Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016402.1 Corchorus capsularis cultivar CVL-1 contig16423, 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: 76148
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:22 original size:16 final size:16
Alignment explanation
Indices: 1--47 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
1 GAAAAAAGAAAGAAAA
1 GAAAAAAGAAAGAAAA
17 GAAAAAAGAAAGAGAAA
1 GAAAAAAGAAAGA-AAA
34 -AAAAAAGAAA-AAAA
1 GAAAAAAGAAAGAAAA
48 CTTGGCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 23 0.77
17 3 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAGAAAGAAAA
Found at i:26 original size:12 final size:12
Alignment explanation
Indices: 9--46 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1 GAAAAAAG
9 AAAGAAAAGAAA
1 AAAGAAAAGAAA
21 AAAG-AAAGAGAA
1 AAAGAAAAGA-AA
33 AAA-AAAAGAAA
1 AAAGAAAAGAAA
44 AAA
1 AAA
47 ACTTGGCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:1768 original size:54 final size:54
Alignment explanation
Indices: 1685--2125 Score: 693
Period size: 54 Copynumber: 8.1 Consensus size: 54
1675 CCGAATTTCA
* *
1685 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTCATCTTT
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
* * *
1739 GAGTGATCCAGTGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGT-TTAAGTTTATCTTC
* * *
1794 AAGTGATCCAGTGCGGTCAGTCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
* * *
1848 GAGTGATCCAGTGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGT-TTAAGTTTATCTTC
* *
1903 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAATTTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
* * *
1957 AAGTGATCCAGTACGGTCAATCAAGCAAGTTTCCAATGGTTTAAGTTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
*
2011 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTTCAGTGGTTTAAGTTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
* *
2065 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAATGGTTTAAATTTATCTTC
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
2119 AAGTGAT
1 AAGTGAT
2126 TGTCGCAACG
Statistics
Matches: 355, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
54 257 0.72
55 98 0.28
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (54 bp):
AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTC
Found at i:1876 original size:109 final size:108
Alignment explanation
Indices: 1685--2125 Score: 702
Period size: 109 Copynumber: 4.1 Consensus size: 108
1675 CCGAATTTCA
* **
1685 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTCATCTTTGAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCAAGTGATCCAG
* *
1750 TGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTC
66 TGCGATCAATCAAGAAAGTTTCCAATGGT-TTAAGTTTATCTTC
* *
1794 AAGTGATCCAGTGCGGTCAGTCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCGAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCAAGTGATCCAG
* *
1859 TGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTC
66 TGCGATCAATCAAGAAAGTTTCCAATGGT-TTAAGTTTATCTTC
* *
1903 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAATTTTATCTTCAAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCAAGTGATCCAG
* * *
1968 TACGGTCAATCAAGCAAGTTTCCAATGGTTTAAGTTTATCTTC
66 TGCGATCAATCAAGAAAGTTTCCAATGGTTTAAGTTTATCTTC
* *
2011 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTTCAGTGGTTTAAGTTTATCTTCAAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCAAGTGATCCAG
* *
2076 TGCGGTCAATCAAGAAAGTTTCCAATGGTTTAAATTTATCTTC
66 TGCGATCAATCAAGAAAGTTTCCAATGGTTTAAGTTTATCTTC
2119 AAGTGAT
1 AAGTGAT
2126 TGTCGCAACG
Statistics
Matches: 315, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
108 124 0.39
109 191 0.61
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (108 bp):
AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAAGTTCATCTTCAAGTGATCCAG
TGCGATCAATCAAGAAAGTTTCCAATGGTTTAAGTTTATCTTC
Found at i:1956 original size:163 final size:162
Alignment explanation
Indices: 1685--2125 Score: 693
Period size: 163 Copynumber: 2.7 Consensus size: 162
1675 CCGAATTTCA
* **
1685 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTCATCTTTGAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTCAAGTGATCCAG
* * * * *
1750 TGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTCAAGTGATCCAGTGCGGTCAGT
66 TGCGGTCAATCAAGAAAGTTTCCAGTGGT-TTAAATTTATCTTCAAGTGATCCAGTACGGTCAAT
*
1815 CAAGAAAGTTTACAGTGGTTTAAGTTCATCTTC
130 CAAGAAAGTTTACAATGGTTTAAGTTCATCTTC
* * *
1848 GAGTGATCCAGTGCGATCAGTCAAGAAAGTTTCCAGTGGTATTAAGTTTATCTTCAAGTGATCCA
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGT-TTAAGTTTATCTTCAAGTGATCCA
* *
1913 GTGCGGTCAATCAAGAAAGTTTACAGTGGTTTAATTTTATCTTCAAGTGATCCAGTACGGTCAAT
65 GTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAATTTATCTTCAAGTGATCCAGTACGGTCAAT
* * *
1978 CAAGCAAGTTTCCAATGGTTTAAGTTTATCTTC
130 CAAGAAAGTTTACAATGGTTTAAGTTCATCTTC
*
2011 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTTCAGTGGTTTAAGTTTATCTTCAAGTGATCCAG
1 AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTCAAGTGATCCAG
*
2076 TGCGGTCAATCAAGAAAGTTTCCAATGGTTTAAATTTATCTTCAAGTGAT
66 TGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAATTTATCTTCAAGTGAT
2126 TGTCGCAACG
Statistics
Matches: 254, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
162 72 0.28
163 134 0.53
164 48 0.19
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (162 bp):
AAGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAGTTTATCTTCAAGTGATCCAG
TGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAATTTATCTTCAAGTGATCCAGTACGGTCAATC
AAGAAAGTTTACAATGGTTTAAGTTCATCTTC
Found at i:2608 original size:29 final size:29
Alignment explanation
Indices: 2575--2638 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 29
2565 ACTTTTGCTA
* *
2575 CTTTTATCATTTTTACTCTTTTCTTGCTCT
1 CTTTTATC-TATTTACTCTTTTCTTACTCT
2605 -TTTTA-CTATTTACTCTTTTCTTACTCT
1 CTTTTATCTATTTACTCTTTTCTTACTCT
2632 CTTTTAT
1 CTTTTAT
2639 TGATTACCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 19 0.63
28 6 0.20
29 5 0.17
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (29 bp):
CTTTTATCTATTTACTCTTTTCTTACTCT
Found at i:2723 original size:21 final size:21
Alignment explanation
Indices: 2699--2900 Score: 104
Period size: 21 Copynumber: 9.8 Consensus size: 21
2689 TCTTTGAATC
*
2699 ACTGATCACCTTTTACTCTTT
1 ACTGATTACCTTTTACTCTTT
* *
2720 ACTGAATACTATTTTACTC-TT
1 ACTGATTAC-CTTTTACTCTTT
* *
2741 ACTAATTACCATTTTGCTC-TT
1 ACTGATTACC-TTTTACTCTTT
*
2762 ACTGATTACTATTTTACTC-TT
1 ACTGATTAC-CTTTTACTCTTT
**
2783 ACTGATTACCTTTTACTGATT
1 ACTGATTACCTTTTACTCTTT
**
2804 ACT-ATTTTA-CTCTTTACTGATT
1 ACTGA--TTACCT-TTTACTCTTT
* *
2826 AC------CTTTTTACTTTTT
1 ACTGATTACCTTTTACTCTTT
*
2841 ACTGATTACTATTTTACTCTTT
1 ACTGATTAC-CTTTTACTCTTT
* *
2863 ATTGATTACCATTTTGCTC-TT
1 ACTGATTACC-TTTTACTCTTT
*
2884 ACTGATTATCTTTTACT
1 ACTGATTACCTTTTACT
2901 AATTACTATT
Statistics
Matches: 142, Mismatches: 23, Indels: 33
0.72 0.12 0.17
Matches are distributed among these distances:
15 10 0.07
16 1 0.01
20 14 0.10
21 69 0.49
22 48 0.34
ACGTcount: A:0.22, C:0.20, G:0.05, T:0.52
Consensus pattern (21 bp):
ACTGATTACCTTTTACTCTTT
Found at i:2889 original size:101 final size:99
Alignment explanation
Indices: 2709--3193 Score: 376
Period size: 101 Copynumber: 4.8 Consensus size: 99
2699 ACTGATCACC
* * * * *
2709 TTTTACTCTTTACTGAATA-CTATTTTACTCTTACTAATTACCATTTTGCTCTTACTGATTACTA
1 TTTTACTCTTTACTGATTACCT-TTTTACTTTTACTGATTACCATTTTACTCTTACTGATTACCA
*
2773 TTTTACTCTTACTGATTACCTTTTACTGATTACTA
65 TTTTACTCTTACTGATTACCTTTTACTAATTACTA
* *
2808 TTTTACTCTTTACTGATTACCTTTTTACTTTTTACTGATTACTATTTTACTCTTTATTGATTACC
1 TTTTACTCTTTACTGATTACCTTTTTAC-TTTTACTGATTACCATTTTACTC-TTACTGATTACC
* *
2873 ATTTTGCTCTTACTGATTATCTTTTACTAATTACTA
64 ATTTTACTCTTACTGATTACCTTTTACTAATTACTA
**
2909 TTTTACTCTTTACTGATTACCTTCCTACTTTTACTGATTACCA--TTA--CTT--T--TTACCAT
1 TTTTACTCTTTACTGATTACCTTTTTACTTTTACTGATTACCATTTTACTCTTACTGATTACCAT
**
2966 TTTACTCTTTACTGATTACCTTTTCACATTTTTACAGATTA
66 TTTACTC-TTACTGATTACCTTTT-AC-TAATTAC----TA
* * *
3007 CTCTTTACTTTTTTA-TCGATTA-CTATTTTACTCTTACTGATTACC----T--T-TTACGGATT
1 -T-TTTAC-TCTTTACT-GATTACCT-TTTTACTTTTACTGATTACCATTTTACTCTTACTGATT
* *
3063 ACTATTTTACTCTTTGCTGATTACCTTCTTACTTTTTATTGATTACTA
61 ACCATTTTACTC-TTACTGATTACCTT-TTAC----TA---ATTACTA
* * * ** * *
3111 TATTACTCTTTACTGATTACCATTTTGCTTTTACTGATCGCCATTTTGCTCTTACTGATTACTAT
1 TTTTACTCTTTACTGATTACCTTTTTACTTTTACTGATTACCATTTTACTCTTACTGATTACCAT
*
3176 TTTACCTTTTACTGATTA
66 TTTA-CTCTTACTGATTA
3194 TCATTACTTT
Statistics
Matches: 312, Mismatches: 37, Indels: 65
0.75 0.09 0.16
Matches are distributed among these distances:
91 13 0.04
92 15 0.05
93 3 0.01
94 5 0.02
95 2 0.01
96 1 0.00
98 7 0.02
99 26 0.08
100 43 0.14
101 122 0.39
102 35 0.11
103 3 0.01
104 2 0.01
105 2 0.01
107 1 0.00
108 30 0.10
