 TCAAGGGAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
104 83 0.56
105 15 0.10
106 17 0.12
107 3 0.02
109 29 0.20
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (106 bp):
TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
CAAAATTTGTTTCAACGGAAACTGTCTCAAGAGAGACAAAA
Found at i:62548 original size:20 final size:20
Alignment explanation
Indices: 62487--62550 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
62477 GGAAACAATC
62487 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGAC-AAATTTGTT
* *
62508 TCAA-GG-G--AAA-CTGTC
1 TCAAGGGAGACAAATTTGTT
62523 TCAAGGGAGACAAATTTGTT
1 TCAAGGGAGACAAATTTGTT
62543 TCAAGGGA
1 TCAAGGGA
62551 AACTATCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 1 0.03
19 4 0.12
20 13 0.38
21 4 0.12
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (20 bp):
TCAAGGGAGACAAATTTGTT
Found at i:62623 original size:26 final size:26
Alignment explanation
Indices: 62581--62631 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
62571 ATCTTTTGTT
*
62581 TCAAGGGAAACTGTCTCAAGGGAGAC
1 TCAAGGGAAACTATCTCAAGGGAGAC
* *
62607 TCAAGGGAAATTATCTCAAGTGAGA
1 TCAAGGGAAACTATCTCAAGGGAGA
62632 TAAATCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (26 bp):
TCAAGGGAAACTATCTCAAGGGAGAC
Found at i:62649 original size:38 final size:37
Alignment explanation
Indices: 62625--62889 Score: 261
Period size: 38 Copynumber: 7.0 Consensus size: 37
62615 AATTATCTCA
* *
62625 AGTGAGATAAATCTTTTGTTTCAAGAAAAAACAATCTG
1 AGTGAGATAAATCTTCTGTTTCAAG-GAAAACAATCTG
*
62663 AGTGAGATAAATCTTCTGTTTCAAGGAAAACAATATTG
1 AGTGAGATAAATCTTCTGTTTCAAGGAAAACAAT-CTG
* *
62701 AGTGAGATAAATC-T-TATTTCAAGAAAAACAATCTTG
1 AGTGAGATAAATCTTCTGTTTCAAGGAAAACAATC-TG
*
62737 AGTGAGATTAAATCTTCTGTTTCAAAGAAAAACAATCTTG
1 AGTGAGA-TAAATCTTCTGTTTC-AAGGAAAACAATC-TG
* *
62777 AATGAGATAAAATATT-TGTTTCAAGGAAAAACAATCTG
1 AGTGAGAT-AAATCTTCTGTTTCAAGG-AAAACAATCTG
*
62815 AATGAGATTAAATCTTCTGTTTCAAGG-AAA-AATCTTG
1 AGTGAGA-TAAATCTTCTGTTTCAAGGAAAACAATC-TG
** * * *
62852 AGCAAAATAAAATATTATGTTTCAAGGAAAAACAATCT
1 AGTGAGAT-AAATCTTCTGTTTCAAGG-AAAACAATCT
62890 TGTAAATGAA
Statistics
Matches: 195, Mismatches: 17, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
36 30 0.15
37 39 0.20
38 58 0.30
39 36 0.18
40 32 0.16
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (37 bp):
AGTGAGATAAATCTTCTGTTTCAAGGAAAACAATCTG
Found at i:62831 original size:78 final size:76
Alignment explanation
Indices: 62625--62889 Score: 335
Period size: 76 Copynumber: 3.5 Consensus size: 76
62615 AATTATCTCA
* *
62625 AGTGAGAT-AAATCTTTTGTTTCAAGAAAAAACAATCTGAGTGAGA-TAAATCTTCTGTTTCAAG
1 AGTGAGATAAAAT-ATTTGTTTCAAGGAAAAACAATCTGAGTGAGATTAAATCTTCTGTTTCAA-
*
62688 GAAAACAATATTG
64 GAAAACAATCTTG
* *
62701 AGTGAGAT-AAAT-CTTATTTCAA-GAAAAACAATCTTGAGTGAGATTAAATCTTCTGTTTCAAA
1 AGTGAGATAAAATATTTGTTTCAAGGAAAAACAATC-TGAGTGAGATTAAATCTTCTGTTTC-AA
62763 GAAAAACAATCTTG
64 G-AAAACAATCTTG
* * *
62777 AATGAGATAAAATATTTGTTTCAAGGAAAAACAATCTGAATGAGATTAAATCTTCTGTTTCAAGG
1 AGTGAGATAAAATATTTGTTTCAAGGAAAAACAATCTGAGTGAGATTAAATCTTCTGTTTCAAGA
62842 AAA-AATCTTG
66 AAACAATCTTG
** *
62852 AGCAAAATAAAATATTATGTTTCAAGGAAAAACAATCT
1 AGTGAGATAAAATATT-TGTTTCAAGGAAAAACAATCT
62890 TGTAAATGAA
Statistics
Matches: 168, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
73 10 0.06
74 17 0.10
75 35 0.21
76 56 0.33
77 7 0.04
78 32 0.19
79 11 0.07
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (76 bp):
AGTGAGATAAAATATTTGTTTCAAGGAAAAACAATCTGAGTGAGATTAAATCTTCTGTTTCAAGA
AAACAATCTTG
Found at i:62882 original size:115 final size:114
Alignment explanation
Indices: 62641--62891 Score: 296
Period size: 115 Copynumber: 2.2 Consensus size: 114
62631 ATAAATCTTT
* * * * *
62641 TGTTTCAAGAAAAAACAATC-TGAGTGAGATAAATCTTCTGTTTCAAGGAAAACAATATTGAGTG
1 TGTTTCAAGGAAAAACAATCTTGAATGAGATAAATATTCTGTTTCAAGGAAAACAATACTGAATG
** * * * *
62705 AGATAAATCTTATTTCAAGAAAAACAATCTTGAGTGAGATTAAATCTTC
66 AGATAAATCTTATTTCAAGAAAAACAATCTTGAGCAAAATAAAATATTA
*
62754 TGTTTCAAAGAAAAACAATCTTGAATGAGATAAAATATT-TGTTTCAAGGAAAAACAAT-CTGAA
1 TGTTTCAAGGAAAAACAATCTTGAATGAGAT-AAATATTCTGTTTCAAGG-AAAACAATACTGAA
* *
62817 TGAGATTAAATCTTCTGTTTCAAG-GAAA-AATCTTGAGCAAAATAAAATATTA
64 TGAGA-TAAATC-T-TATTTCAAGAAAAACAATCTTGAGCAAAATAAAATATTA
62869 TGTTTCAAGGAAAAACAATCTTG
1 TGTTTCAAGGAAAAACAATCTTG
62892 TAAATGAAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
113 18 0.15
114 27 0.23
115 60 0.51
116 4 0.03
117 8 0.07
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (114 bp):
TGTTTCAAGGAAAAACAATCTTGAATGAGATAAATATTCTGTTTCAAGGAAAACAATACTGAATG
AGATAAATCTTATTTCAAGAAAAACAATCTTGAGCAAAATAAAATATTA
Found at i:63300 original size:34 final size:34
Alignment explanation
Indices: 63185--63302 Score: 150
Period size: 33 Copynumber: 3.5 Consensus size: 34
63175 TCTCAGAGAA
*
63185 AAATTGTCTCAAACGAGACGAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* *
63219 AAA-TGTCTCAAGCGAGACGGAATTTGCTTTGA-
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* * *
63251 TAATTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* *
63285 AAATTATCTCAAGTGAGA
1 AAATTGTCTCAAGCGAGA
63303 ATTTTTTAAG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 2 0.03
33 51 0.71
34 19 0.26
