Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003533.1 Hibiscus syriacus cultivar Beakdansim tig00007456_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: 117465
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:442 original size:22 final size:22
Alignment explanation
Indices: 416--457 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
406 TACATTTATA
416 ATATTTATAATAATATAATATT
1 ATATTTATAATAATATAATATT
* *
438 ATATTTTTAATATTATAATA
1 ATATTTATAATAATATAATA
458 AAAAAGCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATTTATAATAATATAATATT
Found at i:456 original size:8 final size:8
Alignment explanation
Indices: 411--457 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
401 TAAAATACAT
411 TTATAATA
1 TTATAATA
419 TTTATAATA
1 -TTATAATA
*
428 ATATAATA
1 TTATAATA
436 TTAT-AT-
1 TTATAATA
*
442 TTTTAATA
1 TTATAATA
450 TTATAATA
1 TTATAATA
458 AAAAAGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.09
7 4 0.12
8 17 0.53
9 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTATAATA
Found at i:496 original size:27 final size:27
Alignment explanation
Indices: 466--517 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
456 TAAAAAAGCA
466 ATATATTATAATAATAATATATATATT
1 ATATATTATAATAATAATATATATATT
* **
493 ATATTTTATTTTAATAATATATATA
1 ATATATTATAATAATAATATATATA
518 ATATTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATATTATAATAATAATATATATATT
Found at i:524 original size:18 final size:18
Alignment explanation
Indices: 503--542 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
493 ATATTTTATT
*
503 TTAATAATATATATAATA
1 TTAATAAAATATATAATA
* *
521 TTAATAAAATTTATATTA
1 TTAATAAAATATATAATA
539 TTAA
1 TTAA
543 CTTCATAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATAAAATATATAATA
Found at i:584 original size:26 final size:26
Alignment explanation
Indices: 551--613 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
541 AACTTCATAG
551 AAATATATTATTA-AATTATTAATAAT
1 AAATATATT-TTATAATTATTAATAAT
*
577 AAATATATTTTATATTTATTAAT-AT
1 AAATATATTTTATAATTATTAATAAT
602 -AATAATATTTTA
1 AAAT-ATATTTTA
614 ATAAAGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.09
25 13 0.38
26 18 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATATATTTTATAATTATTAATAAT
Found at i:983 original size:14 final size:14
Alignment explanation
Indices: 918--984 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 14
908 TAAACATCGT
* *
918 AAAATATATTTCAA
1 AAAATATTTTTTAA
932 AAAATATTTTTTAA
1 AAAATATTTTTTAA
946 ATAATATAATTTATTTTATGA
1 A-AA-AT-A-TT-TTTTA--A
967 AAAATATTTTTTAA
1 AAAATATTTTTTAA
981 AAAA
1 AAAA
985 CGTTTCAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
14 18 0.41
15 2 0.05
16 7 0.16
17 3 0.07
18 3 0.07
19 7 0.16
20 2 0.05
21 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (14 bp):
AAAATATTTTTTAA
Found at i:7442 original size:50 final size:50
Alignment explanation
Indices: 7367--7469 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
7357 ACCAAATCAA
*
7367 TGACACTTTTAAGGGCATTTAAAAGCCACAACTAAGGCTTGAAAATGCTT
1 TGACACTTTTAAGGGCATTTAAAAGCCACAACTAAGGCATGAAAATGCTT
7417 TGACACTTTTAAGGGCATTTAAAAGCCACAACTAAGGCATGAAAATGCTT
1 TGACACTTTTAAGGGCATTTAAAAGCCACAACTAAGGCATGAAAATGCTT
7467 TGA
1 TGA
7470 ATCTCACTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (50 bp):
TGACACTTTTAAGGGCATTTAAAAGCCACAACTAAGGCATGAAAATGCTT
Found at i:23890 original size:55 final size:54
Alignment explanation
Indices: 23788--23908 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 54
23778 AAAATGACTG
* * *
23788 AGCACCTCTGTGCTTTGGGATGATTGAGCACCTCTGTGCTTTAATCTACGATCT
1 AGCACATCTGTGCTTTAGGATGATTGAGCACCTCTGTGCTTTAATCTACAATCT
* * * * *
23842 GGCACATCTGTGCTTTTAGGATGATTGAGCACCTTTGTG-TTTCGATCTATAATTT
1 AGCACATCTGTGC-TTTAGGATGATTGAGCACCTCTGTGCTTT-AATCTACAATCT
23897 AGCACATCTGTG
1 AGCACATCTGTG
23909 TATTAAAGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
54 14 0.25
55 42 0.75
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (54 bp):
AGCACATCTGTGCTTTAGGATGATTGAGCACCTCTGTGCTTTAATCTACAATCT
Found at i:23935 original size:57 final size:57
Alignment explanation
Indices: 23807--24022 Score: 179
Period size: 57 Copynumber: 3.8 Consensus size: 57
23797 GTGCTTTGGG
* * * * * ** *
23807 ATGATTGAGCACCTCTGTGCTTTAATCTACG-ATCTGGCACATCTGTGC-TTTTAG-G
1 ATGATTGAGCACCTTTGTGCATCAATCTATGAAT-TAGCACATCTGTGCATTAAAGAA
** * *
23862 ATGATTGAGCACCTTTGTGTTTCGATCTAT-AATTTAGCACATCTGTGTATTAAAGAA
1 ATGATTGAGCACCTTTGTGCATCAATCTATGAA-TTAGCACATCTGTGCATTAAAGAA
* * * *
23919 ATGATTAAGCACCTTTGTGCATCAATCTTTGAATTGGCACCTCTGTGCATTAAAGAA
1 ATGATTGAGCACCTTTGTGCATCAATCTATGAATTAGCACATCTGTGCATTAAAGAA
* * * * * * *
23976 ATGATTGAGCACCTCTATTCATCAATCTTTAAATTGGCACCTCTGTG
1 ATGATTGAGCACCTTTGTGCATCAATCTATGAATTAGCACATCTGTG
24023 TATTTACCAC
Statistics
Matches: 133, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
55 38 0.29
56 5 0.04
57 88 0.66
58 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (57 bp):
ATGATTGAGCACCTTTGTGCATCAATCTATGAATTAGCACATCTGTGCATTAAAGAA
Found at i:23982 original size:28 final size:28
Alignment explanation
Indices: 23898--23991 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 28
23888 CTATAATTTA
* * *
23898 GCACATCTGTGTATTAAAGAAATGATTAA
1 GCACCTCTGTGCATTAAAGAAATGATT-G
* * ****
23927 GCACCTTTGTGCA-TCAATCTTTGAATTG
1 GCACCTCTGTGCATTAAAGAAATG-ATTG
23955 GCACCTCTGTGCATTAAAGAAATGATTG
1 GCACCTCTGTGCATTAAAGAAATGATTG
23983 AGCACCTCT
1 -GCACCTCT
23992 ATTCATCAAT
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (28 bp):
GCACCTCTGTGCATTAAAGAAATGATTG
Found at i:27838 original size:2 final size:2
Alignment explanation
