Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005745.1 Hibiscus syriacus cultivar Beakdansim tig00013434_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: 208064
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Found at i:5921 original size:24 final size:24
Alignment explanation
Indices: 5885--5934 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
5875 GTGGATCACT
* *
5885 AAAAGTCACGTTTATTGATTCTTC
1 AAAAGACACGTTTATTGAATCTTC
* *
5909 AAAAGACATGTTTCTTGAATCTTC
1 AAAAGACACGTTTATTGAATCTTC
5933 AA
1 AA
5935 CTTGAAGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (24 bp):
AAAAGACACGTTTATTGAATCTTC
Found at i:16921 original size:19 final size:19
Alignment explanation
Indices: 16883--16919 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16873 AGTGCTTCAA
*
16883 CTTTCTTTCTTTTTCTTTT
1 CTTTCTTTCTTTTACTTTT
16902 CTTTCTTT-TTTTACTTTT
1 CTTTCTTTCTTTTACTTTT
16920 TCCTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
CTTTCTTTCTTTTACTTTT
Found at i:21865 original size:11 final size:13
Alignment explanation
Indices: 21833--21862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21823 TGGCCAAAGA
21833 TGAAAAGGTATGT
1 TGAAAAGGTATGT
21846 TGAAAAGGTATG-
1 TGAAAAGGTATGT
21858 TGAAA
1 TGAAA
21863 GGTGTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:31666 original size:13 final size:13
Alignment explanation
Indices: 31648--31709 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
31638 AGATACTATT
31648 TCCATCACCATAA
1 TCCATCACCATAA
* *
31661 TCCATCTTCCATTA
1 TCCATC-ACCATAA
31675 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
31686 T-CATCACCATAG
1 TCCATCACCATAA
31698 TCCATCACCATA
1 TCCATCACCATA
31710 TCACACCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:31719 original size:35 final size:37
Alignment explanation
Indices: 31650--31729 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
31640 ATACTATTTC
*
31650 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
*
31687 CATCACCATAGTCCATC-ACCA-TATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
31722 CATCACCA
1 CATCACCA
31730 AATTCTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 22 0.54
36 3 0.07
37 16 0.39
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:31723 original size:11 final size:11
Alignment explanation
Indices: 31650--31729 Score: 65
Period size: 11 Copynumber: 6.7 Consensus size: 11
31640 ATACTATTTC
31650 CATCACCATAAT
1 CATCACCAT-AT
*
31662 CCATCTTCCATTAT
1 -CATC-ACCA-TAT
31676 CA-CACCTATAT
1 CATCACC-ATAT
31687 CATCACCATAGT
1 CATCACCATA-T
31699 CCATCACCATAT
1 -CATCACCATAT
31711 CA-CACCTATAT
1 CATCACC-ATAT
31722 CATCACCA
1 CATCACCA
31730 AATTCTCAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 4 0.07
11 19 0.33
12 12 0.21
13 16 0.28
14 5 0.09
15 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:31727 original size:22 final size:22
Alignment explanation
Indices: 31650--31729 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 22
31640 ATACTATTTC
*
31650 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCA-TAT
31676 CA-CACCTATATCATCACCATAGT
1 CATCACC-ATATCATCACCATA-T
31699 CCATCACCATATCA-CACCTATAT
1 -CATCACCATATCATCACC-ATAT
31722 CATCACCA
1 CATCACCA
31730 AATTCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
22 10 0.21
23 9 0.19
24 15 0.31
25 10 0.21
26 4 0.08
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (22 bp):
CATCACCATATCATCACCATAT
Found at i:34785 original size:13 final size:13
Alignment explanation
Indices: 34767--34828 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
34757 AGATACTATT
34767 TCCATCACCATAA
1 TCCATCACCATAA
* *
34780 TCCATCTTCCATTA
1 TCCATC-ACCATAA
34794 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
34805 T-CATCACCATAG
1 TCCATCACCATAA
34817 TCCATCACCATA
1 TCCATCACCATA
34829 TCACACCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:34838 original size:35 final size:37
Alignment explanation
Indices: 34769--34848 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
34759 ATACTATTTC
*
34769 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
*
34806 CATCACCATAGTCCATC-ACCA-TATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
34841 CATCACCA
1 CATCACCA
34849 AATTCTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 22 0.54
36 3 0.07
37 16 0.39
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:34842 original size:11 final size:11
Alignment explanation
Indices: 34769--34848 Score: 65
Period size: 11 Copynumber: 6.7 Consensus size: 11
34759 ATACTATTTC
34769 CATCACCATAAT
1 CATCACCAT-AT
*
34781 CCATCTTCCATTAT
1 -CATC-ACCA-TAT
34795 CA-CACCTATAT
1 CATCACC-ATAT
34806 CATCACCATAGT
1 CATCACCATA-T
34818 CCATCACCATAT
1 -CATCACCATAT
34830 CA-CACCTATAT
1 CATCACC-ATAT
34841 CATCACCA
1 CATCACCA
34849 AATTCTCAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 4 0.07
11 19 0.33
12 12 0.21
13 16 0.28
14 5 0.09
15 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:34846 original size:22 final size:22
Alignment explanation
Indices: 34769--34848 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 22
34759 ATACTATTTC
*
