Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008182.1 Hibiscus syriacus cultivar Beakdansim tig00110782_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: 1042344
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:323 original size:51 final size:53
Alignment explanation
Indices: 238--363 Score: 197
Period size: 52 Copynumber: 2.4 Consensus size: 53
228 CTAAATAAAT
*
238 ATTAGATAGGATCAG-TTTTTATTCATTAGTTTATTAGATAGGATCA-TTTTA
1 ATTAGATAGAATCAGTTTTTTATTCATTAGTTTATTAGATAGGATCATTTTTA
*
289 ATTAGATAGAATCAGTTTTTTATTTATTAG-TTATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTTTATTCATTAGTTTATTAGATAGGATCATTTTTA
341 ATTAGATAGAATCA-TTTTATTAT
1 ATTAGATAGAATCAGTTTT-TTAT
364 GTTGCTAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
51 34 0.49
52 36 0.51
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (53 bp):
ATTAGATAGAATCAGTTTTTTATTCATTAGTTTATTAGATAGGATCATTTTTA
Found at i:346 original size:20 final size:20
Alignment explanation
Indices: 321--358 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
311 TTTATTAGTT
*
321 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
341 ATTAGATAGAATCATTTT
1 ATTAGATAGAATCATTTT
359 ATTATGTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:3152 original size:59 final size:59
Alignment explanation
Indices: 3027--3160 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
3017 ATTGTTGAGT
* * * *
3027 GATCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAGTAATCCTTATAGTCGTGA
1 GATCATTTTATAACTTTTAACAATCGAGGGACTCAACAAAATAATCCTTATAGTCGTGA
* * * *
3086 GACCATTTTATAACTTTTAATAATCGAGGGACTCAACAAAATAATATCTTATTGTCAG-G-
1 GATCATTTTATAACTTTTAACAATCGAGGGACTCAACAAAATAAT-CCTTATAGTC-GTGA
3145 GATCATTTTAT-ACTTT
1 GATCATTTTATAACTTT
3161 ACCCTTTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 5 0.08
59 49 0.77
60 9 0.14
61 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (59 bp):
GATCATTTTATAACTTTTAACAATCGAGGGACTCAACAAAATAATCCTTATAGTCGTGA
Found at i:10980 original size:45 final size:45
Alignment explanation
Indices: 10931--11019 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
10921 GAGTCATTCA
* *
10931 CTGTCACAGG-CATCTCTTTGTTCATCCTCTCAGCTGAACTATTTG
1 CTGTCA-AGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTTG
* * *
10976 CTGTCAAGGCCATCACTTTCTTCATCTTCTCAGGTGAGCTATTT
1 CTGTCAAGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTT
11020 ACTGCCATCG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (45 bp):
CTGTCAAGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTTG
Found at i:11148 original size:83 final size:86
Alignment explanation
Indices: 10943--11188 Score: 266
Period size: 87 Copynumber: 2.9 Consensus size: 86
10933 GTCACAGGCA
* * * * * *
10943 TCTCTTTGTTCATCCTCTCAGCTGAACTATTTGCTGTCAAGGCCATCACTTTCTTCATCTTCTCA
1 TCTCTTT-CTCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCA
* * * *
11008 GGTGAGCTATTTACTGCCATCG
65 GATGAACTATTCACAGCCATCG
* * * * *
11030 TCCCTTGACTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCCAACTCTTTCTTCCTCTTCTCA
1 TCTCTT-TCTCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCA
11095 GATGAACTATTCACAG-C-T-G
65 GATGAACTATTCACAGCCATCG
* *
11114 TCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTGTCATGACCTTCTCTTTCTTCAT-TTCATCA
1 TCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTC-TCA
* *
11178 GCTGAATTATT
65 GATGAACTATT
11189 TGTTGTCATG
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
82 3 0.02
83 57 0.43
84 6 0.05
85 1 0.01
86 1 0.01
87 65 0.49
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (86 bp):
TCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCAG
ATGAACTATTCACAGCCATCG
Found at i:11189 original size:45 final size:44
Alignment explanation
Indices: 10943--11198 Score: 154
Period size: 45 Copynumber: 5.9 Consensus size: 44
10933 GTCACAGGCA
* * * * * *
10943 TCTCTTTGTTCATCCTCTCAGCTGAACTATTTGCTGTCAAGGCCA
1 TCTCTTT-CTCATCTTCTCAGCTGAACTATTTACTGTCATGACCT
* * * * *
10988 TCACTTTCTTCATCTTCTCAGGTGAGCTATTTACTGCCATCGTCC-
1 TCTCTTTC-TCATCTTCTCAGCTGAACTATTTACTGTCAT-GACCT
** * * * *
11033 -CT-TGACTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCCA
1 TCTCTTTCTCATCTTCTCAGCTGAACTATTTACTGTCATGACCT
* * * * *
11075 ACTCTTTCTTCCTCTTCTCAGATGAACTATTCACAG-C-TG----
1 TCTCTTTC-TCATCTTCTCAGCTGAACTATTTACTGTCATGACCT
*
11114 TCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTGTCATGACCT
1 TCTCTTTCTCATCTTCTCAGCTGAACTATTTACTGTCATGACCT
* **
11158 TCTCTTTCTTCAT-TTCATCAGCTGAATTATTTGTTGTCATG
1 TCTCTTTC-TCATCTTC-TCAGCTGAACTATTTACTGTCATG
11199 GCTGTCTCTT
Statistics
Matches: 166, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
38 22 0.13
39 8 0.05
40 2 0.01
41 3 0.02
42 30 0.18
43 6 0.04
44 15 0.09
45 77 0.46
46 3 0.02
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.41
Consensus pattern (44 bp):
TCTCTTTCTCATCTTCTCAGCTGAACTATTTACTGTCATGACCT
Found at i:11207 original size:45 final size:45
Alignment explanation
Indices: 11109--11209 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
11099 AACTATTCAC
*
11109 AGCTGTCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTGTCATG
1 AGCTGTCTCTTTCTCATCTTCTCAGCTGAACTATTTACTGTCATG
* * **
11154 ACCT-TCTCTTTCTTCAT-TTCATCAGCTGAATTATTTGTTGTCATG
1 AGCTGTCTCTTTC-TCATCTTC-TCAGCTGAACTATTTACTGTCATG
11199 -GCTGTCTCTTT
1 AGCTGTCTCTTT
11210 GTTTGTCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
44 13 0.28
45 34 0.72
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.47
Consensus pattern (45 bp):
AGCTGTCTCTTTCTCATCTTCTCAGCTGAACTATTTACTGTCATG
Found at i:16786 original size:21 final size:23
Alignment explanation
Indices: 16761--16807 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16751 TCTATAAAAA
*
16761 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
16782 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
16805 TAA
1 TAA
16808 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:16822 original size:23 final size:22
Alignment explanation
Indices: 16761--16823 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
16751 TCTATAAAAA
* *
16761 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
16782 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
16805 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
16824 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:17003 original size:26 final size:26
Alignment explanation
Indices: 16952--17013 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
16942 TATTATTAAA
*
16952 ATAAGAATATAATAGTATTATATATT
1 ATAATAATATAATAGTATTATATATT
*
16978 ATTATAATATAATTGAGTA-TAT-TATT
1 ATAATAATATAA-T-AGTATTATATATT
17004 ATAATAATAT
1 ATAATAATAT
17014 TATTATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 23 0.74
27 4 0.13
28 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATAATAATATAATAGTATTATATATT
Found at i:21841 original size:21 final size:21
Alignment explanation
Indices: 21815--21868 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
21805 TCGTGATTGT
21815 GGCCGTCGCGGGCGCTATTAC
1 GGCCGTCGCGGGCGCTATTAC
*
21836 GGCCGTCGCGGACGCTATTAC
1 GGCCGTCGCGGGCGCTATTAC
* *
21857 GGTCGTCACGGG
1 GGCCGTCGCGGG
21869 TAACTCGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.39, T:0.19
Consensus pattern (21 bp):
GGCCGTCGCGGGCGCTATTAC
Found at i:21908 original size:22 final size:22
Alignment explanation
Indices: 21877--21931 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
21867 GGTAACTCGA
*
21877 ACGGTGGCGAAACCGTTATATC
1 ACGGTCGCGAAACCGTTATATC
*
21899 GCGGTCGCGAAACCGTTATATC
1 ACGGTCGCGAAACCGTTATATC
21921 ACGGTCGCGAA
1 ACGGTCGCGAA
21932 CCTTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (22 bp):
ACGGTCGCGAAACCGTTATATC
Found at i:31694 original size:24 final size:24
Alignment explanation
Indices: 31641--31695 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
31631 TAATAAAAAA
* *
31641 TAAAACTAAAACTTTTATATTAAT
1 TAAAATTAAAACTTCTATATTAAT
31665 TAAAATTAAAACTTCTATATTAAT
1 TAAAATTAAAACTTCTATATTAAT
31689 TAAAATT
1 TAAAATT
31696 GATAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAATTAAAACTTCTATATTAAT
Found at i:34635 original size:33 final size:32
Alignment explanation
Indices: 34588--34650 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
34578 AAAGAAAGCG
* *
34588 TTACATTTTTTTATTATATTTATATTTTTTCA
1 TTACATTTTCTTATTATATTTACATTTTTTCA
34620 TTACACTTTTCTTATTATATTTACATTTTTT
1 TTACA-TTTTCTTATTATATTTACATTTTTT
34651 TTCATTCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (32 bp):
TTACATTTTCTTATTATATTTACATTTTTTCA
Found at i:35409 original size:37 final size:37
Alignment explanation
Indices: 35336--35410 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
35326 GTTGGAAAAT
* *
35336 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
35373 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
35410 A
1 A
35411 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:38555 original size:16 final size:15
Alignment explanation
Indices: 38536--38577 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
38526 AACAATTTAT
*
38536 ATATAT-ATATATTC
1 ATATATCATATATAC
*
38550 ATATATGATGATATAC
1 ATATATCAT-ATATAC
38566 ATATATCATATA
1 ATATATCATATA
38578 AAGTCGAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 13 0.54
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (15 bp):
ATATATCATATATAC
Found at i:41451 original size:18 final size:18
Alignment explanation
Indices: 41428--41462 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41418 TTCCATCCGG
*
41428 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
41446 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
41463 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:46740 original size:23 final size:23
Alignment explanation
Indices: 46711--46824 Score: 201
Period size: 23 Copynumber: 5.0 Consensus size: 23
46701 GTCGAGGGTT
* *
46711 CTATGTGGTCATTCGGGACAAAT
1 CTATGTGGTTATTCGGGACAAAC
46734 CTATGTGGTTATTCGGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
*
46757 CTATGTGGTTATTCAGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
46780 CTATGTGGTTATTCGGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
46803 CTATGTGGTTATTCGGGACAAA
1 CTATGTGGTTATTCGGGACAAA
46825 TATGTAGCAC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (23 bp):
CTATGTGGTTATTCGGGACAAAC
Found at i:47256 original size:21 final size:21
Alignment explanation
Indices: 47230--47272 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47220 GATGAGTAAG
47230 CCGAGTAAGCAGGAGACATGA
1 CCGAGTAAGCAGGAGACATGA
47251 CCGAGTAAGCAGGAGACATGA
1 CCGAGTAAGCAGGAGACATGA
47272 C
1 C
47273 AGTATACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.33, T:0.09
Consensus pattern (21 bp):
CCGAGTAAGCAGGAGACATGA
Found at i:47781 original size:31 final size:29
Alignment explanation
Indices: 47712--47782 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 29
47702 AACTTCAGAA
*
47712 AAAATATGAATTTGATATTTAAATTATAG
1 AAAATATTAATTTGATATTTAAATTATAG
* * *
47741 ACAAGATATTAATTTTATCTTTAAACTTTATAT
1 A-AA-ATATTAATTTGATATTTAAA--TTATAG
47774 AAAATATTA
1 AAAATATTA
47783 TCTTAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.03
30 2 0.06
31 23 0.68
32 2 0.06
33 6 0.18
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (29 bp):
AAAATATTAATTTGATATTTAAATTATAG
Found at i:51666 original size:6 final size:6
Alignment explanation
Indices: 51655--51683 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51645 CTTTAATGTC
51655 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
51684 TACTCGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:52836 original size:15 final size:15
Alignment explanation
Indices: 52818--52873 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
52808 TAATCGGTTT
52818 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
52833 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
52850 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
52865 CGATTTTAA
1 CGGTTTTAA
52874 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:52846 original size:17 final size:17
Alignment explanation
Indices: 52821--52871 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
52811 TCGGTTTCGG
52821 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
52838 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
52853 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
52870 TT
1 TT
52872 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:53291 original size:13 final size:13
Alignment explanation
Indices: 53270--53324 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
53260 AAATTCGATA
*
53270 AATTCAAATACTT
1 AATTGAAATACTT
53283 AATTGAAATACTT
1 AATTGAAATACTT
* *
53296 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
53310 AATTGAAATACTT
1 AATTGAAATACTT
53323 AA
1 AA
53325 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:53406 original size:32 final size:33
Alignment explanation
Indices: 53310--53408 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
53300 AACTCAACAT
* * *
53310 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
53343 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
53376 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
53408 A
1 A
53409 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:53427 original size:21 final size:21
Alignment explanation
Indices: 53403--53442 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53393 ACTTCAAGTT
53403 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
53424 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
53443 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:55744 original size:11 final size:12
Alignment explanation
Indices: 55723--55768 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
55713 TCCGGATAAA
55723 AACCGGTTTTTT
1 AACCGGTTTTTT
55735 AACCGGTTTTTTT
1 AACCGG-TTTTTT
55748 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
55762 ATCCGGT
1 AACCGGT
55769 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:55753 original size:15 final size:14
Alignment explanation
Indices: 55722--55761 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
55712 TTCCGGATAA
55722 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
55735 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
55748 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
55762 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:55842 original size:19 final size:20
Alignment explanation
Indices: 55813--55851 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
55803 GTTAAAATAA
*
55813 CCGGTTTAAAAAAATCCGAT
1 CCGGTTTAAAAAAAACCGAT
55833 CCGG-TTAAAAAAAACCGAT
1 CCGGTTTAAAAAAAACCGAT
55852 TTTTCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (20 bp):
CCGGTTTAAAAAAAACCGAT
Found at i:55883 original size:27 final size:28
Alignment explanation
Indices: 55851--55908 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
55841 AAAAAACCGA
55851 TTTTTCCCAAAACCGG-T-TTCGGATATT
1 TTTTTCCCAAAACCGGATATTCGGAT-TT
* *
55878 TTTTTCGCAAAATCGGATATTCGGATTT
1 TTTTTCCCAAAACCGGATATTCGGATTT
55906 TTT
1 TTT
55909 GTGCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 6 0.22
29 7 0.26
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTCCCAAAACCGGATATTCGGATTT
Found at i:61868 original size:15 final size:17
Alignment explanation
Indices: 61848--61881 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
61838 TTTGACTTTG
61848 AGATATTTT-AA-TGAA
1 AGATATTTTCAATTGAA
61863 AGATATTTTCAATTGAA
1 AGATATTTTCAATTGAA
61880 AG
1 AG
61882 TGGTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (17 bp):
AGATATTTTCAATTGAA
Found at i:63781 original size:21 final size:21
Alignment explanation
Indices: 63755--63798 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
63745 ATTATGGGCT
* *
63755 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
63776 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
63797 AG
1 AG
63799 CGAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:63870 original size:23 final size:22
Alignment explanation
Indices: 63826--63870 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
63816 AATGTCATGG
*
63826 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
63848 GGGAACTGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
63871 AAATTGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:64258 original size:22 final size:20
Alignment explanation
Indices: 64237--64274 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64227 CTATGTTATG
64237 ATGAT-ATAAACTATATGAT
1 ATGATAATAAACTATATGAT
*
64256 ATGATAATAAATTATATGA
1 ATGATAATAAACTATATGA
64275 ATATAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGATAATAAACTATATGAT
Found at i:65527 original size:23 final size:23
Alignment explanation
Indices: 65475--65535 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
65465 CATTATTATA
*
65475 TGGCACTACGGTGTAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
65498 CGCCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
65521 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
65536 TTTATATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:66720 original size:30 final size:30
Alignment explanation
Indices: 66684--66803 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 30
66674 GAATGACCTA
66684 TCCATATGTTCCGAAGAACATAGGTAAT-TG
1 TCCATATGTTCCGAAG-ACATAGGTAATCTG
*
66714 TCCATATGTCCCGAATGACATAGGTAATCCTG
1 TCCATATGTTCCGAA-GACATAGGTAAT-CTG
* * *
66746 TCCATATG-TCCTGAAGGACATATGTAAACTA
1 TCCATATGTTCC-GAA-GACATAGGTAATCTG
*
66777 TCCATATG-TCTTGAAAGACATAGGTAA
1 TCCATATGTTC-CG-AAGACATAGGTAA
66804 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
30 25 0.33
31 26 0.34
32 25 0.33
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (30 bp):
TCCATATGTTCCGAAGACATAGGTAATCTG
Found at i:66753 original size:32 final size:30
Alignment explanation
Indices: 66684--66803 Score: 125
Period size: 32 Copynumber: 3.9 Consensus size: 30
66674 GAATGACCTA
*
66684 TCCATATGTTCCGAAGAACATAGGTAAT-TG
1 TCCATATGTCCCGAAG-ACATAGGTAATCTG
66714 TCCATATGTCCCGAATGACATAGGTAATCCTG
1 TCCATATGTCCCGAA-GACATAGGTAAT-CTG
* * * *
66746 TCCATATGTCCTGAAGGACATATGTAAACTA
1 TCCATATGTCCCGAA-GACATAGGTAATCTG
**
66777 TCCATATGTCTTGAAAGACATAGGTAA
1 TCCATATGTCCCG-AAGACATAGGTAA
66804 CCCTCGACTC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
30 25 0.32
31 25 0.32
32 28 0.36
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (30 bp):
TCCATATGTCCCGAAGACATAGGTAATCTG
Found at i:66797 original size:63 final size:62
Alignment explanation
Indices: 66684--66803 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 62
66674 GAATGACCTA
* * *
66684 TCCATATGTTCCGAAGAACATAGGTAATTGTCCATATGTCCCGAATGACATAGGTAATCCTG
1 TCCATATGTTCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTAATCCTG
* * **
66746 TCCATATG-TCCTGAAGGACATATGTAAACTATCCATATGTCTTGAAAGACATAGGTAA
1 TCCATATGTTCC-GAAGAACATAGGT-AACTATCCATATGTCCCGAAAGACATAGGTAA
66804 CCCTCGACTC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 3 0.06
62 19 0.39
63 27 0.55
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (62 bp):
TCCATATGTTCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTAATCCTG
Found at i:67124 original size:2 final size:2
Alignment explanation
Indices: 67119--67172 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
67109 TCATGTAACC
67119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67161 TA TA TA TA TA TA
1 TA TA TA TA TA TA
67173 ATCACATATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71161 original size:19 final size:18
Alignment explanation
Indices: 71110--71161 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
71100 ATACACATAC
71110 CATTATATACTTTCTATAA
1 CATTATATA-TTTCTATAA
* *
71129 CATATTTCATATTTCATATCA
1 CAT-TAT-ATATTTC-TATAA
71150 CATTATATATTT
1 CATTATATATTT
71162 ATAATTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 10 0.37
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (18 bp):
CATTATATATTTCTATAA
Found at i:71422 original size:30 final size:31
Alignment explanation
Indices: 71397--71458 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
71387 CCATATGTTT