Indices: 27831--27871 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27821 GATAAAACTA
27831 AT AT AT AT 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 AT AT AT AT A
27872 AAGAATTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28315 original size:160 final size:160
Alignment explanation
Indices: 28051--28372 Score: 644
Period size: 160 Copynumber: 2.0 Consensus size: 160
28041 AAATAAATAG
28051 ATAATTTTTTAAATATCATAATTCGTCTGTGCATGCCAAATCAGATTTTATGGAAGGAAATTGCC
1 ATAATTTTTTAAATATCATAATTCGTCTGTGCATGCCAAATCAGATTTTATGGAAGGAAATTGCC
28116 GTAGTGGTTAACGAAAAATAATTCATTTATAAAATTGAGAAAAATGATTTGTATGACATTAAGGA
66 GTAGTGGTTAACGAAAAATAATTCATTTATAAAATTGAGAAAAATGATTTGTATGACATTAAGGA
28181 CTTCGATACAATACATGTTCCGAACAAACA
131 CTTCGATACAATACATGTTCCGAACAAACA
28211 ATAATTTTTTAAATATCATAATTCGTCTGTGCATGCCAAATCAGATTTTATGGAAGGAAATTGCC
1 ATAATTTTTTAAATATCATAATTCGTCTGTGCATGCCAAATCAGATTTTATGGAAGGAAATTGCC
28276 GTAGTGGTTAACGAAAAATAATTCATTTATAAAATTGAGAAAAATGATTTGTATGACATTAAGGA
66 GTAGTGGTTAACGAAAAATAATTCATTTATAAAATTGAGAAAAATGATTTGTATGACATTAAGGA
28341 CTTCGATACAATACATGTTCCGAACAAACA
131 CTTCGATACAATACATGTTCCGAACAAACA
28371 AT
1 AT
28373 TAACTCTAAA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 162 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (160 bp):
ATAATTTTTTAAATATCATAATTCGTCTGTGCATGCCAAATCAGATTTTATGGAAGGAAATTGCC
GTAGTGGTTAACGAAAAATAATTCATTTATAAAATTGAGAAAAATGATTTGTATGACATTAAGGA
CTTCGATACAATACATGTTCCGAACAAACA
Found at i:30262 original size:21 final size:20
Alignment explanation
Indices: 30215--30267 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
30205 ATATTTTTAA
* *
30215 TTTTTTATAAATAAAAAATAT
1 TTTTTTA-AAAGAAAAAAGAT
30236 TATTTTCTAAAAGAAAAAAGAT
1 T-TTTT-TAAAAGAAAAAAGAT
30258 TTTTTTAAAA
1 TTTTTTAAAA
30268 ATAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.18
21 5 0.18
22 16 0.57
23 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TTTTTTAAAAGAAAAAAGAT
Found at i:30701 original size:22 final size:21
Alignment explanation
Indices: 30674--30724 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
30664 TATTTAAAAA
*
30674 ATTTTTTTATAAAAAATATATTT
1 ATTTTTTAAT-AAAAATAT-TTT
30697 ATTTTTTAATAAAAATATTTT
1 ATTTTTTAATAAAAATATTTT
30718 ATTTTTT
1 ATTTTTT
30725 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 10 0.37
22 8 0.30
23 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTAATAAAAATATTTT
Found at i:30725 original size:22 final size:24
Alignment explanation
Indices: 30674--30726 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
30664 TATTTAAAAA
30674 ATTTTTTT-ATAAAAAATATATTT
1 ATTTTTTTAATAAAAAATATATTT
30697 A-TTTTTTAAT-AAAAATAT-TTT
1 ATTTTTTTAATAAAAAATATATTT
30718 ATTTTTTTA
1 ATTTTTTTA
30727 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.14
22 21 0.75
23 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTTTTAATAAAAAATATATTT
Found at i:38779 original size:77 final size:77
Alignment explanation
Indices: 38693--38845 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
38683 CAATAATCAA
* * * *
38693 CACATCAAACACCTTGGAAATTAAAATAACACATCAAGAACACATCCAAAACAGAGTAGAATTTT
1 CACATCAAACACCTTGAAAAGTAAAATAACACATCAAGAACACATCCAAAACAGAGCAAAATTTT
38758 CTATTTCCAAAC
66 CTATTTCCAAAC
*
38770 CACATCAAACACCTTGAAAAGTAAAATAACACATCAAGAACACATCCAAAACATAGCAAAATTTT
1 CACATCAAACACCTTGAAAAGTAAAATAACACATCAAGAACACATCCAAAACAGAGCAAAATTTT
*
38835 CTGTTTCCAAA
66 CTATTTCCAAA
38846 ATAGAACGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.22
Consensus pattern (77 bp):
CACATCAAACACCTTGAAAAGTAAAATAACACATCAAGAACACATCCAAAACAGAGCAAAATTTT
CTATTTCCAAAC
Found at i:39352 original size:22 final size:23
Alignment explanation
Indices: 39327--39386 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
39317 ATAGCAACAC
*
39327 CAAAGAGATAAGGACAAAAT-GA
1 CAAAGAGATAAGAACAAAATGGA
* *
39349 CAAAGAGAAAAGAAGAAAATGGA
1 CAAAGAGATAAGAACAAAATGGA
39372 -AAAGAGATAA-AACAA
1 CAAAGAGATAAGAACAA
39387 TCTTGATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.12
22 26 0.81
23 2 0.06
ACGTcount: A:0.65, C:0.07, G:0.22, T:0.07
Consensus pattern (23 bp):
CAAAGAGATAAGAACAAAATGGA
Found at i:54105 original size:17 final size:18
Alignment explanation
Indices: 54083--54117 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
54073 AATTTCATGC
54083 AATTTTAT-GCTTTATAT
1 AATTTTATAGCTTTATAT
*
54100 AATTTTATATCTTTATAT
1 AATTTTATAGCTTTATAT
54118 GCATGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
AATTTTATAGCTTTATAT
Found at i:56418 original size:25 final size:26
Alignment explanation
Indices: 56369--56419 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
56359 ACATTTATGT
*
56369 TATTTGGATATTTGATGTTTATTTTG
1 TATTTGGATACTTGATGTTTATTTTG
*
56395 TATTTGG-TACTTGAATGTTTTTTTT
1 TATTTGGATACTTG-ATGTTTATTTT
56420 TTTGTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.63
Consensus pattern (26 bp):
TATTTGGATACTTGATGTTTATTTTG
Found at i:57826 original size:20 final size:23
Alignment explanation
Indices: 57778--57832 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
57768 ATACCCAGGA
57778 AAGTATCGATAC-CACATACTAG
1 AAGTATCGATACTCACATACTAG
57800 AAGTATCGATACTCA-A-ACTAG
1 AAGTATCGATACTCACATACTAG
57821 -AGTATCGATACT
1 AAGTATCGATACT
57833 AGCCCTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.38
21 5 0.16
22 13 0.41
23 2 0.06
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (23 bp):
AAGTATCGATACTCACATACTAG
Found at i:57889 original size:20 final size:20
Alignment explanation
Indices: 57864--57909 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
57854 AATAAGTCAA
57864 TAGTATCAATACCAAGAGGT
1 TAGTATCAATACCAAGAGGT
* *
