Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009141.1 Hibiscus syriacus cultivar Beakdansim tig00112649_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: 919200
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2454 original size:17 final size:16
Alignment explanation
Indices: 2432--2465 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2422 GGTAAAAAGT
2432 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
2449 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
2465 A
1 A
2466 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:4074 original size:22 final size:22
Alignment explanation
Indices: 4046--4119 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
4036 AATAAAGCTT
4046 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
4068 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4090 TCATCTTTG--AAGAG-ATCTA
1 TCATCTTTGAAAAGAGAATCTA
4109 TCATCTTTGAA
1 TCATCTTTGAA
4120 GAGTGTAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.29
20 5 0.10
22 29 0.60
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:6855 original size:111 final size:108
Alignment explanation
Indices: 6632--6922 Score: 390
Period size: 108 Copynumber: 2.7 Consensus size: 108
6622 AATCATGCAG
* *
6632 TTCATCTTTCAATTCCAATGATTGGTTCTGGGTTCATACC-AACCAGATCAGATAACTAAAGAAC
1 TTCATCTTTCAA-T-CAATGATTGGTTTTGGGTTCATACCAAATCAGATCAGATAACTAAAGAAC
6696 ACTTCAGAAGATGCTATTGGGTCACTTATTTCTACTATGAGCAAA
64 ACTTCAGAAGATGCTATTGGGTCACTTATTTCTACTATGAGCAAA
6741 TTCATCTTTCAATCAATGATTGGTTTTGGGGTTCATACCAAATCA-ATCAGATAACTCAAAGAAC
1 TTCATCTTTCAATCAATGATTGGTTTT-GGGTTCATACCAAATCAGATCAGATAACT-AAAGAAC
*
6805 ACTTCTAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
64 ACTTC-AGAAGATGCTATTGGGTC-ACTTATTTCTACTATGAGCAAA
*
6852 TTCATCTTT-AA--ATTGATTGG-TTT-GG---ATACCAAATCAGATCAGATAACTTAAAG-A-A
1 TTCATCTTTCAATCAATGATTGGTTTTGGGTTCATACCAAATCAGATCAGATAAC-TAAAGAACA
6907 CTTCCAGAAGATGCTA
65 CTT-CAGAAGATGCTA
6923 CTCCTTATTC
Statistics
Matches: 170, Mismatches: 4, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
101 15 0.09
102 13 0.08
103 14 0.08
104 1 0.01
105 2 0.01
107 16 0.09
108 31 0.18
109 28 0.16
110 20 0.12
111 30 0.18
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (108 bp):
TTCATCTTTCAATCAATGATTGGTTTTGGGTTCATACCAAATCAGATCAGATAACTAAAGAACAC
TTCAGAAGATGCTATTGGGTCACTTATTTCTACTATGAGCAAA
Found at i:9077 original size:8 final size:7
Alignment explanation
Indices: 9064--9126 Score: 60
Period size: 7 Copynumber: 8.9 Consensus size: 7
9054 TCTCCTTCTT
9064 TTTTTTC
1 TTTTTTC
9071 ATTTTTTC
1 -TTTTTTC
9079 TTTTCTT-
1 TTTT-TTC
9086 TTCTTTT-
1 TT-TTTTC
*
9093 TCTTTTC
1 TTTTTTC
9100 TTTTTTC
1 TTTTTTC
9107 TTTTTT-
1 TTTTTTC
9113 TTTCTTTC
1 TTT-TTTC
9121 TTTTTT
1 TTTTTT
9127 TGCTGGATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 7 0.15
7 27 0.56
8 14 0.29
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:9084 original size:5 final size:5
Alignment explanation
Indices: 9074--9124 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
9064 TTTTTTCATT
*
9074 TTTTC TTTTC TTTTC TTTTTC TTTTC TTTTTTC TTTTT TTTTC -TTTC
1 TTTTC TTTTC TTTTC -TTTTC TTTTC --TTTTC TTTTC TTTTC TTTTC
9121 TTTT
1 TTTT
9125 TTTGCTGGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
5 26 0.65
6 5 0.12
7 5 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:9084 original size:28 final size:28
Alignment explanation
Indices: 9052--9119 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
9042 CTTGATTTAA
9052 TTTCTCCTTC-TTTT-TTTTCATTTTTTCT
1 TTTCT-CTTCTTTTTCTTTTC-TTTTTTCT
*
9080 TTTCTTTTCTTTTTCTTTTCTTTTTTCT
1 TTTCTCTTCTTTTTCTTTTCTTTTTTCT
* *
9108 TTTTTTTTCTTT
1 TTTCTCTTCTTT
9120 CTTTTTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 3 0.08
28 28 0.78
29 5 0.14
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTCTCTTCTTTTTCTTTTCTTTTTTCT
Found at i:9087 original size:11 final size:11
Alignment explanation
Indices: 9074--9125 Score: 74
Period size: 10 Copynumber: 4.9 Consensus size: 11
9064 TTTTTTCATT
9074 TTTTC-TTTTC
1 TTTTCTTTTTC
9084 TTTTCTTTTTC
1 TTTTCTTTTTC
9095 TTTTCTTTTTTC
1 TTTTC-TTTTTC
9107 TTTT-TTTTTC
1 TTTTCTTTTTC
9117 -TTTCTTTTT
1 TTTTCTTTTT
9126 TTGCTGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 3 0.08
10 16 0.41
11 10 0.26
12 10 0.26
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:9126 original size:28 final size:28
Alignment explanation
Indices: 9062--9126 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
9052 TTTCTCCTTC
9062 TTTTTTTTCATTTTTTCTTTTCTTTTCT
1 TTTTTTTTCATTTTTTCTTTTCTTTTCT
*
9090 TTTTCTTTTC-TTTTTTCTTTTTTTTTCT
1 TTTT-TTTTCATTTTTTCTTTTCTTTTCT
9118 TTCTTTTTT
1 TT-TTTTTT
9127 TGCTGGATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 27 0.79
29 7 0.21
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (28 bp):
TTTTTTTTCATTTTTTCTTTTCTTTTCT
Found at i:11882 original size:12 final size:12
Alignment explanation
Indices: 11865--11892 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11855 AAACGTAAAA
11865 AAATGCAAATGT
1 AAATGCAAATGT
11877 AAATGCAAATGT
1 AAATGCAAATGT
11889 AAAT
1 AAAT
11893 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:14452 original size:11 final size:10
Alignment explanation
Indices: 14414--14463 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
14404 GACTAATATG
*
14414 AAATAATAAT
1 AAATAATAAA
14424 AAATAATATAA
1 AAATAATA-AA
*
14435 AAGTAATAACA
1 AAATAATAA-A
14446 AAATAATAAA
1 AAATAATAAA
14456 TAAATAAT
1 -AAATAAT
14464 GATTAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.29
11 24 0.71
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
AAATAATAAA
Found at i:14473 original size:36 final size:32
Alignment explanation
Indices: 14414--14479 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 32
14404 GACTAATATG
*
14414 AAATAATAATAAATAATATAAAAGTAATAACA
1 AAATAATAATAAATAATATAAAAGCAATAACA
14446 AAATAATAAATAAATAATGATTAAAAAGCAATAA
1 AAATAAT-AATAAATAAT-A-T-AAAAGCAATAA
14480 TATTAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.24
33 10 0.34
34 1 0.03
35 1 0.03
36 10 0.34
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (32 bp):
AAATAATAATAAATAATATAAAAGCAATAACA
Found at i:15750 original size:3 final size:3
Alignment explanation
Indices: 15742--15787 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
15732 ATTATTTATT
15742 TAA TAA TAA TAA T-A TAA TAA -AA TAA TAA TATA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
15786 TA
1 TA
15788 TATGAAAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15767 original size:13 final size:14
Alignment explanation
Indices: 15742--15789 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
15732 ATTATTTATT
15742 TAATAATAATAAT-A
1 TAAT-ATAATAATAA
*
15756 TAATAAAATAATAA
1 TAATATAATAATAA
15770 T-ATATAATAATAA
1 TAATATAATAATAA
15783 TAATATA
1 TAATATA
15790 TGAAAGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:15790 original size:16 final size:16
Alignment explanation
Indices: 15742--15790 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
15732 ATTATTTATT
15742 TAATAATAATAATATAA
1 TAATAATAATAATAT-A
15759 TAA-AATAATAATATA
1 TAATAATAATAATATA
15774 TAATAATAATAATATA
1 TAATAATAATAATATA
15790 T
1 T
15791 GAAAGTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.13
16 24 0.77
17 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAATAATAATATA
Found at i:16926 original size:31 final size:30
Alignment explanation
Indices: 16865--16927 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
16855 AAGCATTTGT
* *
16865 TGAAAATCAAGGTTGGCACCGAGTGGTGCA
1 TGAAAATCAAGGTTGGCACCGAATGATGCA
* *
16895 TGAAAATCAAAGTTTGGCACTGAATGATGCA
1 TGAAAATC-AAGGTTGGCACCGAATGATGCA
16926 TG
1 TG
16928 GTCAAAAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
TGAAAATCAAGGTTGGCACCGAATGATGCA
Found at i:19351 original size:31 final size:31
Alignment explanation
Indices: 19313--19374 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
19303 TGAGATATTG
19313 TTGAAAATAAAAGGTTGGCACCAAATGGTGC
1 TTGAAAATAAAAGGTTGGCACCAAATGGTGC
* * * *
19344 TTGAAAATCAAAGTTTGTCACCGAATGGTGC
1 TTGAAAATAAAAGGTTGGCACCAAATGGTGC
19375 ATGGTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (31 bp):
TTGAAAATAAAAGGTTGGCACCAAATGGTGC
Found at i:25150 original size:16 final size:16
Alignment explanation
Indices: 25129--25170 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
25119 TTTCGTTGCC
*
25129 ATAGCTTCTATTACGG
1 ATAGCTCCTATTACGG
25145 ATAGCTCCTATTACGG
1 ATAGCTCCTATTACGG
25161 ATAGCTCCTA
1 ATAGCTCCTA
25171 CTATTTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (16 bp):
ATAGCTCCTATTACGG
Found at i:31027 original size:2 final size:2
Alignment explanation
Indices: 31020--31128 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
31010 CTGAGACAAC
31020 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
31062 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
31104 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
31129 TACTTGTTGC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46042 original size:41 final size:41
Alignment explanation
Indices: 45997--46170 Score: 296
Period size: 41 Copynumber: 4.2 Consensus size: 41
45987 GATTCGCAAC
*
45997 GCGATAGTCGAAATTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
46038 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
46079 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
46120 GCGATAGGT-GAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATA-GTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
46162 GCGATAGTC
1 GCGATAGTC
46171 CAAATATTGC
Statistics
Matches: 125, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
41 113 0.90
42 12 0.10
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:46121 original size:20 final size:20
Alignment explanation