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (34 bp):
AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
Found at i:63458 original size:30 final size:31
Alignment explanation
Indices: 63404--63531 Score: 172
Period size: 31 Copynumber: 4.2 Consensus size: 31
63394 AAGATATTGA
* * *
63404 ATGCCCCAATATTCGAT-CTGAATCTCCAAGG
1 ATGCCCCAACATTTGATGTTGAATCTCCAA-G
63435 ATGCCCCAA-ATTTGA-GTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCC-AAG
*
63465 ATGCCCCAACATTTGATGTTGAATTTCCAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAG
*
63496 ATGCCCCAACATTTGATGTTGAATCTTCAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAG
63527 ATGCC
1 ATGCC
63532 TTCTATTGCT
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
30 24 0.27
31 54 0.61
32 10 0.11
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAG
Found at i:63528 original size:62 final size:61
Alignment explanation
Indices: 63404--63531 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 61
63394 AAGATATTGA
*
63404 ATGCCCCAATATTCGATCTGAATCTCCAAGGATGCCCCAAATTTGAGTTGAATCTCCAAAG
1 ATGCCCCAACATTCGATCTGAATCTCCAAGGATGCCCCAAATTTGAGTTGAATCTCCAAAG
* * * *
63465 ATGCCCCAACATTTGATGTTGAATTTCCAA-GATGCCCCAACATTTGATGTTGAATCTTC-AAG
1 ATGCCCCAACATTCGAT-CTGAATCTCCAAGGATGCCCCAA-ATTTGA-GTTGAATCTCCAAAG
63527 ATGCC
1 ATGCC
63532 TTCTATTGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
61 25 0.42
62 24 0.41
63 10 0.17
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (61 bp):
ATGCCCCAACATTCGATCTGAATCTCCAAGGATGCCCCAAATTTGAGTTGAATCTCCAAAG
Found at i:64589 original size:5 final size:5
Alignment explanation
Indices: 64557--64685 Score: 56
Period size: 5 Copynumber: 25.8 Consensus size: 5
64547 TTTTCTTACT
* * *
64557 TTTTC TTTTT TTTTT TTTTC -TTT- GTTTC TTTTC TTTTC ATTTTTGC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC --TTTT-C
* * * * *
64603 TCTT- TTTTA TTTGC TTTAAT- TTTTC TTTTC TTTTC TCTT- TTCTC TTTTC
1 TTTTC TTTTC TTTTC TTT--TC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
64652 TCTT- TTCTC TTTCTC TGTTTC TTTTC TTTT- TTTT
1 TTTTC TTTTC TTT-TC T-TTTC TTTTC TTTTC TTTT
64686 TTCTTATTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 27
0.69 0.12 0.20
Matches are distributed among these distances:
4 18 0.19
5 58 0.61
6 12 0.13
7 6 0.06
8 1 0.01
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:64643 original size:7 final size:7
Alignment explanation
Indices: 64631--64682 Score: 74
Period size: 7 Copynumber: 7.9 Consensus size: 7
64621 ATTTTTCTTT
64631 TCTTTTC
1 TCTTTTC
64638 TCTTTTC
1 TCTTTTC
64645 TCTTTTC
1 TCTTTTC
64652 TCTTTTC
1 TCTTTTC
64659 TC-TTTC
1 TCTTTTC
*
64665 TCTGTT-
1 TCTTTTC
64671 TCTTTTC
1 TCTTTTC
64678 T-TTTT
1 TCTTTT
64683 TTTTTCTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
6 15 0.37
7 26 0.63
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (7 bp):
TCTTTTC
Found at i:64682 original size:56 final size:54
Alignment explanation
Indices: 64558--64690 Score: 137
Period size: 56 Copynumber: 2.4 Consensus size: 54
64548 TTTCTTACTT
* *
64558 TTTCTTTTTTTTTTTTTTCTTTGTTTCTTTTCTTTTCATTTTTGCTCTTTTTTA
1 TTTCTTTTTTTTTTTTTTCTTTGTCTCTTTTCTTTTCATTTTTGCTCTTTTCTA
* * *
64612 TTTGCTTTAATTTTTCTTTTCTTT-TCTCTTTTCTCTTTTC-TCTTTT-CTCTTTCTCTG
1 TTT-CTTT-TTTTTTTTTTTCTTTGTCTC-TTT-TCTTTTCAT-TTTTGCTCTTT-TCTA
64669 TTTCTTTTCTTTTTTTTTTCTT
1 TTTCTTTT-TTTTTTTTTTCTT
64691 ATTTTGTTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
54 3 0.05
55 7 0.11
56 39 0.60
57 16 0.25
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (54 bp):
TTTCTTTTTTTTTTTTTTCTTTGTCTCTTTTCTTTTCATTTTTGCTCTTTTCTA
Found at i:64873 original size:2 final size:2
Alignment explanation
Indices: 64866--64939 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
64856 GGACACAGGG
64866 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64940 CGGATAAATG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 70 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65909 original size:26 final size:27
Alignment explanation
Indices: 65877--65974 Score: 157
Period size: 26 Copynumber: 3.7 Consensus size: 27
65867 AATGAAATGC
*
65877 AAATGCAAATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
65904 -AATGCAGATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
65930 AAATGCAGATGC-AAATGC-AAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
*
65955 AAATACAGATGCAAAATGCA
1 AAATGCAGATGCAAAATGCA
65975 GATGCAAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
25 18 0.27
26 37 0.56
27 11 0.17
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATGCAGATGCAAAATGCAAAGATGT
Found at i:65973 original size:65 final size:65
Alignment explanation
Indices: 65904--66079 Score: 213
Period size: 65 Copynumber: 2.7 Consensus size: 65
65894 GCAAAGATGT
*
65904 AATGCAGATGCAAAATGCAAAGATGTAAATGCAGATGC-AAATGC-AAGATGTAAATACAGATGC
1 AATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATG-AAATACAGATGC
65967 AA
65 -A
* *
65969 AATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAATGCAGATGCA
1 AATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGAAATACAGATGCA
66034 AATGCAAAGATGC--AATGC--AGATGCAAAATGCAAAGATGC-AAATGCA
1 AATGC--AGATGCAAAATGCAAAGATGC-AAATGC--AGATGCAAAATGCA