109 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (99 bp):
TTTTACTCTTTACTGATTACCTTTTTACTTTTACTGATTACCATTTTACTCTTACTGATTACCAT
TTTACTCTTACTGATTACCTTTTACTAATTACTA
Found at i:2943 original size:57 final size:55
Alignment explanation
Indices: 2832--2987 Score: 186
Period size: 57 Copynumber: 2.8 Consensus size: 55
2822 GATTACCTTT
* * * *
2832 TTACTTTTTACTGATTACTATTTTACTCTTTATTGATTACCATTTTGCTCTTACTGA
1 TTAC-TTTTACTAATTACTATTTTACTCTTTACTGATTACC-TTCTACTCTTACTGA
*
2889 TTATCTTTTACTAATTACTATTTTACTCTTTACTGATTACCTTCCTACTTTTACTGA
1 TTA-CTTTTACTAATTACTATTTTACTCTTTACTGATTACCTT-CTACTCTTACTGA
** ** *
2946 TTACCATTACTTTTTACCATTTTACTCTTTACTGATTACCTT
1 TTACTTTTACTAATTACTATTTTACTCTTTACTGATTACCTT
2988 TTCACATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
56 36 0.41
57 50 0.57
58 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.04, T:0.53
Consensus pattern (55 bp):
TTACTTTTACTAATTACTATTTTACTCTTTACTGATTACCTTCTACTCTTACTGA
Found at i:3096 original size:158 final size:158
Alignment explanation
Indices: 2739--3117 Score: 478
Period size: 158 Copynumber: 2.4 Consensus size: 158
2729 TATTTTACTC
* * * * * *
2739 TTACTAATTACCATTTTGCTC-TTACTGATTA-CTATTTTACTCTTACTGATTACCTTTTACTGA
1 TTACGAATTACTATTTTACTCTTTACTGATTACCT-TCTTACTTTTACTGATTACCTATTACTGA
* * * * *
2802 TTACTATTTTACTCTTTACTGATTACCTTTTTACTTTTTACTGATTACTATTTTACTCTTTATTG
65 TTACCATTTTACTCTTTACTGATTACCTTTTCACTTTTTACAGATTACTACTTTACTCTTTATCG
* *
2867 ATTACCATTTTGCTCTTACTGATTATCTT
130 ATTACCATTTTACTCTTACTGATTACCTT
* * **
2896 TTACTAATTACTATTTTACTCTTTACTGATTACCTTCCTACTTTTACTGATTACC-ATTACTTTT
1 TTACGAATTACTATTTTACTCTTTACTGATTACCTTCTTACTTTTACTGATTACCTATTACTGAT
*
2960 TACCATTTTACTCTTTACTGATTACCTTTTCACATTTTTACAGATTACT-CTTTACTTTTTTATC
66 TACCATTTTACTCTTTACTGATTACCTTTTCAC-TTTTTACAGATTACTACTTTAC-TCTTTATC
*
3024 GATTACTATTTTACTCTTACTGATTACCTT
129 GATTACCATTTTACTCTTACTGATTACCTT
* * * *
3054 TTACGGATTACTATTTTACTCTTTGCTGATTACCTTCTTACTTTTTATTGATTACTATATTACT
1 TTACGAATTACTATTTTACTCTTTACTGATTACCTTCTTAC-TTTTACTGATTAC-CTATTACT
3118 CTTTACTGAT
Statistics
Matches: 192, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
157 61 0.32
158 111 0.58
159 14 0.07
161 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.05, T:0.53
Consensus pattern (158 bp):
TTACGAATTACTATTTTACTCTTTACTGATTACCTTCTTACTTTTACTGATTACCTATTACTGAT
TACCATTTTACTCTTTACTGATTACCTTTTCACTTTTTACAGATTACTACTTTACTCTTTATCGA
TTACCATTTTACTCTTACTGATTACCTT
Found at i:3220 original size:15 final size:15
Alignment explanation
Indices: 3196--3260 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
3186 ACTGATTATC
*
3196 ATTACTTTTTTACTG
1 ATTACCTTTTTACTG
3211 ATTACC-TTTTACT-
1 ATTACCTTTTTACTG
*
3224 ATTTTA-CTCTTTACTG
1 A--TTACCTTTTTACTG
*
3240 ATTATCTTTTTACTG
1 ATTACCTTTTTACTG
3255 ATTACC
1 ATTACC
3261 CTTTACTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 1 0.02
14 11 0.27
15 28 0.68
16 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.55
Consensus pattern (15 bp):
ATTACCTTTTTACTG
Found at i:3259 original size:22 final size:20
Alignment explanation
Indices: 2760--3259 Score: 143
Period size: 22 Copynumber: 24.2 Consensus size: 20
2750 CATTTTGCTC
*
2760 TTACTGATTACTATTTTACT-C
1 TTACT-ATTACT-TTTTACTGA
*
2781 TTACTGATTACCTTTTACTGA
1 TTACT-ATTACTTTTTACTGA
*
2802 TTACTATTTTACTCTTTACTGA
1 TTACTA--TTACTTTTTACTGA
*
2824 TTACCTTTTTACTTTTTACTGA
1 TTA-C-TATTACTTTTTACTGA
* *
2846 TTACTATTTTACTCTTTATTGA
1 TTACTA--TTACTTTTTACTGA
*
2868 TTACCATT--TTGCTCTTACTGA
1 TTACTATTACTT--T-TTACTGA
*
2889 -T--TA-T-C-TTTTACTAA
1 TTACTATTACTTTTTACTGA
*
2903 TTACTATTTTACTCTTTACTGA
1 TTACTA--TTACTTTTTACTGA
2925 TTACCT-TCCTAC-TTTTACTGA
1 TTA-CTAT--TACTTTTTACTGA
* *
2946 TTACCATTACTTTTTAC-CA
1 TTACTATTACTTTTTACTGA
*
2965 -T--T-TTACTCTTTACTGA
1 TTACTATTACTTTTTACTGA
* *
2981 TTACCTTTTCACATTTTTACAGA
1 TTA-CTATT-AC-TTTTTACTGA
*
3004 TTACTCTTTACTTTTT--T-A
1 TTACT-ATTACTTTTTACTGA
* *
3022 -T-CGATTACTATTTTACT-C
1 TTACTATTACT-TTTTACTGA
* *
3040 TTACTGATTACCTTTTACGGA
1 TTACT-ATTACTTTTTACTGA
* *
3061 TTACTATTTTACTCTTTGCTGA
1 TTACTA--TTACTTTTTACTGA
* *
3083 TTACCTTCTTACTTTTTATTGA
1 TTA-C-TATTACTTTTTACTGA
*
3105 TTACTATATTACTCTTTACTGA
1 TTAC--TATTACTTTTTACTGA
* *
3127 TTACCATT-TTGCTTTTACTGA
1 TTACTATTACT--TTTTACTGA
** *
3148 TCGCCATT--TTGCTCTTACTGA
1 TTACTATTACTT--T-TTACTGA
*
3169 TTACTATTTTACCTTTTACTGA
1 TTACTA--TTACTTTTTACTGA
3191 TTA-TCATTACTTTTTTACTGA
1 TTACT-ATTAC-TTTTTACTGA
* **
3212 TTACCTTTTACTATTTTACTCT
1 TTA-CTATTACT-TTTTACTGA
3234 TTACTGATTATCTTTTTACTGA
1 TTACT-ATTA-CTTTTTACTGA
3256 TTAC
1 TTAC
3260 CCTTTACTCT
Statistics
Matches: 358, Mismatches: 60, Indels: 121
0.66 0.11 0.22
Matches are distributed among these distances:
14 6 0.02
15 17 0.05
16 6 0.02
17 6 0.02
18 6 0.02
19 6 0.02
20 40 0.11
21 94 0.26
22 150 0.42
23 24 0.07
24 2 0.01
25 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.53
Consensus pattern (20 bp):
TTACTATTACTTTTTACTGA
Found at i:3259 original size:29 final size:28
Alignment explanation
Indices: 3204--3267 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
3194 TCATTACTTT
*
3204 TTTACTGATTACCTTTTACTATTTTACTC
1 TTTACTGATTACCTTTTACTA-TTTACCC
*
3233 TTTACTGATTATCTTTTTACTGA-TTACCC
1 TTTACTGATTA-CCTTTTACT-ATTTACCC
3262 TTTACT
1 TTTACT
3268 CTTACGATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 22 0.71
30 8 0.26
31 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTACTGATTACCTTTTACTATTTACCC
Found at i:3269 original size:259 final size:256
Alignment explanation
Indices: 2765--3270 Score: 673
Period size: 259 Copynumber: 2.0 Consensus size: 256
2755 TGCTCTTACT
*
2765 GATTACTATTTTACTCTTACTGATTACCTTTTACTGATTACTATTTTACTCTTTACTGATTACCT
1 GATTACTATTTTACTCTTACTGATTACCTTTTACGGATTACTATTTTACTCTTTACTGATTACCT
* * *
2830 TTTTACTTTTTACTGATTACTATTTTACTCTTTATTGATTACCATTTTGCTCTTACTGATTATCT
66 TCTTACTTTTTACTGATTACTATATTACTCTTTACTGATTACCATTTTGCTCTTACTGATTATCT
* * *
2895 TTTACTAATTACTATTTTACTCTTTACTGATTACCTTCCTACTTTTACTGATTACCATTACTTTT
131 CTTACTAATTACTATTTTACTCTTTACTGATTACATTACTACTTTTACTGATTACC---ACTTTT
** *
2960 TACCATTTTACTCTTTACTGATTACCTTTTCACATTTTTACAGATTACTCTTTACTTTTTTATC
193 TACCATTTTACTCTTTACTGATTACCTTTTCACATGATTACACATTACTCTTTACTTTTTTATC
*
3024 GATTACTATTTTACTCTTACTGATTACCTTTTACGGATTACTATTTTACTCTTTGCTGATTACCT
1 GATTACTATTTTACTCTTACTGATTACCTTTTACGGATTACTATTTTACTCTTTACTGATTACCT
* *
3089 TCTTACTTTTTATTGATTACTATATTACTCTTTACTGATTACCATTTTGCTTTTACTGATCGCCA
66 TCTTACTTTTTACTGATTACTATATTACTCTTTACTGATTACCATTTTGCTCTTAC---T-G--A
* * *
3154 TTTTGCTCTTACTGATTACTATTTTAC-CTTTTACTGATTATCATTACT-TTTTTACTGATTA-C
125 TTAT-CTCTTACTAATTACTATTTTACTC-TTTACTGATTA-CATTACTACTTTTACTGATTACC
* * * * *
3216 -C-TTTTACTATTTTACTCTTTACTGATTATCTTTTTAC-TGATTACCCTTTACTCTT
187 ACTTTTTACCATTTTACTCTTTACTGATTACCTTTTCACATGATTACACATTACTCTT
3271 ACGATTCTTC
Statistics
Matches: 217, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
259 127 0.59
260 33 0.15
261 1 0.00
262 1 0.00
263 1 0.00
265 6 0.03
266 43 0.20
267 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (256 bp):
GATTACTATTTTACTCTTACTGATTACCTTTTACGGATTACTATTTTACTCTTTACTGATTACCT
TCTTACTTTTTACTGATTACTATATTACTCTTTACTGATTACCATTTTGCTCTTACTGATTATCT
CTTACTAATTACTATTTTACTCTTTACTGATTACATTACTACTTTTACTGATTACCACTTTTTAC
CATTTTACTCTTTACTGATTACCTTTTCACATGATTACACATTACTCTTTACTTTTTTATC
Found at i:3300 original size:7 final size:7
Alignment explanation
Indices: 3290--3437 Score: 79
Period size: 7 Copynumber: 20.7 Consensus size: 7
3280 CCTTTACTGA
3290 TTACTCT
1 TTACTCT
*
3297 TTACTTT
1 TTACTCT
*
3304 TTAC-CA
1 TTACTCT
3310 TT-CTTCTT
1 TTAC-TC-T
**
3318 TTACTGA
1 TTACTCT
*
3325 TTACTTT
1 TTACTCT
3332 TTACTCT
1 TTACTCT
3339 TTAC-CATT
1 TTACTC--T
3347 TTACTCT
1 TTACTCT
**
3354 TTACTGA
1 TTACTCT
3361 TTACTCT
1 TTACTCT
3368 TTACTCT
1 TTACTCT
*
3375 TTTCTCTT
1 TTACTC-T
*
3383 TTACTTT
1 TTACTCT
**
3390 TTACTGA
1 TTACTCT
3397 TTACTCT
1 TTACTCT
3404 TTAC-CATT
1 TTACTC--T
3412 TTACTCT
1 TTACTCT
**
3419 TTACTGA
1 TTACTCT
*
3426 TTATTCT
1 TTACTCT
3433 TTACT
1 TTACT
3438 GATTACTATT
Statistics
Matches: 104, Mismatches: 26, Indels: 22
0.68 0.17 0.14
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 78 0.75
8 18 0.17
9 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.03, T:0.57
Consensus pattern (7 bp):
TTACTCT
Found at i:3307 original size:14 final size:14
Alignment explanation
Indices: 3290--3394 Score: 90
Period size: 14 Copynumber: 7.4 Consensus size: 14
3280 CCTTTACTGA
3290 TTACTCTTTACTTT
1 TTACTCTTTACTTT
*
3304 TTAC-CATT-CTTCTT
1 TTACTCTTTAC-T-TT
**
3318 TTACTGATTACTTT
1 TTACTCTTTACTTT
*
3332 TTACTCTTTACCATT
1 TTACTCTTTA-CTTT
**
3347 TTACTCTTTACTGA
1 TTACTCTTTACTTT
3361 TTACTCTTTACTCTT
1 TTACTCTTTACT-TT
3376 TT-CTCTTTTACTTT
1 TTACTC-TTTACTTT
3390 TTACT
1 TTACT
3395 GATTACTCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 40 0.55
15 27 0.37
