Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000534.1 Hibiscus syriacus cultivar Beakdansim tig00001031_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: 114082
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:254 original size:136 final size:135
Alignment explanation
Indices: 9--285 Score: 391
Period size: 136 Copynumber: 2.0 Consensus size: 135
1 ATATAATT
* *
9 AAATTGACTAGGTTAATAATTAGAGCCTTCATCTTAGCTTAATTTCAACTTAGTCCTTAAATTTA
1 AAATTGACTAGGTTAACAA-TAGAGCCATCATCTTAGCTTAATTTCAACTTAGTCCTTAAATTTA
*
74 GAGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGTTGTTA-TTTAATTATTCGAATCAAATAA
65 GAGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGTTGCTATTTTAATTATTCGAATCAAATAA
*
138 TTGGTTA
130 -TAGTTA
*
145 AAATTGACTAGGTTAACAA-AGAG-CATCAATTTTAGGCTTAATTTCACACTTAGTCCTTAAATT
1 AAATTGACTAGGTTAACAATAGAGCCATC-ATCTTA-GCTTAATTTCA-ACTTAGTCCTTAAATT
* * * *
208 TAGTGGAATTTTTAATTTGGTCCTCGTTTTTGCTCGAGATT-CTATTTTAATTATTTGAATCAAT
63 TAGAGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAG-TTGCTATTTTAATTATTCGAATCAAA
272 TAATAGTTA
127 TAATAGTTA
281 AAATT
1 AAATT
286 AATTAGGATA
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
133 3 0.02
134 9 0.07
135 11 0.09
136 82 0.65
137 22 0.17
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (135 bp):
AAATTGACTAGGTTAACAATAGAGCCATCATCTTAGCTTAATTTCAACTTAGTCCTTAAATTTAG
AGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGTTGCTATTTTAATTATTCGAATCAAATAAT
AGTTA
Found at i:322 original size:136 final size:133
Alignment explanation
Indices: 24--323 Score: 363
Period size: 136 Copynumber: 2.2 Consensus size: 133
14 GACTAGGTTA
*
24 ATAA-TTAGAGCCTTCATCTTAGCTTAATTTCAACTTAGTCCTTAAATTTAGAGGAATTTTTAAT
1 ATAACTTAGAGCC-TCATTTTAGCTTAATTTCAACTTAGTCCTTAAATTTAGAGGAATTTTTAAT
* * *
88 TTGGTCCTCGCTTTTGCTCGAGTTGTTATTTAATTATTCGAATCAAATAATTGGTTAAAATTGAC
65 TTGGTCCTCGCTTTTGCTCGAGTTCTTATTTAATTATTCGAATCAAATAATTAGTTAAAATTAAC
153 TAGG
130 TAGG
* ** * *
157 TTAACAAAGAGCATCAATTTTAGGCTTAATTTCACACTTAGTCCTTAAATTTAGTGGAATTTTTA
1 ATAACTTAGAGCCTC-ATTTTA-GCTTAATTTCA-ACTTAGTCCTTAAATTTAGAGGAATTTTTA
* * *
222 ATTTGGTCCTCGTTTTTGCTCGAGATTC-TATTTTAATTATTTGAATCAATTAA-TAGTTAAAAT
63 ATTTGGTCCTCGCTTTTGCTCGAG-TTCTTA-TTTAATTATTCGAATCAAATAATTAGTTAAAAT
*
285 TAATTAGG
126 TAACTAGG
* * *
293 ATAATTTTAGAGCCTACATTTTTGTTTAATT
1 ATAA-CTTAGAGCCT-CATTTTAGCTTAATT
324 CATAGCTAGT
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
133 5 0.04
134 10 0.07
135 11 0.08
136 79 0.57
137 33 0.24
138 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (133 bp):
ATAACTTAGAGCCTCATTTTAGCTTAATTTCAACTTAGTCCTTAAATTTAGAGGAATTTTTAATT
TGGTCCTCGCTTTTGCTCGAGTTCTTATTTAATTATTCGAATCAAATAATTAGTTAAAATTAACT
AGG
Found at i:1733 original size:24 final size:23
Alignment explanation
Indices: 1706--1792 Score: 63
Period size: 24 Copynumber: 3.7 Consensus size: 23
1696 TCATATAATT
1706 TGCACCGAAGTGCCACGTAGAATA
1 TGCACCGAAG-GCCACGTAGAATA
* * *
1730 TGCATCGAAGGGCCACATAG-ATT
1 TGCACCGAA-GGCCACGTAGAATA
*
1753 TGTC-CCGAAGGACCACGTAGAATT
1 TG-CACCGAAGG-CCACGTAGAATA
1777 TGTC-CCGAAGGACCAC
1 TG-CACCGAAGG-CCAC
1793 ATAAAAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 15 0.28
24 36 0.67
25 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGGCCACGTAGAATA
Found at i:1761 original size:47 final size:48
Alignment explanation
Indices: 1710--1840 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 48
1700 ATAATTTGCA
* * * *
1710 CCGAAGTG-CCACGTAGAATATG-CATCGAAGGGCCACAT-AGATTTGTC
1 CCGAAG-GACCACGTAGAATATGTC-CCGAAGGACCACATAAAATTTATC
*
1757 CCGAAGGACCACGTAGAATTTGTCCCGAAGGACCACATAAAAATTTATC
1 CCGAAGGACCACGTAGAATATGTCCCGAAGGACCACAT-AAAATTTATC
* *
1806 CCGAAGGACCACGTAGAAATTTATCCCGAAGGACC
1 CCGAAGGACCACGTAG-AATATGTCCCGAAGGACC
1841 GCGTAGAACC
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.01
47 31 0.42
48 1 0.01
49 23 0.32
50 17 0.23
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (48 bp):
CCGAAGGACCACGTAGAATATGTCCCGAAGGACCACATAAAATTTATC
Found at i:1846 original size:25 final size:25
Alignment explanation
Indices: 1750--1848 Score: 146
Period size: 25 Copynumber: 4.0 Consensus size: 25
1740 GGCCACATAG
*
1750 ATTTGTCCCGAAGGACCACGTAG-A
1 ATTTATCCCGAAGGACCACGTAGAA
* * *
1774 ATTTGTCCCGAAGGACCACATAAAA
1 ATTTATCCCGAAGGACCACGTAGAA