66080 TATGCAAAAA
Statistics
Matches: 101, Mismatches: 3, Indels: 14
0.86 0.03 0.12
Matches are distributed among these distances:
63 6 0.06
64 6 0.06
65 55 0.54
66 22 0.22
67 12 0.12
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.16
Consensus pattern (65 bp):
AATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGAAATACAGATGCA
Found at i:65986 original size:78 final size:76
Alignment explanation
Indices: 65904--66088 Score: 202
Period size: 78 Copynumber: 2.4 Consensus size: 76
65894 GCAAAGATGT
* * *
65904 AATGC-AGATGCAAAATGCAAAGATG-TAAATGC-AGATGCAAATGCAAGATGTAAAT-ACAGAT
1 AATGCAAGATGC-AAATGC-AAGATGCAAAATGCAAGATGC-AATGC-AGATGCAAATCAAAGAT
65965 GCAAAATGCAGATGCAA
62 GC--AATGCAGATGCAA
65982 AATGCAAAGATGCAAATGC-AGATGCAAAATGCAAAGATGCAATGCAGATGCAAATGCAAAGATG
1 AATGC-AAGATGCAAATGCAAGATGCAAAATGC-AAGATGCAATGCAGATGCAAAT-CAAAGATG
66046 CAATGCAGATGCAA
63 CAATGCAGATGCAA
*
66060 AATGCAAAGATGCAAATGC-ATATGCAAAA
1 AATGC-AAGATGCAAATGCAAGATGCAAAA
66089 ATGTTGATCC
Statistics
Matches: 96, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
77 5 0.05
78 61 0.64
79 11 0.11
80 19 0.20
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.17
Consensus pattern (76 bp):
AATGCAAGATGCAAATGCAAGATGCAAAATGCAAGATGCAATGCAGATGCAAATCAAAGATGCAA
TGCAGATGCAA
Found at i:70462 original size:29 final size:28
Alignment explanation
Indices: 70409--70469 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
70399 ATTATAACAG
* *
70409 TGACCTAAATAGAAAAACTATAAATTAA
1 TGACCAAAATAGAAAAACTAAAAATTAA
70437 TGACCAAAATAAGAAAAA-TCAAAAATTAA
1 TGACCAAAAT-AGAAAAACT-AAAAATTAA
70466 -GACC
1 TGACC
70470 CCAAGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.20
Consensus pattern (28 bp):
TGACCAAAATAGAAAAACTAAAAATTAA
Found at i:71852 original size:22 final size:21
Alignment explanation
Indices: 71827--71868 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
71817 GGATTCTACC
71827 TAAAAATCAC-AAAATATATATA
1 TAAAAAT-ACTAAAATA-ATATA
71849 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
71869 CATTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:72266 original size:10 final size:11
Alignment explanation
Indices: 72246--72270 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
72236 ACCCGATTAG
72246 TTTTTATTTTT
1 TTTTTATTTTT
72257 TTTTTATTTTT
1 TTTTTATTTTT
72268 TTT
1 TTT
72271 ATATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:72473 original size:15 final size:15
Alignment explanation
Indices: 72453--72509 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
72443 AACCGGGTAT
72453 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
* **
72468 CGGGTATCCGCAAAATC
1 CGGGTACCCG-ATTA-C
*
72485 CAGGTACCCGATTAC
1 CGGGTACCCGATTAC
72500 CGGGTACCCG
1 CGGGTACCCG
72510 TAACATCCGG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 19 0.59
16 4 0.12
17 9 0.28
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:72595 original size:16 final size:16
Alignment explanation
Indices: 72557--72599 Score: 79
Period size: 15 Copynumber: 2.8 Consensus size: 16
72547 ACCCGGAAGT
72557 TCCGGGTACCCGAAAA
1 TCCGGGTACCCGAAAA
72573 T-CGGGTACCCGAAAA
1 TCCGGGTACCCGAAAA
72588 TCCGGGTACCCG
1 TCCGGGTACCCG
72600 GATTTGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.14
Consensus pattern (16 bp):
TCCGGGTACCCGAAAA
Found at i:77820 original size:24 final size:24
Alignment explanation
Indices: 77793--77844 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
77783 AACGGATATA
*
77793 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
77817 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
77841 TCAA
1 TCAA
77845 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:77845 original size:24 final size:24
Alignment explanation
Indices: 77813--77930 Score: 159
Period size: 24 Copynumber: 4.9 Consensus size: 24
77803 AAACATAAAT
*
77813 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
77837 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
77861 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
77885 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
77909 CATGTCAAGTATCAGATCAGAA
1 CAGGTCAAGTATCAGATCAGAA
77931 ATCAAATCGA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:77947 original size:48 final size:47
Alignment explanation
Indices: 77816--77947 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 47
77806 CATAAATCAG
* *
77816 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAGTCAA--AATCAGATCAGAATCCAA
* * *
77864 GTCAAGTATCAGATCAG-AATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAAGTCA-AAATCAGATCAGAATCCAA
*
77912 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAGTC-AAAATCAG
77948 GTAAAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.06
48 63 0.88
49 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAAATCAAGTCAAAATCAGATCAGAATCCAA
Found at i:80393 original size:15 final size:15
Alignment explanation
Indices: 80373--80406 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
80363 GGTCAACTCC
*
80373 GGTCAACGGTCAACG
1 GGTCAACAGTCAACG
80388 GGTCAACAGTCAACG
1 GGTCAACAGTCAACG
80403 GGTC
1 GGTC
80407 GGGTCGGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.15