16 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.59
Consensus pattern (14 bp):
TTACTCTTTACTTT
Found at i:3349 original size:29 final size:29
Alignment explanation
Indices: 3316--3436 Score: 98
Period size: 29 Copynumber: 3.9 Consensus size: 29
3306 ACCATTCTTC
* **
3316 TTTTACTGATTACTTTTTACTCTTTACCA
1 TTTTACTCATTACTGATTACTCTTTACCA
* *
3345 TTTTACTCTTTACTGATTACTCTTTACTCTTTTCTC
1 TTTTACTCATTACTGATTACTCTTTA--C----C-A
**
3381 TTTTACTTTTTACTGATTACTCTTTACCA
1 TTTTACTCATTACTGATTACTCTTTACCA
* *
3410 TTTTACTCTTTACTGATTATTCTTTAC
1 TTTTACTCATTACTGATTACTCTTTAC
3437 TGATTACTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
29 47 0.62
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 25 0.33
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.57
Consensus pattern (29 bp):
TTTTACTCATTACTGATTACTCTTTACCA
Found at i:3400 original size:14 final size:14
Alignment explanation
Indices: 3383--3452 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
3373 CTTTTCTCTT
3383 TTACTTTTTACTGA
1 TTACTTTTTACTGA
* *
3397 TTACTCTTTACCAT-T
1 TTACTTTTTA-C-TGA
*
3412 TTACTCTTTACTGA
1 TTACTTTTTACTGA
3426 TTA-TTCTTTACTGA
1 TTACTT-TTTACTGA
3440 TTACTATTTTACT
1 TTACT-TTTTACT
3453 CTCTTGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
13 2 0.04
14 24 0.52
15 18 0.39
16 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (14 bp):
TTACTTTTTACTGA
Found at i:3400 original size:36 final size:37
Alignment explanation
Indices: 3245--3415 Score: 184
Period size: 36 Copynumber: 4.8 Consensus size: 37
3235 TACTGATTAT
* *
3245 CTTTTTACTGATTACCCTTTACTC--TTACGATTCTT-
1 CTTTTTACTGATTACTCTTTACTCTTTTACCATT-TTA
*
3280 C-CTTTACTGATTACTCTTTACT-TTTTACCATTCTT-
1 CTTTTTACTGATTACTCTTTACTCTTTTACCATT-TTA
*
3315 C-TTTTACTGATTACTTTTTACTC-TTTACCATTTTA
1 CTTTTTACTGATTACTCTTTACTCTTTTACCATTTTA
*
3350 CTCTTTACTGATTACTCTTTACTCTTTT-CTC-TTTTA
1 CTTTTTACTGATTACTCTTTACTCTTTTAC-CATTTTA
3386 CTTTTTACTGATTACTCTTTAC-CATTTTAC
1 CTTTTTACTGATTACTCTTTACTC-TTTTAC
3416 TCTTTACTGA
Statistics
Matches: 119, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
34 21 0.18
35 42 0.35
36 51 0.43
37 5 0.04
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.55
Consensus pattern (37 bp):
CTTTTTACTGATTACTCTTTACTCTTTTACCATTTTA
Found at i:3450 original size:29 final size:29
Alignment explanation
Indices: 3383--3452 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
3373 CTTTTCTCTT
*
3383 TTACTTTTTACTGATTACTCTTTACCATT
1 TTACTTTTTACTGATTACTCTTTACCATA
* *
3412 TTACTCTTTACTGATTATTCTTTA-C-TGA
1 TTACTTTTTACTGATTACTCTTTACCAT-A
3440 TTACTATTTTACT
1 TTACT-TTTTACT
3453 CTCTTGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 6 0.17
29 28 0.80
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (29 bp):
TTACTTTTTACTGATTACTCTTTACCATA
Found at i:3485 original size:26 final size:26
Alignment explanation
Indices: 3442--3492 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3432 TTTACTGATT
3442 ACTATTTTACTCTCTTGAATTTAATC
1 ACTATTTTACTCTCTTGAATTTAATC
3468 ACTATTTTTACTCT-TTGAATTTAAT
1 ACTA-TTTTACTCTCTTGAATTTAAT
3493 TACCATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.53
Consensus pattern (26 bp):
ACTATTTTACTCTCTTGAATTTAATC
Found at i:3500 original size:26 final size:27
Alignment explanation
Indices: 3446--3500 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
3436 CTGATTACTA
*
3446 TTTTACTCTCTTGAATTTAATCACTAT
1 TTTTACTCTCTTGAATTTAATCACCAT
*
3473 TTTTACTCT-TTGAATTTAATTACCAT
1 TTTTACTCTCTTGAATTTAATCACCAT
3499 TT
1 TT
3501 GTCATTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (27 bp):
TTTTACTCTCTTGAATTTAATCACCAT
Found at i:3508 original size:33 final size:33
Alignment explanation
Indices: 3471--3550 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 33
3461 TTTAATCACT
3471 ATTTTTACTCTTTGAATTTAATTACCATTTGT-C
1 ATTTTTACTCTTTGAATTTAATTACCATTT-TAC
*
3504 A-TTTTACTCTTTTGAATTTGATTACCATTTTACC
1 ATTTTTACTC-TTTGAATTTAATTACCATTTTA-C
3538 ATTTTTTACTCTT
1 A-TTTTTACTCTT
3551 ACCATTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
32 9 0.22
33 20 0.49
34 2 0.05
35 2 0.05
36 8 0.20
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTTTTACTCTTTGAATTTAATTACCATTTTAC
Found at i:4570 original size:23 final size:24
Alignment explanation
Indices: 4544--4588 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4534 TCCAATGGAC
*
4544 CATAAAAGGGACAA-GCCCAAATG
1 CATAAAAGAGACAAGGCCCAAATG
*
4567 CATAAAAGAGATAAGGCCCAAA
1 CATAAAAGAGACAAGGCCCAAA
4589 GTTAGAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (24 bp):
CATAAAAGAGACAAGGCCCAAATG
Found at i:7309 original size:25 final size:25
Alignment explanation
Indices: 7281--7348 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
7271 GAATGAACTA
* *
7281 AAAATGACTAAAGTGCCCCTAGTTC
1 AAAATGACCAAAATGCCCCTAGTTC
*
7306 AAAATGACCAAAATGCCCCTGGTTC
1 AAAATGACCAAAATGCCCCTAGTTC
7331 AAAATGACCAAAATGCCC
1 AAAATGACCAAAATGCCC
7349 ATGTGTGACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (25 bp):
AAAATGACCAAAATGCCCCTAGTTC
Found at i:7528 original size:54 final size:54
Alignment explanation
Indices: 7424--7535 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
7414 GGGTGTCTAC
* *
7424 AGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGGTTTAAATTTATCTTCA
1 AGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGATTTAAATATATCTTCA
* * * * * * * *
7478 AGTGATCCAGTGCGGTTAGTCGAGGAAGTTTTCAGTGATTTGAGTATATCTTTA
1 AGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGATTTAAATATATCTTCA
7532 AGTG
1 AGTG
7536 GTTCGGTGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (54 bp):
AGTGATCCAGTGCGGTCAATCAAGAAAGTTTCCAGTGATTTAAATATATCTTCA
Found at i:7589 original size:43 final size:43
Alignment explanation
Indices: 7537--7888 Score: 460
Period size: 43 Copynumber: 8.2 Consensus size: 43
7527 CTTTAAGTGG
* * * *
7537 TTCGGTGAATCAGACGACTCGGTGAAGCATTTTCTAAGTTGGA
1 TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
* * *
7580 TTCGGTGAATCAGATGACTCGATGAAGCATCTTCTAAGTTGGA
1 TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
* * *
7623 TTTGGTGAACCAGATGACTCGGTGTAGCATCTTCTAAGTTGGA
1 TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
*
7666 TTTGGTGAA-CTAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
1 TTCGGTGAATC-AGATGACTCGGTGTAGCATCTTCAAAGTTGGA
* *
7709 TTC-TTGGAATAAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
1 TTCGGT-GAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
** *
7752 TTTAGTGAATCATATGACTCGGTGTAGCATCTTC-AAGTTGGA
1 TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
7794 TTC-GTGAAAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
1 TTCGGTG--AATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
* **
7838 TTCGGTGAATCTGATGACTCAATGTAGCATCTTCAAAGTTGGA
1 TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
*
7881 TTCAGTGA
1 TTCGGTGA
7889 GCTCAGTGTA
Statistics
Matches: 280, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.01
42 12 0.04
43 250 0.89
44 12 0.04
45 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TTCGGTGAATCAGATGACTCGGTGTAGCATCTTCAAAGTTGGA
Found at i:7992 original size:90 final size:90
Alignment explanation
Indices: 7867--8136 Score: 432
Period size: 90 Copynumber: 3.0 Consensus size: 90
7857 CAATGTAGCA
* * *
7867 TCTTCAAAGTTGGATTCAGTGAGCTCAGTGTAGCATATTTTCAAATAGTTCAGGACGATTCGGTG
1 TCTTCAAAGTTGGATTCGGTGAGCTCGGTGCAGCATATTTTCAAATAGTTCAGGACGATTCGGTG
7932 AATCAAGTTAATGCGGTGCATTATT
66 AATCAAGTTAATGCGGTGCATTATT
* * * *
7957 TCTTCAAAGTTGGATTCGGTGTGCTCGGTGCAGCATATTTTCAAATGGTTCAAGACGATTCGGTC
1 TCTTCAAAGTTGGATTCGGTGAGCTCGGTGCAGCATATTTTCAAATAGTTCAGGACGATTCGGTG
8022 AATCAAGTTAATGCGGTGCATTATT
66 AATCAAGTTAATGCGGTGCATTATT
* * * * *
8047 TCTTCAAAGTTGGATTTGGTGAGCTCGGTCCAGCACATTTTCAAATAGTTCAGGATGATTCAGTG
1 TCTTCAAAGTTGGATTCGGTGAGCTCGGTGCAGCATATTTTCAAATAGTTCAGGACGATTCGGTG
8112 AATCAAGTTAATGCGGTGCATTATT
66 AATCAAGTTAATGCGGTGCATTATT
8137 GGATTCGGTG
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 164 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (90 bp):
TCTTCAAAGTTGGATTCGGTGAGCTCGGTGCAGCATATTTTCAAATAGTTCAGGACGATTCGGTG
AATCAAGTTAATGCGGTGCATTATT
Found at i:8192 original size:79 final size:79
Alignment explanation
Indices: 8056--8463 Score: 456
Period size: 79 Copynumber: 5.0 Consensus size: 79
8046 TTCTTCAAAG
* * * * *
8056 TTGGATTTGGTGAGCTCGGTCCAGCACATTTTCAAATAGTTCAGGATGATTCAGTGAATCAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGTT
8121 AATGCGGTGCATTA
66 AATGCGGTGCATTA
* * *
8135 TTGGATTCGGTGAGCTTGGTGCAGCACATTCTCGAATAGTTAAGGGTGATTCGGTGAATCAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGTT
8200 AATGCGGTGCATTA
66 AATGCGGTGCATTA
* * *
8214 TTAGATTCGGTGAGCTCGGTGCAGCACATTCTCAAACAGTTAAGGGTGATTCGGTGAATCAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGTT
* *
8279 ATTGTGGTGCATTA
66 AATGCGGTGCATTA
* * * * *