34769 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCA-TAT
34795 CA-CACCTATATCATCACCATAGT
1 CATCACC-ATATCATCACCATA-T
34818 CCATCACCATATCA-CACCTATAT
1 -CATCACCATATCATCACC-ATAT
34841 CATCACCA
1 CATCACCA
34849 AATTCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
22 10 0.21
23 9 0.19
24 15 0.31
25 10 0.21
26 4 0.08
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (22 bp):
CATCACCATATCATCACCATAT
Found at i:47129 original size:24 final size:25
Alignment explanation
Indices: 47083--47137 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
47073 ACAATTAGGC
*
47083 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
47107 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
47132 CA-TTGA
1 CACTTGA
47138 GGCTCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:52005 original size:19 final size:20
Alignment explanation
Indices: 51981--52023 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
51971 AGCATTTATC
*
51981 TTCATT-AAAATTATGTGTT
1 TTCATTAAAAATCATGTGTT
52000 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTGTT
52020 TTCA
1 TTCA
52024 AAGGGGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTGTT
Found at i:52460 original size:19 final size:20
Alignment explanation
Indices: 52436--52486 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
52426 TATCCTTTCT
52436 TTATTTTATTTCATT-CTTA
1 TTATTTTATTTCATTACTTA
52455 TTA-TTTATTTTCATTACTTA
1 TTATTTTA-TTTCATTACTTA
52475 -TATTATTATTTC
1 TTATT-TTATTTC
52487 CTTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 9 0.32
21 3 0.11
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTCATTACTTA
Found at i:52994 original size:19 final size:20
Alignment explanation
Indices: 52947--52997 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
52937 GAAACCCCTT
**
52947 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTAAA
52967 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
52986 TGAAGATACATG
1 TGAAAATACATG
52998 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:56527 original size:13 final size:11
Alignment explanation
Indices: 56486--56570 Score: 75
Period size: 11 Copynumber: 7.2 Consensus size: 11
56476 TACAATCTTC
56486 CATCACCATTAT
1 CATCACCA-TAT
56498 CA-CACCTATAT
1 CATCACC-ATAT
56509 CATCACCATAGT
1 CATCACCATA-T
56521 CCATCACCATTAT
1 -CATCACCA-TAT
*
56534 CA-CGCCTATAT
1 CATCACC-ATAT
56545 CATCACCATATT
1 CATCACCATA-T
56557 CCATCACCATAT
1 -CATCACCATAT
56569 CA
1 CA
56571 CGCCTATATT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 25 0.40
12 16 0.26
13 19 0.31
14 2 0.03
ACGTcount: A:0.33, C:0.36, G:0.02, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:56531 original size:36 final size:36
Alignment explanation
Indices: 56484--56587 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
56474 GATACAATCT
*
56484 TCCATCACCATTATCACACCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
56520 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
56556 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
56588 ACTTCTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 44 0.68
ACGTcount: A:0.32, C:0.37, G:0.03, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:58234 original size:13 final size:14
Alignment explanation
Indices: 58212--58250 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
58202 TCTTTATAAC
58212 CTCTTTTTTTCTTT
1 CTCTTTTTTTCTTT
58226 CTCTTTTTTTCTTT
1 CTCTTTTTTTCTTT
58240 CTCTTTTTTTC
1 CTCTTTTTTTC
58251 CCTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
CTCTTTTTTTCTTT
Found at i:58248 original size:16 final size:16
Alignment explanation
Indices: 58215--58263 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
58205 TTATAACCTC
58215 TTTTTTTCTTTCTC--
1 TTTTTTTCTTTCTCTT
58229 TTTTTTTCTTTCTCTT
1 TTTTTTTCTTTCTCTT
** *
58245 TTTTTCCCTTTTTCTT
1 TTTTTTTCTTTCTCTT
58261 TTT
1 TTT
58264 GCTATTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 14 0.47
16 16 0.53
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTTCTCTT
Found at i:67433 original size:11 final size:11
Alignment explanation
Indices: 67419--67458 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
67409 AAAAAGAAAA
*
67419 CAAAAAAAAGG
1 CAAAAAAAAGC
67430 CAAAAAAAAGC
1 CAAAAAAAAGC
67441 CAAAAAAAAGC
1 CAAAAAAAAGC
67452 CAAAAAA
1 CAAAAAA
67459 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.75, C:0.15, G:0.10, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAGC
Found at i:67433 original size:22 final size:21
Alignment explanation
Indices: 67401--67458 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
67391 TATTTTTTTC
67401 AAAAAAA-CAAAAAGAAA-ACA
1 AAAAAAAGCAAAAA-AAAGACA
*
67421 AAAAAAAGGCAAAAAAAAGCCA
1 AAAAAAA-GCAAAAAAAAGACA
*
67443 AAAAAAAGCCAAAAAA
1 AAAAAAAGCAAAAAAA
67459 GCCAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 7 0.21
21 11 0.33
22 15 0.45
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAAGCAAAAAAAAGACA
Found at i:67456 original size:20 final size:22
Alignment explanation
Indices: 67419--67465 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
67409 AAAAAGAAAA
67419 CAAAAAAAAGGCAAAAAAAAGC
1 CAAAAAAAAGGCAAAAAAAAGC