57884 TAGTATCGATACCTAGAGGT
1 TAGTATCAATACCAAGAGGT
57904 TAGTAT
1 TAGTAT
57910 TTATATTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (20 bp):
TAGTATCAATACCAAGAGGT
Found at i:58898 original size:18 final size:18
Alignment explanation
Indices: 58875--58932 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
58865 CATTGGTTAG
58875 TTGTTGTCTTAGTTCATA
1 TTGTTGTCTTAGTTCATA
* * *
58893 TTGTTGCACTGA-TT--TG
1 TTGTTG-TCTTAGTTCATA
*
58909 TTGTTATCTTAGTTCATA
1 TTGTTGTCTTAGTTCATA
58927 TTGTTG
1 TTGTTG
58933 CACTGATTTA
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
15 3 0.11
16 8 0.29
18 14 0.50
19 3 0.11
ACGTcount: A:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (18 bp):
TTGTTGTCTTAGTTCATA
Found at i:58941 original size:34 final size:34
Alignment explanation
Indices: 58859--58941 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
58849 TTATTTGCAT
* * * *
58859 TTGTTGCATTGGTTAGTTGTTGTCTTAGTTCATA
1 TTGTTGCACTGATTTGTTGTTATCTTAGTTCATA
58893 TTGTTGCACTGATTTGTTGTTATCTTAGTTCATA
1 TTGTTGCACTGATTTGTTGTTATCTTAGTTCATA
58927 TTGTTGCACTGATTT
1 TTGTTGCACTGATTT
58942 ATGTAATCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (34 bp):
TTGTTGCACTGATTTGTTGTTATCTTAGTTCATA
Found at i:62228 original size:36 final size:36
Alignment explanation
Indices: 62121--62228 Score: 162
Period size: 36 Copynumber: 3.0 Consensus size: 36
62111 AAAATTGTCA
* * * *
62121 TTTCCAATACTAGTGGAATAACCTAATTTAAGCATA
1 TTTCTAATACTAGTGGGATAACCTAATTTGAGCATT
*
62157 TTTCTAATGCTAGTGGGATAACCTAATTTGAGCATT
1 TTTCTAATACTAGTGGGATAACCTAATTTGAGCATT
*
62193 TTTTTAATACTAGTGGGATAACCTAATTTGAGCATT
1 TTTCTAATACTAGTGGGATAACCTAATTTGAGCATT
62229 ATCAACATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (36 bp):
TTTCTAATACTAGTGGGATAACCTAATTTGAGCATT
Found at i:67962 original size:23 final size:22
Alignment explanation
Indices: 67911--68037 Score: 124
Period size: 23 Copynumber: 5.9 Consensus size: 22
67901 TAAACCCGAT
67911 AGGGGGTATCGATACC-A-T-A
1 AGGGGGTATCGATACCTATTCA
67930 AGGGGGTATCGATA-CTCATTCA
1 AGGGGGTATCGATACCT-ATTCA
* *
67952 GAGAGGGTATCGATACCTACTCA
1 -AGGGGGTATCGATACCTATTCA
*
67975 A-GGGGTATCGATACCTATTTAA
1 AGGGGGTATCGATACCTA-TTCA
*
67997 AGGGGGTATCGATACCTGTAT-A
1 AGGGGGTATCGATACCTAT-TCA
68019 A-GGGGTATCGATACTCTAT
1 AGGGGGTATCGATAC-CTAT
68038 GCACAAAAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.01
19 14 0.15
20 1 0.01
21 29 0.32
22 11 0.12
23 33 0.36
24 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (22 bp):
AGGGGGTATCGATACCTATTCA
Found at i:67988 original size:44 final size:43
Alignment explanation
Indices: 67914--68037 Score: 155
Period size: 44 Copynumber: 2.8 Consensus size: 43
67904 ACCCGATAGG
*
67914 GGGTATCGATACC-ATAAGGGGGTATCGATACTC-ATTCAGAGA
1 GGGTATCGATACCTATAA-GGGGTATCGATACTCTATTCAAAGA
* *
67956 GGGTATCGATACCTACTCAAGGGGTATCGATAC-CTATTTAAAGG
1 GGGTATCGATACCTA-T-AAGGGGTATCGATACTCTATTCAAAGA
68000 GGGTATCGATACCTGTATAAGGGGTATCGATACTCTAT
1 GGGTATCGATACC--TATAAGGGGTATCGATACTCTAT
68038 GCACAAAAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
42 13 0.18
43 2 0.03
44 48 0.67
45 7 0.10
46 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
GGGTATCGATACCTATAAGGGGTATCGATACTCTATTCAAAGA
Found at i:70763 original size:7 final size:7
Alignment explanation
Indices: 70751--70977 Score: 73
Period size: 7 Copynumber: 32.9 Consensus size: 7
70741 TTCATTTTTA
70751 TTAAACC
1 TTAAACC
70758 TTAAACC
1 TTAAACC
* *
70765 CTAAATCA
1 TTAAA-CC
*
70773 TAAAACC
1 TTAAACC
*
70780 ATAAACC
1 TTAAACC
70787 TTAAACC
1 TTAAACC
*
70794 -TAAGCC
1 TTAAACC
*
70800 TTAAACA
1 TTAAACC
*
70807 TTAGACC
1 TTAAACC
* *
70814 CTAAGCC
1 TTAAACC
*
70821 CTAAACC
1 TTAAACC
* *
70828 CTAAGGCC
1 TTAA-ACC
70836 -TAAA-C
1 TTAAACC
* *
70841 ATGAACC
1 TTAAACC
70848 TTAAACC
1 TTAAACC
70855 -TAAA--
1 TTAAACC
70859 TGTAAA-C
1 T-TAAACC
70866 TTAAAACAC
1 TT-AAAC-C
70875 -TAAACC
1 TTAAACC
*
70881 CTAAA-C
1 TTAAACC
70887 TATAAACC
1 T-TAAACC
70895 TTAAACC
1 TTAAACC
*
70902 CTAAACC
1 TTAAACC
*
70909 ATAAACC
1 TTAAACC
*
70916 CTAAA-C
1 TTAAACC
*
70922 TACAAACC
1 T-TAAACC
*
70930 CTAAACC
1 TTAAACC
*
70937 CTAAACAC
1 TTAAAC-C
*
70945 --AAACT
1 TTAAACC
70950 TTAAATCC
1 TTAAA-CC
*
70958 TAAAACC
1 TTAAACC
70965 TTAAACC
1 TTAAACC
*
70972 CTAAAC
1 TTAAAC
70978 TATAAACTAT
Statistics
Matches: 165, Mismatches: 35, Indels: 40
0.69 0.15 0.17
Matches are distributed among these distances:
5 1 0.01
6 24 0.15
7 123 0.75
8 16 0.10
9 1 0.01
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.21
Consensus pattern (7 bp):
TTAAACC
Found at i:71747 original size:3 final size:3
Alignment explanation
Indices: 71739--71817 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
71729 ATGTATTTTC
71739 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
71787 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
71818 CAAAATGTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:72996 original size:17 final size:17
Alignment explanation
Indices: 72964--73019 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
72954 AGTTTCAAAT
*
72964 TCAAGTTTGAGCTTGAA
1 TCAAGTTCGAGCTTGAA
* *
72981 TCGAGTTCGAGTTTGAA
1 TCAAGTTCGAGCTTGAA
72998 TCAAGTTCGAGCTTGAA
1 TCAAGTTCGAGCTTGAA
73015 TCAAG
1 TCAAG
73020 CTCAAATTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (17 bp):
TCAAGTTCGAGCTTGAA
Found at i:73021 original size:11 final size:11
Alignment explanation
Indices: 73004--73113 Score: 85
Period size: 11 Copynumber: 9.6 Consensus size: 11
72994 TGAATCAAGT
73004 TCGAGCTTGAA
1 TCGAGCTTGAA
* **
73015 TCAAGCTCAAA
1 TCGAGCTTGAA
73026 TTCGAGCTTGAA
1 -TCGAGCTTGAA
**
73038 TCGAGCTCAAA
1 TCGAGCTTGAA
*
73049 TTCGAGCTTGAT