1799 ATTTATCCCGAAGGACCACGTAGAA
1 ATTTATCCCGAAGGACCACGTAGAA
*
1824 ATTTATCCCGAAGGACCGCGTAGAA
1 ATTTATCCCGAAGGACCACGTAGAA
1849 CCCTCAACTC
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 21 0.31
25 47 0.69
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (25 bp):
ATTTATCCCGAAGGACCACGTAGAA
Found at i:7889 original size:24 final size:24
Alignment explanation
Indices: 7857--7930 Score: 112
Period size: 24 Copynumber: 3.0 Consensus size: 24
7847 TGCCACATAG
*
7857 ATTTGTCCCGAAGGACTGCGTAGA
1 ATTTGTCCCGAAGGACCGCGTAGA
* *
7881 ATTTTTCCCGAAGGACCACGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAG-A
7906 ATTTGTCCCGAAGGACCGCGTAGA
1 ATTTGTCCCGAAGGACCGCGTAGA
7930 A
1 A
7931 CCTTAACTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (24 bp):
ATTTGTCCCGAAGGACCGCGTAGA
Found at i:7914 original size:25 final size:25
Alignment explanation
Indices: 7857--7930 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
7847 TGCCACATAG
*
7857 ATTTGTCCCGAAGGACTGCGTAG-A
1 ATTTGTCCCGAAGGACCGCGTAGAA
* *
7881 ATTTTTCCCGAAGGACCACGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
7906 ATTTGTCCCGAAGGACCGCGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
7931 CCTTAACTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 20 0.45
25 24 0.55
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
ATTTGTCCCGAAGGACCGCGTAGAA
Found at i:8931 original size:23 final size:24
Alignment explanation
Indices: 8900--8944 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8890 TAATTCACCC
*
8900 ATTTCACTTTAATCT-TTACCCAA
1 ATTTCACTTAAATCTCTTACCCAA
*
8923 ATTTTACTTAAATCTCTTACCC
1 ATTTCACTTAAATCTCTTACCC
8945 TTAACTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTCACTTAAATCTCTTACCCAA
Found at i:11300 original size:33 final size:34
Alignment explanation
Indices: 11263--11329 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
11253 TTTATTTTTA
* *
11263 CTTTTCTACA-CATTTGTAGTTGAAATTTGTGCT
1 CTTTTCTACATCATTTGTAATTGAAATTTATGCT
* **
11296 CTTTTCTGCATGTTTTGTAATTGAAATTTATGCT
1 CTTTTCTACATCATTTGTAATTGAAATTTATGCT
11330 TGGAAGCTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (34 bp):
CTTTTCTACATCATTTGTAATTGAAATTTATGCT
Found at i:12704 original size:28 final size:29
Alignment explanation
Indices: 12626--12702 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
12616 TTTTCTCTTC
12626 TATTTTATTCACTGAACTTTAAAAGTTTTT
1 TATTTT-TTCACTGAACTTTAAAAGTTTTT
* *
12656 AATTTTTTCACTAAACTTTAAAAGTTTTT
1 TATTTTTTCACTGAACTTTAAAAGTTTTT
*
12685 TATTTTTCCACTGAACTT
1 TATTTTTTCACTGAACTT
12703 AATACATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTTTTTCACTGAACTTTAAAAGTTTTT
Found at i:16395 original size:27 final size:27
Alignment explanation
Indices: 16364--16417 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16354 ATTCCTAATG
*
16364 TAATT-TTTGATATTTTTTAAATAAAAT
1 TAATTGTTT-ATATTTTTTAAAAAAAAT
*
16391 TAATTGTTTCTATTTTTTAAAAAAAAT
1 TAATTGTTTATATTTTTTAAAAAAAAT
16418 ATAGATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (27 bp):
TAATTGTTTATATTTTTTAAAAAAAAT
Found at i:16521 original size:39 final size:39
Alignment explanation
Indices: 16478--16557 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
16468 CAGATTTGTT
16478 GTTACGCAGATATAATAAATGTCATTGTATCAGTTGAAA
1 GTTACGCAGATATAATAAATGTCATTGTATCAGTTGAAA
16517 GTTACGCAGATATAATAAATGTCATTGTATCAGTTGAAA
1 GTTACGCAGATATAATAAATGTCATTGTATCAGTTGAAA
16556 GT
1 GT
16558 CAAAGAAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (39 bp):
GTTACGCAGATATAATAAATGTCATTGTATCAGTTGAAA
Found at i:16827 original size:38 final size:37
Alignment explanation
Indices: 16781--17070 Score: 227
Period size: 38 Copynumber: 7.7 Consensus size: 37
16771 AATATAGTAT
16781 AGTTTTTGAAAACATATAATATATAGTTTTTAGAAAAC
1 AGTTTTTGAAAACATATAATATATAGTTTTTA-AAAAC
*
16819 AGTTTTTGAAAGCATATAATATATAGTTTTTTAAAAATC
1 AGTTTTTGAAAACATATAATATATAG-TTTTTAAAAA-C
* * * * *
16858 GGTTTTTGAAAATATAT-ATA-ACATGGTTTTGAAAAC
1 AGTTTTTGAAAACATATAATATATA-GTTTTTAAAAAC
* * *
16894 ACGTTTTTGAAAACGTATAATATATAATTTTGAAAATAC
1 A-GTTTTTGAAAACATATAATATATAGTTTTTAAAA-AC
** *
16933 A-TTTTTGAAAATGTATAATATATAATGTTTTAAAAAC
1 AGTTTTTGAAAACATATAATATATAGT-TTTTAAAAAC
* * *
16970 GGATTTTGAAAACGTATATAATATA-A--TTTTGAAAAC
1 AGTTTTTGAAAAC--ATATAATATATAGTTTTTAAAAAC
* *