71397 CGAAGAACATAGATAAT-TGTCCATATATCC
1 CGAAGAACATAGATAATATGTCCATATATCC
* *
71427 CGAAGGACATAGGTAATCATGTCCATATATCC
1 CGAAGAACATAGATAAT-ATGTCCATATATCC
71459 TGAAAGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 15 0.54
32 13 0.46
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (31 bp):
CGAAGAACATAGATAATATGTCCATATATCC
Found at i:71455 original size:32 final size:30
Alignment explanation
Indices: 71397--71474 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
71387 CCATATGTTT
* *
71397 CGAAGAACATAGATAATTGTCCATATATCC
1 CGAAGGACATAGGTAATTGTCCATATATCC
71427 CGAAGGACATAGGTAATCATGTCCATATATCC
1 CGAAGGACATAGGTAAT--TGTCCATATATCC
* * *
71459 TGAAAGACATATGTAA
1 CGAAGGACATAGGTAA
71475 ACTATACATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 15 0.37
32 26 0.63
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (30 bp):
CGAAGGACATAGGTAATTGTCCATATATCC
Found at i:73857 original size:31 final size:31
Alignment explanation
Indices: 73819--73943 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
73809 AGGGTCGAGG
73819 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
73850 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
73881 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
73912 GATTACCTAGGTTATTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
73943 G
1 G
73944 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:79416 original size:31 final size:31
Alignment explanation
Indices: 79378--79502 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
79368 AGGGTCGAGG
79378 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
79409 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
79440 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
79471 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
79502 G
1 G
79503 GTCCTTCGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:80578 original size:14 final size:15
Alignment explanation
Indices: 80548--80580 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
80538 ATAATACAAA
80548 TTATATAAATTAGAAT
1 TTATATAAATTA-AAT
80564 TTATATAAATT-AAT
1 TTATATAAATTAAAT
80578 TTA
1 TTA
80581 ATATGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTATATAAATTAAAT
Found at i:88620 original size:60 final size:60
Alignment explanation
Indices: 88519--88684 Score: 165
Period size: 60 Copynumber: 2.8 Consensus size: 60
88509 AAACAATAAC
* * * * ** * *
88519 CTTCATTTTAAATTAATCCTTAATCTTTTGAATATTTTAATTTTATCCCTAAACCATG-A
1 CTTCATTCTAAATTAGTCCTTAAACTTTTGAACATCCTAATTTCATCACTAAACCATGAA
* *
88578 CATTCATTCTAATTTAGTCCTTAAACTTTTGAACATCCTAATTTCATCACTAAACTATGAA
1 C-TTCATTCTAAATTAGTCCTTAAACTTTTGAACATCCTAATTTCATCACTAAACCATGAA
* * * * *
88639 CCTCTTTCCAAATTAGTCCCTAAACTTTTGAATATTCC-AATTTCAT
1 CTTCATTCTAAATTAGTCCTTAAACTTTTGAACA-TCCTAATTTCAT
88685 ACCCAAATTC
Statistics
Matches: 88, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
59 1 0.01
60 82 0.93
61 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (60 bp):
CTTCATTCTAAATTAGTCCTTAAACTTTTGAACATCCTAATTTCATCACTAAACCATGAA
Found at i:90662 original size:20 final size:20
Alignment explanation
Indices: 90637--90704 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
90627 TAAACCCTTC
90637 GATCGTTAGATTTAACGGTT
1 GATCGTTAGATTTAACGGTT
90657 GATCGTTAGATTTAACGGTT
1 GATCGTTAGATTTAACGGTT
90677 GATCGTTAGATTTAACGGTT
1 GATCGTTAGATTTAACGGTT
90697 GATCGTTA
1 GATCGTTA
90705 AACGTCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
GATCGTTAGATTTAACGGTT
Found at i:90919 original size:21 final size:20
Alignment explanation
Indices: 90833--90990 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
90823 AAATGACCAA
**
90833 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
90852 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
90872 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
90892 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
90913 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
90934 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
90954 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
90975 GAATATCGCAACGCGA
1 CAAAATCGCAACGCGA
90991 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:91002 original size:20 final size:20
Alignment explanation
Indices: 90957--91207 Score: 140
Period size: 20 Copynumber: 12.6 Consensus size: 20
90947 CGATTTTCCA
*
90957 AAATCGCAACGCG-AA-TAT
1 AAATCGCAACGCGTAACCAT
90975 GAATATCGCAACGCG-AACACAT
1 -AA-ATCGCAACGCGTAAC-CAT
* *
90997 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
91017 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
91037 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
91057 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
91077 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
91097 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
91117 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
91137 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
91157 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
91177 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
91197 AAATCGCAACG
1 AAATCGCAACG
91208 AGAATCTGTA
Statistics
Matches: 204, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
19 4 0.02
20 194 0.95
21 4 0.02
22 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:91023 original size:40 final size:39
Alignment explanation
Indices: 90957--91226 Score: 263
Period size: 40 Copynumber: 6.8 Consensus size: 39
90947 CGATTTTCCA
** * *
90957 AAATCGCAACGCGAATATG-AATATCGCAACGCGAACACAT
1 AAATCGCAACGCGAATCCGTAA-ATCGCAACGAGAAC-CGT
* * *
90997 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGAG-AACCGT
* * * *
91037 AAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGAG-AACCGT
* * *
91077 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGAGAA-CCGT
* * *
91117 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGAGAA-CCGT
* * *
91157 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGAGAA-CCGT
* * *
91197 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGAATCCGTAAATCGCAAC
91227 ACTGAAATTT
Statistics
Matches: 209, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 204 0.98
41 4 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (39 bp):
AAATCGCAACGCGAATCCGTAAATCGCAACGAGAACCGT
Found at i:91043 original size:60 final size:60
Alignment explanation
Indices: 90957--91226 Score: 287
Period size: 60 Copynumber: 4.5 Consensus size: 60
90947 CGATTTTCCA
* ** * *
90957 AAATCGCAACGCGAATATG-AATATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAA-ATCGCAACGAGAATC-CGTAAATCGCAACGCGTATCCGT
* * * *
91017 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* * * * * * *
91077 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* *
91137 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGT-ATCCGT
* * *
91197 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
91227 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
60 175 0.98
61 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
Found at i:91208 original size:20 final size:20
Alignment explanation
Indices: 90996--91226 Score: 258
Period size: 20 Copynumber: 11.6 Consensus size: 20
90986 CGCGAACACA
*
90996 TAAATCGCAACGCGT-ATCCG
1 TAAATCGCAACG-ATAATCCG
*
91016 TAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAT-AATCCG
*
91036 TAAATCGCAACGCGT-ATCCG
1 TAAATCGCAACG-ATAATCCG
91056 TAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAA--CGATAATCCG
* *
91076 TATATCGCAACGCGT-ATCCG
1 TAAATCGCAACG-ATAATCCG
91096 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCG
* *
91116 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCG
91136 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCG
* *
91156 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCG
91176 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCG
* *
91196 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCG
*
91216 TAAATCACAAC
1 TAAATCGCAAC
91227 ACTGAAATTT
Statistics
Matches: 188, Mismatches: 14, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
18 3 0.02
19 1 0.01
20 181 0.96
22 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGATAATCCG
Found at i:91949 original size:24 final size:24
Alignment explanation
Indices: 91910--91956 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
91900 AAATTTGGTC
91910 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
91934 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
91957 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:92743 original size:14 final size:14
Alignment explanation
Indices: 92724--92780 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
92714 GCGAAATGAA
*
92724 AATCGCAACGACAG
1 AATCGCAACGAAAG
92738 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
92755 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
92771 AATCGCAACG
1 AATCGCAACG
92781 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:92751 original size:33 final size:33
Alignment explanation
Indices: 92705--92797 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
92695 GCGAAACCAA
*
92705 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
92738 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
92771 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
92798 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:92762 original size:19 final size:19
Alignment explanation
Indices: 92668--92802 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
92658 TAGTTTACTT
* *
92668 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
92688 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
92707 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92726 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
92740 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
92759 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
92773 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92792 TCGCAATGCGA
1 TCGCAACGCGA
92803 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:92820 original size:19 final size:19
Alignment explanation