Consensus pattern (15 bp):
GGTCAACAGTCAACG
Found at i:80419 original size:18 final size:18
Alignment explanation
Indices: 80396--80433 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
80386 CGGGTCAACA
80396 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
80414 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
80432 GT
1 GT
80434 TGTGACCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.50, T:0.18
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGG
Found at i:82609 original size:24 final size:24
Alignment explanation
Indices: 82582--82633 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
82572 AACGGATATA
*
82582 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
82606 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
82630 TCAA
1 TCAA
82634 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:82634 original size:24 final size:24
Alignment explanation
Indices: 82602--82719 Score: 159
Period size: 24 Copynumber: 4.9 Consensus size: 24
82592 AAACATAAAT
*
82602 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
82626 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
82650 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
82674 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
82698 CATGTCAAGTATCAGATCAGAA
1 CAGGTCAAGTATCAGATCAGAA
82720 ATCAAATCGA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:82736 original size:48 final size:47
Alignment explanation
Indices: 82605--82736 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 47
82595 CATAAATCAG
* *
82605 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAGTCAA--AATCAGATCAGAATCCAA
* * *
82653 GTCAAGTATCAGATCAG-AATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAAGTCA-AAATCAGATCAGAATCCAA
*
82701 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAGTC-AAAATCAG
82737 GTAAAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.06
48 63 0.88
49 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAAATCAAGTCAAAATCAGATCAGAATCCAA
Found at i:85189 original size:8 final size:8
Alignment explanation
Indices: 85169--85215 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
85159 GGTCAACTCC
85169 GGTCAAC-
1 GGTCAACG
85176 GGTCAACG
1 GGTCAACG
85184 GGTCAAC-
1 GGTCAACG
*
85191 AGTCAACG
1 GGTCAACG
85199 GGT---CG
1 GGTCAACG
85204 GGTCAACG
1 GGTCAACG
85212 GGTC
1 GGTC
85216 GGGTCGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
5 5 0.15
7 13 0.39
8 15 0.45
ACGTcount: A:0.23, C:0.26, G:0.36, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:85189 original size:15 final size:15
Alignment explanation
Indices: 85169--85215 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
85159 GGTCAACTCC
85169 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
85184 GGTCAACAGTCAACG
1 GGTCAACGGTCAACG
*
85199 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
85212 GGTC
1 GGTC
85216 GGGTCGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 11 0.38
15 18 0.62
ACGTcount: A:0.23, C:0.26, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:85210 original size:13 final size:13
Alignment explanation
Indices: 85192--85220 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85182 CGGGTCAACA
85192 GTCAACGGGTCGG
1 GTCAACGGGTCGG
85205 GTCAACGGGTCGG
1 GTCAACGGGTCGG
85218 GTC
1 GTC
85221 GGGTTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:87393 original size:24 final size:24
Alignment explanation
Indices: 87366--87417 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
87356 AACGGATATA
*
87366 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
87390 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
87414 TCAA
1 TCAA
87418 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:87418 original size:24 final size:24
Alignment explanation
Indices: 87386--87503 Score: 150
Period size: 24 Copynumber: 4.9 Consensus size: 24
87376 AAACATAAAT
*
87386 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
87410 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
87434 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* *
87458 CATGTC-AGATATCATATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
87482 CATGTCAAGTATCAGATCAGAA
1 CAGGTCAAGTATCAGATCAGAA
87504 ATCAAATCGA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
23 5 0.06
24 77 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:89971 original size:15 final size:15
Alignment explanation
Indices: 89951--89997 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
89941 GGTCAACTCC
*
89951 GGTCAACGGTCAACG
1 GGTCAAAGGTCAACG
*
89966 GGTCAAAAGTCAACG
1 GGTCAAAGGTCAACG
*
89981 GGTC--GGGTCAACG
1 GGTCAAAGGTCAACG
89994 GGTC
1 GGTC
89998 GGGTCAGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAAAGGTCAACG
Found at i:90002 original size:18 final size:18
Alignment explanation
Indices: 89979--90055 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
89969 CAAAAGTCAA
89979 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
89997 CGGGTCAGGTCAA----T
1 CGGGTCGGGTCAACGGGT
90011 -GGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
90028 CTGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
90046 CGGGTCGGGT
1 CGGGTCGGGT