17006 A-TATTTTAAAAACATATATAGATATAGTTATTT-AAAAC
1 AGT-TTTTGAAAACATATA-ATATATAGTT-TTTAAAAAC
* *
17044 AATTTTTAAAAACATATATAATATATA
1 AGTTTTTGAAAAC--ATATAATATATA
17071 TATAATTTTT
Statistics
Matches: 205, Mismatches: 27, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
34 5 0.02
35 4 0.02
36 20 0.10
37 50 0.24
38 75 0.37
39 37 0.18
40 14 0.07
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (37 bp):
AGTTTTTGAAAACATATAATATATAGTTTTTAAAAAC
Found at i:16900 original size:37 final size:36
Alignment explanation
Indices: 16782--17006 Score: 120
Period size: 37 Copynumber: 6.0 Consensus size: 36
16772 ATATAGTATA
* * *
16782 GTTTTTGAAAACATATAATATATAGTTTTTAGAAAACA-
1 GTTTTTGAAAATATAT-ATACATA-ATTTT-GAAAACAC
* * *
16820 GTTTTTGAAAGCATATA-ATATATAGTTTTTTAAAA-ATC
1 GTTTTTGAAA--ATATATATACATA-ATTTTGAAAACA-C
**
16858 GGTTTTTGAAAATATATATAACATGGTTTTGAAAACAC
1 -GTTTTTGAAAATATATAT-ACATAATTTTGAAAACAC
* *
16896 GTTTTTGAAAACGTATA-ATATATAATTTTGAAAATAC
1 GTTTTTGAAAA--TATATATACATAATTTTGAAAACAC
* * * *
16933 ATTTTTGAAAATGTATAATATATAATGTTTTAAAA-AC
1 GTTTTTGAAAATATAT-ATACATAAT-TTTGAAAACAC
* *
16970 GGATTTTGAAAACGTATATA-ATATAATTTTGAAAACA
1 -GTTTTTGAAAA--TATATATACATAATTTTGAAAACA
17007 TATTTTAAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
35 3 0.02
36 1 0.01
37 62 0.41
38 60 0.39
39 19 0.12
40 8 0.05
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (36 bp):
GTTTTTGAAAATATATATACATAATTTTGAAAACAC
Found at i:17116 original size:43 final size:41
Alignment explanation
Indices: 16990--17123 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 41
16980 AACGTATATA
16990 ATATAA-TTTTGAAAACATATTTTAAAAACAT-ATATA-G-
1 ATATAATTTTTGAAAACATATTTTAAAAACATAATATATGT
* *
17027 ATATAGTTATTT-AAAACA-ATTTTTAAAAACATATATAATATAT
1 ATATAATT-TTTGAAAACATA-TTTTAAAAACATA-AT-ATATGT
*
17070 ATATAATTTTTGAAAACATATTTTAAAAAAAATAATATATGTT
1 ATATAATTTTTGAAAACATATTTT-AAAAACATAATATATG-T
17113 ATATAATTTTT
1 ATATAATTTTT
17124 TTATTATATA
Statistics
Matches: 80, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
37 6 0.08
38 19 0.24
39 3 0.04
40 2 0.03
41 3 0.04
42 7 0.09
43 31 0.39
44 9 0.11
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (41 bp):
ATATAATTTTTGAAAACATATTTTAAAAACATAATATATGT
Found at i:17125 original size:45 final size:43
Alignment explanation
Indices: 16984--17123 Score: 120
Period size: 38 Copynumber: 3.4 Consensus size: 43
16974 TTTGAAAACG
*
16984 TATATAATATAA-TTTTGAAAACATATTTT-AAAAACATATATAGA
1 TATAT-ATATAATTTTTGAAAACA-ATTTTAAAAAAAATATATA-A
* * *
17028 TATA-GT-T-A--TTT-AAAACAATTTTTAAAAACATATATAA
1 TATATATATAATTTTTGAAAACAATTTTAAAAAAAATATATAA
17065 TATATATATAATTTTTGAAAACATATTTTAAAAAAAATA-AT-A
1 TATATATATAATTTTTGAAAACA-ATTTTAAAAAAAATATATAA
*
17107 TATGTTATATAATTTTT
1 TAT-ATATATAATTTTT
17124 TTATTATATA
Statistics
Matches: 82, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
37 10 0.12
38 20 0.24
39 4 0.05
40 2 0.02
41 1 0.01
42 8 0.10
43 20 0.24
44 17 0.21
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (43 bp):
TATATATATAATTTTTGAAAACAATTTTAAAAAAAATATATAA
Found at i:17131 original size:14 final size:16
Alignment explanation
Indices: 17111--17175 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
17101 ATAATATATG
*
17111 TTATATAATT-TTTTTA
1 TTATAT-ATTATTTATA
17127 TTATATATTATTTATA
1 TTATATATTATTTATA
*
17143 TTAT-TA-TATATTATT
1 TTATATATTAT-TTATA
17158 TTATAT-TTATTTAT-
1 TTATATATTATTTATA
17172 TTAT
1 TTAT
17176 TTAATTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.16
15 17 0.40
16 19 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATATTATTTATA
Found at i:17148 original size:19 final size:20
Alignment explanation
Indices: 17123--17182 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 20
17113 ATATAATTTT
17123 TTTATTATATATTATTTATA
1 TTTATTATATATTATTTATA
17143 -TTATTATATATTATTTTATA
1 TTTATTATATATTA-TTTATA
17163 TTTATT-TAT-TTATTTA-A
1 TTTATTATATATTATTTATA
17180 TTT
1 TTT
17183 TATTTTTCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.11
18 4 0.11
19 16 0.42
20 9 0.24
21 5 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTATATATTATTTATA
Found at i:17152 original size:10 final size:9
Alignment explanation
Indices: 17111--17178 Score: 68
Period size: 10 Copynumber: 7.3 Consensus size: 9
17101 ATAATATATG
*
17111 TTATATAAT