1 -TCGAGCTTGAA
**
73061 TCGAGCTCAAA
1 TCGAGCTTGAA
73072 TTCGAGCTTGAA
1 -TCGAGCTTGAA
**
73084 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
73096 TCGAGCTTCAA
1 TCGAGCTTGAA
73107 TCGAGCT
1 TCGAGCT
73114 CGAGTCTCGA
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
11 41 0.55
12 34 0.45
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:73024 original size:23 final size:23
Alignment explanation
Indices: 72998--73139 Score: 194
Period size: 23 Copynumber: 6.1 Consensus size: 23
72988 CGAGTTTGAA
* *
72998 TCAAGTTCGAGCTTGAATCAAGC
1 TCAAATTCGAGCTTGAATCGAGC
73021 TCAAATTCGAGCTTGAATCGAGC
1 TCAAATTCGAGCTTGAATCGAGC
*
73044 TCAAATTCGAGCTTGATTCGAGC
1 TCAAATTCGAGCTTGAATCGAGC
73067 TCAAATTCGAGCTTGAATCGAGC
1 TCAAATTCGAGCTTGAATCGAGC
* *
73090 TCAAAATCGAGCTTCAATCGAGC
1 TCAAATTCGAGCTTGAATCGAGC
* * * *
73113 TCGAGTCTCGAGCTTCAATTGAGC
1 TCAAAT-TCGAGCTTGAATCGAGC
73137 TCA
1 TCA
73140 TGAATTTTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 89 0.83
24 18 0.17
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
TCAAATTCGAGCTTGAATCGAGC
Found at i:77654 original size:22 final size:21
Alignment explanation
Indices: 77584--77638 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
77574 ATATGCCTGA
*
77584 GGGTATCGGTACCTCCTGAGG
1 GGGTATCGGTACCTCCTAAGG
77605 GGGTATCGGTACCTCCTAAGG
1 GGGTATCGGTACCTCCTAAGG
77626 GGGTATCGGTACC
1 GGGTATCGGTACC
77639 ATTGCATGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (21 bp):
GGGTATCGGTACCTCCTAAGG
Found at i:80806 original size:80 final size:81
Alignment explanation
Indices: 80691--80853 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 81
80681 CACAGGCCAC
80691 TTGATTGAGTAAGACTAGAAACGAGTAAATGTTATGACTGTCACATAATAATCCAAGACATATGC
1 TTGATTGAGTAAGACTAGAAACGAGTAAATGTTATGACTGTCACATAATAATCCAAGACATATGC
80756 TAGATGTCACTCATTA
66 TAGATGTCACTCATTA
*
80772 TTGATTGAGTAAGACTA-TAACGAGTAAATGTTATGACTGTCACATAATAATCCAAGACATATGC
1 TTGATTGAGTAAGACTAGAAACGAGTAAATGTTATGACTGTCACATAATAATCCAAGACATATGC
80836 TAGATGTCACTCATTA
66 TAGATGTCACTCATTA
80852 TT
1 TT
80854 TGTAATATTA
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 64 0.79
81 17 0.21
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (81 bp):
TTGATTGAGTAAGACTAGAAACGAGTAAATGTTATGACTGTCACATAATAATCCAAGACATATGC
TAGATGTCACTCATTA
Found at i:81155 original size:84 final size:86
Alignment explanation
Indices: 81002--81167 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 86
80992 TAATCCCGAA
* * *
81002 TATTTAATTTCAATTAATTAATATAGTTTAATTAATTTGAAATAATAAATCCCCAATATGATTAG
1 TATTAAATTCCAATTAATTAATATAGTTTAATTAATTTGAAATAATAAATACCCAATATGATTAG
81067 GGTAACTTGGATATAAAGGAT
66 GGTAACTTGGATATAAAGGAT
*
81088 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTG-AAT-ATAAA-ACCCTA-ATGATT
1 TATTAAATTCCAATTAATT-AATATAG-TTTAATTAATTTGAAATAATAAATACCCAATATGATT
*
81149 AGGGTAACTTGGCTATAAA
64 AGGGTAACTTGGATATAAA
81168 AGGGTTTGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
84 24 0.33
85 4 0.05
86 22 0.30
87 10 0.14
88 13 0.18
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (86 bp):
TATTAAATTCCAATTAATTAATATAGTTTAATTAATTTGAAATAATAAATACCCAATATGATTAG
GGTAACTTGGATATAAAGGAT
Found at i:88790 original size:15 final size:15
Alignment explanation
Indices: 88770--88801 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88760 GTTGGTGGCA
88770 TGGTAGGTGATGACT
1 TGGTAGGTGATGACT
*
88785 TGGTAGGTGGTGACT
1 TGGTAGGTGATGACT
88800 TG
1 TG
88802 AGCAGCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (15 bp):
TGGTAGGTGATGACT
Found at i:89368 original size:36 final size:36
Alignment explanation
Indices: 89319--89426 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
89309 AAAATTGTCA
* *
89319 TTTCCAATACTAGTGGAATAACCTAATTTTAGCATT
1 TTTCCAATACTAGTGGGATAACCTAATTTGAGCATT
* *
89355 TTTCTAATGCTAGTGGGATAACCTAATTTGAGCATT
1 TTTCCAATACTAGTGGGATAACCTAATTTGAGCATT
89391 TTTCCAATACTAGTGGGATAACCTAATTTGAGCATT
1 TTTCCAATACTAGTGGGATAACCTAATTTGAGCATT
89427 ATCAACATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (36 bp):
TTTCCAATACTAGTGGGATAACCTAATTTGAGCATT
Found at i:91980 original size:18 final size:18
Alignment explanation
Indices: 91935--91980 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
91925 TCACGGAATG
* *
91935 TAAGATTACCGATGGGAA
1 TAAGATTACTGACGGGAA
*
91953 TATGATTACTGACGGGAA
1 TAAGATTACTGACGGGAA
91971 TAAGATTACT
1 TAAGATTACT
91981 AGATATGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (18 bp):
TAAGATTACTGACGGGAA
Found at i:92632 original size:18 final size:18
Alignment explanation
Indices: 92609--92707 Score: 155
Period size: 18 Copynumber: 5.5 Consensus size: 18
92599 TCACGGAATG
*
92609 TAAGATTACCGATGGGAA
1 TAAGATTACCGACGGGAA
92627 TAAGATTACCGACGGGAA
1 TAAGATTACCGACGGGAA
*
92645 TAGGATTACCGACGGGAA
1 TAAGATTACCGACGGGAA
92663 TAAGATTACCGACGGGAA
1 TAAGATTACCGACGGGAA
*
92681 TAGGATTACCGGA-GGGAA
1 TAAGATTACC-GACGGGAA
92699 TAAGATTAC
1 TAAGATTAC
92708 TGGGAATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
18 73 0.97
19 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.19
Consensus pattern (18 bp):
TAAGATTACCGACGGGAA
Found at i:93307 original size:730 final size:729
Alignment explanation
Indices: 91935--94041 Score: 3233
Period size: 730 Copynumber: 2.9 Consensus size: 729
91925 TCACGGAATG
* * * *
91935 TAAGATTACCGATGGGAATATGATTA-CTGACGGGAATAAGATTACT-AGATATGTTGCATTGTT
1 TAAGATTACCGACGGGAATAGGATTACCGGA-GGGAATAAGATTACTGGGA-ATGTTGCATTGTT
* *
91998 GTGTTTGGTTCGTTTAACATGAATGTAAGATTACAGTGTTTGGTTAAAGGAATAAAATATTATTA
64 GTGTTTGGTTCGTTTAACAAGAATGTAAGATTACAGTGTTTGGTTAAAGGAATAAAAGATTATTA
* *