8293 TTGGATTTGGTGAGCTCGGTGCAGCATATTCTCAAATAGTTCAGAATGATTCGGTGAATTAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGTT
* *
8358 GAGGCGGTGCCTTATTTCTTCAAA
66 AATGCGGTG-C--A----TT---A
* * * * * * *
8382 GTCGGATTCAGTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCATGATGATTCGGTGAATCAAGT
1 -TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGT
* *
8447 TACTGCGGTGCCTTA
65 TAATGCGGTGCATTA
8462 TT
1 TT
8464 TCTTCAAAGT
Statistics
Matches: 278, Mismatches: 40, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
79 207 0.74
80 2 0.01
82 1 0.00
83 2 0.01
86 2 0.01
89 2 0.01
90 62 0.22
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (79 bp):
TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGGATGATTCGGTGAATCAAGTT
AATGCGGTGCATTA
Found at i:8357 original size:158 final size:163
Alignment explanation
Indices: 7966--8463 Score: 531
Period size: 158 Copynumber: 3.0 Consensus size: 163
7956 TTCTTCAAAG
* * * * * *
7966 TTGGATTCGGTGTGCTCGGTGCAGCATATTTTCAAATGGTTCAAG-ACGATTCGGTCAATCAAGT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTT-AAGAATGATTCGGTGAATCAAGT
* * * * * *
8030 TAATGCGGTGCATTATTTCTTCAAAGTTGGATTTGGTGAGCTCGGTCCAGCACATTTTCAAATAG
65 TAAGGCGGTGC-CTATTTATT--AA---GGATTCGGTGAGCTCGGTGCAGCACATTTTCAAACAG
*
8095 TTCAGGATGATTCAGTGAATCAAGTTAATGCGGTGCATTA
124 TTCAGGATGATTCGGTGAATCAAGTTAATGCGGTGCATTA
* * **
8135 TTGGATTCGGTGAGCTTGGTGCAGCACATTCTCGAATAGTTAAGGGTGATTCGGTGAATCAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGAATGATTCGGTGAATCAAGTT
* * * *
8200 AATGCGGTG-C-A-TTATT-A-GATTCGGTGAGCTCGGTGCAGCACATTCTCAAACAGTTAAGGG
66 AAGGCGGTGCCTATTTATTAAGGATTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGTTCAGGA
* *
8260 TGATTCGGTGAATCAAGTTATTGTGGTGCATTA
131 TGATTCGGTGAATCAAGTTAATGCGGTGCATTA
* * * *
8293 TTGGATTTGGTGAGCTCGGTGCAGCATATTCTCAAATAGTTCAGAATGATTCGGTGAATTAAGTT
1 TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGAATGATTCGGTGAATCAAGTT
* * * *
8358 GAGGCGGTGCCTTATTTCTTCAAAGTCGGATTCAGTGAGCTCGGTGCAGCAGATTTTCAAACAGT
66 AAGGCGGTGCC-TATTTATT--AA---GGATTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGT
* * *
8423 TCATGATGATTCGGTGAATCAAGTTACTGCGGTGCCTTA
125 TCAGGATGATTCGGTGAATCAAGTTAATGCGGTGCATTA
8462 TT
1 TT
8464 TCTTCAAAGT
Statistics
Matches: 277, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
158 131 0.47
159 1 0.00
161 1 0.00
162 5 0.02
165 5 0.02
166 1 0.00
168 3 0.01
169 130 0.47
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (163 bp):
TTGGATTCGGTGAGCTCGGTGCAGCACATTCTCAAATAGTTAAGAATGATTCGGTGAATCAAGTT
AAGGCGGTGCCTATTTATTAAGGATTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGTTCAGGA
TGATTCGGTGAATCAAGTTAATGCGGTGCATTA
Found at i:8455 original size:90 final size:89
Alignment explanation
Indices: 8302--8600 Score: 429
Period size: 90 Copynumber: 3.3 Consensus size: 89
8292 ATTGGATTTG
* * * *
8302 GTGAGCTCGGTGCAGCATATTCTCAAATAGTTCAGAATGATTCGGTGAATTAAGTTGAGGCGGTG
1 GTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCAG-ATGATTCGGTGAATCAAGTTGAGGCGGTG
8367 CCTTATTTCTTCAAAGTCGGATTCA
65 CCTTATTTCTTCAAAGTCGGATTCA
*
8392 GTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCATGATGATTCGGTGAATCAAGTT-ACTGCGGT
1 GTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCA-GATGATTCGGTGAATCAAGTTGA-GGCGGT
*
8456 GCCTTATTTCTTCAAAGTCGGAATCA
64 GCCTTATTTCTTCAAAGTCGGATTCA
**
8482 GTGAGCTAAGTGCAGCAGATTTTCAAACAGTTCAGGATGATTCGGTGAATCAAGTTGAGGCGGTG
1 GTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCA-GATGATTCGGTGAATCAAGTTGAGGCGGTG
* * *
8547 CCATATTTCTTCAAAGTCGAATTCG
65 CCTTATTTCTTCAAAGTCGGATTCA
* * *
8572 GTGAGTTCGGTGCAGCAAATTTCCAAACA
1 GTGAGCTCGGTGCAGCAGATTTTCAAACA
8601 AGTTACTGCG
Statistics
Matches: 187, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
89 1 0.01
90 184 0.98
91 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (89 bp):
GTGAGCTCGGTGCAGCAGATTTTCAAACAGTTCAGATGATTCGGTGAATCAAGTTGAGGCGGTGC
CTTATTTCTTCAAAGTCGGATTCA
Found at i:13054 original size:67 final size:68
Alignment explanation
Indices: 12817--13262 Score: 455
Period size: 67 Copynumber: 6.7 Consensus size: 68
12807 GGTAAAGTTA
* * * * * * *
12817 TATTTTCTCTTTCCAGAAATACCCTTTCGGTCAAAGGGTCATTTTTGTCTTTTCACATTTAATTT
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGTT
12882 TAG
66 TAG
* * *
12885 TATTTTGTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTTAAATT
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGTT
12950 TAG
66 TAG
* * * * *
12953 TAGTTTGTTTTTTCCAAAAATACCCTTTTGGTGGAAGGGTCATTTTCATCTTTT-GCATTTAGGT
1 TA-TTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGT
13017 TTAG
65 TTAG
* * * * * *
13021 TATTTTTTTTTTCCAAAAATACTCTTTCAGTGGAAGGATCATTTTCGTCTTTT-GCATTCAGGTT
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGTT
13085 TAG
66 TAG
** * * *
13088 ---TTTTACTTTCCAAAAATACCCTTCCGGTCGATA-GGTCAGTTTT-GTCTTTTTGCATTCAAG
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGA-AGGGTCA-TTTTCGTCTTTTCGCATTTAAG
13148 TTTAG
64 TTTAG
** * * * * *
13153 TA-TTTTCGTTTCCAGAAATACCCTTTCGGTCGAAGGGTCAGTTTCGTATTTTGGCATTTAGGTT
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGTT
13217 TAG
66 TAG
* * * *
13220 ---TTTTCTTTTCCAACAATACCCTTCCGGTCGAAGGGTCAGTTTC
1 TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTC
13263 ATCAGGTTGT
Statistics
Matches: 328, Mismatches: 42, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
64 36 0.11
65 57 0.17
66 4 0.01
67 108 0.33
68 76 0.23
69 47 0.14
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (68 bp):
TATTTTTTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTCGCATTTAAGTT
TAG
Found at i:13241 original size:132 final size:130
Alignment explanation
Indices: 12819--13325 Score: 484
Period size: 132 Copynumber: 3.8 Consensus size: 130
12809 TAAAGTTATA
* * * * ** *
12819 TTTTCTCTTTCCAGAAATACCCTTTCGGTCAAAGGGTCATTTTTGTCTTTTCACATTTAATTTTA
1 TTTTCT-TTTCCAAAAATACCCTTCCGGTCGAAGGGTCAGTTTTGTCTTTTTGCATTTAAGTTTA
* **
12884 GTATTTTGTTTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTTAAAT
65 GTATTTTG--TTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTT-GCATTT-AGG
12949 TTAGTAG
126 TT--TAG
* ** * * *
12956 TTTGTTTTTTCCAAAAATACCCTTTTGGTGGAAGGGTCA-TTTTCATC-TTTTGCATTTAGGTTT
1 TTT-TCTTTTCCAAAAATACCCTTCCGGTCGAAGGGTCAGTTTT-GTCTTTTTGCATTTAAGTTT
* * * * * *
13019 AGTATTTTTTTTTTCCAAAAATACTCTTTCAGTGGAAGGATCATTTTCGTCTTTTGCATTCAGGT
64 AGTA--TTTTGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTGCATTTAGGT
13084 TTAG
127 TTAG
*
13088 TTTTAC-TTTCCAAAAATACCCTTCCGGTCGATA-GGTCAGTTTTGTCTTTTTGCATTCAAGTTT
1 TTTT-CTTTTCCAAAAATACCCTTCCGGTCGA-AGGGTCAGTTTTGTCTTTTTGCATTTAAGTTT
* * *
13151 AGTATTTTCGTTTCCAGAAATACCCTTTCGGTCGAAGGGTCAGTTTCGTATTTTGGCATTTAGGT
64 AGTATTTT-GTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTT-GCATTTAGGT
13216 TTAG
127 TTAG
* ** * * *
13220 TTTTCTTTTCCAACAATACCCTTCCGGTCGAAGGGTCAGTTTCATCAGGTTGTTGCATGTAAGTC
1 TTTTCTTTTCCAAAAATACCCTTCCGGTCGAAGGGTCAGTTTTGTC---TTTTTGCATTTAAGTT
** * * *
13285 TAGT-CCTTCTTTCCAAGAATACCCTTTCGGTCAAAGGGTCA
63 TAGTATTTTGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCA
13326 ATGCTGTCAT
Statistics
Matches: 307, Mismatches: 48, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
130 4 0.01
131 69 0.22
132 81 0.26
133 29 0.09
134 5 0.02
135 21 0.07
136 59 0.19
137 33 0.11
138 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (130 bp):
TTTTCTTTTCCAAAAATACCCTTCCGGTCGAAGGGTCAGTTTTGTCTTTTTGCATTTAAGTTTAG
TATTTTGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCGTCTTTTGCATTTAGGTTTAG
Found at i:13299 original size:200 final size:198
Alignment explanation
Indices: 12894--13325 Score: 473
Period size: 200 Copynumber: 2.2 Consensus size: 198
12884 GTATTTTGTT
*
12894 TTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTTAAATTTAGTAGTTT
1 TTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTCAAATTTAGTAGTTT
** * * * *
12959 GTTTTTTCCAAAAATACCCTTTTGGTGGAAGGGTCATTTTCATCTTTTGCATTTAGGTTTAGTAT
66 GTCGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGCATTTAGGTTTAG--T
* * * * * * * *
13024 TTTTTTTTTCCAAAAATACTCTTTCAGTGGAAGGATCATTTTCGTCTTTTGCATTCAGGTTTAGT
129 TTTTCTTTTCCAAAAATACCCTTCCAGTCGAAGGATCAGTTTCATCTTTTGCATTCAAGTCTAGT
*
13089 TTTAC
194 CTTAC
* * * *
13094 TTTCCAAAAATACCCTTCCGGTCGATA-GGTCAGTTTT-GTCTTTTTGCATTCAAGTTTAGTA-T
1 TTTCCAAAAATACCCTTTCGGTCGA-AGGGTCA-TTTTCATCTTTTCGCATTCAAATTTAGTAGT
* *
13156 TT-TCGTTTCCAGAAATACCCTTTCGGTCGAAGGGTCAGTTTCGTATTTTGGCATTTAGGTTTAG
64 TTGTCGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTT-GCATTTAGGTTTAG
* * *
13220 -TTTTCTTTTCCAACAATACCCTTCCGGTCGAAGGGTCAGTTTCATCAGGTTGTTGCATGT-AAG
128 TTTTTCTTTTCCAAAAATACCCTTCCAGTCGAAGGATCAGTTTCATC---TT-TTGCAT-TCAAG
13283 TCTAGTCCTT-C
188 TCTAGT-CTTAC
* *
13294 TTTCCAAGAATACCCTTTCGGTCAAAGGGTCA
1 TTTCCAAAAATACCCTTTCGGTCGAAGGGTCA
13326 ATGCTGTCAT