1 TTATATTAT
*
17120 TT-TTTTAT
1 TTATATTAT
17128 TATATATTAT
1 T-TATATTAT
17138 TTATATTAT
1 TTATATTAT
17147 TATATATTATT
1 T-TATATTA-T
17158 TTATATTTAT
1 TTATA-TTAT
17168 TTAT-TTAT
1 TTATATTAT
17176 TTA
1 TTA
17179 ATTTTATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 12 0.24
9 12 0.24
10 22 0.43
11 5 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATATTAT
Found at i:17170 original size:4 final size:4
Alignment explanation
Indices: 17118--17178 Score: 52
Period size: 4 Copynumber: 14.2 Consensus size: 4
17108 ATGTTATATA
* *
17118 ATTT TTTT ATTAT ATATT ATTT ATATT ATTAT ATATT ATTT -TAT ATTT
1 ATTT ATTT ATT-T AT-TT ATTT AT-TT ATT-T AT-TT ATTT ATTT ATTT
17166 ATTT ATTT ATTT A
1 ATTT ATTT ATTT A
17179 ATTTTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 2 0.04
4 27 0.57
5 16 0.34
6 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:17184 original size:6 final size:5
Alignment explanation
Indices: 17122--17188 Score: 50
Period size: 5 Copynumber: 13.8 Consensus size: 5
17112 TATATAATTT
* * * * *
17122 TTTTA TTATA TATTA -TTTA TATTA TTATA TATTA TTTTA TATTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
*
17171 -TTTA TTTAA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
17189 TCAGGTCCAA
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
4 11 0.23
5 32 0.68
6 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:17185 original size:29 final size:31
Alignment explanation
Indices: 17111--17188 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
17101 ATAATATATG
* *
17111 TTATATAATTTTTTTATTATATATTATTTATA
1 TTATTTAATTTTATT-TTATATATTATTTATA
*
17143 TTA-TTATATATTATTTTATAT-TTATTTAT-
1 TTATTTA-ATTTTATTTTATATATTATTTATA
17172 TTATTTAATTTTATTTT
1 TTATTTAATTTTATTTT
17189 TCAGGTCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 12 0.30
30 11 0.28
31 8 0.20
32 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (31 bp):
TTATTTAATTTTATTTTATATATTATTTATA
Found at i:20749 original size:22 final size:22
Alignment explanation
Indices: 20697--20749 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
20687 AACAATCGAA
*
20697 AAACATG-CTAAAAGACATAGAT
1 AAACATGTC-AAAAGACAAAGAT
*
20719 AAACGTGTCAAAAGACAAAGA-
1 AAACATGTCAAAAGACAAAGAT
20740 AAATCATGTC
1 AAA-CATGTC
20750 CATAAAGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 22 0.85
23 1 0.04
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (22 bp):
AAACATGTCAAAAGACAAAGAT
Found at i:28221 original size:26 final size:26
Alignment explanation
Indices: 28191--28255 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
28181 GAACCACATA
28191 CAAGGCACATGGGGGCTAATCATATG
1 CAAGGCACATGGGGGCTAATCATATG
*
28217 CAAGGCACATGGGGGCTAATTATATG
1 CAAGGCACATGGGGGCTAATCATATG
*
28243 CAAAGCACATGGG
1 CAAGGCACATGGG
28256 TGTTCTAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.18
Consensus pattern (26 bp):
CAAGGCACATGGGGGCTAATCATATG
Found at i:37096 original size:12 final size:12
Alignment explanation
Indices: 37065--37099 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37055 ATGTATCATA
37065 ATTTTCAAACATT
1 ATTTTCAAA-ATT
*
37078 GTTTTCAAAATT
1 ATTTTCAAAATT
37090 ATTTTCAAAA
1 ATTTTCAAAA
37100 ATTGCCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (12 bp):
ATTTTCAAAATT
Found at i:37100 original size:13 final size:13
Alignment explanation
Indices: 37065--37102 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
37055 ATGTATCATA
*
37065 ATTTTCAAACATT
1 ATTTTCAAAAATT
*
37078 GTTTTC-AAAATT
1 ATTTTCAAAAATT
37090 ATTTTCAAAAATT
1 ATTTTCAAAAATT
37103 GCCCATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTTTCAAAAATT
Found at i:38784 original size:13 final size:13
Alignment explanation
Indices: 38762--38795 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
38752 AGTAATTTTC
38762 ATTTTCAAAAATG
1 ATTTTCAAAAATG
38775 A-TTTCAAAAATG
1 ATTTTCAAAAATG
38787 ATTTTCAAA
1 ATTTTCAAA
38796 TAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:41547 original size:3 final size:3
Alignment explanation
Indices: 41539--41584 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
41529 TTAATCCGAG
41539 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
41585 ATATTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42070 original size:21 final size:21