90056 TGTGACCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
17 1 0.02
18 37 0.74
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:90015 original size:31 final size:31
Alignment explanation
Indices: 89974--90051 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
89964 CGGGTCAAAA
89974 GTCAACGGGTCGGGTCAACGGGTCGGGTCAG
1 GTCAACGGGTCGGGTCAACGGGTCGGGTCAG
* * *
90005 GTCAATGGGTCGGGTCAACGGGTCTGGTCGG
1 GTCAACGGGTCGGGTCAACGGGTCGGGTCAG
90036 GTCAACGGGTCGGGTC
1 GTCAACGGGTCGGGTC
90052 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.22, G:0.45, T:0.19
Consensus pattern (31 bp):
GTCAACGGGTCGGGTCAACGGGTCGGGTCAG
Found at i:90051 original size:13 final size:13
Alignment explanation
Indices: 89974--90003 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
89964 CGGGTCAAAA
89974 GTCAACGGGTCGG
1 GTCAACGGGTCGG
89987 GTCAACGGGTCGG
1 GTCAACGGGTCGG
90000 GTCA
1 GTCA
90004 GGTCAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:101871 original size:14 final size:14
Alignment explanation
Indices: 101849--101880 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
101839 TTAACTTTTA
*
101849 TATTTAATAAAATT
1 TATTAAATAAAATT
101863 TATTAAATAAAATT
1 TATTAAATAAAATT
101877 TATT
1 TATT
101881 TAATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTAAATAAAATT
Found at i:106222 original size:254 final size:254
Alignment explanation
Indices: 105820--106582 Score: 1508
Period size: 254 Copynumber: 3.0 Consensus size: 254
105810 TGAGCTTATT
105820 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
1 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
105885 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
66 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
105950 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
131 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
106015 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
196 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
*
106074 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCATAATTGAAAGCTATCAAGAAAGG
1 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
106139 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
66 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
106204 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
131 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
106269 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
196 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
106328 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
1 TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
106393 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
66 CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
106458 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
131 AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
*
106523 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGAGAGGTGGATTCCTAGGAGTTG
196 GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
106582 T
1 T
106583 AACTGCGAGG
Statistics
Matches: 506, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
254 506 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (254 bp):
TCCTTTTCACAGAATGTTGGTTCTAATCCTATCATTCTAGCAGAATTGAAAGCTATCAAGAAAGG
CATCGAAGTCTTTGTCGCCTCGGTTTGGGTTTCGAAGGGGAGACTAATTGTGGAAAGTGACAGCA
AGCAAGCAGTGGATTGGATTCTTGATCAAGCCACAGTTCCTACATTCCTAAGTCAGTTTGTTAAG
GACTTAATGTCTCTAGTATCTTTGCATGATATTATTGTGAGGTGGATTCCTAGGAGTTG
Found at i:123829 original size:33 final size:37
Alignment explanation
Indices: 123782--123868 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 37
123772 TACAATTTTA
*
123782 AAAATAAAAATATTA-AGA-TA-ATTATAT-TTTATT
1 AAAATAAAAATATTATAAATTATATTATATATTTATT
** *
123815 AAAATAAAGTTATTATAAATTATATTATTTATTTATT
1 AAAATAAAAATATTATAAATTATATTATATATTTATT
*
123852 AAAATAAAAATAATATA
1 AAAATAAAAATATTATA
123869 TTATTAATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 13 0.30
34 2 0.05
35 2 0.05
36 6 0.14
37 20 0.47
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAATAAAAATATTATAAATTATATTATATATTTATT
Found at i:124008 original size:27 final size:27
Alignment explanation
Indices: 123978--124039 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
123968 TTAAATATTT
*
123978 AATAATTTAATAATA-TTATTTTTATAA
1 AATAATTTAATAATATTTAATTTTAT-A
*
124005 AATAA-TTAATAATATTTAATTTTATT
1 AATAATTTAATAATATTTAATTTTATA
124031 AATAATTTA
1 AATAATTTA
124040 TTATAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATAATTTAATAATATTTAATTTTATA
Found at i:124020 original size:26 final size:26
Alignment explanation
Indices: 123978--124037 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
123968 TTAAATATTT
*
123978 AATAATTTAATAATA-TTATTTTTATAA
1 AATAA-TTAATAATATTTAATTTTAT-A
*
124005 AATAATTAATAATATTTAATTTTATT
1 AATAATTAATAATATTTAATTTTATA
124031 AATAATT
1 AATAATT
124038 TATTATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AATAATTAATAATATTTAATTTTATA
Found at i:124104 original size:48 final size:49
Alignment explanation
Indices: 124013--124105 Score: 113
Period size: 48 Copynumber: 1.9 Consensus size: 49
124003 AAAATAATTA
* *
124013 ATAATATTTAATTTTATTAATAATTTATTATAATTACTAAATTAAAAGT