Indices: 46014--46124 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
46004 TCGAAATTCG
*
46014 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAATT
* *
46034 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
*
46053 CGCGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAATT
** *
46075 CGTTGCGA-T-AGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
46094 CGCGTTGCGATTCATTCCAATT
1 --CGTTGCGATTCATTCCAATT
46116 CGTTGCGAT
1 CGTTGCGAT
46125 AGGTGAAGTT
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
18 9 0.13
19 4 0.06
20 25 0.37
21 16 0.24
22 5 0.07
23 9 0.13
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAATT
Found at i:46257 original size:6 final size:6
Alignment explanation
Indices: 46246--46282 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
46236 GACACGCATT
46246 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
46283 TTGATCCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:47003 original size:6 final size:6
Alignment explanation
Indices: 46987--47024 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
46977 TCTCGGGTAG
46987 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
47025 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:47220 original size:41 final size:41
Alignment explanation
Indices: 47108--47389 Score: 474
Period size: 41 Copynumber: 6.8 Consensus size: 41
47098 TGGACTATCA
* * * *
47108 CAACGAATTTGGAATGAATTGCAACGCGAACTTCACCTATCG
1 CAACGAA-TTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
*
47150 CAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCG
1 CAACGAA-TTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
47192 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
1 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
47233 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
1 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
47274 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
1 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
47315 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
1 CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
* * *
47356 CAACAAATTGGAATGAATCGCAACGCAAACTTCG
1 CAACGAATTGGAATGAATCGCAATGCGAACTTCG
47390 ACTATCGCGT
Statistics
Matches: 233, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
41 187 0.80
42 46 0.20
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
CAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTGTCG
Found at i:48597 original size:24 final size:24
Alignment explanation
Indices: 48570--48619 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
48560 GAATCGGTCA
**
48570 TTCAATTATGTTATTTTATTTTAT
1 TTCAATTATGGCATTTTATTTTAT
* *
48594 TTCAATTGTGGCCTTTTATTTTAT
1 TTCAATTATGGCATTTTATTTTAT
48618 TT
1 TT
48620 TATTACAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (24 bp):
TTCAATTATGGCATTTTATTTTAT
Found at i:48767 original size:12 final size:12
Alignment explanation
Indices: 48752--48785 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
48742 TTTATTTATT
*
48752 TTTTAATCATTG
1 TTTTAATAATTG
48764 TTTTAATTAATTG
1 TTTTAA-TAATTG
48777 TTTTAATAA
1 TTTTAATAA
48786 ATATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (12 bp):
TTTTAATAATTG
Found at i:52513 original size:20 final size:20
Alignment explanation
Indices: 52488--52525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52478 AAATACTAGA
*
52488 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
52508 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
52526 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:53184 original size:103 final size:103
Alignment explanation
Indices: 53005--53333 Score: 606
Period size: 103 Copynumber: 3.2 Consensus size: 103
52995 GTAGAGGGTC
*
53005 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
53070 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
53108 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
53173 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
* * *
53211 TATGTGGTCCTTCGGGATATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
53276 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
53314 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
53334 TATTATATGG
Statistics
Matches: 219, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
103 219 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:53393 original size:23 final size:23
Alignment explanation
Indices: 53344--53404 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
53334 TATTATATGG
* *
53344 CACTACGGTGCAATTCTATGCGG
1 CACTACGGTGCAATTCTACGCGA
* *
53367 CACTCCGGTGCAATTCTACGTGA
1 CACTACGGTGCAATTCTACGCGA
53390 CACTTA-GGTGCAATT
1 CAC-TACGGTGCAATT
53405 ATATGAGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGCGA
Found at i:59497 original size:19 final size:19
Alignment explanation
Indices: 59473--59510 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59463 AGAATGCTAG
*
59473 AGGGGAATCGATACCCCCA
1 AGGGGAACCGATACCCCCA
*
59492 AGGGGAACCGATTCCCCCA
1 AGGGGAACCGATACCCCCA
59511 TAATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCA
Found at i:60166 original size:103 final size:103
Alignment explanation
Indices: 59987--60307 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
59977 GTAGAGGGTC
*
59987 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACGTGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
60052 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
60090 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
60155 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
* * * *
60193 TATGTGGTCTTTCGGGATATATATGTATTGTTTGGAACATGTGTGAGGTCTGGTGAGACACAAAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
* *
60258 TTGATCATTGGTATATGTATATGATTCTTAAGGAATAA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
60296 TATGTGGTCCTT
1 TATGTGGTCCTT
60308 ATGGACATTA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:60382 original size:23 final size:23
Alignment explanation
Indices: 60323--60386 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
60313 CATTATTATA
60323 TGGCAC-TACGGTGCAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
* *
60346 CGGCACTCCA-GTGCAATTCTACG
1 TGGCACT-TAGGTGCAATTCTACG
60369 TGGCACTTAGGTGCAATT
1 TGGCACTTAGGTGCAATT
60387 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
25 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:61673 original size:35 final size:34
Alignment explanation
Indices: 61630--61701 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
61620 GATATAGCAA
61630 AAAGAAAAA-AAA-CATAAAAAGAGAGAAAATAAAG
1 AAAGAAAAAGAAAGCA-AAAAAGAGAGAAAA-AAAG
* *
61664 AAAGAAAAAAGAAAGCAAAAAATAGAGGAAAAAAG
1 AAAG-AAAAAGAAAGCAAAAAAGAGAGAAAAAAAG
61699 AAA
1 AAA
61702 AATACTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 4 0.12
35 12 0.36
36 15 0.45
37 2 0.06
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (34 bp):
AAAGAAAAAGAAAGCAAAAAAGAGAGAAAAAAAG
Found at i:61676 original size:11 final size:12
Alignment explanation
Indices: 61645--61701 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
61635 AAAAAAACAT
*
61645 AAAAAGAGAGAA
1 AAAAAGAAAGAA
61657 AATAAAGAAAG-A
1 AA-AAAGAAAGAA
*
61669 AAAAAGAAAGCA
1 AAAAAGAAAGAA
* * *
61681 AAAAATAGAGGA
1 AAAAAGAAAGAA
61693 AAAAAGAAA
1 AAAAAGAAA
61702 AATACTTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 8 0.22
12 22 0.59
13 7 0.19
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:64045 original size:52 final size:54
Alignment explanation
Indices: 63881--64093 Score: 259
Period size: 54 Copynumber: 4.0 Consensus size: 54
63871 AACATGGTGT
* * * * *
63881 TTCAAAAGAATTTTTAAAAGAAGTTAAGCCTAATTTTTAAGGGTTTATTGATGTC
1 TTCAAATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
* * *
63936 TTCAAATGAATTTTGAAATAAGCTAAGCCTAATTTTTAGGGGTTTTTTGATGAC
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
* * * * *
63990 TTCAATTGGATTTTGAAAGAAGCTAAG-AT-TTTTTTAGGGGTTTCCTGATGTC
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
* * *
64042 TTCAAAAGAATTTTTAAAGAAGATAAGCCTAATTTTTAGGGGTTTCTTGATG
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
64094 ATAACTATAA
Statistics
Matches: 133, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
52 41 0.31
53 2 0.02
54 81 0.61
55 9 0.07
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
Found at i:65710 original size:118 final size:117
Alignment explanation
Indices: 65495--65747 Score: 380
Period size: 118 Copynumber: 2.2 Consensus size: 117
65485 ACTTTGTTTG
* ** *
65495 ATTCCATCATAAAAGGAGGTGGATCAACATTTTCAATGGGTGAGTTCATAATGAGAAGAACTCGC
1 ATTCCATCATAAAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCAC
*
65560 CCGATGAGGGAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTAGCTCA
66 CCGATGAGGGAAAAGAAGTTCACAATGAGAAGAACTTGTT-AACCTTAGCTCA
* * *
65613 ATTCCATCATAGAATGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCAT
1 ATTCCATCATAAAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCAC
* * *
65678 CCGATGAGGGAAAAGAAGTTCATAATGCGAAGAACTTGTTAACCTTAGCTCG
66 CCGATGAGGGAAAAGAAGTTCACAATGAGAAGAACTTGTTAACCTTAGCTCA
* *
65730 ATTCCATTATATAAGGAG
1 ATTCCATCATAAAAGGAG
65748 TTGTAACAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
117 26 0.21
118 95 0.79
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (117 bp):
ATTCCATCATAAAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCAC
CCGATGAGGGAAAAGAAGTTCACAATGAGAAGAACTTGTTAACCTTAGCTCA
Found at i:65871 original size:320 final size:319
Alignment explanation
Indices: 65199--66068 Score: 1183
Period size: 320 Copynumber: 2.7 Consensus size: 319
65189 GATAAACCAG
* *
65199 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGATAAGAAGTTCATA
1 TCAACATTTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * * * *
65264 ATGAGAAGAACTTGTTTAACCTTGGTTTGATTCCATCATAGAAAGATGTGGATCAACATTTTCAC
66 ATGAGAAGAACTTGTTCAACCTTAGTTCGATTCCATCATAGAAAGAGGTGGATCAACATTTCCAA
* * *
65329 GGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAGTTCATAATGAGATGAACTTG
131 TGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAAAAGAGTTCATAATGAGAAGAACTTG
*
65394 TTCAACCTTAGCTCGATTCCATCACATAAGGAGTTGGAACATCACCAATACTTGGCTCATCCATC
196 TTCAACCTTAGCTCGATTCCATCACATAAGGAGTTGGAACAACACCAATACTTGGCTCATCCATC
* ** * *
65459 GCATATGGAGTTGGATCAACATCATCACTTTGTTTGATTCCATCATAAAAGGAGGTGGA
261 GCATATAGAGTTGGATCAACATCATCACTTTGTTCAATTCCATCAAAAAAGGAGGTAGA
* * **
65518 TCAACATTTTCAATG-GGTGAGTTCATAATGAGAAGAACTCGCCCGATGAGGGAGAAGAAGTTCA
1 TCAACA-TTTC-CTGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * * *
65582 CAATGAGAAGAACTTGTTCAACCTTAGCTCAATTCCATCATAGAATGAGGTGGATCAACATTTCC
64 TAATGAGAAGAACTTGTTCAACCTTAGTTCGATTCCATCATAGAAAGAGGTGGATCAACATTTCC
* *
65647 AATGGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAAAAGAAGTTCATAATGCGAAGAA
129 AATGG-AGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAAAAG-AGTTCATAATGAGAAGAA
* * * *
65712 CTTGTT-AACCTTAGCTCGATTCCATTATATAAGGAGTTGTAACAACACTAATACTTGGCTCATC
192 CTTGTTCAACCTTAGCTCGATTCCATCACATAAGGAGTTGGAACAACACCAATACTTGGCTCATC
*
65776 CATTGCATATAGAGTTGGATCAACATCATCACTTTGTTCAATTCCATCAAAAAAGGAGGTAGA
257 CATCGCATATAGAGTTGGATCAACATCATCACTTTGTTCAATTCCATCAAAAAAGGAGGTAGA
* * ** *
65839 TCAACATTTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCTGACGAGAAAGAAGAAGTTTATA
1 TCAACATTTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
65904 ATGAGAATAACTTGTTCAAAC-TAGGTTCGATTCCATCACAGAAGGAGGATGG-TCAACATTTCC
66 ATGAGAAGAACTTGTTCAACCTTA-GTTCGATTCCATCATAGAAAGAGG-TGGATCAACATTTCC
* * * * * *
65967 AGTGGAGAGTTCATAATGAGAAGAAATCA-CCGATAAGGGAGAAATAGTTCAAAACGAGAATAAC
129 AATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGA-AAAGAGTTCATAATGAGAAGAAC
* * * *
66031 TTGTTCAACCTTAGCTCAATTCAATCACAGAATGAGTT
193 TTGTTCAACCTTAGCTCGATTCCATCACATAAGGAGTT
66069 TAATCAGCAT
Statistics
Matches: 480, Mismatches: 62, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
318 30 0.06
319 62 0.13
320 208 0.43
321 158 0.33
322 22 0.05
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (319 bp):
TCAACATTTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGTTCGATTCCATCATAGAAAGAGGTGGATCAACATTTCCAA
TGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAAAAGAGTTCATAATGAGAAGAACTTG
TTCAACCTTAGCTCGATTCCATCACATAAGGAGTTGGAACAACACCAATACTTGGCTCATCCATC
GCATATAGAGTTGGATCAACATCATCACTTTGTTCAATTCCATCAAAAAAGGAGGTAGA
Found at i:67346 original size:27 final size:26
Alignment explanation
Indices: 67306--67370 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
67296 ATTTTCTCTC
* *
67306 TAGAAAACAAAAAAGAAAAAAGAAAA
1 TAGAAAATAGAAAAGAAAAAAGAAAA
**
67332 -AGAAGAATGAGAAAAGAATGAAGAAAA
1 TAGAA-AAT-AGAAAAGAAAAAAGAAAA
67359 TAGAAAATAGAA
1 TAGAAAATAGAA
67371 GGGTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 4 0.12
26 6 0.19
27 18 0.56
28 4 0.12
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.08
Consensus pattern (26 bp):
TAGAAAATAGAAAAGAAAAAAGAAAA
Found at i:69912 original size:3 final size:3
Alignment explanation
Indices: 69906--69934 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
69896 TCATATTGTC
69906 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
69935 AATCATCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:70733 original size:15 final size:15
Alignment explanation
Indices: 70713--70741 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70703 GATACTCTTA
70713 CAGAATACAAAATTT
1 CAGAATACAAAATTT
70728 CAGAATACAAAATT
1 CAGAATACAAAATT
70742 AATACCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (15 bp):
CAGAATACAAAATTT
Found at i:74240 original size:11 final size:11
Alignment explanation
Indices: 74221--74268 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
74211 GTTCATCGAT
* *
74221 GTACTGCTATA
1 GTACCGCTACA
74232 GTACCGCTACA
1 GTACCGCTACA
*
74243 GTACTGCTACA
1 GTACCGCTACA
*
74254 GTACCGCTATA
1 GTACCGCTACA
74265 GTAC
1 GTAC
74269 TGTTACAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (11 bp):
GTACCGCTACA
Found at i:74246 original size:22 final size:22
Alignment explanation
Indices: 74221--74277 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
74211 GTTCATCGAT
*
74221 GTACTGCTATAGTACCGCTACA
1 GTACTGCTACAGTACCGCTACA
*
74243 GTACTGCTACAGTACCGCTATA
1 GTACTGCTACAGTACCGCTACA
*
74265 GTACTGTTACAGT
1 GTACTGCTACAGT
74278 TACTTCCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (22 bp):
GTACTGCTACAGTACCGCTACA
Found at i:74781 original size:89 final size:88
Alignment explanation
Indices: 74685--74855 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 88
74675 ATACATTTAA
* *
74685 TCCATAAGCTCGTAATCATATTTTACCAATATACTTACCATTAA-ATCACTAAGCTTGTAAACTT
1 TCCATAAGCTCGTAAGCATATTTTACCAATATACTTACCA-TAATATCA-TAAGCTCGTAAACTT
74749 ATTTTACCAATATACTTACCATTAT
64 ATTTTACCAATATACTTACCATTAT
* * * * *
74774 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTCATAGGCTCGTAAGCTTAT
1 TCCATAAGCTCGTAAGCATATTTTACCAATATACTTACCATAATATCATAAGCTCGTAAACTTAT
* *
74839 TTTATCAATCTACTTAC
66 TTTACCAATATACTTAC
74856 TATAATTTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
88 32 0.44
89 40 0.56
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (88 bp):
TCCATAAGCTCGTAAGCATATTTTACCAATATACTTACCATAATATCATAAGCTCGTAAACTTAT
TTTACCAATATACTTACCATTAT
Found at i:74856 original size:44 final size:44
Alignment explanation
Indices: 74687--74863 Score: 221
Period size: 44 Copynumber: 4.0 Consensus size: 44
74677 ACATTTAATC
* * *
74687 CATAAGCTCGTAATCATATTTTACCAATATACTTACCATTAA-AT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TAATTT
* * * *
74731 CACTAAGCTTGTAAACTTATTTTACCAATATACTTACCATTATTC
1 CA-TAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTT
*
74776 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTT
* * * *
74820 CATAGGCTCGTAAGCTTATTTTATCAATCTACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTT
74864 ACATCACTGA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 82 0.70
45 35 0.30
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATAATTT
Found at i:75168 original size:117 final size:117
Alignment explanation
Indices: 75057--75539 Score: 575
Period size: 117 Copynumber: 4.1 Consensus size: 117
75047 CATACCATTA
* *
75057 TATGATTCCTTTACCATTTTTAGCACA-TAAAGTGC-CCTATATGAAAATCCATACTA-TTAGTA
1 TATGATTCCTTTACC-TTTTTAGCACACT-AAGTGCTCC-ATATGGAAATCCATAC-ACTCAGTA
* * * * *** *
75119 TGATTTCCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCATACACTCAG
62 TGATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCATACACTCAG
* * * * * * * * *
75175 TATGACTCCCTTACCATTTTAGCACA-TATAATGC-CCTATCTGGAAATTCATATATTCAATATG
1 TATGATTCCTTTACCTTTTTAGCACACTA-AGTGCTCC-ATATGGAAATCCATACACTCAGTATG
* *
75238 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAG
64 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAAT-CATACACTCAG
* *
75293 TATGATTTCC-TTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGA
1 TATGA-TTCCTTTACCTTTTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAGTATGA
75357 -TTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAG
65 TTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAA-TCATACACTCAG
* * * *
75410 TATGATTTCTTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATGAT
1 TATGATTCCTTTACCTTTTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAGTATGAT
75475 TTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAG
66 TTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAA-TCATACACTCAG
75528 TATGATTTCCTT
1 TATGA-TTCCTT
75540 ATCATTTTAG
Statistics
Matches: 321, Mismatches: 34, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
116 5 0.02
117 178 0.55
118 127 0.40
119 11 0.03
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (117 bp):
TATGATTCCTTTACCTTTTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAGTATGAT
TTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCATACACTCAG
Found at i:75256 original size:176 final size:174
Alignment explanation
Indices: 74945--75562 Score: 653
Period size: 176 Copynumber: 3.5 Consensus size: 174
74935 AATTCATATA
** * * * * * * *
74945 ATTTCCTTATAATATTAGCACTCTCAGTGCTCTATCTGGAATATCATATACTTAATATGATTTCC
1 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAA-ATCATACACTCAGTATGA-TTCC
** * * *
75010 TCCT-ATTTTAGCACACGA-AGTGCCC-TATGCGAGAATCCATAC-CAT-TATATGA-TTCCTTT
64 TTATCATTTTAGCACA-TATAGTGCCCATATG-GA-AATTCATACAC-TCAATATGATTTCC-TT
* * *
75069 ACCATTTTTAGCACA-TAAAGTGC-CCTATATGAAAATCCATACTA-TTAGTATG
124 ATCA-TTTTAGCACACT-CAGTGCTCC-ATATGGAAATCCATAC-ACTTAGTATG
* * * * *** * *
75121 ATTTCCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCATACACTCAGTATGACTCCCT
1 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCATACACTCAGTATGA-TTCCT
* * * * *
75186 TACCATTTTAGCACATATAATGCCCTATCTGGAAATTCATATATTCAATATGATTTCCTTATCAT
65 TATCATTTTAGCACATATAGTGCCC-ATATGGAAATTCATACACTCAATATGATTTCCTTATCAT
75251 TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAGTATG
129 TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAGTATG
75297 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCT
1 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAAT-CATACACTCAGTATGATTCCT
* * * * *
75362 TATCTTTTTAGCACACT-CAGTGCTCCATATGGAAATTCATACACTCAGTATGATTTCTTTATCT
65 TATCATTTTAGCACA-TATAGTGC-CCATATGGAAATTCATACACTCAATATGATTTCCTTATCA
* *
75426 TTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
128 TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAGTATG
75473 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATGATTTCC
1 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAA-TCATACACTCAGTATGA-TTCC
*
75538 TTATCATTTTAGCGCATATAGTGCC
64 TTATCATTTTAGCACATATAGTGCC
75563 ATTTGGTAAT
Statistics