Alignment explanation
Indices: 41979--42074 Score: 83
Period size: 21 Copynumber: 4.5 Consensus size: 21
41969 GGTTAAGACC
41979 TTTCGATGAAAGGACTTAATC-
1 TTTC-ATGAAAGGACTTAATCT
*
42000 TTTCAATTAAAGGACTT-ATCCT
1 TTTC-ATGAAAGGACTTAAT-CT
* *
42022 TTTCATGAAA-AATGCTTAACCT
1 TTTCATGAAAGGA--CTTAATCT
*
42044 TTTCATGAAAGGATTTAATCT
1 TTTCATGAAAGGACTTAATCT
42065 TTTCAT-AAAG
1 TTTCATGAAAG
42075 AGAATTGTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
20 7 0.11
21 33 0.54
22 19 0.31
23 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTCATGAAAGGACTTAATCT
Found at i:42589 original size:30 final size:31
Alignment explanation
Indices: 42526--42591 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
42516 TACACCACTG
42526 TTACTATTGTGTTCATCCCATTGTAAGGTACT
1 TTACTATTGTGTTCATCCCATTGT-AGGTACT
*
42558 TTACTATTGTGTTCATCCCATTGT-TGTACT
1 TTACTATTGTGTTCATCCCATTGTAGGTACT
42588 TTAC
1 TTAC
42592 GAGATAGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 9 0.27
32 24 0.73
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
TTACTATTGTGTTCATCCCATTGTAGGTACT
Found at i:48173 original size:228 final size:226
Alignment explanation
Indices: 47771--48218 Score: 781
Period size: 228 Copynumber: 2.0 Consensus size: 226
47761 GTAAATTATC
* * *
47771 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
47836 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTT
47901 TGTGTAAATGAAATTATTAAATTAATATTGTAGGAGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGAGGAAAACATGAAACACTATTAAAAAAATTG
47966 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
47999 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
48064 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAATATAA-TT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAA-ATAATTT
* * *
48128 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGGAAAACATGAAACACTATTAAAAAAATT
48193 GAAACATAAATTACATAACTTTAAAA
194 GAAACATAAATTACATAACTTTAAAA
48219 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 4 0.02
228 122 0.58
229 80 0.38
230 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGAGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:48323 original size:19 final size:19
Alignment explanation
Indices: 48269--48327 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
48259 TATATCGATC
* *
48269 CAAAACGATATACCAGGTAA
1 CAAAATGATAAACC-GGTAA
48289 -AAATATGATAAAACCGGTAA
1 CAAA-ATGAT-AAACCGGTAA
48309 CAAAATGATAAACCGGTAA
1 CAAAATGATAAACCGGTAA
48328 ATTTAAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 13 0.38
20 14 0.41
21 7 0.21
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (19 bp):
CAAAATGATAAACCGGTAA
Found at i:48473 original size:20 final size:19
Alignment explanation
Indices: 48450--48496 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
48440 CGATATAACA
48450 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
48470 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
48490 GGTAAAA
1 GGTAAAA
48497 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:48498 original size:17 final size:18
Alignment explanation
Indices: 48454--48501 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
48444 ATAACAGGTA
48454 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
48473 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
48493 -AAAATGATA
1 AAAAATGATA
48502 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:50723 original size:21 final size:21
Alignment explanation
Indices: 50676--50740 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
50666 AAGACAATCA
* *
50676 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
50698 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
50718 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
50739 AG
1 AG
50741 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:50815 original size:33 final size:33
Alignment explanation
Indices: 50773--50838 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
50763 AAATAGATGG
*
50773 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
50806 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
50839 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:52671 original size:18 final size:19
Alignment explanation
Indices: 52627--52674 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