Indices: 92798--92926 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
92788 AAAATCGCAA
92798 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
92817 TGCGA-TCT--TTT--CGT
1 TGCGATTTTGGTTTCGCGT
92831 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
**
92850 TGCGA-TTCAG--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
92864 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
92883 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
92902 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
92922 TGCGA
1 TGCGA
92927 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 16 0.18
15 4 0.05
16 4 0.05
17 4 0.05
18 5 0.06
19 42 0.48
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:92840 original size:33 final size:33
Alignment explanation
Indices: 92798--92889 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
92788 AAAATCGCAA
**
92798 TGCGATTTTGGTTTCGCGTTGCGA-TCTTTTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-AGTCGT
92831 TGCGATTTTGGTTTCGCGTTGCGATTCAGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCAGTCGT
**
92864 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
92890 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCAGTCGT
Found at i:93090 original size:93 final size:93
Alignment explanation
Indices: 92974--93441 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
92964 ATGGATTGCA
92974 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
93038 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
93066 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
93131 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
93159 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
93224 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
93252 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
93316 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
93344 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
93409 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
93437 TTACT
1 TTACT
93442 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 96 0.26
93 277 0.74
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:95163 original size:14 final size:14
Alignment explanation
Indices: 95144--95233 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
95134 TTGAAATGAA
95144 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
95158 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
95177 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
95191 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
95210 AATCGCAACGAGAG
1 AATCGCAACGAGAG
95224 AATCGCAACG
1 AATCGCAACG
95234 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:95176 original size:33 final size:33
Alignment explanation
Indices: 95136--95250 Score: 230
Period size: 33 Copynumber: 3.5 Consensus size: 33
95126 TCTTTTGGTT
95136 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
95169 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
95202 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
95235 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
95251 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:95182 original size:19 final size:19
Alignment explanation
Indices: 95158--95255 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
95148 GCAACGAGAG
95158 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
95177 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
95191 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
95210 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
95224 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
95243 AATCGCAATGCGA
1 AATCGCAACGCGA
95256 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:95286 original size:14 final size:14
Alignment explanation
Indices: 95267--95323 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
95257 TTTGGTTTCG
95267 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
95281 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
95300 CGTTGCGATTATCT
1 CGTTGCGATTCTCT
95314 CGTTGCGATT
1 CGTTGCGATT
95324 TCATTTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 2 0.06
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:95299 original size:33 final size:33
Alignment explanation
Indices: 95251--95368 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 33
95241 AAAATCGCAA
**
95251 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
95284 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
95317 TGCGA-TTTCATTTCTCTCGTTGCGACAGTCATTCTCGT
1 TGCGATTTTCA-TT-TCGCGTTGCG--ATTC--TCTCGT
95355 TGCGATTTTCATTT
1 TGCGATTTTCATTT
95369 ATCTCGTTGC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
32 5 0.07
33 37 0.51
34 9 0.12
36 2 0.03
37 1 0.01
38 13 0.18
39 5 0.07
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:95375 original size:39 final size:36
Alignment explanation
Indices: 95262--95381 Score: 126
Period size: 33 Copynumber: 3.4 Consensus size: 36
95252 GCGATTTTGG
* *
95262 TTTCGCGTTGCGA-TTC-TCTCGTTGCGATTTTCA-
1 TTTCTCGTTGCGACATCATCTCGTTGCGATTTTCAT
* *
95295 TTTCGCGTTGCG--ATTATCTCGTTGCGA-TTTCAT
1 TTTCTCGTTGCGACATCATCTCGTTGCGATTTTCAT
95328 TTCTCTCGTTGCGACAGTCATTCTCGTTGCGATTTTCAT
1 TT-TCTCGTTGCGACA-TCA-TCTCGTTGCGATTTTCAT
95367 TTATCTCGTTGCGAC
1 TT-TCTCGTTGCGAC
95382 TCTTCTGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
32 6 0.08
33 25 0.34
34 9 0.12
36 1 0.01
37 2 0.03
38 11 0.15
39 20 0.27
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (36 bp):
TTTCTCGTTGCGACATCATCTCGTTGCGATTTTCAT
Found at i:95502 original size:33 final size:33
Alignment explanation
Indices: 95460--95530 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
95450 AATACTAACT
*
95460 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
95493 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
95526 TGAAA
1 TGAAA
95531 TCTAAGTGAA
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:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:95764 original size:22 final size:22
Alignment explanation
Indices: 95712--95765 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
95702 TGGTTGTGAG
**
95712 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
95734 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
95756 GGATTTCTTC
1 GGATTTCTTC
95766 TCCGTAGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:95938 original size:20 final size:20
Alignment explanation
Indices: 95913--96066 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
95903 CTTTAAATAT
95913 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
95933 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
95955 -TCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
95974 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
95994 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
96014 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
96034 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
96054 CGCGTTGCGATTT
1 CGCGTTGCGATTT
96067 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.02
20 93 0.84
21 14 0.13
22 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:96040 original size:40 final size:40
Alignment explanation
Indices: 95912--96066 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
95902 GCTTTAAATA
*
95912 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * * *
95953 TATCGTTACGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
95993 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
96033 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
96067 TGGAAAATCG
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
40 65 0.69
41 29 0.31
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:96083 original size:21 final size:21
Alignment explanation
Indices: 96053--96135 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
96043 ATTTTCATAT
*
96053 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
96074 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
96095 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
96116 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
96136 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:96126 original size:42 final size:43
Alignment explanation
Indices: 96033--96131 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
96023 ATTTATGTGT
* *
96033 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
96074 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
96116 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
96132 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:99147 original size:174 final size:172
Alignment explanation
Indices: 98816--99547 Score: 858
Period size: 171 Copynumber: 4.3 Consensus size: 172
98806 CCATCTTTAT
* * * * * * *
98816 CAAACACTTAACATTCTAAAAACAA--AGAATCATTCGATCAAAATTAAATAAAAATAAGGGCAA
1 CAAACAGTTAACTTTCTAAAAAAAACCAGAATAATTCAATCGAAATTAAATAAAAATAAGGACAA
* * * ** *
98879 AA-ACCCCAAGCT-GCTAAGCATGAGAAACAACAAAAGCAAA-AAATTTTAATATCCTGAT-TAA
66 AATA--CCAAG-TAGCAAAGCATGAGAAACAACAAAAGCAAAGATA-TTCAATCCCCTGATGAAA
* * *
98940 GAACTATTCAATCAAACTCTTACAAATTCTAATAGTATGAGAAGAG
127 GAACAATTCAATCAAACTCGTACAAATTCTAATAGCATGAGAAGAG
* *
98986 CAAACAGTTAACTTTCTTAAAAAAAACCCAGAA-ACATTCAATCAAAATTAAATAAAAATAAGGG
1 CAAACAGTTAACTTTC-TAAAAAAAA-CCAGAATA-ATTCAATCGAAATTAAATAAAAATAAGGA
* * *
99050 CAAAAATCCCAAGAAGCTAAGCATGAGAAACAACAAAAGCAAAGATATTCAAT-CCCTGATGAAA
63 C-AAAATACCAAGTAGCAAAGCATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAA
* * * * *
99114 GAACCATTCCATCAAAATCGTACAAAATCTAATAGCATGAGAAGAT
127 GAACAATTCAATCAAACTCGTACAAATTCTAATAGCATGAGAAGAG
*
99160 CAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAATCGAAATT-AA-GAAAA-AAGGACA
1 CAAACAGTTAACTTTCTAAAAAAAA-CCAGAATAATTCAATCGAAATTAAATAAAAATAAGGACA
* * * *
99222 AAATAGCAAGTAGCAAATCATGAGAAACAACAATAGCAAAGATCTTCAATCCCCTGATGAAAGAA
65 AAATACCAAGTAGCAAAGCATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAA
*
99287 CAATTCAATCAAACTCGTTCAAATTCTAATAGCATGAGAAGAG
130 CAATTCAATCAAACTCGTACAAATTCTAATAGCATGAGAAGAG