Matches: 376, Mismatches: 50, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
175 21 0.06
176 289 0.77
177 59 0.16
178 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (174 bp):
ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCATACACTCAGTATGATTCCTT
ATCATTTTAGCACATATAGTGCCCATATGGAAATTCATACACTCAATATGATTTCCTTATCATTT
TAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAGTATG
Found at i:75561 original size:59 final size:59
Alignment explanation
Indices: 74945--75550 Score: 619
Period size: 59 Copynumber: 10.3 Consensus size: 59
74935 AATTCATATA
* * * * * * * *
74945 ATTTCCTTATAATATTAGCACTCTCAGTGCTCTATCTGG-AATATCATATACTTAATATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAAT-TCATACACTCAGTATG
** ** * *
75004 ATTTCCTCCT-ATTTTAGCACACGAAGTGC-CC-TATGCGAGAATCCATAC-CATTA-TATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATG-GA-AATTCATACAC-TCAGTATG
* * * * *
75061 A-TTCCTTTACCATTTTTAGCACA-TAAAGTGC-CCTATATGAAAATCCATACTA-TTAGTATG
1 ATTTCC-TTATCA-TTTTAGCACACT-CAGTGCTCC-ATATGGAAATTCATAC-ACTCAGTATG
* * * * *** *
75121 ATTTCCTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAA-TCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
* * * * * * * * *
75179 ACTCCCTTACCATTTTAGCACA-TATAATGC-CCTATCTGGAAATTCATATATTCAATATG
1 ATTTCCTTATCATTTTAGCACACT-CAGTGCTCC-ATATGGAAATTCATACACTCAGTATG
* *
75238 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTTAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
* *
75297 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
*
75356 A-TTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
* *
75414 ATTTCTTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
*
75473 ATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
75532 ATTTCCTTATCATTTTAGC
1 ATTTCCTTATCATTTTAGC
75551 GCATATAGTG
Statistics
Matches: 467, Mismatches: 57, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
56 7 0.01
57 11 0.02
58 121 0.26
59 306 0.66
60 14 0.03
61 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
ATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATG
Found at i:76401 original size:18 final size:18
Alignment explanation
Indices: 76378--76419 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
76368 ACCTTCCTTT
76378 AGCTTCCATAATATACAA
1 AGCTTCCATAATATACAA
76396 AGCTTCCATAATATACAA
1 AGCTTCCATAATATACAA
76414 AGCTTC
1 AGCTTC
76420 AATCCCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (18 bp):
AGCTTCCATAATATACAA
Found at i:89374 original size:15 final size:15
Alignment explanation
Indices: 89354--89391 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
89344 ACAATATGTA
89354 GTGTCACCCTATCAT
1 GTGTCACCCTATCAT
89369 GTGTCACCCTATCAT
1 GTGTCACCCTATCAT
89384 GTGTCACC
1 GTGTCACC
89392 TCTACAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.34, G:0.16, T:0.32
Consensus pattern (15 bp):
GTGTCACCCTATCAT
Found at i:108910 original size:6 final size:6
Alignment explanation
Indices: 108899--108945 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
108889 TATTTTTCCT
108899 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
108946 TAAGGAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:110396 original size:41 final size:41
Alignment explanation
Indices: 110284--110387 Score: 183
Period size: 41 Copynumber: 2.6 Consensus size: 41
110274 TTCAGATTTG
*
110284 ATCTT-CCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCA
1 ATCTTCCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCA
*
110324 ATCTTCCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTGA
1 ATCTTCCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCA
110365 ATCTTCCCTGAAGAGCAGCGAAG
1 ATCTTCCCTGAAGAGCAGCGAAG
110388 TGGATCAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 5 0.08
41 56 0.92
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCTTCCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCA
Found at i:110402 original size:134 final size:131
Alignment explanation
Indices: 110139--110383 Score: 311
Period size: 135 Copynumber: 1.9 Consensus size: 131
110129 AATCTAATCC
*
110139 TTCAGATTTGGTCTTCCTGAAGAAGCAGCGAAGCAAATCAAGTTCAATTCAATCTTCCTGAAGAG
1 TTCAGATTTGATCTTCCTGAAGAAGCAGCGAAGCAAATCAAGTTCAATTCAATCTTCCTGAAGAG
*** ** * *
110204 CAGCGAAGTGGATCAAAATTCTTTTCAAGTATAATCTCCCTTAAAGAGTAGCAGAGCATATTCTT
66 CAGCGAAGCAAATCAAAATTCGATT--AG--TAATCTCCCTTAAAGAGCAGCAGAGCAAATTCTT
110269 CTTCT
127 CTTCT
*
110274 TTCAGATTTGATCTTCCTGAAG-AGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGA
1 TTCAGATTTGATCTTCCTGAAGAAGCAGCGAAGCAAATCAAGTTCAATTCAATCTT-CCTGAAGA
*
110338 GCAGCGAAGCAAATC-AAATTCGATT-G-AATCTTCCC-TGAAGAGCAGC
65 GCAGCGAAGCAAATCAAAATTCGATTAGTAATC-TCCCTTAAAGAGCAGC
110384 GAAGTGGATC
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
128 13 0.13
129 4 0.04
131 1 0.01
134 40 0.40
135 41 0.41
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (131 bp):
TTCAGATTTGATCTTCCTGAAGAAGCAGCGAAGCAAATCAAGTTCAATTCAATCTTCCTGAAGAG
CAGCGAAGCAAATCAAAATTCGATTAGTAATCTCCCTTAAAGAGCAGCAGAGCAAATTCTTCTTC
T
Found at i:111881 original size:4 final size:4
Alignment explanation
Indices: 111872--111917 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
111862 AAAATAAGTA
*
111872 AAAT AAAT AAA- AGGAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
111918 TTAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 1 0.03
4 31 0.84
5 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:112236 original size:19 final size:19
Alignment explanation
Indices: 112205--112242 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
112195 ATATATATAT
*
112205 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
112224 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
112243 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:112803 original size:37 final size:37
Alignment explanation
Indices: 112762--112866 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
112752 GTGCTTGTGG
* *
112762 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * * *
112799 ATCCTATTTTTAGGAGTTTTAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
112836 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
112867 GACGAAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:113913 original size:106 final size:106
Alignment explanation
Indices: 113599--115290 Score: 2502
Period size: 106 Copynumber: 16.0 Consensus size: 106
113589 TGTTCTGAGA
* * ** *
113599 CCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACAGGGAAATTGTTTGTTGACAACCA
1 CCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* * * * *
113663 GCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAGT
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
113705 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAATCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
** * *
113764 CCATCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGT
* * *
113805 CCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
113870 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * * *
113911 CCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* * * * *
113976 CGATCCCTTCGTCGTGAAGTTAAAATTGTGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114017 CCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTTGTTGACAACCA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TTGTTTGTTGACAACCA
*
114082 GCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114124 CCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTTTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114189 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114230 CCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114295 CAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
114336 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114401 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114442 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAAACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
114507 CGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
114548 CCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114613 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114654 CCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
114719 CAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
114760 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114825 CGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114866 CCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
114931 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
114972 CCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
115037 CGGTCCCTTTGTTGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
115078 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAACTTTGGGAAATTGTTTATTGACAACC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA--TTGGGAAGTTGTTTGTTGACAACC
* *
115142 AGCGGTCCCTTCATCGTGAAGTTGAATTTGCGTTGTCTGGAGT
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * * * *
115185 CCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAACCAA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* * * *
115250 CGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
115291 GGCACGATAT
Statistics
Matches: 1447, Mismatches: 126, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
100 80 0.06
101 5 0.00
102 4 0.00
104 3 0.00
105 8 0.01
106 1155 0.80
107 189 0.13
108 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:115688 original size:30 final size:32
Alignment explanation
Indices: 115652--115713 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
115642 TTTGCATTAG
115652 GATGTTGAATC-CAAAAATGCCCC-AATATTT
1 GATGTTGAATCTCAAAAATGCCCCAAATATTT
*
115682 GATGTTGAATCTTCAAAGATGCCCCAAATATT
1 GATGTTGAATC-TCAAAAATGCCCCAAATATT
115714 CCTCATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.39