92063 GAATGTATATTTTATCAAATTGTCCTTATTATATATTTGTTTTTTCAACAATTTAAATTCTACTA
129 GAATGTATATTTTACCAAATTGTCCTTATTATATATTTGTTTTTT-AACAAGTTAAATTCTACTA
92128 TAATTTTACTATACTTAATTTATATATTTTCTTTAAAAAATTTAAATTCATAAAATTTATATAA-
193 TAATTTTACTATACTTAATTTATATATTTTCTTTAAAAAATTTAAATTCATAAAATTTATATAAT
* * *
92192 TATTTTTACAAAATTGAAAAG-T-TATA-GTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTA
258 TTTTTTTACAAAATTGAAAAGATAAATAGGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTG
*
92254 AACTTCATATAAAATTCTAATTATGGATTTTTTTTGTAAATCTAAAATAGTTTTAGGATAAATTT
323 AACTTCATATAAAATTCTAATTATGGATTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTT
* *
92319 GTAATTTAATATTCGTAGAATTTTTTCTATTCAACGACAGAAGAATGATATTTTTGAAAAACAAA
388 GTAATTTAATATTCGTAGAATTTTTTTTATTCAACGATAGAAGAATGATATTTTTGAAAAA-AAA
* * * *
92384 TTTAAAGGTATTTTAGTCCAAAACGCCGAGAATGTAACAATACCTAAGGGAATGAGGTAATCACA
452 ATTAAAGGTATTTTAGTCCAAAACACCGGGAATGTAACAATACCTAAGGGAATGGGGTAATCACA
* * * ** *
92449 TTCCCGGTAATATACTCCTAAAATACCACTGTTTGGAATAGGTTATTATCGGAGGTTGGGAATGT
517 TTCCC-GTAATATACTCCCAAAATATCACTGTTGGGAATAACTTATTATCGGGGGTTGGGAATGT
* *
92514 TTGCCAACCAAACGGAGGAATGACATTCAATTCC-CTCTGGTAATCCAATATGACTTGAATCAAA
581 TTGCCAACCAAACGGGGGAATGACATTCAATTCCTC-CCGGTAATCCAATATGACTTGAATCAAA
* *
92578 CGCCCTCTAGGTGCGTTTGGTTCACGGAATGTAAGATTACCGATGGGAATAAGATTACCGACGGG
645 CGCCCTCTAGGTGCGTTTGGTTCACGAAATGTAAGATTACCGACGGGAATAAGATTACCGACGGG
92643 AATAGGATTACCGACGGGAA
710 AATAGGATTACCGACGGGAA
*
92663 TAAGATTACCGACGGGAATAGGATTACCGGAGGGAATAAGATTACTGGGAATATTGCATTGTTGT
1 TAAGATTACCGACGGGAATAGGATTACCGGAGGGAATAAGATTACTGGGAATGTTGCATTGTTGT
* * *
92728 GTTTGGTTCGTTTAGCAAGAATGTAAGATTACAGTGTTTGGTTAAAGAAATAAAAGGTTATTAGA
66 GTTTGGTTCGTTTAACAAGAATGTAAGATTACAGTGTTTGGTTAAAGGAATAAAAGATTATTAGA
*
92793 ATGTATATTTTACCAAATTATCCTTATTATATATTTGTTTTTTAACAAGTTAAATTCTACTATAA
131 ATGTATATTTTACCAAATTGTCCTTATTATATATTTGTTTTTTAACAAGTTAAATTCTACTATAA
* **
92858 TTTTACTATACTTAATTTACATATTTTCTTTAAAAAAAATAAATTCATAAAATTTATATAATTTT
196 TTTTACTATACTTAATTTATATATTTTCTTTAAAAAATTTAAATTCATAAAATTTATATAATTTT
*
92923 TTTTACAAAATTTAAAAGATAAATAGGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTGAAC
261 TTTTACAAAATTGAAAAGATAAATAGGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTGAAC
92988 TTCATATAAAATTCTAATTATGGATTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTTGTA
326 TTCATATAAAATTCTAATTATGGATTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTTGTA
* *
93053 ATTTAATATTCGTAGAATTTTTTTTATTCAATGATAGAAGAAGGATATTTTTGAAAAAAAAATTA
391 ATTTAATATTCGTAGAATTTTTTTTATTCAACGATAGAAGAATGATATTTTTGAAAAAAAAATTA
* * *
93118 AAGGTATTTTAGTCCAAAACACCGGGAATGTAACAATACATAAGAGAAAGGGGTAATCACATTCC
456 AAGGTATTTTAGTCCAAAACACCGGGAATGTAACAATACCTAAGGGAATGGGGTAATCACATTCC
* *
93183 CGATAATATACTCCCAAAATATTATTGTTGGGAATAACTTATTATCGGGGGTTGGGAATGTTTGC
521 CG-TAATATACTCCCAAAATATCACTGTTGGGAATAACTTATTATCGGGGGTTGGGAATGTTTGC
*
93248 CAACCAAACGGGGGAATGACATTCCATTCCTCCCGGTAATCCAATATGACTTGAATCAAACGCCC
585 CAACCAAACGGGGGAATGACATTCAATTCCTCCCGGTAATCCAATATGACTTGAATCAAACGCCC
* * * *
93313 CCTAGGTGTGTTTGGTTCACGAAATGTAAGATTACCGACGGGAATAGGATTACCGGCGGGAATAG
650 TCTAGGTGCGTTTGGTTCACGAAATGTAAGATTACCGACGGGAATAAGATTACCGACGGGAATAG
*
93378 GATTACCGGCGGGAA
715 GATTACCGACGGGAA
* * * *
93393 TAGGATTACCGGCGGGAATAGGATTACCGGCGGGAATAAGATTACTGGAAATGTTGCATTGTTGT
1 TAAGATTACCGACGGGAATAGGATTACCGGAGGGAATAAGATTACTGGGAATGTTGCATTGTTGT
* *
93458 GTTTGGTTCGTTTAACAAGAATGTAAGATTACAATGTTTTGTTAAAGGAATAAAAGATTATT-GA
66 GTTTGGTTCGTTTAACAAGAATGTAAGATTACAGTGTTTGGTTAAAGGAATAAAAGATTATTAG-
* * *
93522 AATGTATATTTTACCAAATTGTTCTTATTATATATTTGTTTTTTAACAAGTTGAATTATACTATA
130 AATGTATATTTTACCAAATTGTCCTTATTATATATTTGTTTTTTAACAAGTTAAATTCTACTATA
93587 ATTTTACTATACTTAATTTATATATTTTCTTT-AAAAATTTAAATTCATAAAATTTATATAATTA
195 ATTTTACTATACTTAATTTATATATTTTCTTTAAAAAATTTAAATTCATAAAATTTATATAATT-
* * * *
93651 TTTTTAAAAAAATTGAAAAGATAAATAGGTTTAATGAAAGGGTTAAATTTTATTTTAACCCTTGA
259 TTTTTTACAAAATTGAAAAGATAAATAGGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTGA
*
93716 ACTTCATATAAAATTCTAATTATGGACTTTTTTTTGTAAATCTAAAATAGTTTAAGGATACATTT
324 ACTTCATATAAAATTCTAATTATGGA-TTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTT
* * * *
93781 ATAATTTAATCTTTGTCG-A-TTTTTTTATTCAACGATAGAAGAATGATATTTTTGAAAGAAAAA
388 GTAATTTAATATTCGTAGAATTTTTTTTATTCAACGATAGAAGAATGATATTTTT----GAAAAA
* **
93844 AAAATTAAA-GTCATTTTAGTTCAAAACACTAGGAATGTAACAATACCTAAGGGAATGGGGTAAT
449 AAAATTAAAGGT-ATTTTAGTCCAAAACACCGGGAATGTAACAATACCTAAGGGAATGGGGTAAT
* * * *
93908 CACATT-TC-TAATATACCCCCAAAATATCACTGTTGGAAATAACTTATTATC-AGGGTTGGGAA
513 CACATTCCCGTAATATACTCCCAAAATATCACTGTTGGGAATAACTTATTATCGGGGGTTGGGAA
* * * *
93970 TGTTTGTCAACCAAACGCGGGAATGACATTCGATT--TACCCGGTAATCCAATATGACTTGAACC
578 TGTTTGCCAACCAAACGGGGGAATGACATTCAATTCCT-CCCGGTAATCCAATATGACTTGAATC
94033 AAAC-CCCTC
642 AAACGCCCTC
94042 CCAAAAAAAA
Statistics
Matches: 1266, Mismatches: 96, Indels: 35
0.91 0.07 0.03
Matches are distributed among these distances:
727 84 0.07
728 202 0.16
729 111 0.09
730 591 0.47
731 208 0.16
732 3 0.00
733 67 0.05
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (729 bp):
TAAGATTACCGACGGGAATAGGATTACCGGAGGGAATAAGATTACTGGGAATGTTGCATTGTTGT
GTTTGGTTCGTTTAACAAGAATGTAAGATTACAGTGTTTGGTTAAAGGAATAAAAGATTATTAGA
ATGTATATTTTACCAAATTGTCCTTATTATATATTTGTTTTTTAACAAGTTAAATTCTACTATAA
TTTTACTATACTTAATTTATATATTTTCTTTAAAAAATTTAAATTCATAAAATTTATATAATTTT
TTTTACAAAATTGAAAAGATAAATAGGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTGAAC
TTCATATAAAATTCTAATTATGGATTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTTGTA
ATTTAATATTCGTAGAATTTTTTTTATTCAACGATAGAAGAATGATATTTTTGAAAAAAAAATTA