1 ATAATATTTAATATTATTAATAATTTATTATAATTAATAAATTAAAAGT
124062 ATAATA-TTATATATTA-TAATAATTTAATT-TAATTTAAT-AATTAA
1 ATAATATTTA-ATATTATTAATAATTT-ATTATAA-TTAATAAATTAA
124106 TATTTTTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (49 bp):
ATAATATTTAATATTATTAATAATTTATTATAATTAATAAATTAAAAGT
Found at i:124138 original size:65 final size:64
Alignment explanation
Indices: 124013--124138 Score: 139
Period size: 65 Copynumber: 2.0 Consensus size: 64
124003 AAAATAATTA
* * * * *
124013 ATAATATTTAATTTTATTAATAATTTATTATAATTACTAAATTAAAAGTATAATATTATATATT
1 ATAATATTTAATTTAATTAATAATTTAATATAATTACTAAATGAAAAGTAAAATAATATATATT
** *
124077 ATAATAATTTAATTTAATTTAATAA-TTAATATTTTTACTGAAATGATAA-TAAAATAATATAT
1 ATAAT-ATTTAATTTAA-TTAATAATTTAATATAATTACT-AAATGAAAAGTAAAATAATATAT
124139 TAATATTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
64 5 0.10
65 32 0.63
66 14 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (64 bp):
ATAATATTTAATTTAATTAATAATTTAATATAATTACTAAATGAAAAGTAAAATAATATATATT
Found at i:127229 original size:24 final size:23
Alignment explanation
Indices: 127201--127283 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 23
127191 TTAAACAATT
127201 AAATAATAAAAACATTAAGAAAC
1 AAATAATAAAAACATTAAGAAAC
** * **
127224 ACAATAAATAAAATA-ATCCATAATT
1 A-AAT-AATAAAA-ACATTAAGAAAC
127249 AAATAATAAAAACATTAAGAAAC
1 AAATAATAAAAACATTAAGAAAC
*
127272 AAAAAAATAAAA
1 -AAATAATAAAA
127284 GTTCATAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.02
23 13 0.30
24 16 0.36
25 13 0.30
26 1 0.02
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.19
Consensus pattern (23 bp):
AAATAATAAAAACATTAAGAAAC
Found at i:127279 original size:42 final size:41
Alignment explanation
Indices: 127197--127367 Score: 147
Period size: 42 Copynumber: 3.9 Consensus size: 41
127187 CAATTTAAAC
127197 AATTAAATAATAAAAACATTAAGAAACACAATAAATAAAATAATCCAT
1 AATTAAATAATAAAAACATTAAG-AA-AC---AAA-AAAATAAT-CAT
127245 AATTAAATAATAAAAACATTAAGAAACAAAAAAATAAAAGTTCAT
1 AATTAAATAATAAAAACATTAAGAAACAAAAAAAT--AA--TCAT
127290 AATT--A-AATAAAAACATTAAGAAACAAAAAAATAA--A-
1 AATTAAATAATAAAAACATTAAGAAACAAAAAAATAATCAT
127325 AAGTTTATAATTAAATAAAAACATTAAGAAACAAAATAAATAA
1 AA--TTA-AA-T-AATAAAAACATTAAGAAACAAAA-AAATAA
127368 AAATAAGTCT
Statistics
Matches: 110, Mismatches: 0, Indels: 30
0.79 0.00 0.21
Matches are distributed among these distances:
35 2 0.02
36 1 0.01
37 2 0.02
40 3 0.03
42 32 0.29
43 27 0.25
44 8 0.07
45 7 0.06
46 3 0.03
47 2 0.02
48 23 0.21
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (41 bp):
AATTAAATAATAAAAACATTAAGAAACAAAAAAATAATCAT
Found at i:127335 original size:43 final size:43
Alignment explanation
Indices: 127205--127370 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
127195 ACAATTAAAT
* * *
127205 AATAAAAACATTAAGAAACACAATAAATAAAATAATCCATAATTAAA
1 AATAAAAACATTAAGAAACA-AAAAAATAAAA-AGTTCATAATT--A
127252 TAATAAAAACATTAAGAAACAAAAAAAT-AAAAGTTCATAATTA
1 -AATAAAAACATTAAGAAACAAAAAAATAAAAAGTTCATAATTA
*
127295 AATAAAAACATTAAGAAACAAAAAAATAAAAAGTTTATAATTA
1 AATAAAAACATTAAGAAACAAAAAAATAAAAAGTTCATAATTA
127338 AATAAAAACATTAAGAAACAAAATAAATAAAAA
1 AATAAAAACATTAAGAAACAAAA-AAATAAAAA
127371 TAAGTCTATT
Statistics
Matches: 112, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
42 27 0.24
43 38 0.34
44 9 0.08
45 9 0.08
46 3 0.03
47 6 0.05
48 20 0.18
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (43 bp):
AATAAAAACATTAAGAAACAAAAAAATAAAAAGTTCATAATTA
Found at i:127699 original size:18 final size:18
Alignment explanation
Indices: 127676--127728 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
127666 AAATTAACAC
127676 AATAAAATATAATAAAAT
1 AATAAAATATAATAAAAT
127694 AATAAAATAT--T-AAAT
1 AATAAAATATAATAAAAT
*
127709 AATTATAATATAATGAAAAT
1 AA-TAAAATATAAT-AAAAT
127729 TTTAGCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.21
16 8 0.28
18 11 0.38
20 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AATAAAATATAATAAAAT
Found at i:131229 original size:24 final size:24
Alignment explanation
Indices: 131197--131253 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
131187 CTCGACTTAC
131197 TTATCTTTGTATGTGATTGAAAAG
1 TTATCTTTGTATGTGATTGAAAAG
131221 TTATCTTTGTATGTGATTGAAAAG
1 TTATCTTTGTATGTGATTGAAAAG
131245 TTATCTTTG
1 TTATCTTTG
131254 CCTCTGGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.49
Consensus pattern (24 bp):
TTATCTTTGTATGTGATTGAAAAG
Found at i:132611 original size:19 final size:19
Alignment explanation
Indices: 132564--132612 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
132554 TTTTTCTTTT
132564 AATTTTTTAAAAATAAAAA
1 AATTTTTTAAAAATAAAAA
* **
132583 TATTACTTAAAAA-AAAAGA
1 AATTTTTTAAAAATAAAA-A
132602 AATTTTTTAAA
1 AATTTTTTAAA
132613 GAATCAACCT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTTTTAAAAATAAAAA
Found at i:140383 original size:13 final size:13
Alignment explanation
Indices: 140365--140392 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
140355 CCCTTACCCC
140365 ATTACATATGGGA
1 ATTACATATGGGA
140378 ATTACATATGGGA
1 ATTACATATGGGA
140391 AT
1 AT
140393 AAGAGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (13 bp):
ATTACATATGGGA
Found at i:144049 original size:32 final size:32
Alignment explanation