32 11 0.39
33 6 0.21
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAATGCCCCAAATATTT
Found at i:115893 original size:24 final size:24
Alignment explanation
Indices: 115865--115922 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
115855 AATATCAATA
115865 AAGAGTTTTGAAAGATGTTTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
*
115889 AAGAGTTTTGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
115913 AAAAGTTTTG
1 AAGAGTTTTG
115923 GAAATATCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.40
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:116137 original size:22 final size:22
Alignment explanation
Indices: 116112--116188 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
116102 TTATGTTTGG
*
116112 TCAAAGTTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
116134 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
116156 TCATAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
*
116178 TCAATGGTTTG
1 TCAAAGGTTTG
116189 ATGGGGTAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.42
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:116816 original size:21 final size:20
Alignment explanation
Indices: 116782--116843 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
116772 TTGCATGTGC
*
116782 TTTTTTGTCCCTTTTTCTTTT
1 TTTTTTGT-TCTTTTTCTTTT
116803 TATTTTTGTTC--TTTCTTTT
1 T-TTTTTGTTCTTTTTCTTTT
*
116822 TTCTTTTGTT-TTCTTCTTTT
1 TT-TTTTGTTCTTTTTCTTTT
116842 TT
1 TT
116844 GCTTCTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 16 0.46
20 9 0.26
21 2 0.06
22 7 0.20
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTGTTCTTTTTCTTTT
Found at i:116819 original size:19 final size:19
Alignment explanation
Indices: 116795--116856 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
116785 TTTGTCCCTT
116795 TTTCTTTTTAT-TTTTGTTC
1 TTTCTTTTT-TCTTTTGTTC
*
116814 TTTCTTTTTTCTTTTGTTT
1 TTTCTTTTTTCTTTTGTTC
116833 TCTTCTTTTTTGCTTCTT-TTC
1 T-TTCTTTTTT-CTT-TTGTTC
116854 TTT
1 TTT
116857 TTTGTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 1 0.03
19 17 0.46
20 11 0.30
21 6 0.16
22 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTTCTTTTGTTC
Found at i:116821 original size:24 final size:23
Alignment explanation
Indices: 116794--116871 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
116784 TTTTGTCCCT
116794 TTTTCTTTTTATTTTTGTTCTTTC
1 TTTTCTTTTT-TTTTTGTTCTTTC
* *
116818 TTTT-TTCTTTTGTTTTCTTCTTTT
1 TTTTCTT-TTTT-TTTTGTTCTTTC
*
116842 TTGCTTCTTTTCTTTTTTGTTTTTTC
1 TT--TTCTTTT-TTTTTTGTTCTTTC
116868 TTTT
1 TTTT
116872 TGTTCTGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 3 0.07
24 21 0.49
26 15 0.35
27 4 0.09
ACGTcount: A:0.01, C:0.13, G:0.05, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTTTTTTTGTTCTTTC
Found at i:116842 original size:14 final size:14
Alignment explanation
Indices: 116825--116872 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 14
116815 TTCTTTTTTC
116825 TTTTGTTTTCTTCTT
1 TTTTGTTTT-TTCTT
116840 TTTTGCTTCTTTTCTT
1 TTTTG-TT-TTTTCTT
116856 TTTTGTTTTTTCTT
1 TTTTGTTTTTTCTT
116870 TTT
1 TTT
116873 GTTCTGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.32
15 7 0.23
16 12 0.39
17 2 0.06
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTGTTTTTTCTT
Found at i:116860 original size:31 final size:30
Alignment explanation
Indices: 116815--116872 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
116805 TTTTTGTTCT
116815 TTCTTTTTTCTTTTGTTTTCTTCTTTTTTGC
1 TTCTTTTTTCTTTTGTTTT-TTCTTTTTTGC
116846 TTCTTTTCTT-TTTTGTTTTTTCTTTTT
1 TTCTTTT-TTCTTTTGTTTTTTCTTTTT
116873 GTTCTGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.31
31 16 0.62
32 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (30 bp):
TTCTTTTTTCTTTTGTTTTTTCTTTTTTGC
Found at i:116868 original size:19 final size:20
Alignment explanation
Indices: 116794--116871 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 20
116784 TTTTGTCCCT
116794 TTTTCTTTTTAT-TTTTGTTC
1 TTTTCTTTTT-TGTTTTGTTC
*
116814 -TTTCTTTTTTCTTTTGTT-
1 TTTTCTTTTTTGTTTTGTTC
*
116832 TTCTTCTTTTTTG----CTTC
1 TT-TTCTTTTTTGTTTTGTTC
116849 TTTTCTTTTTTGTTTT-TTC
1 TTTTCTTTTTTGTTTTGTTC
116868 TTTT
1 TTTT
116872 TGTTCTGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
16 12 0.25
17 2 0.04
18 1 0.02
19 24 0.50
20 9 0.19
ACGTcount: A:0.01, C:0.13, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTCTTTTTTGTTTTGTTC
Found at i:116877 original size:9 final size:8
Alignment explanation
Indices: 116793--116877 Score: 52
Period size: 8 Copynumber: 10.9 Consensus size: 8
116783 TTTTTGTCCC
116793 TTTTTCTT
1 TTTTTCTT
*
116801 TTTAT-TT
1 TTTTTCTT
*
116808 TTGTTCTT
1 TTTTTCTT
116816 TCTTTT-TT
1 T-TTTTCTT
* *
116824 CTTTTGTT
1 TTTTTCTT
*
116832 TTCTTCTT
1 TTTTTCTT
*
116840 TTTTGCTT
1 TTTTTCTT
*
116848 CTTTTC-T
1 TTTTTCTT
*
116855 TTTTT-GT
1 TTTTTCTT
116862 TTTTTCTT
1 TTTTTCTT
116870 TTTGTTCT
1 TTT-TTCT
116878 GATTGAATCT
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
7 20 0.35
8 30 0.53
9 7 0.12
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.80
Consensus pattern (8 bp):
TTTTTCTT
Found at i:121589 original size:2 final size:2
Alignment explanation
Indices: 121582--121640 Score: 56
Period size: 2 Copynumber: 31.0 Consensus size: 2
121572 GATAATTACA
*
121582 AT AT AT AT AT AT AGT A- AT A- AT AT -T AT A- AGT A- AA AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
121621 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
121641 TAAAAATAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
1 5 0.10
2 41 0.84
3 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:122195 original size:37 final size:36
Alignment explanation
Indices: 122154--122258 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 36
122144 GTGCTTGTGG
*
122154 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATC-TAGTAGAACTCT
* * * *
122191 ATCCTATTTTTAGGAGTTTGAATTCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTT-AAATCTAGTAGAACTCT
*
122228 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAAT-CTAGTAG
122259 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.04
37 51 0.89
38 4 0.07
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTAAATCTAGTAGAACTCT
Found at i:124463 original size:102 final size:102
Alignment explanation
Indices: 124282--124479 Score: 360
Period size: 102 Copynumber: 1.9 Consensus size: 102
124272 CCTCAGACTC
** *
124282 AGAAAGACCAACCTAAAGGACTCAAAAGTGAAAAACTGAAGGAATTTGCCATAGATCCTCCTTTT
1 AGAAAGACCAACCTAAAGGACTCAAAAGCAAAAAACTGAAAGAATTTGCCATAGATCCTCCTTTT
124347 CCCTCTAGATTCGCTAAGTCCAAGAAAGAAGCATAAG
66 CCCTCTAGATTCGCTAAGTCCAAGAAAGAAGCATAAG
*
124384 AGAATGACCAACCTAAAGGACTCAAAAGCAAAAAACTGAAAGAATTTGCCATAGATCCTCCTTTT
1 AGAAAGACCAACCTAAAGGACTCAAAAGCAAAAAACTGAAAGAATTTGCCATAGATCCTCCTTTT
124449 CCCTCTAGATTCGCTAAGTCCAAGAAAGAAG
66 CCCTCTAGATTCGCTAAGTCCAAGAAAGAAG
124480 AAGAAGATAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (102 bp):
AGAAAGACCAACCTAAAGGACTCAAAAGCAAAAAACTGAAAGAATTTGCCATAGATCCTCCTTTT
CCCTCTAGATTCGCTAAGTCCAAGAAAGAAGCATAAG
Found at i:131519 original size:161 final size:162
Alignment explanation
Indices: 131255--131579 Score: 627
Period size: 161 Copynumber: 2.0 Consensus size: 162
131245 CTTTTATGTG
131255 GACTTGTCGTAATTTTGGAAGCACAAAGAATTAGAACTGATGCTCGATGATATTTCTTCCCCACC
1 GACTTGTCGTAATTTTGGAAGCACAAAGAATTAGAACTGATGCTCGATGATATTTCTTCCCCACC
131320 GTCTCCCGATTCTGTGACTATTTGCTTCAATTCACCACCATAGC-T-TCTCTATTGAATTTTGAT
66 GTCTCCCGATTCTGTGACTATTTGCTTCAATTCACCACCATAGCTTATCTCTATTGAATTTTGAT
131383 CAGCACAAATGCCTTATCTTTTCATTTTCCAA
131 CAGCACAAATGCCTTATCTTTTCATTTTCCAA
131415 GACTTGTCGTAATTTTGGGAAGCACAAAGAATTAGAACTGATGCTCGATGATATTTCTTCCCCAC
1 GACTTGTCGTAATTTT-GGAAGCACAAAGAATTAGAACTGATGCTCGATGATATTTCTTCCCCAC
131480 CGTCTCCCGATTCTGTGACTATTTGCTTCAATTCACCACCATAGCTTATCTCTATTGAATTTTGA
65 CGTCTCCCGATTCTGTGACTATTTGCTTCAATTCACCACCATAGCTTATCTCTATTGAATTTTGA
131545 TCAGCACAAATGCCTTATCTTTTCATTTTCCAA
130 TCAGCACAAATGCCTTATCTTTTCATTTTCCAA
131578 GA
1 GA
131580 GCCACGTATA
Statistics
Matches: 162, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
160 16 0.10
161 93 0.57
162 1 0.01
163 52 0.32
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (162 bp):
GACTTGTCGTAATTTTGGAAGCACAAAGAATTAGAACTGATGCTCGATGATATTTCTTCCCCACC
GTCTCCCGATTCTGTGACTATTTGCTTCAATTCACCACCATAGCTTATCTCTATTGAATTTTGAT
CAGCACAAATGCCTTATCTTTTCATTTTCCAA
Found at i:136851 original size:73 final size:71
Alignment explanation
Indices: 136766--136909 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 71
136756 TTCAATTTAT
136766 TTTGGTTAATATCAATGAATTTTAAATA-TTCGAAAGTCAATACACCAATATTATTAGCATGTAC
1 TTTGGTTAATATCAATGAATTTT-AATACTTCGAAAGTCAATACACC-A-ATTATTAGCATGTAC
136830 CAGCAATAG
63 CAGCAATAG
136839 TTTGGTTAATATCAATGAATTTTAATACTTCGAAAGTCAATACACCAATTATTAGCATGTACCAG
1 TTTGGTTAATATCAATGAATTTTAATACTTCGAAAGTCAATACACCAATTATTAGCATGTACCAG
136904 CAATAG
66 CAATAG
136910 AATAGAAAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
71 24 0.34
72 5 0.07
73 41 0.59
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (71 bp):
TTTGGTTAATATCAATGAATTTTAATACTTCGAAAGTCAATACACCAATTATTAGCATGTACCAG
CAATAG
Found at i:142649 original size:21 final size:20
Alignment explanation
Indices: 142597--142664 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 20
142587 TTTAGTAAAA
* *
142597 TATTATTTAAAGTGTTATTT
1 TATTATTTAAAATATTATTT
* *
142617 T-TTACTGAAAATATTAATTT
1 TATTATTTAAAATATT-ATTT
*
142637 TATTATTTAAAATAAATATTT
1 TATTATTTAAAAT-ATTATTT
*
142658 TAATATT
1 TATTATT
142665 AATATTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
19 10 0.27
20 6 0.16
21 19 0.51
22 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTATTTAAAATATTATTT
Found at i:145500 original size:34 final size:35
Alignment explanation
Indices: 145444--145517 Score: 123