* * * ** *
99330 CAAACAATTAATTTTCT-AAAAAAACCATAATAATTCAATCGAAATTAAGCAAAAAGAAGGACAA
1 CAAACAGTTAACTTTCTAAAAAAAACCAGAATAATTCAATCGAAATTAAATAAAAATAAGGACAA
* * ** * *
99394 AATAGCATGTAGCAAATAATGAAAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAAC
66 AATACCAAGTAGCAAAGCATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAAC
* * *
99459 AATTCAATCAAACTCCTACAAATTCTAATAGAATGAGAAGAT
131 AATTCAATCAAACTCGTACAAATTCTAATAGCATGAGAAGAG
*
99501 CAAAGAGTTAACTTTCTAGAAAAAAACCAGAATAATTCAATCGAAAT
1 CAAACAGTTAACTTTCTA-AAAAAAACCAGAATAATTCAATCGAAAT
99548 GAAGCAAGAA
Statistics
Matches: 494, Mismatches: 51, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
168 21 0.04
169 52 0.11
170 89 0.18
171 133 0.27
172 2 0.00
173 62 0.13
174 129 0.26
175 6 0.01
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (172 bp):
CAAACAGTTAACTTTCTAAAAAAAACCAGAATAATTCAATCGAAATTAAATAAAAATAAGGACAA
AATACCAAGTAGCAAAGCATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAAC
AATTCAATCAAACTCGTACAAATTCTAATAGCATGAGAAGAG
Found at i:99438 original size:171 final size:172
Alignment explanation
Indices: 98897--99554 Score: 866
Period size: 171 Copynumber: 3.8 Consensus size: 172
98887 AGCTGCTAAG
* * ** * * *
98897 CATGAGAAACAACAAAAGCAAAAAAT-TTTAATATCCTGAT-TAAGAACTATTCAATCAAACTCT
1 CATGAGAAACAACAAAAGC-AAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCG
*
98960 TACAAATTCTAATAGTATGAGAAGAGCAAACAGTTAACTTTCTTAAAAAAAACCCAGAA-ACATT
65 TACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTC-TAAAAAAAACCCAGAATA-ATT
* ** * ** * * *
99024 CAATCAAAATTAAATAAAAATAAGGGCAAAAATCCCAAGAAGCTAAG
128 CAATCGAAATTAAGCAAAAA-AAGGAC-AAAATAGCAAGTAGCAAAT
* * * *
99071 CATGAGAAACAACAAAAGCAAAGATATTCAAT-CCCTGATGAAAGAACCATTCCATCAAAATCGT
1 CATGAGAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* *
99135 ACAAAATCTAATAGCATGAGAAGATCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
99200 TCGAAATTAAG--AAAAAAGGACAAAATAGCAAGTAGCAAAT
131 TCGAAATTAAGCAAAAAAAGGACAAAATAGCAAGTAGCAAAT
*
99240 CATGAGAAACAACAATAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
1 CATGAGAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* * * *
99305 TCAAATTCTAATAGCATGAGAAGAGCAAACAATTAATTTTCT-AAAAAAA-CCATAATAATTCAA
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
*
99368 TCGAAATTAAGCAAAAAGAAGGACAAAATAGCATGTAGCAAAT
131 TCGAAATTAAGCAAAAA-AAGGACAAAATAGCAAGTAGCAAAT
* * *
99411 AATGAAAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCCT
1 CATGAGAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* * *
99476 ACAAATTCTAATAGAATGAGAAGATCAAAGAGTTAACTTTCTAGAAAAAAA-CCAGAATAATTCA
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTA-AAAAAAACCCAGAATAATTCA
*
99540 ATCGAAATGAAGCAA
130 ATCGAAATTAAGCAA
99555 GAAGGAGCAA
Statistics
Matches: 432, Mismatches: 43, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
168 24 0.06
169 51 0.12
170 75 0.17
171 125 0.29
173 75 0.17
174 82 0.19
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.21
Consensus pattern (172 bp):
CATGAGAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
TCGAAATTAAGCAAAAAAAGGACAAAATAGCAAGTAGCAAAT
Found at i:99512 original size:341 final size:335
Alignment explanation
Indices: 98897--99599 Score: 898
Period size: 341 Copynumber: 2.1 Consensus size: 335
98887 AGCTGCTAAG
* * * * *
98897 CATGAGAAACAACAAAAGCAAAAAATTTTAATATCCTGATTAAGAACTATTCAATCAAACTCTTA
1 CATGAGAAACAACAAAAGC-AAAGATTTCAATACCCTGATAAAGAACAATTCAATCAAACTCTTA
* *
98962 CAAATTCTAATAGTATGAGAAGAGCAAACAGTTAACTTTCTTAAAAAAAACCCAGAAACATTCAA
65 CAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTTAAAAAAAACCCAGAAACATTCAA
* * * * * * *
99027 TCAAAATTAAATAAAAATAAGGGCAAAAATCCCAAGAAGCTAAGCATGAGAAACAACAAAAGCAA
130 TCAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAGCAA
* * * *
99092 AGATATTCAATCCCTGATGAAAGAACCATTCCATCAAAATCGTACAAAATCTAATAGCATGAGAA
195 AGATATTCAATCCCTGATGAAAGAACAATTCAATCAAAATCCTACAAAATCTAATAGAATGAGAA
*
99157 GATCAAACAGTTAACTTTCTA-AAAAAAACCCAGAATAATTCAATCGAAATTAAGAAAAAAGGAC
260 GATCAAACAGTTAACTTTCTAGAAAAAAA-CCAGAATAATTCAATCGAAATGAAGAAAAAAGG--
99221 AAAATAGCAAGTAGCAAAT
322 -----AGCAAGTAGCAAAT
* *
99240 CATGAGAAACAACAATAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
1 CATGAGAAACAACAAAAGCAAAGAT-TTCAATACCCTGAT-AAAGAACAATTCAATCAAACTC-T
* *
99305 T-CAAATTCTAATAGCATGAGAAGAGCAAACAATTAATTTTC-T-AAAAAAA-CCATAATA-ATT
63 TACAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTTAAAAAAAACCCAGAA-ACATT
* * * * * *
99365 CAATCGAAATTAAGCAAAAAGAAGGAC-AAAATAGCATGTAGCAAATAATGAAAAACAACAAAAG
127 CAATCAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAG
* * *
99429 CAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCCTACAAATTCTAATAGAATG
192 CAAAGATATTCAAT-CCCTGATGAAAGAACAATTCAATCAAAATCCTACAAAATCTAATAGAATG
* * *
99494 AGAAGATCAAAGAGTTAACTTTCTAGAAAAAAACCAGAATAATTCAATCGAAATGAAGCAAGAAG
256 AGAAGATCAAACAGTTAACTTTCTAGAAAAAAACCAGAATAATTCAATCGAAATGAAGAAAAAAG
99559 GAGCAAGTAGCAAAT
321 GAGCAAGTAGCAAAT
* *
99574 AATGAGAAACAACAACAGCAAAGATT
1 CATGAGAAACAACAAAAGCAAAGATT
99600 CTTAATTTTC
Statistics
Matches: 317, Mismatches: 37, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
333 1 0.00
334 37 0.12
340 42 0.13
341 128 0.40
342 20 0.06
343 30 0.09
344 57 0.18
345 2 0.01
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (335 bp):
CATGAGAAACAACAAAAGCAAAGATTTCAATACCCTGATAAAGAACAATTCAATCAAACTCTTAC
AAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTTAAAAAAAACCCAGAAACATTCAAT
CAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAGCAAA
GATATTCAATCCCTGATGAAAGAACAATTCAATCAAAATCCTACAAAATCTAATAGAATGAGAAG
ATCAAACAGTTAACTTTCTAGAAAAAAACCAGAATAATTCAATCGAAATGAAGAAAAAAGGAGCA
AGTAGCAAAT
Found at i:100618 original size:21 final size:20
Alignment explanation
Indices: 100579--100619 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100569 TATTATCTTC
* *
100579 CTTTGTTATTTTTGACATTA
1 CTTTGTTACTTTTCACATTA
100599 CTTTGTTACTTTTCACCATTA
1 CTTTGTTACTTTTCA-CATTA
100620 AAAGTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (20 bp):
CTTTGTTACTTTTCACATTA
Found at i:101961 original size:278 final size:279
Alignment explanation
Indices: 101445--102002 Score: 1109
Period size: 278 Copynumber: 2.0 Consensus size: 279
101435 TTTCTTTTTT
101445 CTTCAATTCACTGTTTTTATCATGCTCTTCTTCAAACTTTTCCTCCACTTTCTCTCACGATACCA
1 CTTCAATTCACTGTTTTTATCATGCTCTTCTTCAAACTTTTCCTCCACTTTCTCTCACGATACCA
101510 CCTTCAACCCCCATCTTCTCCCCAGACCATTGATCATTCAATACCCAGAAGGTATCGAGACCCAG
66 CCTTCAACCCCCATCTTCTCCCCAGACCATTGATCATTCAATACCCAGAAGGTATCGAGACCCAG
101575 ATTCACGAATTCGAAGATGAGCTCAAGTTACCGTGTACGAGCTGGAGATTTTCTGTTGAAGTCAA
131 ATTCACGAATTCGAAGATGAGCTCAAGTTACCGTGTACGAGCTGGAGATTTTCTGTTGAAGTCAA
101640 CAATTTGAGTCCTTGGAAGACGATTCCCGAGGAATGTCTGGGGTATATTAAAGATTACATGACTG
196 CAATTTGAGTCCTTGGAAGACGATTCCCGAGGAATGTCTGGGGTATATTAAAGATTACATGACTG
101705 GTCGTGGCTATAAAATGGA
261 GTCGTGGCTATAAAATGGA
101724 CTTCAATTCACTGTTTTT-TCATGCTCTTCTTCAAACTTTTCCTCCACTTTCTCTCACGATACCA
1 CTTCAATTCACTGTTTTTATCATGCTCTTCTTCAAACTTTTCCTCCACTTTCTCTCACGATACCA
101788 CCTTCAACCCCCATCTTCTCCCCAGACCATTGATCATTCAATACCCAGAAGGTATCGAGACCCAG
66 CCTTCAACCCCCATCTTCTCCCCAGACCATTGATCATTCAATACCCAGAAGGTATCGAGACCCAG
101853 ATTCACGAATTCGAAGATGAGCTCAAGTTACCGTGTACGAGCTGGAGATTTTCTGTTGAAGTCAA
131 ATTCACGAATTCGAAGATGAGCTCAAGTTACCGTGTACGAGCTGGAGATTTTCTGTTGAAGTCAA
101918 CAATTTGAGTCCTTGGAAGACGATTCCCGAGGAATGTCTGGGGTATATTAAAGATTACATGACTG
196 CAATTTGAGTCCTTGGAAGACGATTCCCGAGGAATGTCTGGGGTATATTAAAGATTACATGACTG
101983 GTCGTGGCTATAAAATGGA
261 GTCGTGGCTATAAAATGGA
102002 C
1 C
102003 ATCGATAGGG
Statistics
Matches: 279, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
278 261 0.94
279 18 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (279 bp):
CTTCAATTCACTGTTTTTATCATGCTCTTCTTCAAACTTTTCCTCCACTTTCTCTCACGATACCA
CCTTCAACCCCCATCTTCTCCCCAGACCATTGATCATTCAATACCCAGAAGGTATCGAGACCCAG
ATTCACGAATTCGAAGATGAGCTCAAGTTACCGTGTACGAGCTGGAGATTTTCTGTTGAAGTCAA
CAATTTGAGTCCTTGGAAGACGATTCCCGAGGAATGTCTGGGGTATATTAAAGATTACATGACTG
GTCGTGGCTATAAAATGGA
Found at i:103642 original size:64 final size:63
Alignment explanation
Indices: 103570--103721 Score: 218
Period size: 64 Copynumber: 2.4 Consensus size: 63
103560 ACTAAGAATA
* * *
103570 CATCGATGCACAAAATGCATTCGATG-TTTCA-AACAAGTCTGAATGCATCGATGCATGGTCTGT
1 CATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAATGCATCGATGCATGGT-AGT
103633 G
63 G
* *
103634 CATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGTATCGATGCATGGTAGTG
1 CATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAATGCATCGATGCATGGTAGTG
103697 CATCGATGCATAAAATGCATTCGAT
1 CATCGATGCATAAAATGCATTCGAT
103722 ATGGTGAGTG
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
63 28 0.35
64 44 0.54
65 7 0.09
66 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (63 bp):
CATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAATGCATCGATGCATGGTAGTG
Found at i:103701 original size:18 final size:18
Alignment explanation
Indices: 103675--103742 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
103665 ATAAAACCTG
*
103675 AGTGTATCGATGCATGGT
1 AGTGCATCGATGCATGGT
**
103693 AGTGCATCGATGCAT-AA
1 AGTGCATCGATGCATGGT
*
103710 AATGCATTCGAT--ATGGT
1 AGTGCA-TCGATGCATGGT
103727 GAGTGCATCGATGCAT
1 -AGTGCATCGATGCAT
103743 CAATGAGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 24 0.63
19 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (18 bp):
AGTGCATCGATGCATGGT
Found at i:103751 original size:20 final size:20
Alignment explanation
Indices: 103726--103763 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
103716 TTCGATATGG
103726 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
103746 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
103764 CCTTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:111325 original size:20 final size:20
Alignment explanation
Indices: 111283--111325 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
111273 TATTTTCATT
* *
111283 TTTTTAATTTTGAAATATCA
1 TTTTTAATTTTGAAAAATAA
111303 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
111323 TTT
1 TTT