AAGGTATTTTAGTCCAAAACACCGGGAATGTAACAATACCTAAGGGAATGGGGTAATCACATTCC
CGTAATATACTCCCAAAATATCACTGTTGGGAATAACTTATTATCGGGGGTTGGGAATGTTTGCC
AACCAAACGGGGGAATGACATTCAATTCCTCCCGGTAATCCAATATGACTTGAATCAAACGCCCT
CTAGGTGCGTTTGGTTCACGAAATGTAAGATTACCGACGGGAATAAGATTACCGACGGGAATAGG
ATTACCGACGGGAA
Found at i:93365 original size:18 final size:18
Alignment explanation
Indices: 93342--93437 Score: 174
Period size: 18 Copynumber: 5.3 Consensus size: 18
93332 CGAAATGTAA
*
93342 GATTACCGACGGGAATAG
1 GATTACCGGCGGGAATAG
93360 GATTACCGGCGGGAATAG
1 GATTACCGGCGGGAATAG
93378 GATTACCGGCGGGAATAG
1 GATTACCGGCGGGAATAG
93396 GATTACCGGCGGGAATAG
1 GATTACCGGCGGGAATAG
*
93414 GATTACCGGCGGGAATAA
1 GATTACCGGCGGGAATAG
93432 GATTAC
1 GATTAC
93438 TGGAAATGTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.18
Consensus pattern (18 bp):
GATTACCGGCGGGAATAG
Found at i:98332 original size:26 final size:28
Alignment explanation
Indices: 98290--98343 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
98280 AATTTTAGAT
98290 TTTTTTTAAAGATAATAA-TATTTTTAAA
1 TTTTTTTAAAGATAATAAGT-TTTTTAAA
98318 TTTTTTTAAA-A-AATAAGTTTTTTAAA
1 TTTTTTTAAAGATAATAAGTTTTTTAAA
98344 ATATATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.52
27 2 0.08
28 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTTTTTAAAGATAATAAGTTTTTTAAA
Found at i:102067 original size:56 final size:57
Alignment explanation
Indices: 101962--102076 Score: 205
Period size: 56 Copynumber: 2.0 Consensus size: 57
101952 GGATGCGACG
*
101962 AAGAATGCCTAGGCTTCTCTTTCTATTGAGAGAAGTGTAAAATCTATTTGGATGACA
1 AAGAATGCCTAGGCTTCTCTTTCTATTGAGAAAAGTGTAAAATCTATTTGGATGACA
*
102019 AAGAATGCCTAGGCTTCTCTTTCT-TTGAGAAAAGTGTAAAATCTATTTGGATGGCA
1 AAGAATGCCTAGGCTTCTCTTTCTATTGAGAAAAGTGTAAAATCTATTTGGATGACA
102075 AA
1 AA
102077 TGTGCCTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 32 0.57
57 24 0.43
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (57 bp):
AAGAATGCCTAGGCTTCTCTTTCTATTGAGAAAAGTGTAAAATCTATTTGGATGACA
Found at i:107948 original size:21 final size:21
Alignment explanation
Indices: 107924--107991 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
107914 GGGATAAATT
107924 CTTTTCATCGAGGGACTGATC
1 CTTTTCATCGAGGGACTGATC
** * * *
107945 CTTTTGGT-GAAAGGA-TCAAC
1 CTTTTCATCG-AGGGACTGATC
107965 CGTTTTCATCGAGGGACTGATC
1 C-TTTTCATCGAGGGACTGATC
107987 CTTTT
1 CTTTT
107992 GGTGAAAGGA
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
CTTTTCATCGAGGGACTGATC
Found at i:108072 original size:18 final size:18
Alignment explanation
Indices: 108024--108072 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
108014 CTACTAGATC
* *
108024 CAAGGGATCGATCTGTTT
1 CAAGGGATCGATTTGTGT
108042 CAAGGGATCGATTTG-GT
1 CAAGGGATCGATTTGTGT
108059 CAAAGGGATCGATT
1 C-AAGGGATCGATT
108073 CTTTTGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.29
Consensus pattern (18 bp):
CAAGGGATCGATTTGTGT
Found at i:109264 original size:22 final size:21
Alignment explanation
Indices: 109244--109304 Score: 97
Period size: 22 Copynumber: 2.9 Consensus size: 21
109234 TATTTTTAAT
109244 AATT-TATTTTTAAAACATTA
1 AATTATATTTTTAAAACATTA
109264 AATTAATATTTTTAAAACATTA
1 AATT-ATATTTTTAAAACATTA
109286 AATTAATATTTTTAAAACA
1 AATT-ATATTTTTAAAACA
109305 ACCTTAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.10
22 35 0.90
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTATATTTTTAAAACATTA
Found at i:111724 original size:16 final size:16
Alignment explanation
Indices: 111703--111736 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
111693 TTGAAAAAAA
111703 AATATAA-TATATATAT
1 AATATAAGT-TATATAT
111719 AATATAAGTTATATAT
1 AATATAAGTTATATAT
111735 AA
1 AA
111737 ACTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATATAAGTTATATAT
Found at i:111742 original size:18 final size:18
Alignment explanation
Indices: 111710--111778 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
111700 AAAAATATAA
*
111710 TATATATATAA-TATAAGT
1 TATATATA-AACTATAAAT
*
111728 TATATATAAACTAT-ATT
1 TATATATAAACTATAAAT
*
111745 TATATTACAAACTATATAAT
1 TATA-TATAAACTATA-AAT
*
111765 TAT-TATAAGCTATA
1 TATATATAAACTATA
111779 TATATAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 8 0.19
18 29 0.69
20 5 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATATAAACTATAAAT
Found at i:111779 original size:18 final size:18
Alignment explanation
Indices: 111720--111780 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
111710 TATATATATA
111720 ATATAAGTTATATATAAACT
1 ATATAA-TTAT-TATAAACT
* *
111740 ATAT-TTATATTACAAACT
1 ATATAAT-TATTATAAACT
*
111758 ATATAATTATTATAAGCT
1 ATATAATTATTATAAACT
111776 ATATA
1 ATATA
111781 TATAAATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 26 0.76
19 4 0.12
20 4 0.12
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATAATTATTATAAACT
Found at i:111810 original size:13 final size:13
Alignment explanation
Indices: 111768--111847 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
111758 ATATAATTAT
*
111768 TATAAGCTATATA
1 TATAAACTATATA
* *
111781 TATAAATTATGTTTA
1 TATAAACTA--TATA
*
111796 TATGAACTATATA
1 TATAAACTATATA
*
111809 TATAAACTATGTA
1 TATAAACTATATA
**
111822 CGTAAACTATATA
1 TATAAACTATATA
111835 TGTATAAACTATA
1 --TATAAACTATA
111848 AAAAGTATAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 31 0.62
15 19 0.38
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:111812 original size:15 final size:15
Alignment explanation
Indices: 111728--111847 Score: 54
Period size: 13 Copynumber: 8.0 Consensus size: 15
111718 TAATATAAGT
111728 TATATATAAACTATA
1 TATATATAAACTATA
*
111743 TTTATATTACAAACTATA
1 --TATA-TATAAACTATA
*
111761 TAATTATTATAAGC--TA