Period size: 34 Copynumber: 2.1 Consensus size: 35
145434 AAAATACTTT
*
145444 AATTTAGGGCTTAGAATGTAATTGAAGTATTTTGG
1 AATTTAGGGCTTAAAATGTAATTGAAGTATTTTGG
*
145479 AATTTAGGG-TTAAAATGTAATTGATGTATTTTGG
1 AATTTAGGGCTTAAAATGTAATTGAAGTATTTTGG
145513 AATTT
1 AATTT
145518 TGAACATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 28 0.76
35 9 0.24
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.43
Consensus pattern (35 bp):
AATTTAGGGCTTAAAATGTAATTGAAGTATTTTGG
Found at i:148598 original size:17 final size:16
Alignment explanation
Indices: 148576--148611 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
148566 CGATTTTATT
148576 TTTTTTAGAAAAAATCA
1 TTTTTT-GAAAAAATCA
*
148593 TTTTTTTAAAAAATCA
1 TTTTTTGAAAAAATCA
148609 TTT
1 TTT
148612 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTTTTGAAAAAATCA
Found at i:148630 original size:30 final size:30
Alignment explanation
Indices: 148579--148635 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
148569 TTTTATTTTT
* *
148579 TTTAGAAAAAATCATTTTTTTAAAAAATCA
1 TTTAGAAAAAATCACTCTTTTAAAAAATCA
*
148609 TTTA-AAAAAATCAACTCTTTTAGAAAA
1 TTTAGAAAAAATC-ACTCTTTTAAAAAA
148636 GTTTTAGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (30 bp):
TTTAGAAAAAATCACTCTTTTAAAAAATCA
Found at i:158379 original size:3 final size:3
Alignment explanation
Indices: 158371--158397 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
158361 GAATTGAGTT
158371 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
158398 AATAACCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:160645 original size:4 final size:4
Alignment explanation
Indices: 160636--160666 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
160626 GTTATCAGCT
160636 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
160667 TGTATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:163728 original size:20 final size:20
Alignment explanation
Indices: 163705--163756 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
163695 AACGCGATCC
163705 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
163725 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
163745 CCAAAATCGCAA
1 CCAGAATCGCAA
163757 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:163773 original size:21 final size:20
Alignment explanation
Indices: 163746--163844 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
163736 AATCAGTTTC
163746 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
163767 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
163788 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
163808 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
163829 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
163845 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:163893 original size:20 final size:20
Alignment explanation
Indices: 163811--164005 Score: 214
Period size: 20 Copynumber: 9.7 Consensus size: 20
163801 CGATTTTCCA
* ** *
163811 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
163831 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
163851 AAATCGCAACGCGTATCCCGT
1 AAATCGCAACGCGTAT-CCGT
*
163872 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
163892 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
163912 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
163932 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
163952 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
163972 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
163993 AAATCGCAACGCG
1 AAATCGCAACGCG
164006 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
19 2 0.01
20 109 0.75
21 33 0.23
22 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:163896 original size:61 final size:60
Alignment explanation
Indices: 163811--164005 Score: 246
Period size: 61 Copynumber: 3.2 Consensus size: 60
163801 CGATTTTCCA
* ** * *
163811 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTAT-CCGT
* * *** *
163872 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
163932 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
163993 AAATCGCAACGCG
1 AAATCGCAACGCG
164006 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
60 36 0.32
61 76 0.68
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:163916 original size:81 final size:80
Alignment explanation
Indices: 163810--164006 Score: 227
Period size: 81 Copynumber: 2.4 Consensus size: 80
163800 GCGATTTTCC
* * *
163810 AAAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCCGTAAA
1 AAAATCGCAACGCGTATACGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTAT-CCGTAAA
* * *
163875 TCGCAACG-TGTATCCGT
64 TCGCAACGAT-AATACAT
** * * * *
163892 -AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAAT
1 AAAATCGCAACGCGTATACGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTAAAT
163956 CGCAACGATAATACAT
65 CGCAACGATAATACAT
*
163972 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AAAATCGCAACGCGTATACGTAAATCGCAACGCGA
164007 TATTTAAAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
80 20 0.20
81 76 0.78
82 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (80 bp):
AAAATCGCAACGCGTATACGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTAAATC
GCAACGATAATACAT
Found at i:164423 original size:32 final size:32
Alignment explanation
Indices: 164385--164453 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
164375 ATTTCACTTA
*
164385 GATTTCATTTCGCGTTACGATTCTGTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
* *
164417 GATTTCATTTCGCGTTGCTATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
164449 GATTT
1 GATTT
164454 TCAAGTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTGC
Found at i:164434 original size:18 final size:18
Alignment explanation
Indices: 164385--164434 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
164375 ATTTCACTTA
*
164385 GATTTCATTTCGCGTTAC
1 GATTTCATTTCGCGTTGC
*
164403 GA-TTC-TGT--CGTTGC
1 GATTTCATTTCGCGTTGC
164417 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
164435 TATTCTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 3 0.12
16 4 0.16
17 3 0.12
18 8 0.32
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:164596 original size:14 final size:14
Alignment explanation
Indices: 164577--164631 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
164567 AGAATGACTG
164577 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
164591 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
164610 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
164624 TCGCAACG
1 TCGCAACG
164632 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:164644 original size:33 final size:33
Alignment explanation
Indices: 164577--164647 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
164567 AGAATGACTG
***
164577 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
164610 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
164643 TCGCA
1 TCGCA
164648 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:164665 original size:19 final size:19
Alignment explanation
Indices: 164643--164740 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
164633 GAAACCAAAA
*
164643 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
164662 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
164676 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
164695 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
164709 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
164728 TCGCGTTGCGATT
1 TCGCGTTGCGATT
164741 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:164684 original size:14 final size:14
Alignment explanation
Indices: 164665--164754 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
164655 TTTCATTTCG
164665 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
164679 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
164698 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
164712 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
164729 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
164745 CGTTGCGATT
1 CGTTGCGATT
164755 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:164690 original size:33 final size:33
Alignment explanation
Indices: 164648--164762 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
164638 CAAAATCGCA
164648 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
164681 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
164714 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
164747 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
164763 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:166774 original size:93 final size:93
Alignment explanation
Indices: 166461--166839 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
166451 TAGATTGCTT
*
166461 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
166526 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
166553 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
166617 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
166645 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
166710 TTTGTCTTTGTTTTGTATTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
166738 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
166803 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
166831 AGTAAATTT
1 AGTAAATTT
166840 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 2 0.01
92 150 0.53
93 130 0.46
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:166777 original size:185 final size:185
Alignment explanation
Indices: 166461--166841 Score: 728
Period size: 185 Copynumber: 2.1 Consensus size: 185
166451 TAGATTGCTT
166461 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
166526 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTATTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