Indices: 143954--144055 Score: 111
Period size: 31 Copynumber: 3.2 Consensus size: 32
143944 CAGAAAAACC
*
143954 TAGGTAAAA-TGTCCATATGTTCCTTAGAACA
1 TAGGTAAAACTGTCCATATGTTCCATAGAACA
* * * *
143985 TAGGT-ATACGGTCCATATGTCTCGAAAG-ACA
1 TAGGTAAAACTGTCCATATGT-TCCATAGAACA
*
144016 TAGGTAAAACTATCCATATGTTCCATAGAACA
1 TAGGTAAAACTGTCCATATGTTCCATAGAACA
*
144048 TAAGTAAA
1 TAGGTAAA
144056 CCCTCGACTC
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
30 2 0.04
31 28 0.50
32 26 0.46
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (32 bp):
TAGGTAAAACTGTCCATATGTTCCATAGAACA
Found at i:144913 original size:24 final size:20
Alignment explanation
Indices: 144857--144914 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
144847 TTCCCCTTGA
144857 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
144877 AGTACATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
144900 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
144915 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:148148 original size:2 final size:2
Alignment explanation
Indices: 148141--148179 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
148131 ATATAATAAA
148141 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
148180 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:148391 original size:31 final size:31
Alignment explanation
Indices: 148353--148480 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
148343 GAACCTCGGC
* *
148353 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
148384 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* *
148415 TACGGTCCATATG-TCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGT-A
*
148447 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
148478 AAC
1 AAC
148481 CCTCGACTCT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
30 3 0.04
31 52 0.64
32 23 0.28
33 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:149414 original size:64 final size:63
Alignment explanation
Indices: 149326--149488 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
149316 TCTTTAACAT
* * *
149326 GTGCATCGATGAACTACC-ATTGCATCGATACACCAATCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTA-TGCATCGATACACCAATCACATTCGATGTTTCCATTTTTAA-GG
149389 G
63 G
* * ** *
149390 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTTTAATG
1 GTGCATCGATGCACTCC-TATGCATCGATACACCAATCACATTCGATGTTTCCA--TTTTTAAGG
149455 G
63 G
149456 GTGCATCGATGCACTTCCTATGCATCGATACAC
1 GTGCATCGATGCAC-TCCTATGCATCGATACAC
149489 ACTAAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
63 2 0.02
64 42 0.50
65 1 0.01
66 30 0.36
67 9 0.11
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACCAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:150501 original size:75 final size:75
Alignment explanation
Indices: 150339--150551 Score: 250
Period size: 75 Copynumber: 2.8 Consensus size: 75
150329 CAATTCAAAG
* * * * *
150339 CCAAAAATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGA
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAA
**
150404 ATGGTTTGGCT
65 ACAGTTTGGCT
* *
150415 CCGAGATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
* * *
150480 CATTTTTGTT
66 CAGTTTGGCT
* * * *
150490 CCAAGAATTCCAGTATGCTCGGAGGGAACCGATTCATCCC--AGGGGGTACCGATTCCCCCCTA
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTC-CCCCATAGGAGGAACCGATTCCCCCCTA
150552 TTCAACGGTC
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 20 0.17
75 67 0.57
76 31 0.26
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (75 bp):
CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
CAGTTTGGCT
Found at i:156391 original size:21 final size:21
Alignment explanation
Indices: 156365--156404 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
156355 CCCCCTTTGA
*
156365 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
156386 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
156405 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:159133 original size:75 final size:75
Alignment explanation
Indices: 158984--159191 Score: 274
Period size: 75 Copynumber: 2.8 Consensus size: 75
158974 CAAAGCCAAA
* * * * **
158984 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
159049 TTGGCTCCGAG
65 TTGGCTCCGAG
* *
159060 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
159125 TTGTTCCGAG
66 TGGCTCCGAG
* * * *
159135 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCC-CAGGGGGTACCGATTCCCCCCTA
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTA
159192 TTCAACGGTC
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
74 20 0.17
75 72 0.62
76 25 0.21
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:162371 original size:2 final size:2
Alignment explanation
Indices: 162364--162604 Score: 482
Period size: 2 Copynumber: 120.5 Consensus size: 2
162354 ATATAATAAA
162364 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
162406 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
162448 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
162490 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
162532 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
162574 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
162605 TATATATATA
