Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007951.1 Hibiscus syriacus cultivar Beakdansim tig00110374_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: 657610
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:907 original size:3 final size:3
Alignment explanation
Indices: 899--939 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
889 ACTTGCGCAA
*
899 GAC GAC GAC GAC GAC GAC GAC GAC GAT GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
940 TGGTGATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.34, T:0.02
Consensus pattern (3 bp):
GAC
Found at i:4877 original size:51 final size:50
Alignment explanation
Indices: 4796--4922 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 50
4786 CCCTACGTGG
* * * ** * **
4796 CGTATAGCGCAC-TGCATGGGCCGCGCTATACCTACGTGGCTCCAGCTCAT
1 CGTATAGCGCGCGTGCA-GGGGCGCGCTATACCCACGTAACGCCAAATCAT
4846 CGTATAGCGCGCGTGCACGGGGCGCGCTATACCCACGTAACGCCAAATCAT
1 CGTATAGCGCGCGTGCA-GGGGCGCGCTATACCCACGTAACGCCAAATCAT
*
4897 CGTATAGCGCG-GTACAGGGGCGCGCT
1 CGTATAGCGCGCGTGCAGGGGCGCGCT
4923 TTACTGCTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 10 0.15
50 15 0.23
51 41 0.62
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (50 bp):
CGTATAGCGCGCGTGCAGGGGCGCGCTATACCCACGTAACGCCAAATCAT
Found at i:8240 original size:13 final size:14
Alignment explanation
Indices: 8206--8240 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
8196 TACTAGCAGG
8206 GGCAAATCTTCAGA
1 GGCAAATCTTCAGA
8220 GTGCAAATCTTCA-A
1 G-GCAAATCTTCAGA
8234 GGCAAAT
1 GGCAAAT
8241 ACTTACAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (14 bp):
GGCAAATCTTCAGA
Found at i:9893 original size:31 final size:31
Alignment explanation
Indices: 9855--9918 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
9845 TTATGATTAC
* * *
9855 ATCTTAATTAAATAAAAACGATAGTGACCAT
1 ATCTTAATTAAATAAAAACAAAAGTGACAAT
*
9886 ATCTTAATTAAATAGAAACAAAAGTGACAAT
1 ATCTTAATTAAATAAAAACAAAAGTGACAAT
9917 AT
1 AT
9919 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAGTGACAAT
Found at i:11228 original size:18 final size:18
Alignment explanation
Indices: 11202--11236 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11192 GTTCAGTATT
*
11202 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
11220 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
11237 CGATACATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:11862 original size:64 final size:65
Alignment explanation
Indices: 11756--11910 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 65
11746 CAATGAAGGT
* * *
11756 ATGCATCGATGCACTACTTATGCATCGGTGTATAAAAGGCATTCGATGTTT-TAATATTAAGAGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTCTAATATTAAGAAG
* * ** *
11820 ATGCATCGATGCATTCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTATTAAGAA
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TAAAAGGCATTCGATGTTTCTAATATTAAGAA
11884 G
65 G
* *
11885 -TGCATCGATGCACTAATTGTGCATCG
1 ATGCATCGATGCACTACTTATGCATCG
11911 GTACACCTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 65 0.84
65 12 0.16
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTCTAATATTAAGAAG
Found at i:17701 original size:21 final size:21
Alignment explanation
Indices: 17675--17714 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17665 CAGAACCCCA
*
17675 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
17696 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
17715 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:26494 original size:22 final size:22
Alignment explanation
Indices: 26464--26515 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26454 GTATTTGTCC
*
26464 CGAATGACCACTGGATACGTCT
1 CGAAGGACCACTGGATACGTCT
26486 CGAAGGACCACTGGATACGTCT
1 CGAAGGACCACTGGATACGTCT
26508 CGAAGGAC
1 CGAAGGAC
26516 TAATATACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (22 bp):
CGAAGGACCACTGGATACGTCT
Found at i:27129 original size:64 final size:65
Alignment explanation
Indices: 27022--27176 Score: 199
Period size: 64 Copynumber: 2.4 Consensus size: 65
27012 CAATGAAGGT
* *
27022 ATGCATCGATGCACTACTTATGCATCGGTGCATAAAAGACATTCGATGTTT-TAATATTAAGATG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGACATTCGATGTTTCTAATATTAAGAAG
* * ** *
27086 ATGCATCGATGCATTCCTTATGCATCGATGCACTAATTG-CATTCGATGTTTCTATTATTAAGAA
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TAAAAGACATTCGATGTTTCTAATATTAAGAA
27150 G
65 G
* *
27151 -TGCATCGATGCACTATTTGTGCATCG
1 ATGCATCGATGCACTACTTATGCATCG
27177 GTACACCTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 63 0.81
65 15 0.19
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGACATTCGATGTTTCTAATATTAAGAAG
Found at i:31298 original size:27 final size:28
Alignment explanation
Indices: 31246--31299 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
31236 CTAAAATTAT
*
31246 TAATAATTACAAAAATTAATATATAAAC
1 TAATAATTACAAAAATTAATAAATAAAC
31274 TAATAA-TA-AAAAATTAAATAAATAAA
1 TAATAATTACAAAAATT-AATAAATAAA
31300 TTATTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATAATTACAAAAATTAATAAATAAAC
Found at i:34793 original size:144 final size:144
Alignment explanation
Indices: 34533--34822 Score: 517
Period size: 144 Copynumber: 2.0 Consensus size: 144
34523 CGGCGGCGAG
34533 CACAAGGGGGAAGGACATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
1 CACAAGGGGGAAGGACATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
*
34598 TGGCCATGGTTATGACACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
66 TGGCCATGGTTATGACACGGGCATGACAGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
*
34663 AGGCCGGTCATGGC
131 AGACCGGTCATGGC
* * * *
34677 CACAAGGGGGAAGGACATTATGATACGGGCATGACCGGAACAGAATACAAAGGAGATACTGGTCT
1 CACAAGGGGGAAGGACATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
*
34742 TGGCCATGGTTATGGCACGGGCATGACAGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
66 TGGCCATGGTTATGACACGGGCATGACAGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
34807 AGACCGGTCATGGC
131 AGACCGGTCATGGC
34821 CA
1 CA
34823 TGGCTATGGC
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 139 1.00
ACGTcount: A:0.31, C:0.20, G:0.34, T:0.14
Consensus pattern (144 bp):
CACAAGGGGGAAGGACATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
TGGCCATGGTTATGACACGGGCATGACAGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
AGACCGGTCATGGC
Found at i:36610 original size:16 final size:16
Alignment explanation
Indices: 36589--36624 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
36579 ATCGGCGGAT
36589 GTCTCCTGCTGCTGCA
1 GTCTCCTGCTGCTGCA
36605 GTCTCCTGCTGCTGCA
1 GTCTCCTGCTGCTGCA
36621 GTCT
1 GTCT
36625 TGGGCATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.36, G:0.25, T:0.33
Consensus pattern (16 bp):
GTCTCCTGCTGCTGCA
Found at i:37833 original size:47 final size:49
Alignment explanation
Indices: 37737--37846 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 49
37727 GCGGTACCTG
*
37737 CCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCGCGGTACATA
1 CCCCGCGCTATATAAAATTATGTC--GAGTAAAGGTATGTCGCGATACATA
*
37788 CCCCGTGCTATATAAAATTATG-C-AGTAAAGGTATAGT-GCGATACATGA
1 CCCCGCGCTATATAAAATTATGTCGAGTAAAGGTAT-GTCGCGATACAT-A
*
37836 -TCCGCGCTATA
1 CCCCGCGCTATA
37847 CCCCTACGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
47 28 0.53
48 3 0.06
50 1 0.02
51 21 0.40
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (49 bp):
CCCCGCGCTATATAAAATTATGTCGAGTAAAGGTATGTCGCGATACATA
Found at i:37882 original size:41 final size:41
Alignment explanation
Indices: 37837--37931 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
37827 GATACATGAT
37837 CCGCGCTATACCCCTACGTGGCGTATAGCGCGCTGCAGGGG
1 CCGCGCTATACCCCTACGTGGCGTATAGCGCGCTGCAGGGG
37878 CCGCGCTATACCCCTACGTGGCGTATAGCGCGCTGCAGGGG
1 CCGCGCTATACCCCTACGTGGCGTATAGCGCGCTGCAGGGG
37919 CCGCGCTATACCC
1 CCGCGCTATACCC
37932 ACGTGACGCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.15, C:0.37, G:0.32, T:0.17
Consensus pattern (41 bp):
CCGCGCTATACCCCTACGTGGCGTATAGCGCGCTGCAGGGG
Found at i:38013 original size:51 final size:50
Alignment explanation
Indices: 37899--38026 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 50
37889 CCCTACGTGG
* * * **
37899 CGTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGACGCCAGCTCAC
1 CGTATAGCACGGTGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAC
* * *
37949 CGTATA-AAGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCA-CGGTGCAGGGGGCGCGCTATA-CCCACGTGACGCCAAATCAC
* *
38000 CTTATAGCACGGTGCAGGGGGCACGCT
1 CGTATAGCACGGTGCAGGGGGCGCGCT