166591 TGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
166645 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
166710 TTTGTCTTTGTTTTGTATTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 -TTGTCTTTGTTTTGTATTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
166775 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
166831 AGTAAATTTAT
1 AGTAAATTTAT
166842 CCATTCAAGT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 64 0.33
185 88 0.46
186 40 0.21
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTGTCTTTGTTTTGTATTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:166923 original size:19 final size:19
Alignment explanation
Indices: 166883--167011 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
166873 TAGTTTACTT
* *
166883 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
166903 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
166922 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
166941 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
166955 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
166974 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
166988 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
167007 TCGCA
1 TCGCA
167012 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:166962 original size:33 final size:32
Alignment explanation
Indices: 166919--167011 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
166909 CGCGAAACCA
**
166919 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
166951 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
166984 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
167012 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:167009 original size:52 final size:52
Alignment explanation
Indices: 166883--167011 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
166873 TAGTTTACTT
**
166883 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
166935 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
166988 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
167012 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:167029 original size:19 final size:18
Alignment explanation
Indices: 167007--167125 Score: 110
Period size: 19 Copynumber: 6.8 Consensus size: 18
166997 GAAACCAAAA
*
167007 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
167026 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
167042 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
167059 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
167075 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
167092 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
167111 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
167126 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 16 0.19
16 10 0.12
17 10 0.12
19 47 0.57
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:167048 original size:14 final size:14
Alignment explanation
Indices: 167029--167085 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
167019 TTTCATTTCG
167029 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
167043 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
167060 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
167076 CGTTGCGATT
1 CGTTGCGATT
167086 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:167054 original size:33 final size:33
Alignment explanation
Indices: 167012--167104 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
167002 CAAAATCGCA
*
167012 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
167045 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
167078 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
167105 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:167133 original size:20 final size:19
Alignment explanation
Indices: 167007--167141 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
166997 GAAACCAAAA
*
167007 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
167026 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
167042 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
167059 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
167075 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
167092 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
167111 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
167131 TCGTGTTGCGA
1 TCGCGTTGCGA
167142 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
14 19 0.20
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:169001 original size:38 final size:38
Alignment explanation
Indices: 168958--169030 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
168948 TAATTGATTG
*
168958 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
168996 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
169031 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:169017 original size:19 final size:19
Alignment explanation
Indices: 168954--169017 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
168944 AGTTTAATTG
168954 ATTG-TTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
168972 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
168990 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
169010 ATTGATTT
1 ATTGATTT
169018 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 12, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
18 9 0.29
19 17 0.55
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:169031 original size:14 final size:14
Alignment explanation
Indices: 169012--169047 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
169002 ATTGTTTAAT
169012 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
169026 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
169040 TGATTTGT
1 TGATTTGT
169048 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:169170 original size:19 final size:19
Alignment explanation
Indices: 169154--169255 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
169144 AAAAATGACT
169154 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
169173 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
169192 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
169206 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
169225 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
169245 ATCGCAATGCG
1 ATCGCAATGCG
169256 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:169308 original size:19 final size:19
Alignment explanation
Indices: 169284--169679 Score: 503
Period size: 19 Copynumber: 22.4 Consensus size: 19
169274 GATTATCTCG
169284 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169303 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169322 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
169336 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169355 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169374 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169393 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
169407 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169426 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
169445 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
169464 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
169483 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
169502 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
169516 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169535 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
169554 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
169568 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169586 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
169605 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
169619 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
169639 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
169653 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
169672 TTGCGATT
1 TTGCGATT
169680 GTATTTTCCG
Statistics
Matches: 334, Mismatches: 12, Indels: 62
0.82 0.03 0.15
Matches are distributed among these distances:
14 41 0.12
15 3 0.01
16 40 0.12
17 32 0.10
18 9 0.03
19 197 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:169324 original size:52 final size:49
Alignment explanation
Indices: 169262--169679 Score: 352
Period size: 52 Copynumber: 7.9 Consensus size: 49
169252 TGCGTTTATA
*
169262 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-T-TCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
*
169314 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-T-TTTCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
* * * **
169366 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
** *
169418 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGA---T--TTTCG--TTGCGA-TTTCATTTCGCGTTGCGATTTTC
* * * *
169475 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
* * * *
169527 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
* * * *
169578 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
*
169630 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTTTC--GTTGCGA-TTTCATTTCGCGTTGCGATT
169680 GTATTTTCCG
Statistics
Matches: 319, Mismatches: 26, Indels: 41
0.83 0.07 0.11
Matches are distributed among these distances:
50 18 0.06
51 60 0.19
52 159 0.50
53 29 0.09
54 6 0.02
55 7 0.02
57 29 0.09
58 4 0.01
59 7 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (49 bp):
ATTTCGCATTGCGATTTTCGTTGCGATTTCATTTCGCGTTGCGATTTTC
Found at i:169359 original size:71 final size:71
Alignment explanation
Indices: 169284--169679 Score: 518
Period size: 71 Copynumber: 5.6 Consensus size: 71
169274 GATTATCTCG
169284 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
169349 TTCGCA