*
67441 CAAAAAAAA-GC-CAAAAAAGC
1 CAAAAAAAAGGCAAAAAAAAGC
67461 CAAAA
1 CAAAA
67466 TTTCAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.72, C:0.17, G:0.11, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAGGCAAAAAAAAGC
Found at i:80053 original size:809 final size:808
Alignment explanation
Indices: 75569--81008 Score: 9565
Period size: 808 Copynumber: 6.7 Consensus size: 808
75559 TGCATGTATC
* * *
75569 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGTACACCGATAACCCCCTCAAAAATA
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
*
75634 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTTCTATGACTCT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTC-TTTTTTTTTCTTTGACTCT
*
75699 TAGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTATTTTGCATTATCTAACACATTATCTT
130 TAGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTT
*
75764 TCTTGTGTTAGTAGGATTAAAGAGTTTACATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGA
195 TCTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGA
75829 CTCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAAC
260 CTCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAAC
* * *
75894 TCCAATACGAACAGTGGAAGACTAATTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACT
325 TCCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACT
75959 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTTGTTTTGTTGAATTTTCTT
390 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGG-TTTTTTGTTTTGTTGAATTTTCTT
*
76024 TCTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCATGATGGGCGACAAT
454 TCTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAAT
* *
76089 TAAAACAAGACACTTACGACTATCTTAGCTGCACTTGCCCGACTCACTACTCAAGTTGAAAGATT
519 TAAAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATT
*
76154 TGATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATTTT
584 TGATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATT
* * ** * * *
76219 GAATATCATTTCAAAAAAAAAAAAAAAAAATTTTAGAGATCAAGAACACCTTCAAACAAAGCGAT
649 GAATATCATTTC-ACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGAT
** * * *
76284 CATGAAAAACAGATTGTTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTGAAGGTAT
713 CACAAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTAT
*
76349 TTGGTTCTGAAATTTTACAGATGGTTTCTTG
778 TTGGTTCTGAAATTTTACAGGTGGTTTCTTG
* * *
76380 ACGCATTGAAAGACATTCAAGAAGTTTTCCAAAATTATTGTACACCGATAACCCCCTCAAAAATG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
76445 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
*
76510 AGTGCATTAGGTTCTTTTGCTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
76575 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
196 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
76640 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
261 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
76705 CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
326 CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
*
76770 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTGTTTC
391 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTTC
76835 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
456 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
*
76900 AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTA
521 AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTG
*
76965 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCTAGATTGCAACTTCATATATTGA
586 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATTGA
* *
77030 ATATCGTTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTGAAACAAAGCGATCAC
651 ATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGATCAC
*
77095 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTGGATACTACTAAAGGTATTTG
716 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTATTTG
*
77160 GTTTTGAAATTTTACAGGTGGTTTCTTG
781 GTTCTGAAATTTTACAGGTGGTTTCTTG
*
77188 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCGCCTCAAAAATG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
77253 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTC-TTTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
*
77317 AGTGTATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
* * *
77382 CTTGTGTTAGTAGGATTAAAGAGTTCGCATACTTCTTCCTCCCTTGCATTCTCGTTCTCTTGGAG
196 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
*
77447 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCT-TTGTTAGTAATCAAAC
261 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATT-CTAGTAATCAAAC
* * *
77511 TCCGATACGAACTGCGGAAGACTACTTAGTAAAGTAAGTTTTAAAGAGTACAAGATTGGCTTACT
325 TCCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACT
* *
77576 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTCTTGTTTTGTTGATTTTTCTTT
390 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTT
* * * *
77641 ATTTTATTTTTATTTTACTTTAAAATTTTCTTTTAAATGTTATGATTTCAAGATGGGCGAC-ATT
455 CTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATT
* * *
77705 AAAAACAAGACACTTACGGCTATCTTAGCCGTACATGCCCGACTCACGACTCAAGTTGAAAGATT
520 -AAAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATT
*
77770 TGATGAAATCAAATTTTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATAT
584 TGATGAAATCAAA-TCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATAT
77835 TGAATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGAT
648 TGAATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGAT
* *
77900 CACAAAAAATAGATTATTTGAGGATTCACCGTTCAACAGAGTCTACTAGATACTACTGAAGGTAT
713 CACAAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTAT
77965 TTGGTTCTGAAATTTTACAGGTGGTTTCTTG
778 TTGGTTCTGAAATTTTACAGGTGGTTTCTTG
* * *
77996 ACGCATTGAAAGACTTTCAAGAATTTTTCCAAAATTATTGGACATCGGTAACCCCCTCAAAAAGG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
78061 TT-CTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
*
78125 AGTGCATTAGGTTCTTTTGCTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
78190 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
196 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
78255 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
261 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
78320 CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
326 CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
*
78385 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTGTTTC
391 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTTC
78450 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
456 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
*
78515 AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTA
521 AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTG
*
78580 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCTAGATTGCAACTTCATATATTGA
586 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATTGA
* *
78645 ATATCGTTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTGAAACAAAGCGATCAC
651 ATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGATCAC
*
78710 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTGGATACTACTAAAGGTATTTG
716 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTATTTG
*
78775 GTTTTGAAATTTTACAGGTGGTTTCTTG
781 GTTCTGAAATTTTACAGGTGGTTTCTTG
*
78803 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCGCCTCAAAAATG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
78868 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTC-TTTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
*
78932 AGTGTATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
* * *
78997 CTTGTGTTAGTAGGATTAAAGAGTTCGCATACTTCTTCCTCCCTTGCATTCTCGTTCTCTTGGAG
196 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
*
79062 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCT-TTGTTAGTAATCAAAC
261 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATT-CTAGTAATCAAAC
* * *
79126 TCCGATACGAACTGCGGAAGACTACTTAGTAAAGTAAGTTTTAAAGAGTACAAGATTGGCTTACT
325 TCCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACT
* *
79191 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTCTTGTTTTGTTGATTTTTCTTT
390 TGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTT
* * * *
79256 ATTTTATTTTTATTTTACTTTAAAATTTTCTTTTAAATGTTATGATTTCAAGATGGGCGAC-ATT
455 CTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATT
* * *
79320 AAAAACAAGACACTTACGGCTATCTTAGCCGTACATGCCCGACTCACGACTCAAGTTGAAAGATT
520 -AAAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATT
*
79385 TGATGAAATCAAATTTTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATAT
584 TGATGAAATCAAA-TCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATAT
79450 TGAATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGAT
648 TGAATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGAT
* *
79515 CACAAAAAATAGATTATTTGAGGATTCACCGTTCAACAGAGTCTACTAGATACTACTGAAGGTAT
713 CACAAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTAT
79580 TTGGTTCTGAAATTTTACAGGTGGTTTCTTG
778 TTGGTTCTGAAATTTTACAGGTGGTTTCTTG
* * * *
79611 ACGCATTGAAAGACTTTCAAGAATTTTTCCAAAAATATTGTACACCGGTAACCCCGTCAAAAATG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
79676 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
79741 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
*
79806 CTTGTATTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
196 CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
*
79871 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACA
261 TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
** * *
79936 AAGATACGAACTGTGGAAGACAACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCATACTT
326 CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
80001 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTTC
391 GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTTC
*
80066 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATTGGCGACAATTA
456 TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
*
80131 AAACAATACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTG
521 AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTG
80196 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATTGA
586 ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATTGA
* *