111326 ATCATAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:113136 original size:30 final size:30
Alignment explanation
Indices: 113100--113163 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
113090 GAAGGACCTG
* *
113100 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
113130 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
113160 TCCA
1 TCCA
113164 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:114591 original size:2 final size:2
Alignment explanation
Indices: 114586--114615 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114576 ATCCTTATTC
114586 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
114616 CATTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115003 original size:3 final size:3
Alignment explanation
Indices: 114995--115022 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
114985 TTGTACTTGG
114995 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
115023 TTCTTCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:118050 original size:30 final size:30
Alignment explanation
Indices: 118014--118077 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
118004 GAAGGACCTG
* *
118014 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
118044 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
118074 TCCA
1 TCCA
118078 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:119503 original size:2 final size:2
Alignment explanation
Indices: 119498--119535 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
119488 ATCCTTATTC
119498 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
119536 CATTATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119927 original size:3 final size:3
Alignment explanation
Indices: 119919--119958 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
119909 TTGTACTTGG
119919 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
119959 TTCTTCCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:122989 original size:30 final size:30
Alignment explanation
Indices: 122953--123016 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
122943 GAAGGACCTG
* *
122953 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
122983 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
123013 TCCA
1 TCCA
123017 TATGCTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:125637 original size:36 final size:36
Alignment explanation
Indices: 125551--125623 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
125541 GAGTACATCA
125551 ATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
1 ATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
125587 ATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
1 ATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
125623 A
1 A
125624 GTGCGTCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (36 bp):
ATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
Found at i:125650 original size:18 final size:18
Alignment explanation
Indices: 125623--125690 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
125613 ATAAAACCTG
*
125623 AGTGCGTCGATGCATGGT
1 AGTGCATCGATGCATGGT
**
125641 AGTGCATCGATGCAT-AA
1 AGTGCATCGATGCATGGT
*
125658 AATGCATTCGAT--ATGGT
1 AGTGCA-TCGATGCATGGT
125675 GAGTGCATCGATGCAT
1 -AGTGCATCGATGCAT
125691 CAATGAGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 24 0.63
19 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (18 bp):
AGTGCATCGATGCATGGT
Found at i:125699 original size:20 final size:20
Alignment explanation
Indices: 125674--125711 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
125664 TTCGATATGG
125674 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
125694 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
125712 CCTTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:130038 original size:123 final size:120
Alignment explanation
Indices: 129862--130331 Score: 572
Period size: 120 Copynumber: 3.9 Consensus size: 120
129852 ATGAATTAAC
* *
129862 TATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCGAACTGTAT
1 TATATGACCAAACAGACCCTGA-CCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTAT
129927 GACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAAT
65 GACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGA-TAA-AAAAGACTC-AAT
* * * *
129986 TATATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCGAACTATATG
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
* *
130051 ACCAAACAGACCCTGACCCAAGATGGCTCCACATT-GAGA-AAGAACAAGACTCAAT
66 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAA-AA-AAGACTCAAT
* * * *
130106 TGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGAATGAACCAGACTCGAACCGTATG
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
* * * * * * * *
130171 ATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGATAAATAAGACTCGAAC
66 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAAAAAAGACTC-AAT
* * * * * *
130227 TGTATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCAAACTGTA
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGA--TGAACCAGACTCGAACTGTA
* *
130292 TGACCAAACAGACCCTGGCCC---ATGACTCCACAATGGGGAT
64 TGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGAT
130332 GTGAACCAAA
Statistics
Matches: 302, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
120 114 0.38
121 51 0.17
122 5 0.02
123 110 0.36
124 22 0.07
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (120 bp):
TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAAAAAAGACTCAAT
Found at i:130171 original size:120 final size:121
Alignment explanation
Indices: 129864--130313 Score: 552
Period size: 123 Copynumber: 3.7 Consensus size: 121
129854 GAATTAACTA
* *
129864 TATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGG-GATGAACCAGACTCGAACTGTATG
1 TATGACCAAACAGACCCTGA-CCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATG
* *
129928 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAATTA
65 ACCAAACAGACCCTGACCCAAGATGACTCCACATTAGGGA--AA-AAAAGACTCAAATTG
* * *
129988 TATGATCAAACAGACCCTGACCCATGGCTCTACATT-GGAGATGAACCAGACTCGAACTATATGA
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
* *
130052 CCAAACAGACCCTGACCCAAGATGGCTCCACATT-GAGAAAGAACAAGACTC-AATTG
66 CCAAACAGACCCTGACCCAAGATGACTCCACATTAGGGAAA-AA-AAGACTCAAATTG
* *
130108 TATGACCAAACAGACCCTGACCCATGACTCCACATTGGGA-ATGAACCAGACTCGAACCGTATGA
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
* * * * * * * *
130172 TCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGATAAATAAGACTCGAACTG
66 CCAAACAGACCCTGACCCAAGATGACTCCACATTAGGGA-AAAAAAGACTCAAATTG
* * * * *
130229 TATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGG-GATGTGAACCAAACTCAAACTGTAT
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGA--TGAACCAGACTCGAACTGTAT
*
130293 GACCAAACAGACCCTGGCCCA
64 GACCAAACAGACCCTGACCCA
130314 TGACTCCACA
Statistics
Matches: 288, Mismatches: 29, Indels: 19
0.86 0.09 0.06
Matches are distributed among these distances:
120 98 0.34
121 54 0.19
122 7 0.02
123 109 0.38
124 20 0.07
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (121 bp):
TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
CCAAACAGACCCTGACCCAAGATGACTCCACATTAGGGAAAAAAAGACTCAAATTG
Found at i:130321 original size:61 final size:59
Alignment explanation
Indices: 129859--130364 Score: 469
Period size: 61 Copynumber: 8.3 Consensus size: 59
129849 AAGATGAATT
* * * * *
129859 AACTATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGA-CCCATGACTCCACATTGGGGATGAACCAAACTCG
* * *
129919 AACTGTATGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCA
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAAC-CAA-ACTCG
* * * * * * *
129983 AATTATATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
* * * * *
130042 AACTATATGACCAAACAGACCCTGACCCAAGATGGCTCCACATTGAGAAAGAA-CAAGACTC-
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAACCAA-ACTCG
* * *
130103 AATTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGAATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
* * * * * * * **
130162 AACCGTATGATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGAT-AAATAAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAACCAA-ACTCG
* * * * *
130224 AACTGTATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCA
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGA--TGAACCAAACTCG
* *
130285 AACTGTATGACCAAACAGACCCTGGCCCATGACTCCACAATGGGGATGTGAACCAAACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGA--TGAACCAAACTCG
*
130346 AACTGTGTGACCAAACAGA
1 AACTGTATGACCAAACAGA
130365 TGGACATATA
Statistics
Matches: 363, Mismatches: 65, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
58 23 0.06
59 71 0.20
60 24 0.07
61 128 0.35
62 87 0.24
63 1 0.00
64 29 0.08
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (59 bp):
AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
Found at i:130359 original size:243 final size:242
Alignment explanation
Indices: 129859--130364 Score: 608
Period size: 243 Copynumber: 2.1 Consensus size: 242
129849 AAGATGAATT
* * * * * *
129859 AACTATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCGAACTG
1 AACTGTATGACCAAACAGACCCTGACCCCATGACTCCACATTGGGAATGAACCAGACTCGAACCG
* * *
129924 TATGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAATTAT
66 TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
* * * * *
129989 ATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCGAACTATATGACC
131 ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGATGAACCAAACTCAAACTATATGACC
* *
130054 AAACAGACCCTGACCCAAGATGGCTCCACATTGAGAAAGAACAAGACTC
196 AAACAGACCCTGACCC-A-ATGACTCCACATGGAGAAAGAACAAGACTC
*
130103 AATTGTATGACCAAACAGACCCTGA-CCCATGACTCCACATTGGGAATGAACCAGACTCGAACCG
1 AACTGTATGACCAAACAGACCCTGACCCCATGACTCCACATTGGGAATGAACCAGACTCGAACCG
* * * * * * *
130167 TATGATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGA-TAA-ATAAGACTCGAACTGT
66 TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
* * * *
130230 ATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCAAACTGTATGA
131 ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGA--TGAACCAAACTCAAACTATATGA