38027 TTACTGCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
50 25 0.39
51 38 0.59
52 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (50 bp):
CGTATAGCACGGTGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAC
Found at i:42063 original size:21 final size:20
Alignment explanation
Indices: 42016--42065 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
42006 ATAATGTTTT
*
42016 TAATA-TATCAAATATAATA
1 TAATATTATAAAATATAATA
* *
42035 TAAAATTATAAAATATATTCA
1 TAATATTATAAAATATAAT-A
42056 TAATATTATA
1 TAATATTATA
42066 TTTTAAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATATTATAAAATATAATA
Found at i:42823 original size:25 final size:22
Alignment explanation
Indices: 42794--42860 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 22
42784 ATCTAAAACA
42794 TTATTTTTTTCTACCGAAAATG
1 TTATTTTTTTCTACCGAAAATG
** * *
42816 TTAATATTAGATGCTACCTAAAATG
1 TT-AT-TT-TTTTCTACCGAAAATG
42841 TTA-TTTTTTCTACCGAAAAT
1 TTATTTTTTTCTACCGAAAAT
42861 TAGGTAGTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
21 11 0.32
22 4 0.12
23 2 0.06
24 3 0.09
25 14 0.41
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (22 bp):
TTATTTTTTTCTACCGAAAATG
Found at i:45999 original size:3 final size:3
Alignment explanation
Indices: 45991--46051 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
45981 ATTTATAAAT
* * *
45991 TAA TAA TAA TAA TAC TAA -AA TTAA TAA TAA GTAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA TAA
* *
46037 TAG TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA
46052 AAAAAAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:69821 original size:10 final size:10
Alignment explanation
Indices: 69806--69833 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
69796 CTAATGTCTA
69806 TGATTTACTC
1 TGATTTACTC
69816 TGATTTACTC
1 TGATTTACTC
69826 TGATTTAC
1 TGATTTAC
69834 AGACAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.50
Consensus pattern (10 bp):
TGATTTACTC
Found at i:69995 original size:45 final size:45
Alignment explanation
Indices: 69931--70030 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
69921 ATCCTGGCTT
*
69931 GCATTTGCTGCCCAGAAAGTTGTTGAAGTCAATGCACTCGCCAAG
1 GCATTTGCTGCCCAGAAAGTTGTTGAAGTCAATGCACTAGCCAAG
*
69976 GCATTTGTTGCCCAGAAAGTTGTTGAAGTCAATGCACTAGCCAAG
1 GCATTTGCTGCCCAGAAAGTTGTTGAAGTCAATGCACTAGCCAAG
*
70021 GCATTGGCTG
1 GCATTTGCTG
70031 GTCAGAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (45 bp):
GCATTTGCTGCCCAGAAAGTTGTTGAAGTCAATGCACTAGCCAAG
Found at i:72403 original size:20 final size:20
Alignment explanation
Indices: 72329--72406 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
72319 GATTCTGACT
* *
72329 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACCTA
* *
72349 ATTCGCGTTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACCTA
*
72370 ATTCGCACTT-CGATTTACGTA
1 A-TCGCA-TTGCGATTTACCTA
72391 ATCGCATTGCGATTTA
1 ATCGCATTGCGATTTA
72407 GTAAATCGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 13 0.27
21 32 0.65
22 2 0.04
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATTTACCTA
Found at i:72413 original size:20 final size:20
Alignment explanation
Indices: 72329--72416 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
72319 GATTCTGACT
* *
72329 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACTAA
* *
72349 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGA-TTTACTAA
*
72371 TTCGCACTT-CGATTTACGT-A
1 ATCGCA-TTGCGATTTAC-TAA
*
72391 ATCGCATTGCGATTTAGTAA
1 ATCGCATTGCGATTTACTAA
72411 ATCGCA
1 ATCGCA
72417 ATGAGATTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.05
20 25 0.45
21 18 0.33
22 9 0.16
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTTACTAA
Found at i:72424 original size:20 final size:20
Alignment explanation
Indices: 72381--72444 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
72371 TTCGCACTTC
* *
72381 GATTTACGTAATCGCATTGC
1 GATTTACGTAATCGCAATGA
72401 GATTTA-GTAAATCGCAATGA
1 GATTTACGT-AATCGCAATGA
72421 GATTCTGAC-T-ATCGCAATGA
1 GATT-T-ACGTAATCGCAATGA
72441 GATT
1 GATT
72445 CTGACTATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 33 0.87
21 1 0.03
22 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
GATTTACGTAATCGCAATGA
Found at i:72445 original size:20 final size:20
Alignment explanation
Indices: 72411--72458 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
72401 GATTTAGTAA
72411 ATCGCAATGAGATTCTGACT
1 ATCGCAATGAGATTCTGACT
72431 ATCGCAATGAGATTCTGACT
1 ATCGCAATGAGATTCTGACT
72451 ATCGCAAT
1 ATCGCAAT
72459 ACTGAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (20 bp):
ATCGCAATGAGATTCTGACT
Found at i:75862 original size:20 final size:20
Alignment explanation
Indices: 75795--75867 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
75785 GGCATTCATT
75795 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
**
75815 TGAC-ATTCGCAATCATC-TTAA
1 TGACTA-TCGCAA-CA-CGGAAA
*
75836 TGTCTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
75856 TGACTATCGCAA
1 TGACTATCGCAA
75868 TGTGAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 2 0.05
20 25 0.60
21 13 0.31
22 2 0.05
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACACGGAAA
Found at i:75898 original size:33 final size:33
Alignment explanation
Indices: 75861--75954 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
75851 GGAAATGACT
*
75861 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
75894 ATCGCAATACGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
75927 ATCTCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
75955 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:75917 original size:19 final size:19
Alignment explanation
Indices: 75841--75919 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 19
75831 CTTAATGTCT
* **
75841 ATCGCAACACGGAAATGACT
1 ATCGCAATAC-GAAATGAAA
**
75861 ATCGCAATGTGAAATGAAA
1 ATCGCAATACGAAATGAAA
*
75880 ATCGC-A-ACG--A-GAGA
1 ATCGCAATACGAAATGAAA
75894 ATCGCAATACGAAATGAAA
1 ATCGCAATACGAAATGAAA
75913 ATCGCAA
1 ATCGCAA
75920 CGAGGGAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.18
15 2 0.04
16 3 0.07
17 1 0.02
18 2 0.04
19 22 0.49
20 7 0.16
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATACGAAATGAAA
Found at i:75957 original size:19 final size:18
Alignment explanation
Indices: 75861--75959 Score: 52
Period size: 19 Copynumber: 5.7 Consensus size: 18
75851 GGAAATGACT
*
75861 ATCGCAATGTGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
75880 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
75894 ATCGCAATACGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
75913 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
*
75927 ATCTCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
75946 ATCGCAACGCGAAA
1 ATCGCAA-GCGAAA
75960 CTAAATTCGC
Statistics
Matches: 60, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
14 16 0.27
15 4 0.07
16 4 0.07
17 3 0.05
18 4 0.07
19 29 0.48
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:75987 original size:19 final size:19
Alignment explanation
Indices: 75965--76062 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 19
75955 CGAAACTAAA
75965 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
75984 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* * *
75999 -CCTCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
76017 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
76032 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
76050 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
76063 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
14 16 0.29
16 6 0.11
17 6 0.11
19 28 0.50
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:76013 original size:33 final size:33
Alignment explanation
Indices: 75969--76062 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
75959 ACTAAATTCG
*
75969 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
76002 CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
76035 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
76063 AGTCATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:76070 original size:19 final size:17
Alignment explanation
Indices: 76012--76062 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
76002 CGTTGCAATT
76012 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
76029 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
76043 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
76062 T
1 T
76063 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.22