80261 ATATCGTTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAAAACCTTCAAACAAAGCGATCAC
651 ATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGATCAC
*
80326 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTGGATACTACTAAAGGTATTTG
716 AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTATTTG
*
80391 GTTTTGAAATTTTACAGGTGGTTTCTTG
781 GTTCTGAAATTTTACAGGTGGTTTCTTG
* *
80419 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACATCGGTAACCCCCTCAAAAAGG
1 ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
80484 TT-CTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTC--TTTTTTTCTTTGACTCTT
66 TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
* * *
80546 AGTGTATTAGGTTCTTTTATTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATATTT
131 AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
* *
80611 CTTGTGTTAGTAGGATTAAAGAGTTCT-CATATTTCTTCCTCCCTTGCATTCTCGTTCTCTTGGA
196 CTTGTGTTAGTAGGATTAAAGAGTT-TGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGA
*
80675 GTCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCT-TTGCTAGTAATCAAA
260 CTCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATT-CTAGTAATCAAA
* * * *
80739 CTCCGATACGAACTGTGGAATACTACTTAGCAAAGT-ATGTTTTAAAGAGTACAAGATTAGCTTA
324 CTCCGATACGAACTGTGGAAGACTACTTGGTAAAGTGA-GTTTTAAAGAGTACAAGATTGGCTTA
* *
80803 CTTGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTCTTGTTTTGTTGAGTTTTCT
388 CTTGCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCT
* *
80868 TTCTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTTTTATGATTTCAGGATGGGCGATAA
453 TTCTTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAA
* *
80933 TAAAAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCATGACTCAAGTTGAAAGAT
518 TTAAAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGAT
80998 TTGATGAAATC
583 TTGATGAAATC
81009 GTGAGAGAAC
Statistics
Matches: 4417, Mismatches: 196, Indels: 38
0.95 0.04 0.01
Matches are distributed among these distances:
804 3 0.00
805 450 0.10
806 11 0.00
807 1267 0.29
808 1580 0.36
809 681 0.15
810 317 0.07
811 108 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (808 bp):
ACGCATTGAAAGACATTCAAGAATTTTTCCAAAATTATTGGACACCGGTAACCCCCTCAAAAATG
TTGCTCAAGTTGATCCAGTGTTTTCTAGGTTTTCTGGTTTGGTTCTTTTTTTTTCTTTGACTCTT
AGTGCATTAGGTTCTTTTGTTTTTCCTTTTTATTGTTCTTTTGCATTATCTAACACATTATCTTT
CTTGTGTTAGTAGGATTAAAGAGTTTGCATACTTCTTCCTCCCTTGCATTCCCGTTCTCTTGGAC
TCTAACCCTTGTTTGGCCTCTTAGAACTTTTAGGTTTTCTTATCGCCTATTCTAGTAATCAAACT
CCGATACGAACTGTGGAAGACTACTTGGTAAAGTGAGTTTTAAAGAGTACAAGATTGGCTTACTT
GCCTCTCGTTGTGTTACTTTCTTGGAGTGACTTATGAGGTTTTTTGTTTTGTTGAATTTTCTTTC
TTTTATTTTTATTTTACTTTAAAATTTTCTTTTGAGTGTTATGATTTCAGGATGGGCGACAATTA
AAACAAGACACTTACGACTATCTTAGCCGCACTTGCCCGACTCACGACTCAAGTTGAAAGATTTG
ATGAAATCAAATCTAAAGGAGGAATTTCGTGTTGAAAATTTCCAGATTGCAACTTCATATATTGA
ATATCATTTCACACAAAAAATCAAAATTTTTGGAGCTCAAGAACACCTTCAAACAAAGCGATCAC
AAAAAATAGATTATTTGAGGACTCACCGTTCAACAGAGTCTACTAGATACTACTAAAGGTATTTG
GTTCTGAAATTTTACAGGTGGTTTCTTG
Found at i:87229 original size:13 final size:13
Alignment explanation
Indices: 87207--87236 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
87197 ACTAAACACC
87207 TTTC-ACATACCT
1 TTTCAACATACCT
87219 TTTCAACATACCT
1 TTTCAACATACCT
87232 TTTCA
1 TTTCA
87237 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:96487 original size:19 final size:20
Alignment explanation
Indices: 96450--96500 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
96440 GAAACCCCTT
96450 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
96470 TGAAAATACATG-TTTTTAA
1 TGAAAATACATGATTTTTAA
*
96489 TGAAGATACATG
1 TGAAAATACATG
96501 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:97647 original size:21 final size:21
Alignment explanation
Indices: 97608--97647 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
97598 ATGCATTCTT
* * *
97608 ATTAGCTCATAGACTTTATAC
1 ATTAGCTCACACACATTATAC
97629 ATTAGCTCACACACATTAT
1 ATTAGCTCACACACATTAT
97648 GAGATGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (21 bp):
ATTAGCTCACACACATTATAC
Found at i:105503 original size:19 final size:19
Alignment explanation
Indices: 105445--105503 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
105435 GAAACCCCTT
105445 TGAAAATACATGACTTTTAAA
1 TGAAAATACATG-CTTTT-AA
*
105466 TGAAAATACATTCTTTTAA
1 TGAAAATACATGCTTTTAA
* *
105485 TGAAGATACATGCTCTTAA
1 TGAAAATACATGCTTTTAA
105504 CCAAATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 18 0.53
20 5 0.15
21 11 0.32
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (19 bp):
TGAAAATACATGCTTTTAA
Found at i:108860 original size:16 final size:16
Alignment explanation
Indices: 108839--108869 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
108829 CTGCCACCTT
108839 TGTTAGGATGCAAATA
1 TGTTAGGATGCAAATA
108855 TGTTAGGATGCAAAT
1 TGTTAGGATGCAAAT
108870 GAGCTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (16 bp):
TGTTAGGATGCAAATA
Found at i:112368 original size:16 final size:16
Alignment explanation
Indices: 112347--112379 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
112337 TTCTTCCACC
112347 TATGTTAGAATGCAAA
1 TATGTTAGAATGCAAA
*
112363 TATGTTAGGATGCAAA