* * **
130295 CCAAACAGACCCTGGCCC-ATGACTCCACAATGGGGATGTGAACCAA-ACTC
194 CCAAACAGACCCTGACCCAATGACTCCAC-ATGGAGA-AAGAA-CAAGACTC
*
130345 GAACTGTGTGACCAAACAGA
1 -AACTGTATGACCAAACAGA
130365 TGGACATATA
Statistics
Matches: 222, Mismatches: 34, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
240 9 0.04
241 51 0.23
242 10 0.05
243 130 0.59
244 22 0.10
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (242 bp):
AACTGTATGACCAAACAGACCCTGACCCCATGACTCCACATTGGGAATGAACCAGACTCGAACCG
TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGATGAACCAAACTCAAACTATATGACC
AAACAGACCCTGACCCAATGACTCCACATGGAGAAAGAACAAGACTC
Found at i:132775 original size:27 final size:27
Alignment explanation
Indices: 132737--132807 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
132727 TCAAATAATC
132737 GAATTAATTCGGTTAATCGATCGAATT
1 GAATTAATTCGGTTAATCGATCGAATT
132764 GAATTAATTCGGTTAATCGATCGAATT
1 GAATTAATTCGGTTAATCGATCGAATT
132791 GAATTAATTCGGTTAAT
1 GAATTAATTCGGTTAAT
132808 TCGGTTCGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GAATTAATTCGGTTAATCGATCGAATT
Found at i:132839 original size:21 final size:21
Alignment explanation
Indices: 132803--132848 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
132793 ATTAATTCGG
*
132803 TTAATTCGGTTCGGTTATCGAA
1 TTAATTCGGTTCGGTTAACG-A
132825 TTAATTCGG-TCGGTTAACGA
1 TTAATTCGGTTCGGTTAACGA
132845 TTAA
1 TTAA
132849 GAAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 9 0.39
22 9 0.39
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (21 bp):
TTAATTCGGTTCGGTTAACGA
Found at i:133312 original size:182 final size:183
Alignment explanation
Indices: 132927--133312 Score: 609
Period size: 183 Copynumber: 2.1 Consensus size: 183
132917 ATTAAATTTT
*
132927 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTAAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
*
132992 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
133057 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
* * * *
133110 AAATATTAAATATATTATATATAACATATGGG-TTAAGCCTAAACCATTTAAAA-TCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCTCAA-CCCAAACCATTAAAAACCCAATTAATA
* *
133173 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAA-ATTATATAAAATT
*
133238 TTTATTTTATAATTATTTATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATTAAA
* *
133293 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
133313 AATTAGAAAA
Statistics
Matches: 188, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
182 77 0.41
183 111 0.59
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
Found at i:133451 original size:15 final size:15
Alignment explanation
Indices: 133431--133459 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
133421 AAAAAAAGTT
133431 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
133446 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
133460 CGGTCAGCCA
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:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:134058 original size:27 final size:27
Alignment explanation
Indices: 134003--134058 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
133993 TCGTCATCAC
*
134003 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAGCAT
* * *
134030 CACTTTGAATTTGAAAGTCCACAGGAT
1 CACTTTGAACTTGAAACTCCACAGCAT
134057 CA
1 CA
134059 AAATCTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAGCAT
Found at i:137234 original size:21 final size:21
Alignment explanation
Indices: 137204--137268 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
137194 AATATAAATT
*
137204 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
*
137225 GTGTACCGATACACTGCTACA
1 GTGTACCGATGCACTGCTACA
137246 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
137267 GT
1 GT
137269 AATTTCAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:140193 original size:34 final size:34
Alignment explanation
Indices: 140150--140219 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
140140 TTTTTTAAAG
140150 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
1 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
*
140184 ATGATGTGATATTACCTTATAGTGTCACGTCAAC
1 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
140218 AT
1 AT
140220 CACCGTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (34 bp):
ATGATGTGATATTACCTTATAGTGCCACGTCAAC
Found at i:146942 original size:17 final size:17
Alignment explanation
Indices: 146922--146967 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
146912 ATCAACTGTG
146922 GTCAACGGTCAATGCAA
1 GTCAACGGTCAATGCAA
146939 GTCAACGGTCAATGCAA
1 GTCAACGGTCAATGCAA
146956 GTCAACGGTCAA
1 GTCAACGGTCAA
146968 CAGTCGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (17 bp):
GTCAACGGTCAATGCAA
Found at i:149236 original size:9 final size:9
Alignment explanation
Indices: 149213--149279 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
149203 TAAAGATTTA
149213 AAAAGTAAAT
1 AAAAG-AAAT
*
149223 CAAAGAAAT
1 AAAAGAAAT
149232 AAAAGAAA-
1 AAAAGAAAT
*
149240 AAGAA-AAAG
1 AA-AAGAAAT
149249 AAAAGAAAT
1 AAAAGAAAT
*
149258 AAAAAAATAT
1 AAAAGAA-AT
*
149268 AAAATAAAT
1 AAAAGAAAT
149277 AAA
1 AAA
149280 TAAATAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.15
9 29 0.60
10 12 0.25
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAGAAAT
Found at i:149271 original size:8 final size:8
Alignment explanation
Indices: 149228--149291 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
149218 TAAATCAAAG
149228 AAATAAAA
1 AAATAAAA
149236 GAAA-AAGAA
1 -AAATAA-AA
*
149245 AAAGAAAA
1 AAATAAAA
149253 GAAATAAAA
1 -AAATAAAA
*
149262 AAAT-ATA
1 AAATAAAA
*
149269 AAATAAAT
1 AAATAAAA
*
149277 AAATAAAT
1 AAATAAAA
149285 AAATAAA
1 AAATAAA
149292 TTATTTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
7 6 0.13
8 27 0.57
9 14 0.30
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:149276 original size:19 final size:19
Alignment explanation
Indices: 149230--149285 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
149220 AATCAAAGAA
*
149230 ATAAAAGAAA-AAGAAAA-
1 ATAAAAGAAATAAAAAAAT
*
149247 AGAAAAGAAATAAAAAAAT
1 ATAAAAGAAATAAAAAAAT
* *
149266 ATAAAATAAATAAATAAAT
1 ATAAAAGAAATAAAAAAAT
149285 A
1 A
149286 AATAAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 9 0.28
18 6 0.19
19 17 0.53
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
ATAAAAGAAATAAAAAAAT
Found at i:149278 original size:4 final size:4
Alignment explanation
Indices: 149254--149292 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
149244 AAAAGAAAAG
* *
149254 AAAT AAAA AAAT ATA- AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
149293 TATTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:150085 original size:16 final size:15
Alignment explanation
Indices: 150059--150089 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
150049 ATGTGTGGTC
150059 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
150074 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
150090 TCGGTCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:150245 original size:10 final size:10
Alignment explanation
Indices: 150230--150256 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
150220 GTGGACCCTG
150230 AAATAAAAAA
1 AAATAAAAAA
150240 AAATAAAAAA
1 AAATAAAAAA
150250 AAATAAA
1 AAATAAA
150257 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:150261 original size:3 final size:3
Alignment explanation
Indices: 150255--150294 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
150245 AAAAAAAATA
*
150255 AAT AAT AAT AAT AAT AAT AAT GAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
150295 GTATCATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:150312 original size:22 final size:20
Alignment explanation
Indices: 150259--150318 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
150249 AAAATAAATA
150259 ATAATAATAATAATAATGAT
1 ATAATAATAATAATAATGAT
150279 A-AATAATAATAATAATG-T
1 ATAATAATAATAATAATGAT
*
150297 ATCATAA-AATATATAAT-AT
1 ATAATAATAATA-ATAATGAT
150316 ATA
1 ATA
150319 TATTTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 6 0.17
19 28 0.80
20 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAATAATAATAATAATGAT
Found at i:150412 original size:36 final size:35
Alignment explanation
Indices: 150371--150694 Score: 234
Period size: 36 Copynumber: 8.9 Consensus size: 35
150361 TTTCCAAAAC
*
150371 TATATTATAT-AGTTTTCAAAATTTATTTTAAAATA
1 TATATTATATAAGTTTTCAAAATGT-TTTTAAAATA
***
150406 T-TA-TAT-T-AGTTAAAAAAATGTTTTTTTAAAATTA
1 TATATTATATAAGTTTTCAAAATG--TTTTTAAAA-TA
*
150440 TATATTATATAATTTTTCAAAAATGTTTTTAAAACTA
1 TATATTATATAAGTTTTC-AAAATGTTTTTAAAA-TA
* * *
150477 TATGTAATATAATTTTTCAAAAAAAATGTTTTTAAAATTA
1 TATATTATATAAGTTTTC----AAAATGTTTTTAAAA-TA
*
150517 TATATTATATAA-TTTTCCAAAAT-TTTTAAAAAACTA
1 TATATTATATAAGTTTT-CAAAATGTTTT-TAAAA-TA
* * *
150553 TATACTATATAAGTTTTCAAAATGTGTTAAAAACTA
1 TATATTATATAAGTTTTCAAAATGTTTTTAAAA-TA
* *
150589 TATATTATATAAGTTTTCAAAATATTTTAAAAACTA
1 TATATTATATAAGTTTTCAAAATGTTTTTAAAA-TA
* * *
150625 TATAATATATAAATGTTCTCAAAATGTTTTCAAAACTA
1 TATATTATAT-AA-GTTTTCAAAATGTTTTTAAAA-TA
* *
150663 TATATTATATATA-TTTT-AAAATATTTTCAAAA
1 TATATTATATA-AGTTTTCAAAATGTTTTTAAAA
150695 ACCGTATAAT
Statistics
Matches: 243, Mismatches: 28, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
32 10 0.04
33 11 0.05
34 6 0.02
35 21 0.09
36 84 0.35
37 38 0.16
38 34 0.14
39 10 0.04
40 29 0.12
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATTATATAAGTTTTCAAAATGTTTTTAAAATA
Found at i:150662 original size:74 final size:74
Alignment explanation
Indices: 150428--150707 Score: 286
Period size: 74 Copynumber: 3.8 Consensus size: 74
150418 AAAAAATGTT
* ** * *
150428 TTTTTAAAATTATATATTATATAATTTTTCAAAA-ATGTTTTTAAAACTATAT-GTAATATAATT
1 TTTTTAAAACTATATATTATATAA-TTTTCAAAATAT-TTTAAAAAACTATATAAT-ATATAAAT
* **
150491 TTTCAAAAAAAATG
63 GTTC--TCAAAATG
* *
150505 TTTTTAAAATTATATATTATATAATTTTCCAAAAT-TTTTAAAAAACTATATACTATAT-AA-GT
1 TTTTTAAAACTATATATTATATAATTTT-CAAAATATTTTAAAAAACTATATAATATATAAATGT
*