16 7 0.26
17 8 0.30
19 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:76188 original size:14 final size:14
Alignment explanation
Indices: 76169--76205 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
76159 CATCAATTAA
76169 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
76183 ACAAATCATCTTTT
1 ACAAATCAACTTTT
76197 ACAAATCAA
1 ACAAATCAA
76206 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:77620 original size:21 final size:21
Alignment explanation
Indices: 77554--77620 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
77544 GTGAATCGGG
*
77554 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
77574 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
77596 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
77617 CTCT
1 CTCT
77621 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:78134 original size:20 final size:19
Alignment explanation
Indices: 78100--78166 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
78090 AATGACTATT
* *
78100 GCAACGCGAAATGAAAATT
1 GCAACGAGAAATGAAAATC
78119 GCAACGAGAGAATGAAAATC
1 GCAACGAGA-AATGAAAATC
* *
78139 GCAACGCGAAATAAAAATC
1 GCAACGAGAAATGAAAATC
78158 GCAACGAGA
1 GCAACGAGA
78167 GAATCGCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 25 0.60
20 17 0.40
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.10
Consensus pattern (19 bp):
GCAACGAGAAATGAAAATC
Found at i:78270 original size:20 final size:19
Alignment explanation
Indices: 78224--78280 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
78214 TGCGATTTTG
*
78224 TTGTTGCAATTTTCATTTC
1 TTGTTGCGATTTTCATTTC
**
78243 GCGTTGCGATTTTCATTCTC
1 TTGTTGCGATTTTCATT-TC
78263 TTGTTGCGATTTTCATTT
1 TTGTTGCGATTTTCATTT
78281 TAACCAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.12, C:0.18, G:0.16, T:0.54
Consensus pattern (19 bp):
TTGTTGCGATTTTCATTTC
Found at i:78486 original size:94 final size:94
Alignment explanation
Indices: 78372--78747 Score: 586
Period size: 94 Copynumber: 4.1 Consensus size: 94
78362 ATGGATTGCA
* * *
78372 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
78436 TTAGTAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
78465 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
78530 TTAGCAGAATTGGCAGCAAGA-GAACAAAT
66 TTAGCAGAATTGGCAGCAA-ACGAACAAAT
78559 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
78624 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
* *
78653 TTAC-TTCAACCAAAAGACAAAACAAAAGAAAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
78713 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAAACGAACAAAT
78743 TTACT
1 TTACT
78748 AAGCAATCTA
Statistics
Matches: 269, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
90 41 0.15
93 23 0.09
94 204 0.76
95 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:80449 original size:19 final size:19
Alignment explanation
Indices: 80425--80497 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
80415 TCTTTTGGTT
80425 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
80444 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
80461 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
80477 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
80496 GA
1 GA
80498 TTTTGGTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 10 0.22
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 30 0.65
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:80528 original size:14 final size:14
Alignment explanation
Indices: 80509--80565 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
80499 TTTGGTTTCG
80509 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
80523 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
80542 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
80556 CGTTGCGATT
1 CGTTGCGATT
80566 TTCATTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:80541 original size:33 final size:33
Alignment explanation
Indices: 80493--80583 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
80483 AAAATCGCAA
**
80493 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
80526 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
80559 TGCGATTTTCATTCCGCATTGCGAT
1 TGCGATTTTCATTTCGCGTTGCGAT
80584 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:80547 original size:19 final size:19
Alignment explanation
Indices: 80523--80610 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
80513 GCGATTATCT
80523 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
80542 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
80556 CGTTGCGATTTTCATTCCG
1 CGTTGCGATTTTCATTTCG
* **
80575 CATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTT-CG
80595 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
80611 CTCGAAACTA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
14 10 0.19
16 3 0.06
17 3 0.06
19 22 0.42
20 15 0.28
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:81173 original size:20 final size:20
Alignment explanation
Indices: 81150--81244 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
81140 CGATAATCAG
81150 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
81170 ATTCGCATTGCGATTTTTCCT
1 ATTCGCATTGCGA-TTTACGT
*
81191 AATTCGCATTGCGATTTATGT
1 -ATTCGCATTGCGATTTACGT
* *
81212 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
81232 ATTCGCATTGCGA
1 ATTCGCATTGCGA
81245 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 41 0.65
21 9 0.14
22 13 0.21
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:81203 original size:42 final size:40
Alignment explanation
Indices: 81150--81244 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 40
81140 CGATAATCAG
* *
81150 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGA-TTTACCT
* * *
81191 AATTCGCATTGCGATTTATGTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
81232 ATTCGCATTGCGA
1 ATTCGCATTGCGA
81245 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 13 0.27
41 5 0.10
42 30 0.62
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:81265 original size:21 final size:21
Alignment explanation
Indices: 81241--81281 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
81231 TATTCGCATT
81241 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
81262 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
81282 TACGATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:85849 original size:21 final size:21
Alignment explanation
Indices: 85823--85873 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
85813 TTTTTATGAA
*
85823 ATTAATAAATATATTA-ATTTT
1 ATTAAT-AATATATTATATATT
*
85844 ATTAATAATTTATTATATATT
1 ATTAATAATATATTATATATT
85865 ATTAA-AATA
1 ATTAATAATA
85874 AAATGCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAATAATATATTATATATT
Found at i:86986 original size:2 final size:2
Alignment explanation
Indices: 86979--87029 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
86969 TCAATAGAAA
86979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87021 AT AT AT AT A
1 AT AT AT AT A
87030 AGAATTTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88271 original size:56 final size:56
Alignment explanation
Indices: 88185--88296 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
88175 CAGTATTATG
88185 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
1 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
88241 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
1 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
88297 AGAAACTCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (56 bp):
TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
Found at i:88316 original size:56 final size:55
Alignment explanation
Indices: 88200--88317 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 55
88190 TCGTTTTGAT
** * *** *
88200 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATTTAAGTCGTTTTGAT
1 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATGAAACTCAAGTT-AC
88256 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATAGAAACTCCAAGTT-C
1 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT-GAAACT-CAAGTTAC
88312 TTCACA
1 TTCACA
88318 CATTATAGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 47 0.89
57 3 0.06
58 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (55 bp):
TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATGAAACTCAAGTTAC
Found at i:99406 original size:20 final size:20
Alignment explanation
Indices: 99376--99423 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
99366 TCGTGAAATT