1 TATGTTAGAATGCAAA
112379 T
1 T
112380 GAGCTAACTA
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:0.06, G:0.21, T:0.33
Consensus pattern (16 bp):
TATGTTAGAATGCAAA
Found at i:113245 original size:23 final size:23
Alignment explanation
Indices: 113192--113246 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
113182 AGATGTAATA
*
113192 TATGTATATGAATATAACTATGT
1 TATGTATATGAATATAACTATAT
113215 TATAGTATATGAA-ATAAGC-ATCAT
1 TAT-GTATATGAATATAA-CTAT-AT
113239 TATGTATA
1 TATGTATA
113247 AATATAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (23 bp):
TATGTATATGAATATAACTATAT
Found at i:119922 original size:20 final size:20
Alignment explanation
Indices: 119897--119948 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
119887 CGGCCAAGAG
*
119897 CATGTATCTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
*
119917 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATCAAAAAT
119937 CATGTATTTTCA
1 CATGTATTTTCA
119949 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:120302 original size:13 final size:13
Alignment explanation
Indices: 120284--120345 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
120274 AGATACTATT
120284 TCCATCACCATAA
1 TCCATCACCATAA
* *
120297 TCCATCTTCCATTA
1 TCCATC-ACCATAA
120311 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
120322 T-CATCACCATAG
1 TCCATCACCATAA
120334 TCCATCACCATA
1 TCCATCACCATA
120346 TCACGCCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:120355 original size:35 final size:37
Alignment explanation
Indices: 120286--120365 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
120276 ATACTATTTC
*
120286 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
120323 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
120358 CATCACCA
1 CATCACCA
120366 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:120841 original size:14 final size:15
Alignment explanation
Indices: 120807--120853 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
120797 AATTTGGAGT
120807 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
120822 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
120836 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
120853 G
1 G
120854 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:123926 original size:24 final size:24
Alignment explanation
Indices: 123899--123950 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
123889 TTCTTTTTCT
*
123899 TTTTGTTCTTTTGGAGTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
*
123923 TTTTCTTCTTTTGGAGTTCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
123947 TTTT
1 TTTT
123951 TCTTTGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.08, C:0.13, G:0.19, T:0.60
Consensus pattern (24 bp):
TTTTCTTCTTTTGGAGTGCTTGAC
Found at i:124715 original size:21 final size:21
Alignment explanation
Indices: 124676--124715 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
124666 AAGGAAGATT
*
124676 AATGAAATGATAAAGATAAGG
1 AATGAAATGATAAAAATAAGG
124697 AATGAAATGA-AATAAATAA
1 AATGAAATGATAA-AAATAA
124716 AGGATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AATGAAATGATAAAAATAAGG
Found at i:124764 original size:22 final size:21
Alignment explanation
Indices: 124738--124778 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
124728 GTTGTGGAAT
124738 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
124760 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
124779 ATGGATATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:127173 original size:22 final size:23
Alignment explanation
Indices: 127136--127185 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
127126 ACAATCTGTC
* *
127136 CATCACCATTATCACGCCTATAT
1 CATCACCATTATCACGCCAATAA
127159 CATCACCA-TATCACGCCAATAA
1 CATCACCATTATCACGCCAATAA
127181 CATCA
1 CATCA
127186 TCCTTCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.36, C:0.36, G:0.04, T:0.24
Consensus pattern (23 bp):
CATCACCATTATCACGCCAATAA
Found at i:131633 original size:10 final size:9
Alignment explanation
Indices: 131617--131677 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 9
131607 TTTAAATTTC
131617 TTTTTCTTT
1 TTTTTCTTT
131626 TCTTTTC-TT
1 T-TTTTCTTT
131635 TTTTTCTGATT
1 TTTTTCT--TT
131646 TTTTTCTGATT
1 TTTTTCT--TT
*
131657 TTTGTCTTT
1 TTTTTCTTT
131666 TCTTTTCTTT
1 T-TTTTCTTT
131676 TT
1 TT
131678 GCACTCCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 5 0.11
9 8 0.18
10 13 0.29
11 19 0.42
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:131647 original size:11 final size:11
Alignment explanation
Indices: 131633--131659 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
131623 TTTTCTTTTC
131633 TTTTTTTCTGA
1 TTTTTTTCTGA
131644 TTTTTTTCTGA
1 TTTTTTTCTGA
131655 TTTTT
1 TTTTT
131660 GTCTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTTCTGA
Found at i:132017 original size:22 final size:21
Alignment explanation
Indices: 131991--132031 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
131981 GCTGCGGAAT
131991 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
132013 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