1 T-A-TA-TATAAACTATA
* *
111777 TATATATAAATTATG
1 TATATATAAACTATA
* *
111792 TTTATATGAAC--TA
1 TATATATAAACTATA
111805 TATATATAAAC--TA
1 TATATATAAACTATA
* **
111818 TGTACGTAAACTATA
1 TATATATAAACTATA
*
111833 TATGTATAAACTATA
1 TATATATAAACTATA
111848 AAAAGTATAT
Statistics
Matches: 77, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
13 25 0.32
14 2 0.03
15 23 0.30
16 4 0.05
17 5 0.06
18 18 0.23
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:111877 original size:14 final size:14
Alignment explanation
Indices: 111855--111933 Score: 53
Period size: 14 Copynumber: 5.8 Consensus size: 14
111845 ATAAAAAGTA
*
111855 TATAGTTTATAAAT
1 TATAATTTATAAAT
111869 TATAATTTAT--AT
1 TATAATTTATAAAT
*
111881 TATATATATGTATAAAC
1 TATA-AT-T-TATAAAT
111898 TAT-A--TA-AAAT
1 TATAATTTATAAAT
*
111908 ATATAGTTTATAAAT
1 -TATAATTTATAAAT
111923 TATAATTTATA
1 TATAATTTATA
111934 TTAATATAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 6 0.12
13 2 0.04
14 22 0.44
15 8 0.16
17 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (14 bp):
TATAATTTATAAAT
Found at i:111887 original size:54 final size:54
Alignment explanation
Indices: 111829--111946 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
111819 GTACGTAAAC
111829 TATATATGTATAAACTATA-AAAAGTATATAGTTTATAAATTATAATTTATATTA
1 TATATATGTATAAACTATATAAAA-TATATAGTTTATAAATTATAATTTATATTA
111883 TATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATATTA
1 TATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATATTA
111937 -ATATA-GTATA
1 TATATATGTATA
111947 TATGTATGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
52 5 0.08
53 5 0.08
54 49 0.78
55 4 0.06
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (54 bp):
TATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATATTA
Found at i:111992 original size:2 final size:2
Alignment explanation
Indices: 111985--112027 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
111975 ATAAGAAATC
* *
111985 TA TA TA TA T- TA TT TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112026 TA
1 TA
112028 GTTTATAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:112132 original size:7 final size:7
Alignment explanation
Indices: 112120--112157 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
112110 TTAAATCCTT
112120 AACCCTA
1 AACCCTA
112127 AACCCTA
1 AACCCTA
*
112134 AATCCTA
1 AACCCTA
112141 AACCCTA
1 AACCCTA
*
112148 ACCCCTA
1 AACCCTA
112155 AAC
1 AAC
112158 TATATGTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:112137 original size:21 final size:21
Alignment explanation
Indices: 112111--112156 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
112101 TCATGATCAT
*
112111 TAAATCCTTAACCCTAAACCC
1 TAAATCCTAAACCCTAAACCC
*
112132 TAAATCCTAAACCCTAACCCC
1 TAAATCCTAAACCCTAAACCC
112153 TAAA
1 TAAA
112157 CTATATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAATCCTAAACCCTAAACCC
Found at i:112500 original size:20 final size:19
Alignment explanation
Indices: 112475--112513 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
112465 TACATGTGTG
*
112475 TATAAACTATGTATAGTATA
1 TATAAACTATATATA-TATA
112495 TATAAACTATATATATATA
1 TATAAACTATATATATATA
112514 ACTTATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAAACTATATATATATA
Found at i:112520 original size:57 final size:59
Alignment explanation
Indices: 112449--112565 Score: 159
Period size: 57 Copynumber: 2.0 Consensus size: 59
112439 ACATGTAAAC
* *
112449 TATATATAACTTATAGTACATGTGTGTATA-AA-CTATGTATA-GTATATATAAACTATA
1 TATATATAACTTATAGTACATGTATATATACAATCTATGTATATGT-TATATAAACTATA
* * *
112506 TATATATAACTTATAGTATATGTATATATACAATCTATTTATATGTTATATAAATTATA
1 TATATATAACTTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATA
112565 T
1 T
112566 GTAACCTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 27 0.52
58 2 0.04
59 21 0.40
60 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (59 bp):
TATATATAACTTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATA
Found at i:112645 original size:21 final size:21
Alignment explanation
Indices: 112608--112720 Score: 121
Period size: 21 Copynumber: 5.5 Consensus size: 21
112598 TAGTGTACTA
112608 TATAGT-TATACTTTATAAAC
1 TATAGTATATACTTTATAAAC
112628 TATAGTATAT-CATTTATAAAC
1 TATAGTATATAC-TTTATAAAC
* *
112649 TATAGTATATTAGTGTACT--A-
1 TATAGTATA-TACTTTA-TAAAC
112669 TATAGT-TATACTTTATAAAC
1 TATAGTATATACTTTATAAAC
*
112689 TATAGTATATAATTTATAAAC
1 TATAGTATATACTTTATAAAC
*
112710 TATAGTTTATA
1 TATAGTATATA
112721 TTAATGACTA
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.01
18 5 0.06
19 3 0.04
20 19 0.24
21 45 0.58
22 4 0.05
23 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
TATAGTATATACTTTATAAAC
Found at i:112661 original size:61 final size:62
Alignment explanation
Indices: 112572--112737 Score: 255
Period size: 61 Copynumber: 2.7 Consensus size: 62
112562 ATATGTAACC
* **
112572 TATAGTTTATAAAAAATAGTTTATATTAGTGTACTATATAGTTATACTTTATAAACTATAGTA
1 TATAATTTATAAACTATAG-TTATATTAGTGTACTATATAGTTATACTTTATAAACTATAGTA
*
112635 TATCATTTATAAACTATAG-TATATTAGTGTACTATATAGTTATACTTTATAAACTATAGTA
1 TATAATTTATAAACTATAGTTATATTAGTGTACTATATAGTTATACTTTATAAACTATAGTA
*
112696 TATAATTTATAAACTATAGTTTATATTAATG-ACTATATAGTT
1 TATAATTTATAAACTATAG-TTATATTAGTGTACTATATAGTT
112738 TACATTAATG
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
61 60 0.63
62 11 0.12
63 24 0.25
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (62 bp):
TATAATTTATAAACTATAGTTATATTAGTGTACTATATAGTTATACTTTATAAACTATAGTA
Found at i:112797 original size:34 final size:34
Alignment explanation
Indices: 112758--112865 Score: 92
Period size: 34 Copynumber: 3.0 Consensus size: 34