99376 CAGGATGAACAGAGCAAACTA
1 CAGG-TGAACAGAGCAAACTA
99397 CAGGTGAACAGAGCAAACTA
1 CAGGTGAACAGAGCAAACTA
99417 CAGGTGA
1 CAGGTGA
99424 GCCGGTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.44, C:0.19, G:0.27, T:0.10
Consensus pattern (20 bp):
CAGGTGAACAGAGCAAACTA
Found at i:101416 original size:18 final size:18
Alignment explanation
Indices: 101391--101434 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
101381 ATGATTTTTA
101391 TCTTTCTTCTTCCTCTTCG
1 TCTTTCTTCTT-CTCTTCG
101410 T-TTTCTTCTTCTCTTCG
1 TCTTTCTTCTTCTCTTCG
101427 TCTTTCTT
1 TCTTTCTT
101435 TATTTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.64
Consensus pattern (18 bp):
TCTTTCTTCTTCTCTTCG
Found at i:106498 original size:37 final size:37
Alignment explanation
Indices: 106447--106556 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
106437 AACAAACATA
106447 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
*
106484 AGAGTTTTATTAGGATTCAAACTCCTAAAAATAGGAT
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
* * * *
106521 ATAATTCTACTATGATTCAAACTCCT-AAAATAGGAT
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
106557 CCACAAGCGT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 10 0.15
37 57 0.85
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (37 bp):
AGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
Found at i:107157 original size:2 final size:2
Alignment explanation
Indices: 107150--107224 Score: 62
Period size: 2 Copynumber: 37.5 Consensus size: 2
107140 TTTATTAATT
* * *
107150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA T- TT TT TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
107192 TT TT TA TT TT TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107225 TATTTTTACT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.02
2 62 0.95
3 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (2 bp):
TA
Found at i:107244 original size:17 final size:18
Alignment explanation
Indices: 107222--107261 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
107212 TATATATATA
107222 TATTATTTTTACTT-TTT
1 TATTATTTTTACTTATTT
*
107239 TATTA-TTTTATTTATTT
1 TATTATTTTTACTTATTT
107256 TATTAT
1 TATTAT
107262 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATTTTTACTTATTT
Found at i:107302 original size:12 final size:12
Alignment explanation
Indices: 107237--107397 Score: 67
Period size: 12 Copynumber: 12.6 Consensus size: 12
107227 TTTTTACTTT
*
107237 TTTATTATTTTA
1 TTTATTTTTTTA
*
107249 TTTATTTTATTA
1 TTTATTTTTTTA
*
107261 TATATTTTTTT-
1 TTTATTTTTTTA
*
107272 TCTTCTTTTTCTT-
1 T-TTATTTTT-TTA
* *
107285 TATATTTTTTTC
1 TTTATTTTTTTA
107297 TTTATTTATTTTA
1 TTTATTT-TTTTA
* * *
107310 CTTACTATTTTATC
1 TTTA-T-TTTTTTA
*
107324 TTTGTTTTCTTTA
1 TTTATTTT-TTTA
*
107337 TCTTA-TCTTTTA
1 T-TTATTTTTTTA
*
107349 TTTAATTTTTTTT
1 TTT-ATTTTTTTA
107362 TCTTCATTTTAATTTTA
1 T-TT-A-TTT--TTTTA
*
107379 TTTATTTATTTA
1 TTTATTTTTTTA
107391 TTTATTT
1 TTTATTT
107398 CTTACCTTTT
Statistics
Matches: 111, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
11 5 0.05
12 57 0.51
13 22 0.20
14 14 0.13
15 6 0.05
16 2 0.02
17 5 0.05
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:110446 original size:14 final size:13
Alignment explanation
Indices: 110405--110466 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
110395 AGATCCAATC
*
110405 AGAAAAAAAGCAAAA
1 AGAAAAAAA--AAAG
*
110420 AGAAAAAACAAAG
1 AGAAAAAAAAAAG
110433 AGAAAATAAAAAAG
1 AGAAAA-AAAAAAG
110447 AGAAACAAAACAAAG
1 AGAAA-AAAA-AAAG
110462 A-AAAA
1 AGAAAA
110467 GAAGACAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 10 0.24
14 17 0.41
15 14 0.34
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:112412 original size:115 final size:116
Alignment explanation
Indices: 112250--112478 Score: 345
Period size: 115 Copynumber: 2.0 Consensus size: 116
112240 CAATATAAGC
* * *
112250 TTGGATTTCAACTTCACAAAGAATGATATTCAAGTTAAGGCTCAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAACTTCACAAAGAAGGATATCCAAGTTAAGGCTCAACTTCACAACAAATGGGCCAT
* * *
112315 CCACGATTTCAACTTCACGACGAA-GGAATCGTGCTCACCAGCAACATTCA
66 CCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATTCA
* * *
112365 TTGGATTTCAACTTCACGACGAAGGATATCCAA-TTCAAGGCTCAACTTTACAACAAATGGGCCA
1 TTGGATTTCAACTTCACAAAGAAGGATATCCAAGTT-AAGGCTCAACTTCACAACAAATGGGCCA
*
112429 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATT
65 TCCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATT
112479 TATCTTCAGG
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
114 2 0.02
115 79 0.77
116 21 0.21
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (116 bp):
TTGGATTTCAACTTCACAAAGAAGGATATCCAAGTTAAGGCTCAACTTCACAACAAATGGGCCAT
CCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATTCA
Found at i:112654 original size:36 final size:36
Alignment explanation
Indices: 112567--112852 Score: 220
Period size: 36 Copynumber: 8.1 Consensus size: 36
112557 AATTTACTCA
*
112567 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
**** * *
112604 --ATTTTTTTTATCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
112638 AAACAAATTTTGTCTCTCTTAAGACAATTTCCTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * *
112674 AAACAAA------ATCT-TTGA-ATATGTTTTACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-G-TTTCCCTTG
* * *
112703 AAACAAATTTTGTCTCCCTTGAGATAG-TTCCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCC-CTTG
* * * *
112739 GAACTTAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
112776 AAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
112811 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCATG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
112848 AAACA
1 AAACA
112853 CCAATCTTTG
Statistics
Matches: 192, Mismatches: 39, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.01
29 10 0.05
30 9 0.05
34 29 0.15
35 16 0.08
36 87 0.45
37 36 0.19
38 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:112807 original size:138 final size:135
Alignment explanation
Indices: 112567--112817 Score: 360
Period size: 138 Copynumber: 1.8 Consensus size: 135
112557 AATTTACTCA
* * ** *
112567 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGATTTTTTTTATCTCTCTTGAGATAGTTT
1 AAACAAAGTTTTGTCTCCCTTGAGACAGTTCCTCTTGATTAGTTTTATCTCTCTTGAGACAGTTT
112632 CCCTTGAAACAAATTTTGTCTCTCTTAAGACAATTTCCTTTGAAACAAAATCTTTGAATATGTTT
66 CCCTTGAAACAAATTTTGTCTCTCTTAAGACAATTTCC-TTGAAACAAAATCTTTGAATATGTTT
112697 TACATT
130 TACATT
* * *
112703 AAACAAA-TTTTGTCTCCCTTGAGATAGTTCCTTTTGGAACTTAGTTTTGTCTCTCTTGAGACAG
1 AAACAAAGTTTTGTCTCCCTTGAGACAGTTCCTCTT-G-A-TTAGTTTTATCTCTCTTGAGACAG
* * *
112767 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTGAAACAAA
63 TTTCCCTTGAAACAAATTTTGTCTCTCTTAAGACAATTTCCTTGAAACAAA
112818 GTTTTGTCTC
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
135 24 0.24
136 8 0.08
137 11 0.11
138 58 0.57
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.43
Consensus pattern (135 bp):
AAACAAAGTTTTGTCTCCCTTGAGACAGTTCCTCTTGATTAGTTTTATCTCTCTTGAGACAGTTT
CCCTTGAAACAAATTTTGTCTCTCTTAAGACAATTTCCTTGAAACAAAATCTTTGAATATGTTTT
ACATT
Found at i:114211 original size:36 final size:35
Alignment explanation
Indices: 114171--114238 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
114161 GTTTTATTAA
*
114171 TTTTTATATATATATATATATATACTATTTTTTATG
1 TTTTTATATATATATATACATATA-TATTTTTTATG
*
114207 TTTTTATTTATATATATACATATATATTTTTT
1 TTTTTATATATATATATACATATATATTTTTT
114239 TCTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (35 bp):
TTTTTATATATATATATACATATATATTTTTTATG
Found at i:114212 original size:46 final size:44
Alignment explanation
Indices: 114118--114233 Score: 114
Period size: 46 Copynumber: 2.6 Consensus size: 44
114108 TTAGTATATA
* *
114118 TTTTTATT-TTTTTAGAT-TACATATATATTACTTTTTATTATC
1 TTTTTATTATTTTTATATATATATATATATTACTTTTTATTATC
*
114160 TGTTTTATTAATTTTTATATATATATATATATATACTATTTT-TTATG
1 T-TTTTATT-ATTTTTATATATATATATATAT-TACT-TTTTATTATC
* * *
114207 TTTTTATT-TATATATATACATATATAT
1 TTTTTATTATTTTTATATATATATATAT
114234 TTTTTTCTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.02
43 7 0.11
44 16 0.26
45 8 0.13
46 17 0.27
47 9 0.15
48 4 0.06
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (44 bp):
TTTTTATTATTTTTATATATATATATATATTACTTTTTATTATC
Found at i:114239 original size:36 final size:35
Alignment explanation
Indices: 114162--114249 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
114152 TTATTATCTG
* * *
114162 TTTTATTAATTTTTATATATATATATATATATACTA