132032 ATAGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:133905 original size:19 final size:19
Alignment explanation
Indices: 133881--133922 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
133871 TAGTGTTCCA
*
133881 TGAGCTGCCTTGTACTTTG
1 TGAGCTGCCATGTACTTTG
133900 TGAGCTGCCATGTACTTTG
1 TGAGCTGCCATGTACTTTG
133919 TGAG
1 TGAG
133923 ATGCATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (19 bp):
TGAGCTGCCATGTACTTTG
Found at i:145372 original size:8 final size:8
Alignment explanation
Indices: 145359--145403 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
145349 ATCTTTTTCT
*
145359 TTTTCTAC
1 TTTTCTTC
145367 TTTTCTTC
1 TTTTCTTC
145375 TTTTCTTC
1 TTTTCTTC
145383 TTTT-TGTC
1 TTTTCT-TC
145391 TTTTCTTTC
1 TTTTC-TTC
145400 TTTT
1 TTTT
145404 TACACTCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 1 0.03
8 25 0.76
9 6 0.18
10 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTCTTC
Found at i:145383 original size:25 final size:25
Alignment explanation
Indices: 145355--145403 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
145345 TGAAATCTTT
145355 TTCTTTTTCTACTTTTC-TTCTTTTC
1 TTCTTTTTCT-CTTTTCTTTCTTTTC
*
145380 TTCTTTTTGTCTTTTCTTTCTTTT
1 TTCTTTTTCTCTTTTCTTTCTTTT
145404 TACACTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (25 bp):
TTCTTTTTCTCTTTTCTTTCTTTTC
Found at i:145397 original size:16 final size:15
Alignment explanation
Indices: 145352--145404 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
145342 TTTTGAAATC
*
145352 TTTTTCTTTTTCTACT
1 TTTTTC-TTTTCTTCT
145368 TTTCTTCTTTTCTTCT
1 TTT-TTCTTTTCTTCT
145384 TTTTGTCTTTTCTTTCT
1 TTTT-TCTTTTC-TTCT
145401 TTTT
1 TTTT
145405 ACACTCCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 21 0.64
17 11 0.33
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTTCTTCT
Found at i:148564 original size:21 final size:21
Alignment explanation
Indices: 148538--148579 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
148528 GTGACCTTTC
148538 ATAAATAGTTGCTGCCCCATT
1 ATAAATAGTTGCTGCCCCATT
148559 ATAAATAGTTGCTGCCCCATT
1 ATAAATAGTTGCTGCCCCATT
148580 GATGCCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
ATAAATAGTTGCTGCCCCATT
Found at i:149246 original size:13 final size:11
Alignment explanation
Indices: 149226--149289 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 11
149216 TCACGCCTAA
149226 ATCATCACCAT
1 ATCATCACCAT
149237 AGTCCATCACCATT
1 A-T-CATCACCA-T
*
149251 ATCA-CGCCTAT
1 ATCATCACC-AT
149262 ATCATCACCAT
1 ATCATCACCAT
149273 ATTCCATCACCAT
1 A-T-CATCACCAT
149286 ATCA
1 ATCA
149290 CGCCTATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
11 14 0.32
12 9 0.20
13 19 0.43
14 2 0.05
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (11 bp):
ATCATCACCAT
Found at i:149250 original size:36 final size:36
Alignment explanation
Indices: 149203--149306 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
149193 GATACAATCT
*
149203 TCCATCACCATTATCACGCCTAAATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
149239 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
149275 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
149307 ACTTCTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 44 0.68
ACGTcount: A:0.32, C:0.37, G:0.04, T:0.28
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:149498 original size:15 final size:15
Alignment explanation
Indices: 149448--149491 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
149438 TTTGATAACT
*
149448 ATTCTATCCATTTCA
1 ATTCTTTCCATTTCA
149463 ATTCTTTCCATTTCA
1 ATTCTTTCCATTTCA
149478 ATTCTTTCCATTTC
1 ATTCTTTCCATTTC
149492 CTTTCTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTCTTTCCATTTCA
Found at i:154419 original size:12 final size:10
Alignment explanation
Indices: 154386--154412 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
154376 TTTTTTCTTC
154386 AAAAAAACAA
1 AAAAAAACAA
154396 AAAAAAACAA
1 AAAAAAACAA
154406 AAAAAAA
1 AAAAAAA
154413 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:159895 original size:21 final size:21
Alignment explanation
Indices: 159869--159910 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
159859 GTGACCTTTC
*
159869 ATAAATAGTTGTTGCCCCATT
1 ATAAATAGTTGCTGCCCCATT
159890 ATAAATAGTTGCTGCCCCATT
1 ATAAATAGTTGCTGCCCCATT
159911 GATGCCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (21 bp):
ATAAATAGTTGCTGCCCCATT
Found at i:160572 original size:13 final size:11
Alignment explanation
Indices: 160552--160615 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 11
160542 TCACGCCTAA
160552 ATCATCACCAT
1 ATCATCACCAT
160563 AGTCCATCACCATT
1 A-T-CATCACCA-T
*
160577 ATCA-CGCCTAT
1 ATCATCACC-AT
160588 ATCATCACCAT
1 ATCATCACCAT
160599 ATTCCATCACCAT
1 A-T-CATCACCAT
160612 ATCA
1 ATCA
160616 CGCCTATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
11 14 0.32
12 9 0.20
13 19 0.43
14 2 0.05
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (11 bp):
ATCATCACCAT
Found at i:160576 original size:36 final size:36
Alignment explanation
Indices: 160529--160632 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
160519 GATACAATCT