Statistics
Matches: 239, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 239 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:162609 original size:2 final size:2
Alignment explanation
Indices: 162604--162650 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
162594 ACACACACAC
162604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
162647 AT AT
1 AT AT
162651 GTTATATTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:162921 original size:32 final size:31
Alignment explanation
Indices: 162801--162928 Score: 125
Period size: 31 Copynumber: 4.1 Consensus size: 31
162791 GAACCTCGGT
* * * * *
162801 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
162832 AACTGTCCATATATTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* * *
162863 TACGGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
162895 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
162926 AAC
1 AAC
162929 CCTTGACTCT
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
30 4 0.05
31 47 0.61
32 22 0.29
33 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:163136 original size:21 final size:21
Alignment explanation
Indices: 163084--163139 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
163074 GTTCATGTAC
*
163084 TTATGTCATATCATCACGTCAT
1 TTATGTCACAT-ATCACGTCAT
*
163106 TCACTGTCACATATCACGT-AGT
1 TTA-TGTCACATATCACGTCA-T
163128 TTATGTCACATA
1 TTATGTCACATA
163140 ACTTGCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.34
22 12 0.41
23 7 0.24
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (21 bp):
TTATGTCACATATCACGTCAT
Found at i:163785 original size:24 final size:20
Alignment explanation
Indices: 163728--163785 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
163718 TTCCTCTTGA
163728 AGTACATCGATGCATTCTAC
1 AGTACATCGATGCATTCTAC
*
163748 AGTATATCGATGCATTCTTTAAC
1 AGTACATCGATGCATTC--T-AC
163771 ATGTACATCGATGCA
1 A-GTACATCGATGCA
163786 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (20 bp):
AGTACATCGATGCATTCTAC
Found at i:164471 original size:13 final size:13
Alignment explanation
Indices: 164453--164478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
164443 CTTCCACATG
164453 AAGGAGAAGAAGA
1 AAGGAGAAGAAGA
164466 AAGGAGAAGAAGA
1 AAGGAGAAGAAGA
164479 GAACTCTGGA
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:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGGAGAAGAAGA
Found at i:168874 original size:25 final size:25
Alignment explanation
Indices: 168841--168897 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
168831 GAGTTGGGTT
* *
168841 TCTCAACTACAGAAGATAGTTGCTC
1 TCTCCACTACAGAAGATAATTGCTC
168866 TCTCCACTACAGAAGATAATTGCTC
1 TCTCCACTACAGAAGATAATTGCTC
168891 TCTCCAC
1 TCTCCAC
168898 AACTGAAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (25 bp):
TCTCCACTACAGAAGATAATTGCTC
Found at i:168905 original size:25 final size:25
Alignment explanation
Indices: 168849--168905 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
168839 TTTCTCAACT
* *
168849 ACAGAAGATAGTTGCTCTCTCCACT
1 ACAGAAGATAATTGCTCTCTCCACA
168874 ACAGAAGATAATTGCTCTCTCCACA
1 ACAGAAGATAATTGCTCTCTCCACA
*
168899 ACTGAAG
1 ACAGAAG
168906 CAGAATATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (25 bp):
ACAGAAGATAATTGCTCTCTCCACA
Found at i:170136 original size:22 final size:22
Alignment explanation
Indices: 170111--170154 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
170101 CTAACACCCC
*
170111 AAAAGAAAAGAA-AAGAGGGAAA
1 AAAACAAAAGAATAAG-GGGAAA
*
170133 AAAACAAGAGAATAAGGGGAAA
1 AAAACAAAAGAATAAGGGGAAA
170155 CCTATAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (22 bp):
AAAACAAAAGAATAAGGGGAAA
Found at i:173407 original size:38 final size:38
Alignment explanation
Indices: 173365--173450 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
173355 CCAAAACGAA
173365 AAGTTGAGATTTGGAAGGATACAAGCAGGGTTAAGTTG
1 AAGTTGAGATTTGGAAGGATACAAGCAGGGTTAAGTTG
*
173403 AAGTTGAGATTTGGAAGGATCCAAGCAGGGTTAAGTTG
1 AAGTTGAGATTTGGAAGGATACAAGCAGGGTTAAGTTG
*
173441 AAGGTGAGAT
1 AAGTTGAGAT
173451 CTCCATACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.34, C:0.06, G:0.35, T:0.26
Consensus pattern (38 bp):
AAGTTGAGATTTGGAAGGATACAAGCAGGGTTAAGTTG
Found at i:174677 original size:16 final size:15
Alignment explanation
Indices: 174656--174714 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
174646 TTTTTTATTA
174656 ATATATTTATGTAAAT
1 ATATATTTAT-TAAAT
174672 ATATATTTTTATTAAA-
1 ATATA--TTTATTAAAT
*
174688 ATAATATTTATATAATT
1 AT-ATATTTAT-TAAAT
174705 AT-TATTTATT
1 ATATATTTATT
174715 TAGAATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 1 0.03
15 12 0.32
16 10 0.27
17 9 0.24
18 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATATATTTATTAAAT
Found at i:174677 original size:18 final size:16
Alignment explanation
Indices: 174656--174698 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
174646 TTTTTTATTA
174656 ATATATTTATGTAAATAT
1 ATATATTTAT-TAAA-AT
*
174674 ATATTTTTATTAAAAT
1 ATATATTTATTAAAAT
174690 A-ATATTTAT
1 ATATATTTAT
174699 ATAATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 3 0.13
17 4 0.17
18 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTATTAAAAT
Done.