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
196 37 0.19
198 39 0.20
199 20 0.10
200 90 0.46
201 8 0.04
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (198 bp):
TTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTCAAATTTAGTAGTTT
GTCGTTTCCAAAAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGCATTTAGGTTTAGTTT
TTCTTTTCCAAAAATACCCTTCCAGTCGAAGGATCAGTTTCATCTTTTGCATTCAAGTCTAGTCT
TAC
Found at i:13316 original size:68 final size:65
Alignment explanation
Indices: 12893--13325 Score: 209
Period size: 67 Copynumber: 6.5 Consensus size: 65
12883 AGTATTTTGT
* * * * * * * *
12893 TTTTCCAAAAATACCCTTTCGGTCGAAGGGTCATTTTCATCTTTTCGCATTTAAATTTAGTAGTT
1 TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGGCATGT-AA-GT-CTAGTC
*
12958 TGTT
63 T-TC
* * * * * * * * *
12962 TTTTCCAAAAATACCCTTTTGGTGGAAGGGTCATTTTCATCTTTT-GCATTTAGGTTTAGTATTT
1 TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGGCATGTAAGTCTAG---TC
*
13026 TTT
63 TTC
* * * * * * * * * * *
13029 TTTTCCAAAAATACTCTTTCAGTGGAAGGATCATTTTCGTCTTTT-GCAT-TCAGGTTTAGTTTT
1 TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGGCATGT-AAGTCTAGTCTT
13092 AC
65 -C
* * ** * * *
13094 -TTTCCAAAAATACCCTTCCGGTCGATA-GGTCAGTTTTGTCTTTTTGCAT-TCAAGTTTAGTAT
1 TTTTCCAAGAATACCCTTTCGGTCGA-AGGGTCAGTTTCATATTTTGGCATGT-AAGTCTAG--T
*
13156 TTTC
62 CTTC
* * * * * *
13160 GTTTCC-AGAAATACCCTTTCGGTCGAAGGGTCAGTTTCGTATTTTGGCATTTAGGTTTAGTTTT
1 TTTTCCAAG-AATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGGCATGTAAGTCTAGTCTT
13224 C
65 C
* *
13225 TTTTCCAACAATACCCTTCCGGTCGAAGGGTCAGTTTCATCAGGTTGTT-GCATGTAAGTCTAGT
1 TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCAGTTTCAT-A--TT-TTGGCATGTAAGTCTAGT
13289 CCTTC
62 -CTTC
*
13294 -TTTCCAAGAATACCCTTTCGGTCAAAGGGTCA
1 TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCA
13326 ATGCTGTCAT
Statistics
Matches: 309, Mismatches: 36, Indels: 39
0.80 0.09 0.10
Matches are distributed among these distances:
64 39 0.13
65 56 0.18
66 7 0.02
67 106 0.34
68 53 0.17
69 48 0.16
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (65 bp):
TTTTCCAAGAATACCCTTTCGGTCGAAGGGTCAGTTTCATATTTTGGCATGTAAGTCTAGTCTTC
Found at i:17825 original size:21 final size:21
Alignment explanation
Indices: 17801--17851 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
17791 ATGTTGGAGG
17801 TTTATTTTACATTGTTAGTT-A
1 TTTATTTTACATTGTT-GTTAA
* * * *
17822 TTTAATTTGCTTTGTTTTTAA
1 TTTATTTTACATTGTTGTTAA
17843 TTTATTTTA
1 TTTATTTTA
17852 ATTTAGAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTATTTTACATTGTTGTTAA
Found at i:19679 original size:19 final size:19
Alignment explanation
Indices: 19655--19693 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19645 CACTCATCAC
19655 ACAAGCATTTCACATTAGT
1 ACAAGCATTTCACATTAGT
*
19674 ACAAGCATTTTACATTAGT
1 ACAAGCATTTCACATTAGT
19693 A
1 A
19694 TTAGGTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
ACAAGCATTTCACATTAGT
Found at i:22038 original size:49 final size:49
Alignment explanation
Indices: 21867--22310 Score: 506
Period size: 48 Copynumber: 9.1 Consensus size: 49
21857 ATTTTTAATC
* * *
21867 TTTACTTACATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
* * *
21915 TTTACTTGCTGTTTCCCAAAATGCCCTTCCCGGACGGAAAGCACTTA-T
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
* * * * * *
21963 TTTACTTGCTGTTTCCCAAAATGCCC-TCTCCTGATGGAAAGCACCTATT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTC-CCGGACGGAAGGCACTTATT
* * * * * *
22012 TTTACATGCTATTTCCCAAAACGCCC-TCTCCTGATGGAAAGCACCTATT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTC-CCGGACGGAAGGCACTTATT
* * *
22061 TTTACATGCTATTTCCCAAAACACCCTTCCCGGACGGAAGGCACTTA-T
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
* *
22109 TTTACTTGCTTTTTCCCAAAATGCCCTTCCCAGACGGAAGGCACTTATT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
* *
22158 TTTACTTGCTTTTTCCCTAAACGCCCTTCCCGGACGGAAGGCACTCAATT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACT-TATT
* * *
22208 TTTACTTACTTTTTCCCTAAACGCCCTTCCCGGACGGAAGGCACTT-CT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
* * * * *
22256 TTTATTTGCTTCTTCCTAAAACGCTCTTCCCGGACGGAAGGC-GTTGATT
1 TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTT-ATT
22305 TTTACT
1 TTTACT
22311 CGATTTTTTC
Statistics
Matches: 353, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
47 4 0.01
48 165 0.47
49 135 0.38
50 49 0.14
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (49 bp):
TTTACTTGCTTTTTCCCAAAACGCCCTTCCCGGACGGAAGGCACTTATT
Found at i:22054 original size:97 final size:97
Alignment explanation
Indices: 21878--22297 Score: 481
Period size: 97 Copynumber: 4.3 Consensus size: 97
21868 TTACTTACAT
* * * *
21878 TTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTATTTTACTTGCTGTTTCCCAAAATGCCCTT
1 TTTCCCAAAACGCCCTTCCCGGACGGAAGGCACCTATTTTACTTGCTTTTTCCCAAAACGCCCTT
*
21943 CCCGGACGGAAAGCACTTA-TTTTACTTGCTG
66 CCCGGACGGAAAGCACTTATTTTTACTTGCTA
* * * * * *
21974 TTTCCCAAAATGCCC-TCTCCTGATGGAAAGCACCTATTTTTACATGCTATTTCCCAAAACGCCC
1 TTTCCCAAAACGCCCTTC-CCGGACGGAAGGCACCTA-TTTTACTTGCTTTTTCCCAAAACGCCC
* * * *
22038 -TCTCCTGATGGAAAGCACCTATTTTTACATGCTA
64 TTC-CCGGACGGAAAGCACTTATTTTTACTTGCTA
* * *
22072 TTTCCCAAAACACCCTTCCCGGACGGAAGGCACTTATTTTACTTGCTTTTTCCCAAAATGCCCTT
1 TTTCCCAAAACGCCCTTCCCGGACGGAAGGCACCTATTTTACTTGCTTTTTCCCAAAACGCCCTT
* * *
22137 CCCAGACGGAAGGCACTTATTTTTACTTGCTT
66 CCCGGACGGAAAGCACTTATTTTTACTTGCTA
* * * *
22169 TTTCCCTAAACGCCCTTCCCGGACGGAAGGCACTCAATTTTTACTTACTTTTTCCCTAAACGCCC
1 TTTCCCAAAACGCCCTTCCCGGACGGAAGGCAC-CTA-TTTTACTTGCTTTTTCCCAAAACGCCC
* * *
22234 TTCCCGGACGGAAGGCACTT-CTTTTATTTGCT-
64 TTCCCGGACGGAAAGCACTTATTTTTACTTGCTA
* *
22266 TCTTCCTAAAACGCTCTTCCCGGACGGAAGGC
1 T-TTCCCAAAACGCCCTTCCCGGACGGAAGGC
22298 GTTGATTTTT
Statistics
Matches: 275, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
95 2 0.01
96 31 0.11
97 120 0.44
98 77 0.28
99 45 0.16
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (97 bp):
TTTCCCAAAACGCCCTTCCCGGACGGAAGGCACCTATTTTACTTGCTTTTTCCCAAAACGCCCTT
CCCGGACGGAAAGCACTTATTTTTACTTGCTA
Found at i:22538 original size:62 final size:61
Alignment explanation
Indices: 22388--22549 Score: 175
Period size: 63 Copynumber: 2.6 Consensus size: 61
22378 AGTACTTTCG
* * * * * *
22388 ATTTCCCAAAATACCCTTTCGGACAAAGGGAT-GGCTTCGTCACCTTCTTGCATTTAAGTTT
1 ATTTCCCAAAATACCCTTTCGGACAAAGGG-TCAGTTTCGTCACATTCCTGCACTTAAGTCT
* * *
22449 AGCATTCCCAAAATACCCTTTCAGACAAAGGGTCAGTTTCTTCACATTCCTGCACTT-AGATCCT
1 A--TTTCCCAAAATACCCTTTCGGACAAAGGGTCAGTTTCGTCACATTCCTGCACTTAAG-T-CT
*
22513 ATTTCCCAAAATACCCTTTCGGACAAAAGGTCAGTTT
1 ATTTCCCAAAATACCCTTTCGGACAAAGGGTCAGTTT
22550 AGCTATGTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
61 1 0.01
62 36 0.43
63 45 0.54
64 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (61 bp):
ATTTCCCAAAATACCCTTTCGGACAAAGGGTCAGTTTCGTCACATTCCTGCACTTAAGTCT
Found at i:31194 original size:16 final size:16
Alignment explanation
Indices: 31173--31205 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31163 AATCTCCTGT
31173 ATTCCCAACTAAAGTA
1 ATTCCCAACTAAAGTA
31189 ATTCCCAACTAAAGTA
1 ATTCCCAACTAAAGTA
31205 A
1 A
31206 ATATATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTCCCAACTAAAGTA
Found at i:38116 original size:133 final size:131
Alignment explanation
Indices: 37966--38230 Score: 431
Period size: 132 Copynumber: 2.0 Consensus size: 131
37956 ATTTAAGAAA
* * * *
37966 TATATTTCAAAAATTCTAATATATCTAAGGTTTTTAAATTAAATTAGTAAAATGATAAAAATAAA
1 TATATTTAAAAAATTCTAACATATATAA-GTTTTTAAATTAAAATAGTAAAATGATAAAAATAAA
38031 ATAGGTATAAGGATATTAGATTTAATTAAATAAAAAATAGAGTTTTTAGTTGAGTAAAACTATAA
65 ATAGGTATAAGGATATTAGATTTAATTAAAT-AAAAATAGAGTTTTTAGTTGAGTAAAACTATAA
38096 AAG
129 AAG
* * *
38099 TATATTTAAAAAATTCTAACATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATTAAA
1 TATATTTAAAAAATTCTAACATATATAAGTTTTTAAATTAAAATAGTAAAATGATAAAAATAAAA
* *
38164 TAGTTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTATTTGAGTAAAACTATAAAA
66 TAGGTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAA
38229 G
131 G
38230 T
1 T
38231 TTAAACAATG
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 36 0.29
132 62 0.50
133 25 0.20
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (131 bp):
TATATTTAAAAAATTCTAACATATATAAGTTTTTAAATTAAAATAGTAAAATGATAAAAATAAAA
TAGGTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAA
G
Found at i:46735 original size:2 final size:2
Alignment explanation
Indices: 46710--46757 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
46700 ACACAAACAC
* * * *
46710 AT AT AT AA AT TT AA AT AT AA 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
46752 AT AT AT
1 AT AT AT
46758 TCTACAAGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:48703 original size:74 final size:74
Alignment explanation
Indices: 48625--48781 Score: 233