*
160529 TCCATCACCATTATCACGCCTAAATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
160565 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
160601 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
160633 ACTTCTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 44 0.68
ACGTcount: A:0.32, C:0.37, G:0.04, T:0.28
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:170728 original size:6 final size:6
Alignment explanation
Indices: 170717--170755 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
170707 GATGTAGGAG
*
170717 TCTTTT TC-TTT TCTTTT TATTTT TCTTCTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCT
170756 CTCTTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:170760 original size:14 final size:13
Alignment explanation
Indices: 170717--170761 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
170707 GATGTAGGAG
170717 TCTT-TTTC-TTT
1 TCTTCTTTCTTTT
*
170728 TCTT-TTTATTTT
1 TCTTCTTTCTTTT
170740 TCTTCTTTCTTTT
1 TCTTCTTTCTTTT
170753 TCTCTCTTT
1 TCT-TCTTT
170762 GTTGCTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 7 0.24
12 7 0.24
13 10 0.34
14 5 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTCTTTCTTTT
Found at i:170989 original size:15 final size:15
Alignment explanation
Indices: 170971--171013 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
170961 TTAAGAAAGG
170971 AAATGGAAAGAATTA
1 AAATGGAAAGAATTA
* *
170986 AAATGGAAAGTATTG
1 AAATGGAAAGAATTA
*
171001 AAATGGATAGAAT
1 AAATGGAAAGAAT
171014 AGTTATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (15 bp):
AAATGGAAAGAATTA
Found at i:175068 original size:24 final size:23
Alignment explanation
Indices: 175029--175086 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
175019 GGTGATCCAC
*
175029 AAGACATGT-CCTTTGACATTTC-A
1 AAGA-ATGTACCTTTGA-AATTCGA
*
175052 AAGGATGTACCTCTTGAAATTCGA
1 AAGAATGTACCT-TTGAAATTCGA
175076 AAGAATGTACC
1 AAGAATGTACC
175087 AATTGAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 10 0.34
24 15 0.52
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (23 bp):
AAGAATGTACCTTTGAAATTCGA
Found at i:190521 original size:16 final size:16
Alignment explanation
Indices: 190500--190532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
190490 TCCTGCCACC
190500 TATGTTAGAATGCAAA
1 TATGTTAGAATGCAAA
*
190516 TATGTTAGGATGCAAA
1 TATGTTAGAATGCAAA
190532 T
1 T
190533 GAGCTAACTA
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:0.06, G:0.21, T:0.33
Consensus pattern (16 bp):
TATGTTAGAATGCAAA
Found at i:191387 original size:23 final size:23
Alignment explanation
Indices: 191334--191388 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
191324 AGATGTAATA
*
191334 TATGTATATGAATATAACTATGT
1 TATGTATATGAATATAACTATAT
191357 TATAGTATATGAA-ATAAGC-ATCAT
1 TAT-GTATATGAATATAA-CTAT-AT
191381 TATGTATA
1 TATGTATA
191389 AATATAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (23 bp):
TATGTATATGAATATAACTATAT
Found at i:198422 original size:13 final size:13
Alignment explanation
Indices: 198404--198465 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
198394 AGATACTATT
198404 TCCATCACCATAA
1 TCCATCACCATAA
* *
198417 TCCATCTTCCATTA
1 TCCATC-ACCATAA
198431 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
198442 T-CATCACCATAG
1 TCCATCACCATAA
198454 TCCATCACCATA
1 TCCATCACCATA
198466 TCACACCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:198475 original size:35 final size:37
Alignment explanation
Indices: 198406--198485 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
198396 ATACTATTTC
*
198406 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
*
198443 CATCACCATAGTCCATC-ACCA-TATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
198478 CATCACCA
1 CATCACCA
198486 AATTCTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 22 0.54
36 3 0.07
37 16 0.39
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:198479 original size:11 final size:11
Alignment explanation
Indices: 198406--198485 Score: 65
Period size: 11 Copynumber: 6.7 Consensus size: 11
198396 ATACTATTTC
198406 CATCACCATAAT
1 CATCACCAT-AT
*
198418 CCATCTTCCATTAT
1 -CATC-ACCA-TAT
198432 CA-CACCTATAT
1 CATCACC-ATAT
198443 CATCACCATAGT
1 CATCACCATA-T
198455 CCATCACCATAT
1 -CATCACCATAT
198467 CA-CACCTATAT
1 CATCACC-ATAT
198478 CATCACCA
1 CATCACCA
198486 AATTCTCAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 4 0.07
11 19 0.33
12 12 0.21
13 16 0.28
14 5 0.09
15 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:198483 original size:22 final size:22
Alignment explanation
Indices: 198406--198485 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 22
198396 ATACTATTTC
*
198406 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCA-TAT
198432 CA-CACCTATATCATCACCATAGT
1 CATCACC-ATATCATCACCATA-T
198455 CCATCACCATATCA-CACCTATAT
1 -CATCACCATATCATCACC-ATAT
198478 CATCACCA
1 CATCACCA
198486 AATTCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
22 10 0.21
23 9 0.19
24 15 0.31
25 10 0.21
26 4 0.08
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.28
Consensus pattern (22 bp):
CATCACCATATCATCACCATAT
Done.