66 TTCGCA
169355 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
169420 TTCGCA
66 TTCGCA
* *
169426 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
169491 TTCATTTCGCA
61 TTCATTTCGCA
*
169502 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATT
*
169560 TTC-TCTCG--
61 TTCATTTCGCA
*
169568 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
169632 TTCCGCA
66 TT-CGCA
* *
169639 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
169680 GTATTTTCCG
Statistics
Matches: 297, Mismatches: 11, Indels: 38
0.86 0.03 0.11
Matches are distributed among these distances:
65 6 0.02
66 6 0.02
67 35 0.12
68 13 0.04
69 6 0.02
70 26 0.09
71 161 0.54
72 5 0.02
73 6 0.02
74 8 0.03
76 25 0.08
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:172928 original size:20 final size:20
Alignment explanation
Indices: 172900--173270 Score: 480
Period size: 20 Copynumber: 18.6 Consensus size: 20
172890 AAATTTCAGT
* * * *
172900 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
172920 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
172940 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
172960 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
172980 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
173000 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
173020 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
173040 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
173060 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
173080 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
173100 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
173120 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
173140 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
173160 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
173180 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
173200 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
173220 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
173240 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
173260 GTTGCGATTTA
1 GTTGCGATTTA
173271 TATGTTCGCG
Statistics
Matches: 313, Mismatches: 30, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
19 6 0.02
20 302 0.96
21 5 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:173280 original size:20 final size:20
Alignment explanation
Indices: 173257--173308 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
173247 TTTACGGATA
*
173257 CGCGTTGCGATTTAT-ATGTT
1 CGCGTTGCGATTT-TCATATT
173277 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
173297 CGCGTTGCGATT
1 CGCGTTGCGATT
173309 ATGGAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:178895 original size:2 final size:2
Alignment explanation
Indices: 178888--178915 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
178878 ATTCTAACTC
178888 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
178916 GGGAACTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180555 original size:44 final size:44
Alignment explanation
Indices: 180501--180718 Score: 355
Period size: 44 Copynumber: 5.0 Consensus size: 44
180491 CCATGAGTGG
180501 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* *
180545 CACATTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* * * *
180589 CACCTTTCTTCCAATAATGCACTGTTATGCATTTTTATTTATGT
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
*
180633 CACCTTTTTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* *
180677 CACCTTTCTACCAATAATGTACCGTTATGCATTTTCATTTAT
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
180719 TTCGGTAACA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 160 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.42
Consensus pattern (44 bp):
CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
Found at i:182827 original size:17 final size:17
Alignment explanation
Indices: 182807--182855 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
182797 TTTTTAAAAA
*
182807 TTTTAAATTTTAAT-TT
1 TTTTATATTTTAATATT
*
182823 TTTTTTATTTTAATATT
1 TTTTATATTTTAATATT
182840 TTTTATATTTT-ATATT
1 TTTTATATTTTAATATT
182856 AATTATCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATTTTAATATT
Found at i:184082 original size:18 final size:16
Alignment explanation
Indices: 184059--184102 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
184049 CCGATCAGCT
*
184059 GTTGACAGTTGACCGACC
1 GTTGACA-TTG-CCCACC
184077 GTTGACCATTGCCCACC
1 GTTGA-CATTGCCCACC
184094 GTTGACATT
1 GTTGACATT
184103 TTTTGAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 8 0.33
19 2 0.08
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (16 bp):
GTTGACATTGCCCACC
Found at i:184510 original size:27 final size:27
Alignment explanation
Indices: 184455--184510 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
184445 TTTTACCATA
**
184455 TATTTTTGATATGATCTCTGGTTACTG
1 TATTTTTGATATGATCTCTGAATACTG
*
184482 TATTTTTGAATCTGATCTCTGAATA-TG
1 TATTTTTG-ATATGATCTCTGAATACTG
184509 TA
1 TA
184511 ATATTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (27 bp):
TATTTTTGATATGATCTCTGAATACTG
Found at i:187845 original size:2 final size:2
Alignment explanation
Indices: 187838--187888 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
187828 CGTTAGCTTA
187838 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
187880 AT AT AT AT A
1 AT AT AT AT A
187889 GTGATATACT
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:198976 original size:4 final size:4
Alignment explanation
Indices: 198962--199003 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
198952 CTTTGACTTC
*
198962 TTAT ATAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
199004 CGAAACTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:200325 original size:17 final size:17
Alignment explanation
Indices: 200297--200329 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
200287 ATTTAATGTA
200297 TGAATCATTTATATTTTT
1 TGAATCATTTAT-TTTTT
200315 TGAAT-ATTTATTTTT
1 TGAATCATTTATTTTT
200330 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TGAATCATTTATTTTTT
Found at i:200990 original size:130 final size:130
Alignment explanation
Indices: 200786--201033 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
200776 AATTTTCTTC
* *
200786 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
200851 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
200916 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
200981 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
201034 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:201480 original size:35 final size:35
Alignment explanation
Indices: 201430--201505 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
201420 AATTGAATTT
* *
201430 AATTGAATTATTTTGGAATTTAGAGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGAGTTTAGAATGA
* *
201465 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGAGTTTAGAATGA
201500 AATTGA
1 AATTGA
201506 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGAGTTTAGAATGA
Found at i:202272 original size:118 final size:118
Alignment explanation
Indices: 202064--202431 Score: 605
Period size: 118 Copynumber: 3.1 Consensus size: 118
202054 CAACTTCTTA
* * *
202064 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTGTTCTCTTTCATCGGA
1 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGAA
*
202129 TGAGTTCTTCTCATTACGAACCCTTCCATTAGAAATGTTGATCCATCTCATTT
66 TGAGTTCTTCTCATTACGAACCCTTCCATTAGAAATGTTGATCCACCTCATTT
202182 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGAA
1 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGAA
* * *
202247 TGAGTTCTTCTTATTACGAACCCTTCCATTAGAAATGTTGATTCACCTCCTTT
66 TGAGTTCTTCTCATTACGAACCCTTCCATTAGAAATGTTGATCCACCTCATTT
*
202300 TGTGATGGAATCAAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-ATC-A
1 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCT-CCTTCATCGA
* *
202363 GATGAGTTATTCTCATTACGAACCATTCCATTAGAAATGTTGATCCACCTCATTT
65 -ATGAGTTCTTCTCATTACGAACCCTTCCATTAGAAATGTTGATCCACCTCATTT
*
202418 TGTGATAGAATCGA
1 TGTGATGGAATCGA
202432 ACAAAGTGAT
Statistics
Matches: 233, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.00
118 228 0.98
119 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (118 bp):
TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGAA
TGAGTTCTTCTCATTACGAACCCTTCCATTAGAAATGTTGATCCACCTCATTT
Found at i:208151 original size:31 final size:31
Alignment explanation
Indices: 208111--208178 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
208101 TAGAAACGAG
208111 CCGACCCGCCTGCCCGACCTGACTCGCTTGT
1 CCGACCCGCCTGCCCGACCTGACTCGCTTGT
*
208142 CTGACCCGCCTGCCCGACCTGACTCGCTTGT
1 CCGACCCGCCTGCCCGACCTGACTCGCTTGT
208173 CCGACC
1 CCGACC
208179 TGATCCGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.10, C:0.49, G:0.22, T:0.19
Consensus pattern (31 bp):
CCGACCCGCCTGCCCGACCTGACTCGCTTGT
Found at i:208163 original size:18 final size:18
Alignment explanation
Indices: 208142--208181 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
208132 ACTCGCTTGT
208142 CTGACCCGCCTGCCCGAC
1 CTGACCCGCCTGCCCGAC
* * *
208160 CTGACTCGCTTGTCCGAC
1 CTGACCCGCCTGCCCGAC
208178 CTGA
1 CTGA
208182 TCCGACTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.45, G:0.23, T:0.20
Consensus pattern (18 bp):
CTGACCCGCCTGCCCGAC
Found at i:209831 original size:42 final size:42
Alignment explanation
Indices: 209772--209855 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
209762 GATTCCTACA
209772 AAATGCCCCTTTCGATACTTTTAAGTATTAACAAAAGTTATC
1 AAATGCCCCTTTCGATACTTTTAAGTATTAACAAAAGTTATC
* *
209814 AAATGTCCTTTTCGATACTTTTAAGTATTAACAAAAGTTATC
1 AAATGCCCCTTTCGATACTTTTAAGTATTAACAAAAGTTATC
209856 CTTAACATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (42 bp):
AAATGCCCCTTTCGATACTTTTAAGTATTAACAAAAGTTATC
Done.