Period size: 74 Copynumber: 2.1 Consensus size: 74
48615 TGGTCTTTTC
* * * * ***
48625 ACACTTTTCGGGTGACTAAAAAGTCCCTCTATGAGTTTCCTTTATTCCTTTTCCTTCTACCCTTT
1 ACACTTTTCAGATGACTAAAAAGTCCATCTATAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
48690 TTCGTAATT
66 TTCGTAATT
*
48699 ACACTTTTCAGATGACTAAAAAGTCTATCTATAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
1 ACACTTTTCAGATGACTAAAAAGTCCATCTATAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
48764 TTCGTAATT
66 TTCGTAATT
*
48773 ACACATTTC
1 ACACTTTTC
48782 CATTCCTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (74 bp):
ACACTTTTCAGATGACTAAAAAGTCCATCTATAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
TTCGTAATT
Found at i:49805 original size:770 final size:778
Alignment explanation
Indices: 48700--50177 Score: 2203
Period size: 770 Copynumber: 1.9 Consensus size: 778
48690 TTCGTAATTA
*
48700 CACTTTTCAGATGACTAAAAAGTCTATCTATAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTTT
1 CACTTTTCAGATGACTAAAAAGTCTATCTACAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTTT
*
48765 TCGTAATTACACATTTCCATTCCTTAATTGTTTTTAATTAATGTTTAATGCTTTTAATTAATTGC
66 TCGTAATTACACATTTCCATTCCTTAATTGTTTTTAATTAATGTTTAATGCTTCTAATTAATTGC
* *
48830 GTCTAAACCCTAAACCCTTAATCACTCTTAATTAATGTTTTTCTCGATGTTTTCTTTTTTCCTCT
131 GTCTAAACCCTAAACCCTTAATCACTCTTAATTAATGTATCTCTCGATGTTTTCTTTTTTCCTCT
* *
48895 CACCAACTCAGTTGTTGCTTCCTTTCAATACCTCGGTTCTGATCAATCTTCAGGTTTGCCAAAAA
196 --CCAAC-CA--------TACCTTTCAATACCTCGGTGCTGATCAATCTTCAGGTTTGCCAAAAA
* * * *
48960 TCAAACCTTTCCATCACTCCCCTATGTTTTCATCTTCATATCTTTTTCCTTTTTCTTCTTCGTCT
250 TCAAACATTTCCATCACTCCCCTATGTTTTCACCTTCATATCTCTTTCCTTTTTCTTCTCCGTCT
* * *
49025 CCATCCCTTCAACATGGGCCGTTCAACATTTTTCCCATTCTGAATTAAAACCACCCTTTGTTCAA
315 CCATCCCTTCAACATGGACCATTCAACATTTTTCCCATTCTGAATTAAAACCACCCTTTGCTCAA
*
49090 TGTGAGTATTATTATCCAATTAACAGCATATTTTATTACCTCTTTGCACTTCCTATTACTTAC-A
380 TGTGAGTATTATTATCCAATTAACAACATATTTTATTACCTCTTTGCACTTCCTATTACTTACAA
*
49154 A-AAAAA-ATGTTCTTGACCTTCTTAATTTTGCATGTTTAAAAAGTTAGCTTACAAAGATTTATG
445 ATAAAAACATGTTCTTGACCTTCTTAATTTTGCATGTCTAAAAAGTTAGCTTACAAAGATTTATG
** *
49217 CTGAA-ACATAATTAAAACTAATCCATTTAAATAATTGCATTTTTACTGCAACCTTATATAATCC
510 CCAAAGACATAATTAAAACTAATCCATTT--A-AATTGCATTTTTACTACAACCTTATATAATCC
* * *
49281 AATCAATTAATCAATCAAG-A-AC-AAAAAAATGTGCTTGGCCCTTATATAATTGATTATATTAA
572 AATCAATTAATCAAACAAGCACACAAAAAAAAAGTGCTTGGCACTTATATAATTGATTATATTAA
*
49343 TATCCTTATTCAATCAGTTAATCAAGAACCACTCTAAAATAAAAAATGCTCGTATATATTATTTT
637 TATCCTTATTCAATCAGTTAATCAAGAACCACTCT-AAATAAAAAACGCTCGTATATATTATTTT
49408 TAACTACCATGGAAATTACTAAAATGCCAAATTGAGGATTAATGTGGTGCCACCTTTTGGCTATT
701 TAACTACCATGGAAATTACTAAAATGCCAAATTGAGGATTAATGTGGTGCCACCTTTTGGCTATT
49473 TTTTGTCTTTTCT
766 TTTTGTCTTTTCT
* * *
49486 CACTTTTCGGATGACTAAAAAGTCTCTCTACGAGTTTCCCCCATTCCTTTTCCTTCTA-CCTTTT
1 CACTTTTCAGATGACTAAAAAGTCTATCTACAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTTT
* * *
49550 TTGTAATTATACATTTCCCTTCCTTAATTGTTTTTAATTAATGTTTAA-GACTTCTAATTAATTG
66 TCGTAATTACACATTTCCATTCCTTAATTGTTTTTAATTAATGTTTAATG-CTTCTAATTAATTG
* * * *
49614 CTTCTAAA-CCTAAACCCTTAATTACTTTTAATTAATGTATCTCTCGTTGTTTTCTTTTTTCCTC
130 CGTCTAAACCCTAAACCCTTAATCACTCTTAATTAATGTATCTCTCGATGTTTTCTTTTTTCCTC
*
49678 T-CAA-CA-ACCTTTCAACT-CCTCGGTGCTGATCAATCTTCAGGTTTGCCAAAAATCAAATATT
195 TCCAACCATACCTTTCAA-TACCTCGGTGCTGATCAATCTTCAGGTTTGCCAAAAATCAAACATT
*
49739 TCCATCACTCCCCTCTGTTTTCACCTTCATATCTCTTTCCTCTTTT-TTCTCCGTCTCCATCCCT
259 TCCATCACTCCCCTATGTTTTCACCTTCATATCTCTTTCCT-TTTTCTTCTCCGTCTCCATCCCT
* *
49803 TCAACATGGACCATTCAATATTTTTCCCCTTCTGAATTAAAACCACCCTTTGCTCAATGTGAGTA
323 TCAACATGGACCATTCAACATTTTTCCCATTCTGAATTAAAACCACCCTTTGCTCAATGTGAGTA
49868 TTATTATCCAATTAACAACATATTTTATTACCTCTTTGCACTTCCTATTACTTACAAATAAAAAC
388 TTATTATCCAATTAACAACATATTTTATTACCTCTTTGCACTTCCTATTACTTACAAATAAAAAC
*
49933 ATGTTCTTGACCTTCTTAATTTTGCATGTCTAAAAAGTTAGCTTACAAAGGTTTATGCCAAAGAC
453 ATGTTCTTGACCTTCTTAATTTTGCATGTCTAAAAAGTTAGCTTACAAAGATTTATGCCAAAGAC
* * * *
49998 ATAATTAAAACTAATTCATTTAAATTGCATTTTTACTATAACCTTATATAATTCAATCAATTATT
518 ATAATTAAAACTAATCCATTTAAATTGCATTTTTACTACAACCTTATATAATCCAATCAATTAAT
*
50063 CAAACAAGCACCACTCTACAATAAAAAAAAGTTCTTGGCACTTATATAATTGATTATATTAATAT
583 CAAACAAG---CA--C-AC-A-AAAAAAAAGTGCTTGGCACTTATATAATTGATTATATTAATAT
* * * *
50128 CGTTATTCAATCAGTTAATTAAGCACCACTCTAAATAAAGAACGCTCGTA
640 CCTTATTCAATCAGTTAATCAAGAACCACTCTAAATAAAAAACGCTCGTA
50178 ACTCCAGTGC
Statistics
Matches: 628, Mismatches: 46, Indels: 41
0.88 0.06 0.06
Matches are distributed among these distances:
770 218 0.35
771 53 0.08
772 6 0.01
773 58 0.09
774 22 0.04
775 1 0.00
779 4 0.01
781 19 0.03
782 69 0.11
784 53 0.08
785 71 0.11
786 54 0.09
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (778 bp):
CACTTTTCAGATGACTAAAAAGTCTATCTACAAGTTTCCCCCATTCCTTTTCCTTCTACCCTTTT
TCGTAATTACACATTTCCATTCCTTAATTGTTTTTAATTAATGTTTAATGCTTCTAATTAATTGC
GTCTAAACCCTAAACCCTTAATCACTCTTAATTAATGTATCTCTCGATGTTTTCTTTTTTCCTCT
CCAACCATACCTTTCAATACCTCGGTGCTGATCAATCTTCAGGTTTGCCAAAAATCAAACATTTC
CATCACTCCCCTATGTTTTCACCTTCATATCTCTTTCCTTTTTCTTCTCCGTCTCCATCCCTTCA
ACATGGACCATTCAACATTTTTCCCATTCTGAATTAAAACCACCCTTTGCTCAATGTGAGTATTA
TTATCCAATTAACAACATATTTTATTACCTCTTTGCACTTCCTATTACTTACAAATAAAAACATG
TTCTTGACCTTCTTAATTTTGCATGTCTAAAAAGTTAGCTTACAAAGATTTATGCCAAAGACATA
ATTAAAACTAATCCATTTAAATTGCATTTTTACTACAACCTTATATAATCCAATCAATTAATCAA
ACAAGCACACAAAAAAAAAGTGCTTGGCACTTATATAATTGATTATATTAATATCCTTATTCAAT
CAGTTAATCAAGAACCACTCTAAATAAAAAACGCTCGTATATATTATTTTTAACTACCATGGAAA
TTACTAAAATGCCAAATTGAGGATTAATGTGGTGCCACCTTTTGGCTATTTTTTGTCTTTTCT
Found at i:51086 original size:8 final size:8
Alignment explanation
Indices: 51073--51099 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51063 AGAAAATACA
51073 AGACTTTG
1 AGACTTTG
51081 AGACTTTG
1 AGACTTTG
51089 AGACTTTG
1 AGACTTTG
51097 AGA
1 AGA
51100 GATGGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (8 bp):
AGACTTTG
Found at i:54109 original size:59 final size:61
Alignment explanation
Indices: 54043--54205 Score: 235
Period size: 60 Copynumber: 2.7 Consensus size: 61
54033 GTTAATTGTT
* * *
54043 TAAATAAGGGCCTAATGTT-TGCCAAAATG-TCAAATAAGGGTC-CGATCTTTTAATTTAGC
1 TAAATAAGGGTCTAACGTTAT-CGAAAATGCTCAAATAAGGGTCTCGATCTTTTAATTTAGC
* *
54102 TAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGG-CTTGATCTTTTAATTTGGC
1 TAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGGTCTCGATCTTTTAATTTAGC
*
54162 CAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGGTCT
1 TAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGGTCT
54206 GGTGTTAGTT
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
59 25 0.27
60 67 0.71
61 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (61 bp):
TAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGGTCTCGATCTTTTAATTTAGC
Found at i:54141 original size:31 final size:31
Alignment explanation
Indices: 54103--54205 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
54093 TAATTTAGCT
54103 AAATAAGGGTCTAACGTTATCGAAAATGCTC
1 AAATAAGGGTCTAACGTTATCGAAAATGCTC
* * **
54134 AAATAAGGG-CTTGATC-TT-T-TAATTTGGC-C
1 AAATAAGGGTC-T-AACGTTATCGAAAAT-GCTC
54163 AAATAAGGGTCTAACGTTATCGAAAATGCTC
1 AAATAAGGGTCTAACGTTATCGAAAATGCTC
54194 AAATAAGGGTCT
1 AAATAAGGGTCT
54206 GGTGTTAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
28 2 0.04
29 16 0.29
30 8 0.14
31 28 0.50
32 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (31 bp):
AAATAAGGGTCTAACGTTATCGAAAATGCTC
Found at i:54272 original size:31 final size:31
Alignment explanation
Indices: 54237--54336 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
54227 TGAGACATGC
**
54237 CCTTATTTGAGCATTTTGGCAAACGTTAGGT
1 CCTTATTTGAGCATTTTGGCAAAAATTAGGT
** **
54268 CCTTATTTG-GCCAAATT--CAAAAATGGGGT
1 CCTTATTTGAG-CATTTTGGCAAAAATTAGGT
* * *
54297 CCTTATTTGAGCATTTGGGCAAATATTAGGC
1 CCTTATTTGAGCATTTTGGCAAAAATTAGGT
54328 CCTTATTTG
1 CCTTATTTG
54337 CCCAAATTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
29 20 0.38
30 2 0.04
31 30 0.58
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (31 bp):
CCTTATTTGAGCATTTTGGCAAAAATTAGGT
Found at i:54390 original size:59 final size:60
Alignment explanation
Indices: 54237--54395 Score: 187
Period size: 60 Copynumber: 2.7 Consensus size: 60
54227 TGAGACATGC
* * ****
54237 CCTTATTTGAGCATTTTGGCAAACGTTAGGTCCTTATTTGGCCAAATTCAAAAATGGGGT
1 CCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGCCCAAATTCAAAAATCAAAT
* **
54297 CCTTATTTGAGCATTTGGGCAAATATTAGGCCCTTATTTGCCCAAATT-AAAAGATCAAAT
1 CCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGCCCAAATTCAAAA-ATCAAAT
* **
54357 -CTTATTTGAGAATTTTGGCAAACGTTAAACCCTTATTTG
1 CCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTG
54396 AGCAATTAGC
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 37 0.45
60 46 0.55
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (60 bp):
CCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGCCCAAATTCAAAAATCAAAT
Found at i:61888 original size:18 final size:18
Alignment explanation
Indices: 61865--61900 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61855 TATCTATGTG
61865 AAAGGAGTCACACTGCTT
1 AAAGGAGTCACACTGCTT
*
61883 AAAGGAGTCAGACTGCTT
1 AAAGGAGTCACACTGCTT
61901 TAGCTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (18 bp):
AAAGGAGTCACACTGCTT
Found at i:66746 original size:11 final size:11
Alignment explanation
Indices: 66732--66769 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
66722 ATTCATAACA
66732 AATTTATAATT
1 AATTTATAATT
66743 AATTTATAATT
1 AATTTATAATT
66754 -ATTTGATAATT
1 AATTT-ATAATT
*
66765 TATTT
1 AATTT
66770 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:67224 original size:15 final size:15
Alignment explanation
Indices: 67204--67233 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
67194 AAGATAACAT
67204 GCCACCATCAAGATC
1 GCCACCATCAAGATC
67219 GCCACCATCAAGATC
1 GCCACCATCAAGATC
67234 CAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.40, G:0.13, T:0.13
Consensus pattern (15 bp):
GCCACCATCAAGATC
Found at i:67931 original size:24 final size:24
Alignment explanation
Indices: 67885--67931 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
67875 TATAATCCAG
* *
67885 AGATTTATCTATTTTTTTGAAAAT
1 AGATTTACCTATTTTTGTGAAAAT
67909 AGATTTACCTATATTTTGT-AAAA
1 AGATTTACCTAT-TTTTGTGAAAA
67932 CTCTATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (24 bp):
AGATTTACCTATTTTTGTGAAAAT
Found at i:68080 original size:12 final size:12
Alignment explanation
Indices: 68063--68089 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68053 TTTTAGTGAT
68063 TGATTGTATAGC
1 TGATTGTATAGC
68075 TGATTGTATAGC
1 TGATTGTATAGC
68087 TGA
1 TGA
68090 CATGATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (12 bp):
TGATTGTATAGC
Found at i:68365 original size:24 final size:25
Alignment explanation
Indices: 68317--68365 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
68307 ACCCATTCCT
* *
68317 TCAAACTTCAAAATTTTCAATTCTC
1 TCAAACTTCAAAACTTTCAAATCTC
*
68342 TCAACCTTC-AAACTTTCAAATCTC
1 TCAAACTTCAAAACTTTCAAATCTC
68366 AATCATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (25 bp):
TCAAACTTCAAAACTTTCAAATCTC
Found at i:70703 original size:22 final size:22
Alignment explanation
Indices: 70678--70719 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
70668 GAAAAGTTTT
*
70678 TTATAAAATTTTTTTAACCTTC
1 TTATAAAATTTTGTTAACCTTC
*
70700 TTATGAAATTTTGTTAACCT
1 TTATAAAATTTTGTTAACCT
70720 CCCTAAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATAAAATTTTGTTAACCTTC
Found at i:70872 original size:22 final size:23
Alignment explanation
Indices: 70834--70886 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
70824 AAAACCTCCA
*
70834 TATG-AATTATTAGTAATCACAC
1 TATGAAATTATTAATAATCACAC
* *
70856 TCTGAAATT-TTAATAATCACCC
1 TATGAAATTATTAATAATCACAC
70878 TATGAAATT
1 TATGAAATT
70887 GAGATAACCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TATGAAATTATTAATAATCACAC
Found at i:70914 original size:22 final size:22
Alignment explanation
Indices: 70858--71127 Score: 164
Period size: 22 Copynumber: 12.5 Consensus size: 22
70848 AATCACACTC
* * **
70858 TGAAATTTTAATAATCACCCTA
1 TGAAATTTTGATAACCTTCCTA
** *
70880 TGAAATTGAGATAACCTTGCTA
1 TGAAATTTTGATAACCTTCCTA
*
70902 TGAAATTTTGATAAATCTTCCTA
1 TGAAATTTTGAT-AACCTTCCTA
*
70925 T-AAGATTTTGATAAACCTCCCTA
1 TGAA-ATTTTGAT-AACCTTCCTA
* * *
70948 TAAAATTTTGATAACTTTCTTA
1 TGAAATTTTGATAACCTTCCTA
*
70970 TGAAATCTTGATAA-----CTA
1 TGAAATTTTGATAACCTTCCTA
* ***
70987 -CAAATTTTGATAACCTAGTTA
1 TGAAATTTTGATAACCTTCCTA
* ** *
71008 TGAAATTTTGTTAATGTCCCTA
1 TGAAATTTTGATAACCTTCCTA
* * * *
71030 TGAAATCTTGATCTA-CATACTA
1 TGAAATTTTGAT-AACCTTCCTA
* *
71052 TGAAATTTTGATAACCCTCTTA
1 TGAAATTTTGATAACCTTCCTA
*
71074 TGAAATTTTGATAACCTTCATA
1 TGAAATTTTGATAACCTTCCTA
* *
71096 TGGAATTTTGATATCC-TCCT-
1 TGAAATTTTGATAACCTTCCTA
71116 TGAAATTTTGAT
1 TGAAATTTTGAT
71128 TACTCCATAG
Statistics
Matches: 190, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
16 11 0.06
17 2 0.01
20 11 0.06
21 6 0.03
22 122 0.64
23 36 0.19
24 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (22 bp):
TGAAATTTTGATAACCTTCCTA
Found at i:70932 original size:23 final size:23
Alignment explanation
Indices: 70899--70961 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
70889 GATAACCTTG
* * *
70899 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAACCTCC
*
70922 CTATAAGATTTTGATAAACCTCC
1 CTATAAAATTTTGATAAACCTCC
70945 CTATAAAATTTTGATAA
1 CTATAAAATTTTGATAA
70962 CTTTCTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (23 bp):
CTATAAAATTTTGATAAACCTCC
Found at i:71285 original size:22 final size:22
Alignment explanation
Indices: 71233--71357 Score: 99
Period size: 22 Copynumber: 5.6 Consensus size: 22
71223 AATCACATTG
* **
71233 TGAAAATTTGATAACCTAATTA
1 TGAAATTTTGATAACCTCTTTA
71255 TGAAATTTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCTTTA
* * * * *
71277 TAAAATTTTGTTGACCCCTCTA
1 TGAAATTTTGATAACCTCTTTA
* * *
71299 TGAAATTCTGATAATCATACATTA
1 TGAAATTTTGATAA-CCT-CTTTA
* *
71323 TGTAATTTTGATAACCT-TATTT
1 TGAAATTTTGATAACCTCT-TTA
71345 TGAAATTTTGATA
1 TGAAATTTTGATA
71358 CTGAAATTTT
Statistics
Matches: 78, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
22 60 0.77
23 3 0.04
24 15 0.19
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCTTTA
Found at i:71362 original size:14 final size:14
Alignment explanation
Indices: 71345--71371 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71335 AACCTTATTT
71345 TGAAATTTTGATAC
1 TGAAATTTTGATAC
71359 TGAAATTTTGATA
1 TGAAATTTTGATA
71372 ATCTTCCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
TGAAATTTTGATAC
Found at i:71410 original size:25 final size:22
Alignment explanation
Indices: 71359--71419 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
71349 ATTTTGATAC
*
71359 TGAAATTTTGATAATCTTCCTA
1 TGAAATTTTGATAATATTCCTA
71381 T-AAATTTTGATAATATGATCTCTA
1 TGAAATTTTGATAATAT--TC-CTA
*
71405 TGAAATTTCGATAAT
1 TGAAATTTTGATAAT
71420 CACTCTGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
23 2 0.06
24 4 0.12
25 12 0.36
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TGAAATTTTGATAATATTCCTA
Found at i:71542 original size:22 final size:22
Alignment explanation
Indices: 71517--71574 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
71507 TCACACTATA
*
71517 AAATTTTGATAACCTCCCCATC
1 AAATTTTGATAACCTCCCAATC
* * *
71539 AAATATT-AGTAACCTCCTAATG
1 AAATTTTGA-TAACCTCCCAATC
*
71561 AAATTTTGTTAACC
1 AAATTTTGATAACC
71575 ACACTATGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (22 bp):
AAATTTTGATAACCTCCCAATC
Found at i:71685 original size:22 final size:23
Alignment explanation
Indices: 71660--71748 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 23
71650 AATGAACCAC
*
71660 CCTATGAAATTTCAATAACCA-A
1 CCTATGAAATTTTAATAACCATA
**
71682 CCTAAAAAATTTTAATAA-CATGA
1 CCTATGAAATTTTAATAACCAT-A
**
71705 TCCTATGAAATTTTGGTAACCATA
1 -CCTATGAAATTTTAATAACCATA
*
71729 -CTATGAAATTTTGATAACCA
1 CCTATGAAATTTTAATAACCA
71749 CATAAAGACA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.04
22 34 0.62
23 1 0.02
24 15 0.27
25 3 0.05
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (23 bp):
CCTATGAAATTTTAATAACCATA
Found at i:73022 original size:38 final size:37
Alignment explanation
Indices: 72980--73061 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 37
72970 GATGTTTGAG
72980 ACAAAAACAAAAAGCAAAATTAAATACAACGATTGGAA
1 ACAAAAACAAAAAGCAAAATTAAATACAACG-TTGGAA
** **
73018 ACAAAGGCAAAAAGCAAAATTAAATAGGACGTTGGAA
1 ACAAAAACAAAAAGCAAAATTAAATACAACGTTGGAA
73055 ACAAAAA
1 ACAAAAA
73062 GCCAAATTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
37 11 0.29
38 27 0.71
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (37 bp):
ACAAAAACAAAAAGCAAAATTAAATACAACGTTGGAA
Found at i:73425 original size:22 final size:22
Alignment explanation
Indices: 73395--73448 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
73385 ATTACACTAT
*
73395 TTTTTATAATCCTAT-TATGAAA
1 TTTTAATAATCCT-TCTATGAAA
*
73417 TTTTGATAA-CCTTCCTATGAAA
1 TTTTAATAATCCTT-CTATGAAA
73439 TTTTAATAAT
1 TTTTAATAAT
73449 GATACTATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 3 0.11
22 23 0.85
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (22 bp):
TTTTAATAATCCTTCTATGAAA
Found at i:73492 original size:21 final size:22
Alignment explanation
Indices: 73468--73515 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
73458 GAATTTCGAG
*
73468 AACCTTTTTAT-AAATTTTTTT
1 AACCTTTTTATGAAATTTTGTT
*
73489 AACCTTTTTGTGAAATTTTGTT
1 AACCTTTTTATGAAATTTTGTT
73511 AACCT
1 AACCT
73516 CCCTAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.54