52617 AATGTCGAGT
52627 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
52646 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
52665 T-ATTTTGTAT
1 TAATTTTGTAT
52675 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:53405 original size:198 final size:199
Alignment explanation
Indices: 52794--54753 Score: 3742
Period size: 199 Copynumber: 9.9 Consensus size: 199
52784 CAATATGGCC
* *
52794 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
52859 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
52924 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
52989 TGGAA
195 TGGAA
52994 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
53059 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
53124 AATATGTCTAAATAATGTGTCGACACTAATATAGTATGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53189 GGAA
196 GGAA
*
53193 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
53258 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
53322 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53387 GGAA
196 GGAA
53391 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
53456 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
53521 AATATGTC-AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAAAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53585 GGAA
196 GGAA
*
53589 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
53654 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
53719 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53784 GGAA
196 GGAA
53788 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
53852 C-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
53915 AATATGTCTAAATAAGGTGTCGACACTAATATAG-TTGTGTCGATAC-TTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53978 GGAA
196 GGAA
*
53982 AACAAGGTGCACCCAT-AAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54044 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54109 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
54174 GGAA
196 GGAA
54178 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54243 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
54308 AATATGTCTAAATAAGGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
54373 GGAA
196 GGAA
*
54377 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
54442 CAAAAGTATATTGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54507 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
54572 GGAA
196 GGAA
54576 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54641 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54706 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
54754 AATTTAAATA
Statistics
Matches: 1731, Mismatches: 20, Indels: 19
0.98 0.01 0.01
Matches are distributed among these distances:
192 13 0.01
193 54 0.03
194 111 0.06
195 24 0.01
196 111 0.06
197 39 0.02
198 436 0.25
199 909 0.53
200 34 0.02
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAA
Found at i:53684 original size:397 final size:398
Alignment explanation
Indices: 52794--54753 Score: 3769
Period size: 397 Copynumber: 4.9 Consensus size: 398
52784 CAATATGGCC
* * *
52794 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGATC
52859 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
52924 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
52989 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
53054 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
53119 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTATGTGTCGATACTTTTTTCCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
53184 TGAATGGAA
390 TGAATGGAA
53193 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
53258 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
53322 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53387 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
53452 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
53517 AGAGAATATGTC-AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAAAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAAT
53581 GAATGGAA
391 GAATGGAA
53589 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
53654 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