1 TTTT-TTATTTTTTATTTATATATATACATATACTA
114198 TTTTTTATGTTTTTATTTATATATATACATATA-TA
1 TTTTTTAT-TTTTTATTTATATATATACATATACTA
*
114233 TTTTTTTCTTTTTTATT
1 -TTTTTTATTTTTTATT
114250 GTTTTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 13 0.28
36 33 0.72
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTTTATTTTTTATTTATATATATACATATACTA
Found at i:114245 original size:42 final size:42
Alignment explanation
Indices: 114173--114287 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 42
114163 TTTATTAATT
** *
114173 TTTATATATATATATATATA-TACTAT-TTTTTA-TGTTTTTA
1 TTTATATATATATATATATATTTTTTTCTTTTTATTG-TTTTA
*
114213 TTTATATATATACATATATATTTTTTTCTTTTTTATTGTTTTA
1 TTTATATATATATATATATATTTTTTTC-TTTTTATTGTTTTA
* *
114256 TTTAT-TTTATTTATATAT-TTTTTCTTCTTTTT
1 TTTATATATATATATATATATTTTT-TTCTTTTT
114288 CTTTATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
40 19 0.30
41 13 0.21
42 13 0.21
43 16 0.25
44 2 0.03
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (42 bp):
TTTATATATATATATATATATTTTTTTCTTTTTATTGTTTTA
Found at i:114258 original size:23 final size:23
Alignment explanation
Indices: 114231--114312 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
114221 TATACATATA
*
114231 TATTTTTTTCTTT-TTTATTGTTT
1 TATTTTTTTCTTTATATATT-TTT
*
114254 TATTTATTTTATTTATATATTTTT
1 TATTT-TTTTCTTTATATATTTTT
*
114278 TCTTCTTTTTCTTTATATATTTATT
1 TATT-TTTTTCTTTATATATTT-TT
114303 TATTTATTTT
1 TATTT-TTTT
114313 ACTTACGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.10
24 29 0.59
25 15 0.31
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (23 bp):
TATTTTTTTCTTTATATATTTTT
Found at i:114261 original size:4 final size:4
Alignment explanation
Indices: 114196--114311 Score: 53
Period size: 4 Copynumber: 29.2 Consensus size: 4
114186 ATATATATAC
* * ** * * *
114196 TATT T-TT TATGT T-TT TATT TATA TATA TACA TATA TATT TTTT TCTT
1 TATT TATT TAT-T TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * *
114243 T-TT TATT GT-TT TATT TATTT TATT TATA TATT T-TT TCTT CTTTT TCTT
1 TATT TATT -TATT TATT TA-TT TATT TATT TATT TATT TATT -TATT TATT
*
114291 TATA TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT T
114312 TACTTACGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
3 12 0.13
4 68 0.76
5 10 0.11
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:114271 original size:40 final size:37
Alignment explanation
Indices: 114207--114312 Score: 106
Period size: 39 Copynumber: 2.8 Consensus size: 37
114197 ATTTTTTATG
* * ** *
114207 TTTTTATTTATATATATACATATATATTTTTTTCTTT
1 TTTTTCTTTATATATTTATTTATATATTTTTTTCTTC
* *
114244 TTTATTGTTTTATTTATTTTATTTATATA-TTTTTTCTTC
1 TTT-TT-CTTTATATA-TTTATTTATATATTTTTTTCTTC
*
114283 TTTTTCTTTATATATTTATTTATTTATTTT
1 TTTTTCTTTATATATTTATTTATATATTTT
114313 ACTTACGATT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
36 11 0.20
37 13 0.23
38 4 0.07
39 19 0.34
40 9 0.16
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.73
Consensus pattern (37 bp):
TTTTTCTTTATATATTTATTTATATATTTTTTTCTTC
Found at i:114371 original size:27 final size:27
Alignment explanation
Indices: 114341--114405 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
114331 GCTTTCTTTA
* *
114341 TCTTATCTTTTATTTAATTTGTTTTTT
1 TCTTATCTTTTATTTAATTTATTTATT
*
114368 TCTTTAT-TTTAATTTAATTTATTTATT
1 TC-TTATCTTTTATTTAATTTATTTATT
* *
114395 TATTAGCTTTT
1 TCTTATCTTTT
114406 TATCTAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.10
27 23 0.77
28 4 0.13
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (27 bp):
TCTTATCTTTTATTTAATTTATTTATT
Found at i:115193 original size:3 final size:3
Alignment explanation
Indices: 115185--115222 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
115175 ATATATATAT
*
115185 ATA ATA ATA ATTA ATT AT- ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA AT
115223 CGGGACAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:115208 original size:15 final size:13
Alignment explanation
Indices: 115149--115222 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 13
115139 GCCTGATTTG
*
115149 TAATTAA-AATAT
1 TAATTAATAATAA
*
115161 TTATTAATATATATA
1 TAATTAATA-ATA-A
115176 TATATATATATAATAA
1 TA-AT-TA-ATAATAA
115192 TAATTAATTATATAA
1 TAATTAA-TA-ATAA
115207 TAA-TAATAATAA
1 TAATTAATAATAA
115219 TAAT
1 TAAT
115223 CGGGACAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
12 13 0.26
13 4 0.08
14 10 0.20
15 10 0.20
16 5 0.10
17 5 0.10
18 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTAATAATAA
Found at i:115626 original size:22 final size:22
Alignment explanation
Indices: 115601--115669 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
115591 ACATCCTACC
115601 CTGAAGGTTTTAACATCTTGCA
1 CTGAAGGTTTTAACATCTTGCA
* **
115623 CTGAAGGTCTT-ACA-GATG-A
1 CTGAAGGTTTTAACATCTTGCA
* *
115642 CCGAAGGCTTTAACATCTTGCA
1 CTGAAGGTTTTAACATCTTGCA
115664 CTGAAG
1 CTGAAG
115670 ACCTTACAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 9 0.26
20 5 0.14
21 5 0.14
22 16 0.46
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (22 bp):
CTGAAGGTTTTAACATCTTGCA
Found at i:115660 original size:41 final size:42
Alignment explanation
Indices: 115598--115694 Score: 151
Period size: 41 Copynumber: 2.3 Consensus size: 42
115588 AAAACATCCT
* **
115598 ACCCTGAAGGTTTTAACATCTTGCACTGAAGGTCTTACAGATG
1 ACCC-GAAGGCTTTAACATCTTGCACTGAAGACCTTACAGATG
115641 A-CCGAAGGCTTTAACATCTTGCACTGAAGACCTTACAGATG
1 ACCCGAAGGCTTTAACATCTTGCACTGAAGACCTTACAGATG
115682 ACCCGAAGGCTTT
1 ACCCGAAGGCTTT
115695 TAATTAAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 36 0.72
42 13 0.26
43 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (42 bp):
ACCCGAAGGCTTTAACATCTTGCACTGAAGACCTTACAGATG
Found at i:115820 original size:42 final size:42
Alignment explanation
Indices: 115741--115826 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
115731 CTCATTTGAA
** *
115741 AACATCCTGTACTGAAGGTCTTATGGATAACCCGAAGGCTTT
1 AACATCCTGTACTGAAGGTCTTACAGATAACCCGAAGGATTT
* * * * *
115783 AACATCTTGTATTGTAGGTCTTACAGATGACCTGAAGGATTT
1 AACATCCTGTACTGAAGGTCTTACAGATAACCCGAAGGATTT
115825 AA
1 AA
115827 ATTAAGAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (42 bp):
AACATCCTGTACTGAAGGTCTTACAGATAACCCGAAGGATTT
Found at i:115845 original size:130 final size:129
Alignment explanation
Indices: 115612--115855 Score: 335
Period size: 130 Copynumber: 1.9 Consensus size: 129
115602 TGAAGGTTTT
* *
115612 AACATCTTGCACTGAAGGTCTTACAGATGACCGAAGGCTTTAACATCTTGCACTGAAGACCTTAC
1 AACATCCTGCACTGAAGGTCTTACAGATAACCGAAGGCTTTAACATCTTGCACTGAAGACCTTAC
* *
115677 AGATGACCCGAAGGCTTTTAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
66 AGATGACCCGAAGGATTTAAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* ** * * * **
115741 AACATCCTGTACTGAAGGTCTTATGGATAACCCGAAGGCTTTAACATCTTGTATTGTAGGTCTTA
1 AACATCCTGCACTGAAGGTCTTACAGATAA-CCGAAGGCTTTAACATCTTGCACTGAAGACCTTA
* ***
115806 CAGATGACCTGAAGGATTTAAATTAAGAAACCTTTGAAGGCTTAGTTTCT
65 CAGATGACCCGAAGGATTTAAATTAAGAAACCCCCGAAGGCTTAGTTTCT
115856 TAGTTTTCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
129 25 0.26
130 73 0.74
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (129 bp):
AACATCCTGCACTGAAGGTCTTACAGATAACCGAAGGCTTTAACATCTTGCACTGAAGACCTTAC
AGATGACCCGAAGGATTTAAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
Found at i:117151 original size:54 final size:53
Alignment explanation
Indices: 117053--117309 Score: 293
Period size: 54 Copynumber: 4.8 Consensus size: 53
117043 TTGGTTCATA
* * **
117053 AAACATTGGACAACACATTCATCATTCCCTGTGGCTTCAACACAGATATTCGT
1 AAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCACAGATATTCGT
* * * * * *
117106 AATACATTTGACAATACATTCATCATTTTCTATGTCTTCTGCACAGATGTTTGT
1 AA-ACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCACAGATATTCGT
*
117160 AATACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTC-CAGATGA-TCGT
1 AA-ACATTTGACAACACATTCATCATTTCCTGTGGCTTCTG-CACAGAT-ATTCGT
* * *
117214 AAAGCATTTGACAACACATTCATCATTTCCTGTGGCTTCTACCCAGATGTTCGT
1 AAA-CATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCACAGATATTCGT
** *
117268 AAAGCATTTGACAACACATTCATTTTTTTCTGTGGCTTCTGC
1 AAA-CATTTGACAACACATTCATCATTTCCTGTGGCTTCTGC
117310 CCAAATTTCT
Statistics
Matches: 174, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
53 4 0.02
54 169 0.97
55 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (53 bp):
AAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCACAGATATTCGT
Found at i:117943 original size:119 final size:118
Alignment explanation
Indices: 117718--118073 Score: 515