Consensus pattern (22 bp):
AACCTTTTTATGAAATTTTGTT
Found at i:73598 original size:22 final size:22
Alignment explanation
Indices: 73534--73636 Score: 71
Period size: 23 Copynumber: 4.6 Consensus size: 22
73524 AATTGTGAAG
* *
73534 ACCTCAATATGAAATTTTGATA
1 ACCTCCATATGAAATATTGATA
** * *
73556 ACCAACACTATGAGATGTTGATA
1 ACCTCCA-TATGAAATATTGATA
*
73579 ACCTCCATATGATATATTGATA
1 ACCTCCATATGAAATATTGATA
* ** * * *
73601 ACCACGTTATGAAAAATTTAAAA
1 ACCTCCATATGAAATA-TTGATA
73624 ACCTCCATATGAA
1 ACCTCCATATGAA
73637 TTGTTAGTAT
Statistics
Matches: 60, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
22 28 0.47
23 32 0.53
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (22 bp):
ACCTCCATATGAAATATTGATA
Found at i:73704 original size:21 final size:22
Alignment explanation
Indices: 73680--73727 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
73670 GAATTTCGAG
*
73680 AACCTTTTTAT-AAATTTTTTT
1 AACCTTTTTATGAAATTTTGTT
*
73701 AACCTTTTTGTGAAATTTTGTT
1 AACCTTTTTATGAAATTTTGTT
73723 AACCT
1 AACCT
73728 CCCTAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.54
Consensus pattern (22 bp):
AACCTTTTTATGAAATTTTGTT
Found at i:73799 original size:212 final size:212
Alignment explanation
Indices: 73432--73857 Score: 852
Period size: 212 Copynumber: 2.0 Consensus size: 212
73422 ATAACCTTCC
73432 TATGAAATTTTAATAATGATACTATGGAATTTCGAGAACCTTTTTATAAATTTTTTTAACCTTTT
1 TATGAAATTTTAATAATGATACTATGGAATTTCGAGAACCTTTTTATAAATTTTTTTAACCTTTT
73497 TGTGAAATTTTGTTAACCTCCCTAAGGAATTGTGAAGACCTCAATATGAAATTTTGATAACCAAC
66 TGTGAAATTTTGTTAACCTCCCTAAGGAATTGTGAAGACCTCAATATGAAATTTTGATAACCAAC
73562 ACTATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGTTATGAAAAATTTAAAAACC
131 ACTATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGTTATGAAAAATTTAAAAACC
73627 TCCATATGAATTGTTAG
196 TCCATATGAATTGTTAG
73644 TATGAAATTTTAATAATGATACTATGGAATTTCGAGAACCTTTTTATAAATTTTTTTAACCTTTT
1 TATGAAATTTTAATAATGATACTATGGAATTTCGAGAACCTTTTTATAAATTTTTTTAACCTTTT
73709 TGTGAAATTTTGTTAACCTCCCTAAGGAATTGTGAAGACCTCAATATGAAATTTTGATAACCAAC
66 TGTGAAATTTTGTTAACCTCCCTAAGGAATTGTGAAGACCTCAATATGAAATTTTGATAACCAAC
73774 ACTATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGTTATGAAAAATTTAAAAACC
131 ACTATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGTTATGAAAAATTTAAAAACC
73839 TCCATATGAATTGTTAG
196 TCCATATGAATTGTTAG
73856 TA
1 TA
73858 ATCACACTTT
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 214 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (212 bp):
TATGAAATTTTAATAATGATACTATGGAATTTCGAGAACCTTTTTATAAATTTTTTTAACCTTTT
TGTGAAATTTTGTTAACCTCCCTAAGGAATTGTGAAGACCTCAATATGAAATTTTGATAACCAAC
ACTATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGTTATGAAAAATTTAAAAACC
TCCATATGAATTGTTAG
Found at i:73939 original size:23 final size:23
Alignment explanation
Indices: 73908--73992 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
73898 GATAACCTCG
*
73908 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAATCTTC
* *
73931 CTATAAAATTTTGATAAACCTCC
1 CTATAAAATTTTGATAAATCTTC
*
73954 CTATAAAATTTTGATAACT-TTC
1 CTATAAAATTTTGATAAATCTTC
* * *
73976 TTATGAAATCTTGATAA
1 CTATAAAATTTTGATAA
73993 CTACAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.30
23 37 0.70
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
CTATAAAATTTTGATAAATCTTC
Found at i:73991 original size:45 final size:45
Alignment explanation
Indices: 73869--73992 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 45
73859 TCACACTTTG
* * *
73869 AAATTTTGAT-AATC-ACACTATGAAATTGTGAT-AACCTCGCTATG
1 AAATTTTGATAAATCTTC-CTATGAAATT-TGATAAACCTCCCTATA
*
73913 AAATTTTGATAAATCTTCCTATAAAATTTTGATAAACCTCCCTATA
1 AAATTTTGATAAATCTTCCTATGAAA-TTTGATAAACCTCCCTATA
* *
73959 AAATTTTGATAACT-TTCTTATGAAATCTTGATAA
1 AAATTTTGATAAATCTTCCTATGAAAT-TTGATAA
73993 CTACAAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 11 0.16
45 31 0.46
46 26 0.38
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (45 bp):
AAATTTTGATAAATCTTCCTATGAAATTTGATAAACCTCCCTATA
Found at i:74130 original size:20 final size:20
Alignment explanation
Indices: 74105--74156 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
74095 AACTAAACTA
*
74105 TGAAATTGTGATATCCTCCC
1 TGAAATTTTGATATCCTCCC
*
74125 TGAAATTTTGATATCCTCCT
1 TGAAATTTTGATATCCTCCC
74145 TGAAATTTTGAT
1 TGAAATTTTGAT
74157 TACTCCATAA
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:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
TGAAATTTTGATATCCTCCC
Found at i:74588 original size:22 final size:22
Alignment explanation
Indices: 73711--74879 Score: 293
Period size: 22 Copynumber: 53.7 Consensus size: 22
73701 AACCTTTTTG
* *
73711 TGAAATTTTGTTAACCTCCCTA
1 TGAAATTTTGATAACCTCACTA
* * * *
73733 AGGAATTGTGA-AGACCTCAATA
1 TGAAATTTTGATA-ACCTCACTA
*
73755 TGAAATTTTGATAACCAACACTA
1 TGAAATTTTGATAACC-TCACTA
* *
73778 TGAGATGTTGATAACCTC-CATA
1 TGAAATTTTGATAACCTCAC-TA
* * * **
73800 TGATATATTGATAACCACGTTA
1 TGAAATTTTGATAACCTCACTA
* * *
73822 TGAAAAATTTAAAAACCTC-CATA
1 TG-AAATTTTGATAACCTCAC-TA
* * *
73845 TG-AATTGTT-AGTAATCACACTT
1 TGAAATT-TTGA-TAACCTCACTA
* *
73867 TGAAATTTTGATAATCACACTA
1 TGAAATTTTGATAACCTCACTA
* *
73889 TGAAATTGTGATAACCTCGCTA
1 TGAAATTTTGATAACCTCACTA
*
73911 TGAAATTTTGATAAATCTTC-CTA
1 TGAAATTTTGAT-AA-CCTCACTA
* *
73934 TAAAATTTTGATAAACCTCCCTA
1 TGAAATTTTGAT-AACCTCACTA
* * *
73957 TAAAATTTTGATAACTTTC-TTA
1 TGAAATTTTGATAAC-CTCACTA
*
73979 TGAAATCTTGATAA-CT-AC--
1 TGAAATTTTGATAACCTCACTA
*
73997 --AAATTTTGATAACCTCCCTA
1 TGAAATTTTGATAACCTCACTA
** * *
74017 TGATTTTTTGATAACCTTATTA
1 TGAAATTTTGATAACCTCACTA
* * *
74039 TGAAATTTTGTTAATCTCCCTA
1 TGAAATTTTGATAACCTCACTA
*
74061 TGAAATTTTGATAACCCTC-TTA
1 TGAAATTTTGATAA-CCTCACTA
* *
74083 TGAAATTTTGA-AAACTAAACTA
1 TGAAATTTTGATAACCT-CACTA
* * *
74105 TGAAATTGTGATATCCTC-C-C
1 TGAAATTTTGATAACCTCACTA
*
74125 TGAAATTTTGATATCCTC-CT-
1 TGAAATTTTGATAACCTCACTA
*
74145 TGAAATTTTGATTA-CTC-CATAA
1 TGAAATTTTGATAACCTCAC-T-A
* ** **
74167 TAAAAGCTCAATAACCTTC-C--
1 TGAAATTTTGATAACC-TCACTA
* *
74187 T--AA-TTTGGTAACCAT-GCTA
1 TGAAATTTTGATAACC-TCACTA
* *
74206 TGAAATTTTGATAACCTCCCCA
1 TGAAATTTTGATAACCTCACTA
* *
74228 -GAAATACCATTATGA-AA--T--TTT
1 TGAAAT----TT-TGATAACCTCACTA
* * * * * *
74249 TGTAA-TCTG-TAATCACATTT
1 TGAAATTTTGATAACCTCACTA
* **
74269 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCACTA
**
74291 TGAAATTTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCACTA
* * * *
74313 TGAAATTTTGTTGACCCCTCTA
1 TGAAATTTTGATAACCTCACTA
* * * * *
74335 TGTAATTGTGATAATCACATTA
1 TGAAATTTTGATAACCTCACTA
* ** *
74357 TGTAATTTTGATAACCTTGCTT
1 TGAAATTTTGATAACCTCACTA
**
74379 TGAAATTTTGATAACAACACTA
1 TGAAATTTTGATAACCTCACTA
*
74401 TGAAATTTTGATAATCTTC-CTA
1 TGAAATTTTGATAA-CCTCACTA
* *
74423 T-AAATTTTGATAATCTGATCTTTA
1 TGAAATTTTGATAACCTCA-C--TA
* * *
74447 TGAAATTTTGATAATCACTCTA
1 TGAAATTTTGATAACCTCACTA
* *
74469 TGAGA-TTTGATAACCT-TCTA
1 TGAAATTTTGATAACCTCACTA
* *
74489 TCAAATTTTGGT-A-CTC-CTTA
1 TGAAATTTTGATAACCTCAC-TA
*
74509 TGAAATTGAGACTTTTATAACCTTCA-TA
1 TGAAA-T-----TTTGATAACC-TCACTA
*
74537 TGAAATTTTGATAACCACACTA
1 TGAAATTTTGATAACCTCACTA
*
74559 TAAAATTTTGATAACCTC-CTAA
1 TGAAATTTTGATAACCTCACT-A
* * * *
74581 TGAGATTTAGTTAACCACACTA
1 TGAAATTTTGATAACCTCACTA
*
74603 TGAAATTCTT-ATAACCTCGCTA
1 TGAAATT-TTGATAACCTCACTA
* * *
74625 TGACATTTTGATAA--TCTCTT
1 TGAAATTTTGATAACCTCACTA
* * *
74645 TGAAAATCTTTCTATGAA----ATTG
1 TG-AAAT-TTT-GAT-AACCTCACTA
* *
74667 TGATAA--TTAACAA-C-C-CTA
1 TGA-AATTTTGATAACCTCACTA
** *
74685 TGAAATTTCAATAACC-AACCTA
1 TGAAATTTTGATAACCTCA-CTA
* * * *
74707 AGAAAATTTAATAACCTGATCCTA
1 TGAAATTTTGATAACCTCA--CTA
* * *
74731 TGAAATTTTGGTAATCACACTA
1 TGAAATTTTGATAACCTCACTA
* *
74753 TGAAATTTTGGTAACCACA-TCA
1 TGAAATTTTGATAACCTCACT-A
*
74775 TGAAATTTTGATAACTTC-CATA
1 TGAAATTTTGATAACCTCAC-TA
* *
74797 TGAAATTTTGGTAACCACACTA
1 TGAAATTTTGATAACCTCACTA
*
74819 TGGAATTTTGATAACCTC-CTCA
1 TGAAATTTTGATAACCTCACT-A
* * * *
74841 TAAAATTATAATAACCATC-TTA
1 TGAAATTTTGATAACC-TCACTA
74863 TTGAAATTTTGATAACC
1 -TGAAATTTTGATAACC
74880 ACATAGAGAC
Statistics
Matches: 849, Mismatches: 200, Indels: 195
0.68 0.16 0.16
Matches are distributed among these distances:
16 15 0.02
17 15 0.02
18 8 0.01
19 15 0.02
20 64 0.08
21 60 0.07
22 498 0.59
23 109 0.13
24 28 0.03
25 18 0.02
26 7 0.01
27 2 0.00
28 8 0.01
29 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCACTA
Found at i:75506 original size:31 final size:31
Alignment explanation
Indices: 75441--75506 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
75431 TGGCAATTTA
* *
75441 GAAATATGCTTTTAAAAAAAGGGTACAATTG
1 GAAATATGCTTTTAAAAAAAGGGTAAAATCG
*
75472 GAAATATG-TTTTAAAAATACGGG-AGAAATCG
1 GAAATATGCTTTTAAAAA-AAGGGTA-AAATCG
75503 GAAA
1 GAAA
75507 ACATAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (31 bp):
GAAATATGCTTTTAAAAAAAGGGTAAAATCG
Done.