112748 TTAATTTCTT
*
112758 AACTATAATTTATATTAATATAGTATAGTTTATA
1 AACTATAATTTATATTAATATAATATAGTTTATA
*
112792 AACTATACTCTATTAATATTAATATTAACTATAGTTTATA
1 AACTATA----ATTTATATTAATA-TAA-TATAGTTTATA
* * * *
112832 AATTATACTATATAATTTATA-AATATAGTTTATA
1 AACTATAATTTAT-ATTAATATAATATAGTTTATA
112866 TTAATATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
34 18 0.30
35 2 0.03
36 3 0.05
37 6 0.10
38 12 0.20
39 2 0.03
40 17 0.28
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (34 bp):
AACTATAATTTATATTAATATAATATAGTTTATA
Found at i:112868 original size:62 final size:61
Alignment explanation
Indices: 112730--112970 Score: 161
Period size: 62 Copynumber: 3.8 Consensus size: 61
112720 ATTAATGACT
* * * *
112730 ATATAGTTTACATTAATGTTAATTTCTTAACTATAATTTATATTAATATAGTATAGTTTATAA
1 ATATAGTTTATATTAATATTAA--TATTAACTATAATTTATATTAATATAGTATAATTTATAA
* * *
112793 ACTATA--CTCTATTAATATTAATATTAACTATAGTTTATAAATT-ATACTA-TATAATTTATAA
1 A-TATAGTTTATATTAATATTAATATTAACTATAATTTAT--ATTAATA-TAGTATAATTTATAA
* * * * * *
112854 ATATAGTTTATATTAATATTAATTTTACAGACTATATTTTATATTGATATTAATTACAAATTATA
1 ATATAGTTTATATTAATATTAATATT--A-ACTATAATTTATATTAATA-T-AGTATAATTTATA
112919 A
61 A
*
112920 ACTATATTCTATTATAAGTTAATATTAATATTAA-TATAA-TTATATTAATAT
1 A-TATA--GT-TTAT-A-TTAATATTAATATTAACTATAATTTATATTAATAT
112971 TAATTCTAAT
Statistics
Matches: 142, Mismatches: 18, Indels: 33
0.74 0.09 0.17
Matches are distributed among these distances:
60 19 0.13
61 15 0.11
62 32 0.23
63 4 0.03
64 9 0.06
65 12 0.08
66 12 0.08
67 14 0.10
68 4 0.03
69 2 0.01
70 5 0.04
71 1 0.01
72 13 0.09
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (61 bp):
ATATAGTTTATATTAATATTAATATTAACTATAATTTATATTAATATAGTATAATTTATAA
Found at i:112949 original size:6 final size:6
Alignment explanation
Indices: 112938--112998 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
112928 CTATTATAAG
*
112938 TTAATA TTAATA TTAATA TAATTATA TTAATA TTAAT- TCTAATA -TATATA
1 TTAATA TTAATA TTAATA T--TAATA TTAATA TTAATA T-TAATA TTA-ATA
*
112988 TTATTA TTAAT
1 TTAATA TTAAT
112999 TATAAATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
5 3 0.07
6 35 0.78
7 2 0.04
8 5 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:112998 original size:18 final size:17
Alignment explanation
Indices: 112977--113022 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
112967 ATATTAATTC
* *
112977 TAATATATATATTATTAT
1 TAATATAAATAGT-TTAT
112995 TAATTATAAATAGTTTAT
1 TAA-TATAAATAGTTTAT
113013 TAATATAAAT
1 TAATATAAAT
113023 TATATAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
19 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATAAATAGTTTAT
Found at i:113024 original size:24 final size:24
Alignment explanation
Indices: 112938--113026 Score: 92
Period size: 24 Copynumber: 3.6 Consensus size: 24
112928 CTATTATAAG
112938 TTAATATTAA-TATTAATATAATTATA
1 TTAATATTAATTA-TAATAT-A-TATA
*
112964 TTAATATTAATTCTAATATATATA
1 TTAATATTAATTATAATATATATA
* *
112988 TTATTATTAATTATAA-ATAGTTTA
1 TTAATATTAATTATAATATA-TATA
*
113012 TTAATATAAATTATA
1 TTAATATTAATTATA
113027 TAGGGATGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.05
24 34 0.62
25 1 0.02
26 16 0.29
27 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TTAATATTAATTATAATATATATA
Found at i:113695 original size:13 final size:14
Alignment explanation
Indices: 113679--113754 Score: 67
Period size: 13 Copynumber: 5.9 Consensus size: 14
113669 AACACTAATG
113679 TAACATG-AATTAA
1 TAACATGCAATTAA
*
113692 TAACATGCAA-T-G
1 TAACATGCAATTAA
*
113704 CAACATG-AATTAA
1 TAACATGCAATTAA
113717 TAACATGCAA-T-A
1 TAACATGCAATTAA
**
113729 CCACATG-AATTAA
1 TAACATGCAATTAA
113742 TAACATGCAATTA
1 TAACATGCAATTA
113755 TTATTTAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
11 4 0.08
12 14 0.29
13 21 0.44
14 9 0.19
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (14 bp):
TAACATGCAATTAA
Found at i:113708 original size:25 final size:25
Alignment explanation
Indices: 113675--113752 Score: 129
Period size: 25 Copynumber: 3.1 Consensus size: 25
113665 ATTTAACACT
*
113675 AATGTAACATGAATTAATAACATGC
1 AATGCAACATGAATTAATAACATGC
113700 AATGCAACATGAATTAATAACATGC
1 AATGCAACATGAATTAATAACATGC
* *
113725 AATACCACATGAATTAATAACATGC
1 AATGCAACATGAATTAATAACATGC
113750 AAT
1 AAT
113753 TATTATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (25 bp):
AATGCAACATGAATTAATAACATGC
Found at i:114305 original size:11 final size:11
Alignment explanation
Indices: 114289--114329 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
114279 ACTTGAATTA
114289 ATTCAAATGTT
1 ATTCAAATGTT
114300 ATTCAAAT-TT
1 ATTCAAATGTT
114310 ATATCAAATGTT
1 AT-TCAAATGTT
*
114322 ATTTAAAT
1 ATTCAAAT
114330 TATCATTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 4 0.15
11 19 0.70
12 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (11 bp):
ATTCAAATGTT
Found at i:114613 original size:22 final size:23
Alignment explanation
Indices: 114565--114616 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
114555 ATTATTTTTC
*
114565 TTTACATAAATTAAGCTATATAA
1 TTTACATAAATTAAACTATATAA
114588 TTTACATAAATTAAACTAT-TAA
1 TTTACATAAATTAAACTATATAA
114610 TTTACAT
1 TTTACAT
114617 TTAATCATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTACATAAATTAAACTATATAA
Found at i:114925 original size:17 final size:16
Alignment explanation
Indices: 114894--114926 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
114884 TGGATCATTT
114894 CAGGTCAGGTTAAAAA
1 CAGGTCAGGTTAAAAA
*
114910 CAGGTCAGGTTTAAAA
1 CAGGTCAGGTTAAAAA
114926 C
1 C
114927 TGGTAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (16 bp):
CAGGTCAGGTTAAAAA
Done.