Period size: 119 Copynumber: 3.0 Consensus size: 118
117708 ATGCCCTAAC
* *
117718 ATTTGCTTT-TTGCTAATATGAGC-TTAAAAAAT-GCCAAATATTCATACTGACATGGGCCTTCA
1 ATTTG-TTTCTTGCTAATATGAGCTTTCAAAAATACCCAAATATTCATACTGACATGGGCCTTCA
*
117780 AAATGTCCCACATAGGTCATTTTTGTCTGAAATGGGCTTTCGAGATGCTCCAAT
65 AAATGCCCCACATAGGTCATTTTTGTCTGAAATGGGCTTTCGAGATGCTCCAAT
*
117834 ATTTGTTTCTTGCTAATATGAGCTTTCAAAAATACCCAAATATTCATACTGACGTGGGCCTTCAA
1 ATTTGTTTCTTGCTAATATGAGCTTTCAAAAATACCCAAATATTCATACTGACATGGGCCTTCAA
*
117899 AATGCCCCCACATAGGTCATTTTTGTCTGAAATGGTCTTTCGAGATGCTCCAAT
66 AATG-CCCCACATAGGTCATTTTTGTCTGAAATGGGCTTTCGAGATGCTCCAAT
* * *
117953 ATTTGCTTCTCGCTAATATGAGCTTTCAAAAATACCCAAATATTCATATTGACACT-GGCCTTCA
1 ATTTGTTTCTTGCTAATATGAGCTTTCAAAAATACCCAAATATTCATACTGACA-TGGGCCTTCA
* * * * * *
118017 AAATTCCCCATATAGATCATTTCTGTCTGGAATGGGCTTTCGAAATGC-CTCAAT
65 AAATGCCCCACATAGGTCATTTTTGTCTGAAATGGGCTTTCGAGATGCTC-CAAT
118071 ATT
1 ATT
118074 CTATTTCTGG
Statistics
Matches: 218, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
115 3 0.01
116 19 0.09
117 9 0.04
118 77 0.35
119 109 0.50
120 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (118 bp):
ATTTGTTTCTTGCTAATATGAGCTTTCAAAAATACCCAAATATTCATACTGACATGGGCCTTCAA
AATGCCCCACATAGGTCATTTTTGTCTGAAATGGGCTTTCGAGATGCTCCAAT
Found at i:119493 original size:7 final size:7
Alignment explanation
Indices: 119462--119512 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
119452 CTTGATTCAA
119462 TTTTTTC
1 TTTTTTC
119469 TTCTTTTC
1 TT-TTTTC
* *
119477 TCTTCT-
1 TTTTTTC
119483 TTTTTTC
1 TTTTTTC
119490 TTTTTTC
1 TTTTTTC
119497 TTTTTTTC
1 -TTTTTTC
119505 TTTTTTC
1 TTTTTTC
119512 T
1 T
119513 AATGAATGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 4 0.11
7 20 0.54
8 13 0.35
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:119499 original size:15 final size:15
Alignment explanation
Indices: 119462--119512 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
119452 CTTGATTCAA
*
119462 TTTTTTCTTCTTTTC
1 TTTTTTCTTTTTTTC
*
119477 --TCTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
119490 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
119505 TTTTTTCT
1 TTTTTTCT
119513 AATGAATGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 11 0.35
15 20 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:119930 original size:18 final size:20
Alignment explanation
Indices: 119895--119936 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
119885 AATCAATCCC
*
119895 TCTTTTTTTCTTCTTCTTAT
1 TCTTTTTTTCTTCTTCTTAA
119915 TCTTTTTTTC-TC-TCTTAA
1 TCTTTTTTTCTTCTTCTTAA
119933 TCTT
1 TCTT
119937 ATTTCGAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTTTTTCTTCTTCTTAA
Found at i:125491 original size:18 final size:18
Alignment explanation
Indices: 125452--125491 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
125442 GGACTAAAAT
*
125452 ATAATAAAATAAAATACG
1 ATAATAAAATAAAATACA
125470 ATAATAAAATTAAAATA-A
1 ATAATAAAA-TAAAATACA
125488 ATAA
1 ATAA
125492 AAGTGTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
ATAATAAAATAAAATACA
Found at i:126221 original size:15 final size:15
Alignment explanation
Indices: 126201--126231 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
126191 AACTATGGTG
126201 GTGACTCACCATAGA
1 GTGACTCACCATAGA
126216 GTGACTCACCATAGA
1 GTGACTCACCATAGA
126231 G
1 G
126232 CTTCAACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (15 bp):
GTGACTCACCATAGA
Found at i:126613 original size:18 final size:17
Alignment explanation
Indices: 126590--126633 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
126580 AAATATTTAT
126590 TAATAATA-TATATATATA
1 TAATAATATTATA-ATA-A
126608 TAATAATCATTATAATAA
1 TAATAAT-ATTATAATAA
126626 TAATAATA
1 TAATAATA
126634 AGATCGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 4 0.17
20 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATATTATAATAA
Found at i:130017 original size:11 final size:12
Alignment explanation
Indices: 129977--130020 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
129967 TATTTAAACG
*
129977 GGTATTGGGCCA
1 GGTATTGGGTCA
129989 GGTATTGGGTCA
1 GGTATTGGGTCA
130001 GGTATTGGGTC-
1 GGTATTGGGTCA
130012 GGTATTGGG
1 GGTATTGGG
130021 CTGGGAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.14, C:0.09, G:0.45, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:130102 original size:24 final size:24
Alignment explanation
Indices: 130039--130102 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
130029 CGGGCCGGGT
130039 ATATATATATATATATTTAAATTAA
1 ATATATATATAT-TATTTAAATTAA
*
130064 ATATATATATTTTATTTAAATTAA
1 ATATATATATATTATTTAAATTAA
*
130088 ATTTAT-TAATATTAT
1 ATATATAT-ATATTAT
130103 ATATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.03
24 23 0.66
25 11 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATATATATATTATTTAAATTAA
Found at i:131102 original size:78 final size:78
Alignment explanation
Indices: 130969--131116 Score: 208
Period size: 78 Copynumber: 1.9 Consensus size: 78
130959 CACTTGTTGG
* * * *
130969 TATATGATCTATGGGTTAATAATTACCATGGTCAAAATTTTATTTAATATGTTTCGATCAATACT
1 TATATGATCTATCGGTTAATAATTACCATGATCAAAATTTTATTTAATATATTTCGATCAATAAT
131034 GATATATCTATTT
66 GATATATCTATTT
* ** *
131047 TATATGATTTATCGGTTAATAATTATTATGAT-AAAAGTTTTATTTAATCTATTTCGATCAATAA
1 TATATGATCTATCGGTTAATAATTACCATGATCAAAA-TTTTATTTAATATATTTCGATCAATAA
131111 TGATAT
65 TGATAT
131117 TATATTCATA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 4 0.07
78 57 0.93
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (78 bp):
TATATGATCTATCGGTTAATAATTACCATGATCAAAATTTTATTTAATATATTTCGATCAATAAT
GATATATCTATTT
Found at i:131392 original size:28 final size:29
Alignment explanation
Indices: 131325--131397 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
131315 ATTTTATGTT
* * * *
131325 GGGGACGAACTTAAACTTATAAAATTTTA
1 GGGGGCGAAATTAAACTTAAAAAATTATA
*
131354 GGAGGGTGAAATTAAACTTAAAAAATTATA
1 GG-GGGCGAAATTAAACTTAAAAAATTATA
*
131384 -GGGGCGAAAATAAA
1 GGGGGCGAAATTAAA
131398 TTTTTAATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 11 0.31
29 3 0.08
30 22 0.61
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.25
Consensus pattern (29 bp):
GGGGGCGAAATTAAACTTAAAAAATTATA
Found at i:133219 original size:36 final size:36
Alignment explanation
Indices: 133169--133252 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
133159 TGACAACTAA
133169 TTTTGAAAAAATGA-TTTTCAAAATTTGGTAAATGTT
1 TTTTG-AAAAATGATTTTTCAAAATTTGGTAAATGTT
* * *
133205 TCTTTGAAAAATGATTTTTCTAAGTTTGGTAGATGTT
1 T-TTTGAAAAATGATTTTTCAAAATTTGGTAAATGTT
*
133242 TGTTGAAAAAT
1 TTTTGAAAAAT
133253 TGTAATGGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 18 0.43
37 24 0.57
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.45
Consensus pattern (36 bp):
TTTTGAAAAATGATTTTTCAAAATTTGGTAAATGTT
Found at i:137729 original size:21 final size:20
Alignment explanation
Indices: 137705--137805 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 20
137695 AACTTTGAAA
137705 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
137726 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
137740 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
**
137761 AAATG-TTTC----TTTGAA
1 AAATGTTTTCAAAGTTTGGT
137776 AAATGGTTTTTCAAAGTTTGGT
1 AAAT-G-TTTTCAAAGTTTGGT
137798 AAATGTTT
1 AAATGTTT
137806 GTTGAAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 29
0.63 0.06 0.31
Matches are distributed among these distances:
14 5 0.08
15 12 0.20
16 5 0.08
18 4 0.07
19 8 0.13
20 7 0.12
21 11 0.18
22 8 0.13
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:137811 original size:36 final size:36
Alignment explanation
Indices: 137697--137815 Score: 188
Period size: 35 Copynumber: 3.3 Consensus size: 36
137687 TGGCAACCAA
*
137697 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
137734 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
137769 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
*
137806 -GTTGAAAAAT
1 CTTTGAAAAAT
137816 TATAATGGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
35 34 0.44
36 16 0.21
37 28 0.36
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:141205 original size:14 final size:14
Alignment explanation
Indices: 141188--141217 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
141178 TAAATACTAA
141188 AATAGATTAAAATT
1 AATAGATTAAAATT
*
141202 AATAGTTTAAAATT
1 AATAGATTAAAATT
141216 AA
1 AA
141218 ATGCAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAGATTAAAATT
Found at i:142035 original size:27 final size:26
Alignment explanation
Indices: 141985--142035 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
141975 AAATTCATAT
**
141985 TTTAAAAAATAATTATAATTTTATGA
1 TTTAAAAAATAATTATAAAGTTATGA
*
142011 TTTAAAAGATTAATTATAAAGTTAT
1 TTTAAAA-AATAATTATAAAGTTAT
142036 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
TTTAAAAAATAATTATAAAGTTATGA
Found at i:143699 original size:2 final size:2
Alignment explanation
Indices: 143692--143740 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
143682 TTATTAGATA
143692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143734 AT AT AT A
1 AT AT AT A
143741 AATAAGATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:144082 original size:3 final size:3
Alignment explanation
Indices: 144076--144101 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
144066 ATATGACTAC
144076 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
144102 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:145292 original size:3 final size:3
Alignment explanation
Indices: 145284--145340 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
145274 CTGTAATATG
* * *
145284 TAA TAA TAA TATT TAT TAA TAA TAA TAA AAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
145329 TAA TAA TAA TAA
1 TAA TAA TAA TAA
145341 GAGAAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:145304 original size:23 final size:23
Alignment explanation
Indices: 145284--145339 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
145274 CTGTAATATG
* *
145284 TAATAATAATAT-TTATTAATAA
1 TAATAATAATATAATAATAATAA
*
145306 TAATAAAAATATAATAATAATAA
1 TAATAATAATATAATAATAATAA
145329 TAATAATAATA
1 TAATAATAATA
145340 AGAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAATAATATAATAATAATAA
Found at i:145599 original size:19 final size:19
Alignment explanation
Indices: 145500--145609 Score: 76
Period size: 19 Copynumber: 5.4 Consensus size: 19
145490 AACGAGATTT
*
145500 TGAAAAATGTGTTGTGATAG
1 TGAAAAA-GTGTTGCGATAG
* * * *
145520 TTAAAATGTGTTGCAATAA
1 TGAAAAAGTGTTGCGATAG
* * *
145539 TTAAAATGTGTTGCGAGAG
1 TGAAAAAGTGTTGCGATAG
145558 TTTGAAAAACGTGTTGTTTGCGATAG
1 --TGAAAAA---G-TG-TTGCGATAG
145584 TGAAAAAGTGTTGCGATAG
1 TGAAAAAGTGTTGCGATAG
145603 TGAAAAA
1 TGAAAAA
145610 TCCAAAATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
19 41 0.57
20 7 0.10
21 6 0.08
24 8 0.11
25 2 0.03
26 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (19 bp):
TGAAAAAGTGTTGCGATAG
Found at i:145881 original size:6 final size:5
Alignment explanation
Indices: 145838--145877 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
145828 TCGTCCCGTC
*
145838 TCGGG TCGGG TCGGG TCGGT TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
145878 TGGTAATACG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.00, C:0.20, G:0.53, T:0.28
Consensus pattern (5 bp):
TCGGG
Found at i:146113 original size:41 final size:41
Alignment explanation
Indices: 146016--146114 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
146006 GAATTTGAAA
* *
146016 AATCGCATTGGGATTTTGTATTATCGTGTTGCGATAGTCAG
1 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* * * * *
146057 AATCGCGTTGTGATTTTGTATTATCGCGTTGCTAT-TTACAT
1 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGT-CAG
*
146098 ATTCGCATTGCGATTTT
1 AATCGCATTGCGATTTT
146115 CTAAAATCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
40 1 0.02
41 47 0.98
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.43
Consensus pattern (41 bp):
AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
Found at i:146131 original size:21 final size:21
Alignment explanation
Indices: 146107--146147 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
146097 TATTCGCATT
* *
146107 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
*
146128 GCGAATTTGGAAAATCGCAA
1 GCGAATTTCGAAAATCGCAA
146148 TGCAATAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:146883 original size:112 final size:113
Alignment explanation
Indices: 146681--146977 Score: 472
Period size: 113 Copynumber: 2.6 Consensus size: 113
146671 GGAGTCATGC
* * * *
146681 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTTTTCC-TCTTCAGATAAGTTATTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
146745 TATGAACTATACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
65 TATGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
* *
146794 -AAAGTTGAACATGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
146858 ATGAACTCCACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGTG
66 ATGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
*
146906 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
146971 ATGAACT
66 ATGAACT
146978 TCTTCTTCAT
Statistics
Matches: 169, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
111 34 0.20
112 67 0.40
113 68 0.40
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
Found at i:146957 original size:113 final size:112
Alignment explanation
Indices: 146561--146977 Score: 466
Period size: 112 Copynumber: 3.6 Consensus size: 112
146551 TAATCTAGCA
* * *
146561 AAAAGTTGAACAAATTCTTCTCATTATGAACTT-TTCTTCTTTTTCAGATGAGTTATTCTCATTA
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
** * * * * * *
146625 TGAAC-ACTTCTGGAAATGTTAATGCTGATCTATCTCATTCTGTGATGGAGTC-ATGC-
66 TGAACTACACCT----A-G-CAATGTTGATCCATC-GA----GTGATGAATTCGA-GCG
* * * * *
146681 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTTTTCCTCTTCAGATAAGTTATTCTCATT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
*
146746 ATGAACTATACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
65 ATGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
* *
146794 -AAAGTTGAACATGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
* * *
146858 ATGAACTCCACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGTG
65 ATGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
146906 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATT
146971 ATGAACT
65 ATGAACT
146978 TCTTCTTCAT
Statistics
Matches: 262, Mismatches: 27, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
111 32 0.12
112 80 0.31
113 68 0.26
116 1 0.00
117 12 0.05
118 1 0.00
119 1 0.00
120 4 0.02
121 28 0.11
122 32 0.12
123 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (112 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTACACCTAGCAATGTTGATCCATCGAGTGATGAATTCGAGCG
Found at i:146962 original size:40 final size:40
Alignment explanation
Indices: 146918--147017 Score: 191
Period size: 40 Copynumber: 2.5 Consensus size: 40
146908 AAGTTGAACA
*
146918 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACG
146958 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACG
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACG
146998 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
147018 CTACCTGGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACG
Found at i:146982 original size:153 final size:149
Alignment explanation
Indices: 146806--147124 Score: 518
Period size: 153 Copynumber: 2.1 Consensus size: 149
146796 AGTTGAACAT
* * *
146806 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCCACCT
1 GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACGAGTTCTTCTCATTATGAACTCCACCT
* *
146871 GGCAATGTTGATCCATCGAGTGATGAATTCGAGTGAAAAGTTGAACAAGTTCTTCTCATTATGAA
66 GGCAATGTTGATCCATCGAGTGATAAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAA
146936 CTTCTTCTTCATTCTTCAGATGA
131 CTTCTTCTTC--T-TT-AGATGA
*
146959 GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCT
1 GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACGAGTTCTTCTCATTATGAACTCCACCT
*
147024 GGCAATGTTGATCCATCGAGTGATAAATTCGAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAA
66 GGCAATGTTGATCCATCGAGTGATAAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAA
147089 CTTCTTCTTCTTTAGATGA
131 CTTCTTCTTCTTTAGATGA
147108 GTTC-T-T-ATTATGAACTT
1 GTTCTTCTCATTATGAACTT
147125 TCTCTGAAAA
Statistics
Matches: 159, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
146 11 0.07
147 1 0.01
148 1 0.01
149 10 0.06
150 2 0.01
151 1 0.01
153 133 0.84
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (149 bp):
GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGACGAGTTCTTCTCATTATGAACTCCACCT
GGCAATGTTGATCCATCGAGTGATAAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAA
CTTCTTCTTCTTTAGATGA
Found at i:147552 original size:22 final size:22
Alignment explanation
Indices: 147521--147571 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
147511 AAAGCTTTCG