150567 TTTCAAAATG
65 TCTCAAAATG
* *
150577 TGTTAAAAACTATATATTATATAAGTTTTCAAAATATTTT-AAAAACTATATAATATATAAATGT
1 TTTTTAAAACTATATATTATATAA-TTTTCAAAATATTTTAAAAAACTATATAATATATAAATGT
150641 TCTCAAAATG
65 TCTCAAAATG
* * **
150651 TTTTCAAAACTATATATTATATATATTTT-AAAATATTTTCAAAAACCGTATAATATA
1 TTTTTAAAACTATATATTATATA-ATTTTCAAAATATTTTAAAAAACTATATAATATA
150708 CAAACTTTCA
Statistics
Matches: 177, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
72 50 0.28
73 20 0.11
74 53 0.30
75 2 0.01
76 21 0.12
77 31 0.18
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (74 bp):
TTTTTAAAACTATATATTATATAATTTTCAAAATATTTTAAAAAACTATATAATATATAAATGTT
CTCAAAATG
Found at i:150729 original size:74 final size:70
Alignment explanation
Indices: 150428--150748 Score: 270
Period size: 74 Copynumber: 4.3 Consensus size: 70
150418 AAAAAATGTT
* * * * **
150428 TTTTTAAAATTATATATTATATAATTTTTCAAAAATGTTTTTAAAACTATATGTAATATA-ATTT
1 TTTTCAAAACTATATATTATATAA-TTTTC-AAAATATTTTAAAAACTATA--TAATATATAAAT
150492 TTCAAAAAAAATG
62 TTC----AAAATG
* * * *
150505 TTTTTAAAATTATATATTATATAATTTTCCAAAAT-TTTTAAAAAACTATATACTATATAAGTTT
1 TTTTCAAAACTATATATTATATAATTTT-CAAAATATTTT-AAAAACTATATAATATATAA-ATT
150569 TCAAAATG
63 TCAAAATG
* *
150577 TGTTAAAAACTATATATTATATAAGTTTTCAAAATATTTTAAAAACTATATAATATATAAATGTT
1 TTTTCAAAACTATATATTATATAA-TTTTCAAAATATTTTAAAAACTATATAATATATAAA--TT
150642 CTCAAAATG
63 -TCAAAATG
** *
150651 TTTTCAAAACTATATATTATATATATTTT-AAAATATTTTCAAAAACCGTATAATATACAAACTT
1 TTTTCAAAACTATATATTATATA-ATTTTCAAAATATTTT-AAAAACTATATAATATATAAA-TT
*
150715 TCAAAAATCA
63 TC-AAAAT-G
*
150725 TTTTCTGAAAATTATATATTATAT
1 TTTTC--AAAACTATATATTATAT
150749 TTTGTCAAAA
Statistics
Matches: 213, Mismatches: 16, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
72 54 0.25
73 27 0.13
74 62 0.29
75 6 0.03
76 39 0.18
77 25 0.12
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (70 bp):
TTTTCAAAACTATATATTATATAATTTTCAAAATATTTTAAAAACTATATAATATATAAATTTCA
AAATG
Found at i:152069 original size:413 final size:412
Alignment explanation
Indices: 151376--152507 Score: 1675
Period size: 413 Copynumber: 2.7 Consensus size: 412
151366 CTTGCTTTGG
* * * *
151376 GCTATGTTGTAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGGTGACA
1 GCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
* * * * * * *
151439 GATAACCCTCCTAAACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
65 GACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
151504 TTGGGGGTCTTTGGCAGATAGCCATTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGC
130 TTGGGGGTCTTTGGCAGATAGCC-TTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGC
151569 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGC
194 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGC
*
151634 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
259 AAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
*
151699 AGACTTGAGTTATGTTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
324 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
151764 GGCAGATAGCTCTTCTCGACTTAA
389 GGCAGATAGCTCTTCTCGACTTAA
*
151788 GCTATGCTGCAAATGATGTGCCGTTGAGCTTAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
* *
151853 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATTATATGCCCTCGAAGCTGAGTGTAATCAAACT
66 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* *
151918 TGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTACAAATGATGTGTCGTTGAGCT
131 TGGGGGTCTTTGGCAGATAGC-CTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGCT
* *
151983 GAGCGTAGTCGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCA
195 GAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCA
152048 AATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTA
260 AATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTA
*
152113 GACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTG
325 GACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG
152178 GCAGATAGCTCTTCTCGACTTAA
390 GCAGATAGCTCTTCTCGACTTAA
**
152201 GCTATGCTGCAAATGATGTGTTGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
* * * * *
152266 ACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTAG-AGCTGAGCGTAGTCGAACT
66 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* ** * * * * *** * * *
152330 CGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGATGTGAATGATATGCCCTCGA
131 TGGGGGTCTTT-G-G-CAGAT-AGCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTG-
* * *** * * * *
152395 AGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
191 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGC
* *
152456 TGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
256 TGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
152508 TGGAAAATAG
Statistics
Matches: 653, Mismatches: 59, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
412 149 0.23
413 446 0.68
414 2 0.00
415 33 0.05
416 23 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (412 bp):
GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
TGGGGGTCTTTGGCAGATAGCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGCTG
AGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAA
ATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAG
ACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
CAGATAGCTCTTCTCGACTTAA
Found at i:152524 original size:248 final size:249
Alignment explanation
Indices: 151514--152524 Score: 1277
Period size: 248 Copynumber: 4.1 Consensus size: 249
151504 TTGGGGGTCT
* * * *
151514 TTGGCAGATAGCCATTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
* *
151579 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
66 CGAACTCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
* * * * ** * * *
151644 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAG
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAG
* * ** * * * * * ***
151708 TTATGTTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-
193 CTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * *
151762 TTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTTAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
* * * *
151827 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATTATATG
66 CGAACTCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
* * *
151892 CCCTCGAAGCTGAGTGTAATCAAACTTGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* * * *
151957 TGCTACAAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTG
196 TGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
152011 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTAGAGCTGAGCGTAG
1 TTGGCAGATAGCCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAG
* * * **
152075 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTGAATGATAT
65 TCGAACTCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* *
152139 GCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
*
152204 ATGCTGCAAATGATGTG-TTGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
195 ATGCTGCAAATGATGTGCCT-TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * *
152259 TTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCC-TTAGAGCTGAGCGTAG
1 TTGGCAGATAGCCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAG
* * * * **
152323 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGATGTGAATGATAT
65 TCGAACTCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
152387 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* *
152452 ATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
195 ATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* *
152507 TTGGAAAATAGCCCTTCT
1 TTGGCAGATAGCCCTTCT
152525 TGTCTTGAGC
Statistics
Matches: 688, Mismatches: 67, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
245 21 0.03
246 35 0.05
247 1 0.00
248 535 0.78
249 96 0.14
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (249 bp):
TTGGCAGATAGCCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
CGAACTCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:155988 original size:18 final size:19
Alignment explanation
Indices: 155948--155992 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
155938 AGTTAATGTG
155948 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
155967 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
155985 AATGCAAA
1 AATGCAAA
155993 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:156628 original size:17 final size:17
Alignment explanation
Indices: 156602--156634 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
156592 TGCAAATGAT
*
156602 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
156619 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
156635 GGTTGGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:157587 original size:20 final size:20
Alignment explanation
Indices: 157564--157614 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
157554 AAAGTAAATC
157564 AAAGAAATAAAAGAAAA-AGA
1 AAAGAAATAAAA-AAAATAGA
*
157584 AAAGAAATAAAAAAAATATA
1 AAAGAAATAAAAAAAATAGA
*
157604 AAATAAATAAA
1 AAAGAAATAAA
157615 TAAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAGAAATAAAAAAAATAGA
Found at i:157591 original size:29 final size:29
Alignment explanation
Indices: 157537--157601 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
157527 AAAGGGAAAC
** *
157537 AAGAAAT-AAAGATTAAAAAAGTAAATCA
1 AAGAAATAAAAGAAAAAAAAAGTAAATAA
157565 AAGAAATAAAAGAAAAAGAAAAG-AAATAA
1 AAGAAATAAAAGAAAAA-AAAAGTAAATAA
*
157594 AAAAAATA
1 AAGAAATA
157602 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 7 0.23
29 19 0.61
30 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.12
Consensus pattern (29 bp):
AAGAAATAAAAGAAAAAAAAAGTAAATAA
Found at i:161536 original size:30 final size:30
Alignment explanation
Indices: 161500--161572 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
161490 TCCGAAGGAC
161500 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
161530 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
161560 CTATCCATAGGTC
1 CTATCCAGAGGTC
161573 CCGAAGAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Done.