*
147521 TCTTT-AAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATATATCA
*
147542 TCTTTGAAAAGATAATATATCA
1 TCTTTGAAAAGAGAATATATCA
147564 TCTTTGAA
1 TCTTTGAA
147572 GAATGTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATATATCA
Found at i:151094 original size:17 final size:17
Alignment explanation
Indices: 151072--151106 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
151062 GAAATATTTC
151072 ATCAACCTTGTAACTTG
1 ATCAACCTTGTAACTTG
151089 ATCAACCTTGTAACTTG
1 ATCAACCTTGTAACTTG
151106 A
1 A
151107 GGCTCAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (17 bp):
ATCAACCTTGTAACTTG
Found at i:154570 original size:43 final size:43
Alignment explanation
Indices: 154522--154607 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
154512 TCGTGCATCA
* *
154522 AACAAAACTTTACATATAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
154565 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
154608 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:155361 original size:14 final size:13
Alignment explanation
Indices: 155337--155366 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
155327 AATGTAAAAT
155337 AATAAAAAAATAA
1 AATAAAAAAATAA
155350 AATAAGAAAAATAA
1 AATAA-AAAAATAA
155364 AAT
1 AAT
155367 GGTTAGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:156904 original size:3 final size:3
Alignment explanation
Indices: 156898--156931 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
156888 ATATGACTAC
*
156898 ATA ATA ATA ATA A-A ATA ATA ATA AAA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
156932 TTAAACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:158099 original size:3 final size:3
Alignment explanation
Indices: 158091--158161 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
158081 CTATAATATG
* * * *
158091 TAA TAA TAA TATT TAT TAA TAA TAA TAA AAA T-A TAA TAA TTA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
158136 CAA TTA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
158162 AACGGGCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
2 4 0.07
3 49 0.89
4 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:160917 original size:68 final size:68
Alignment explanation
Indices: 160808--160944 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
160798 AACGTATGAA
* *
160808 CTTGAGATGAACCCTAATTTCAAAAAACAAAAACAATACAAATATAACTCATTTAAACCCATCAT
1 CTTGAGATGAAACCTAATTTCAAAAAACAAAAACAATACAAATACAACTCATTTAAACCCATCAT
160873 TCT
66 TCT
160876 CTTGAGATGAAACCTAATTTCAAAAAACAAAAACAATACAAATACAACTCATTTAAACCCATCAT
1 CTTGAGATGAAACCTAATTTCAAAAAACAAAAACAATACAAATACAACTCATTTAAACCCATCAT
160941 TCT
66 TCT
160944 C
1 C
160945 GTAAAAGATG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (68 bp):
CTTGAGATGAAACCTAATTTCAAAAAACAAAAACAATACAAATACAACTCATTTAAACCCATCAT
TCT
Found at i:165322 original size:10 final size:10
Alignment explanation
Indices: 165307--165353 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
165297 TATTTTTTAA
*
165307 AAAAATAAAT
1 AAAAATCAAT
165317 AAAAATCCAAT
1 AAAAAT-CAAT
*
165328 AAAATTCAAT
1 AAAAATCAAT
*
165338 AAAATTCAAT
1 AAAAATCAAT
165348 AAAAAT
1 AAAAAT
165354 ATAATGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:165328 original size:11 final size:10
Alignment explanation
Indices: 165318--165351 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
165308 AAAATAAATA
*
165318 AAAATCCAAT
1 AAAATTCAAT
165328 AAAATTCAAT
1 AAAATTCAAT
165338 AAAATTCAAT
1 AAAATTCAAT
165348 AAAA
1 AAAA
165352 ATATAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTCAAT
Found at i:165457 original size:29 final size:30
Alignment explanation
Indices: 165425--165489 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
165415 AAAAAATATT
165425 AAATAAATATTAA-ATT-TTAATT-TTATTAA
1 AAATAAATA--AACATTATTAATTGTTATTAA
* *
165454 AAATGAATAAACATTATTAATTGTTGTTAA
1 AAATAAATAAACATTATTAATTGTTATTAA
165484 AAATAA
1 AAATAA
165490 TAATTAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.07
28 3 0.10
29 14 0.47
30 11 0.37
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATAAATAAACATTATTAATTGTTATTAA
Found at i:165918 original size:10 final size:10
Alignment explanation
Indices: 165903--165928 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
165893 TTTGCAAAAG
165903 AATATTTAAA
1 AATATTTAAA
165913 AATATTTAAA
1 AATATTTAAA
165923 AATATT
1 AATATT
165929 AGTATTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATTTAAA
Found at i:172748 original size:53 final size:53
Alignment explanation
Indices: 172691--172848 Score: 235
Period size: 53 Copynumber: 3.0 Consensus size: 53
172681 CTATATTTTT
*
172691 TTTTTTATCGAATTGTTCCTTAAAACGGATTCGCATCTCTTACAATCAACACA
1 TTTTTTATCGAATTATTCCTTAAAACGGATTCGCATCTCTTACAATCAACACA
* * *
172744 TTTTTTATCGAATTATTTCTTAAAACGGATTCGCATTTCTTACAATCAACATA
1 TTTTTTATCGAATTATTCCTTAAAACGGATTCGCATCTCTTACAATCAACACA
* ** * *
172797 TTTTTTATCGAATTATTCTTTAAAGTGGATTTGCATCTCTTACAACCAACAC
1 TTTTTTATCGAATTATTCCTTAAAACGGATTCGCATCTCTTACAATCAACAC
172849 GATCTTCTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (53 bp):
TTTTTTATCGAATTATTCCTTAAAACGGATTCGCATCTCTTACAATCAACACA
Found at i:174090 original size:27 final size:28
Alignment explanation
Indices: 174042--174096 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
174032 AACTACTCAA
*
174042 AAAGGTTGATAAATAGTCGACTC-AGTT
1 AAAGGTTGATAAATACTCGACTCGAGTT
* *
174069 AAAGTTTGATAAATACTTGACTCGAGTT
1 AAAGGTTGATAAATACTCGACTCGAGTT
174097 TAAATTCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (28 bp):
AAAGGTTGATAAATACTCGACTCGAGTT
Found at i:174442 original size:15 final size:15
Alignment explanation
Indices: 174422--174452 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
174412 AAGTTACGGT
174422 GGAGGTGGGGAGAGG
1 GGAGGTGGGGAGAGG
174437 GGAGGTGGGGAGAGG
1 GGAGGTGGGGAGAGG
174452 G
1 G
174453 TATTTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.74, T:0.06
Consensus pattern (15 bp):
GGAGGTGGGGAGAGG
Found at i:174858 original size:24 final size:24
Alignment explanation
Indices: 174824--174873 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
174814 CCAATTTTTG
*
174824 AAAGATCAATATC-GAAAGGTTTAA
1 AAAGATCAATATCAAAAAGG-TTAA
*
174848 AAAGATTAATATCAAAAAGGTTAA
1 AAAGATCAATATCAAAAAGGTTAA
174872 AA
1 AA
174874 GGTTAAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.24
Consensus pattern (24 bp):
AAAGATCAATATCAAAAAGGTTAA
Found at i:181788 original size:12 final size:11
Alignment explanation
Indices: 181763--181797 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
181753 AAAGAATTCA
181763 TTTGAATTGGTT
1 TTTGAATT-GTT
*
181775 TTTGAGTTGTT
1 TTTGAATTGTT
181786 TTTGAATTGTT
1 TTTGAATTGTT
181797 T
1 T
181798 ATAACCTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.14, C:0.00, G:0.23, T:0.63
Consensus pattern (11 bp):
TTTGAATTGTT
Found at i:183373 original size:18 final size:18
Alignment explanation
Indices: 183350--183384 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
183340 TAAAATTATA
*
183350 ATTAAATTTTAATAAATG
1 ATTAAATTTAAATAAATG
183368 ATTAAATTTAAATAAAT
1 ATTAAATTTAAATAAAT
183385 CCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTTAAATAAATG
Found at i:183550 original size:20 final size:22
Alignment explanation
Indices: 183525--183580 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
183515 GTTAGAACTG
183525 GTATCGATACTACCCAT-A-CA
1 GTATCGATACTACCCATAACCA
*
183545 GTATCGATAC--CCCTTCAACCA
1 GTATCGATACTACCCAT-AACCA
183566 GTATCGATACTACCC
1 GTATCGATACTACCC
183581 TTAATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.13
20 11 0.37
21 12 0.40
23 3 0.10
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.25
Consensus pattern (22 bp):
GTATCGATACTACCCATAACCA
Found at i:186184 original size:23 final size:23
Alignment explanation
Indices: 186141--186185 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
186131 TATTTGGGTT
*
186141 TTAAAATATTAATAGGTTTAATG
1 TTAAAATATTAATAAGTTTAATG
*
186164 TTAAAAT-TTATTAAGTCTTAAT
1 TTAAAATATTAATAAGT-TTAAT
186186 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
TTAAAATATTAATAAGTTTAATG
Found at i:186525 original size:29 final size:29
Alignment explanation
Indices: 186490--186546 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
186480 AATATTATGA
*
186490 AAATAATATCT-TTTATTAAAAAAATATTT
1 AAATAATAT-TATTTATCAAAAAAATATTT
*
186519 AAATAATATTATTTATCAAAATAATATT
1 AAATAATATTATTTATCAAAAAAATATT
186547 CTTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATAATATTATTTATCAAAAAAATATTT
Done.