53719 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
53784 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
53848 AACCC-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
53911 AGAGAATATGTCTAAATAAGGTGTCGACACTAATATAG-TTGTGTCGATAC-TTTTTCCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAAT
53974 GAATGGAA
391 GAATGGAA
53982 AACAAGGTGCACCCAT-AAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
54044 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54109 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
54174 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
54239 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
54304 AGAGAATATGTCTAAATAAGGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAAT
54369 GAATGGAA
391 GAATGGAA
54377 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
*
54442 CAAAAGTATATTGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54507 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
54572 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
54637 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
54702 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
54754 AATTTAAATA
Statistics
Matches: 1542, Mismatches: 9, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
390 182 0.12
391 45 0.03
392 39 0.03
393 111 0.07
394 73 0.05
395 82 0.05
396 194 0.13
397 408 0.26
398 374 0.24
399 34 0.02
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (398 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGATCC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAAT
GAATGGAA
Found at i:56233 original size:3 final size:3
Alignment explanation
Indices: 56225--56299 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
56215 TGAAGCTGAC
* * * ** * *
56225 GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
56273 GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
56300 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:57827 original size:182 final size:183
Alignment explanation
Indices: 57494--58004 Score: 884
Period size: 182 Copynumber: 2.8 Consensus size: 183
57484 CAAAGTTTTC
* * * *
57494 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
57559 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
57622 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
57678 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
57743 -AAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
57807 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
57860 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
57925 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
57990 AACCGGTATAAAAAT
131 AACCGGTATAAAAAT
58005 GTGTCGATAC
Statistics
Matches: 313, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
182 160 0.51
183 89 0.28
184 61 0.19
185 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:58676 original size:183 final size:183
Alignment explanation
Indices: 58361--58842 Score: 883
Period size: 183 Copynumber: 2.6 Consensus size: 183
58351 AATAAAATAG
* *
58361 GTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAA
1 GTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA-TTTACACATCGGAA
* *
58426 CCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
65 CCCATATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAG
58491 CGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTAT
130 CGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTAT
58545 GTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAAC
1 GTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAAC
58610 CCATATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGC
66 CCATATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGC
*
58675 GAATAGGTCTACAACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTAT
131 GAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTAT
*
58728 GTTCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAAC
1 GTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAAC
* *
58793 CCAGATTTATAACGTAATAGATAATTTTGTAATATAACCGGTATAAAAAT
66 CCATATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAAAT
58843 GTGTCGATAC
Statistics
Matches: 290, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 242 0.83
184 48 0.17
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (183 bp):
GTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAAC
CCATATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTAT
Found at i:58871 original size:22 final size:23
Alignment explanation
Indices: 58838--58880 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
58828 AACCGGTATA
58838 AAAATGTGTCGATACCTTTTTAT
1 AAAATGTGTCGATACCTTTTTAT
*
58861 AAAA-GTGTCGATACTTTTTT
1 AAAATGTGTCGATACCTTTTT
58881 CACTGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (23 bp):
AAAATGTGTCGATACCTTTTTAT
Found at i:59342 original size:837 final size:838
Alignment explanation
Indices: 57535--59427 Score: 3611
Period size: 838 Copynumber: 2.3 Consensus size: 838
57525 TCCAGAATGA
* ** * * *
57535 AAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTT
1 AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATT--TTACACATCGGAACCCATAATT
57598 ATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGT
64 ATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGT
57663 CTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAAT
129 CTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAAT
57728 GTGTCGATACCATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAG
194 GTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAG
57792 ATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTA
259 ATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTA
57857 TCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCA
324 TCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCA
*
57922 TTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
389 TTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAACGTAATAGATAATTTTGTAA
57987 TATAACCGGTATAAAAATGTGTCGATACCTTTTTATAAAGTGTCGATACTTTTTTCACTGTGGAA
454 TATAACCGGTATAAAAATGTGTCGATACCTTTTTATAAAGTGTCGATACTTTTTTCACTGTGGAA
58052 AACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCT
519 AACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCT
58117 AATGATTAATTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTTAATATTATTTTAT
584 AATGATTAATTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTTAATATTATTTTAT
58182 AAAATATCAAAACACTCAACTAATTTTTTGTGCAAATCAAATTATTAAATTAATATTGTAGGTGG
649 AAAATATCAAAACACTCAACTAATTTTTTGTGCAAATCAAATTATTAAATTAATATTGTAGGTGG
58247 AAAACATGAAACATACTTAAAAAATATTGAAACATAAATTACATATCTTTAAAAAAAAGTATCGA
714 AAAACATGAAACATACTTAAAAAATATTGAAACATAAATTACATATCTTTAAAAAAAAGTATCGA
58312 TCCTTTTTATAAAAAGTATGGACACTTTCAACATATTATAATAAAATAGGTCCATATTGG
779 TCCTTTTTATAAAAAGTATGGACACTTTCAACATATTATAATAAAATAGGTCCATATTGG
58372 AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTAT
1 AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTAT
58437 AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT
66 AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT
58502 ACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGT
131 ACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGT
58567 GTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGAT
196 GTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGAT
58632 AATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATC
261 AATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATC
58697 GACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATT
326 GACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATT
58762 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAACGTAATAGATAATTTTGTAATA
391 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAACGTAATAGATAATTTTGTAATA
58827 TAACCGGTATAAAAATGTGTCGATACCTTTTTATAAAAGTGTCGATACTTTTTTCACTGTGGAAA
456 TAACCGGTATAAAAATGTGTCGATACCTTTTTAT-AAAGTGTCGATACTTTTTTCACTGTGGAAA
58892 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
520 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
58957 ATGATTAATTTTTTACGTTACGGTATATA-TATTATTAAATT-AAAATTCTTAATATTATTTTAT
585 ATGATTAA-TTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTTAATATTATTTTAT
59020 AAAATATCAAAACACTCAACTAATTTTTTGTGCAAATCAAATTATTAAATTAATATTGTAGGTGG
649 AAAATATCAAAACACTCAACTAATTTTTTGTGCAAATCAAATTATTAAATTAATATTGTAGGTGG
59085 AAAACATGAAACATACTTAAAAAATATTGAAACATAAATTACATATCTTTAAAAAAAAGTATCGA
714 AAAACATGAAACATACTTAAAAAATATTGAAACATAAATTACATATCTTTAAAAAAAAGTATCGA
59150 TCCTTTTTATAAAAAGTATGGACACTTTCAACATA-TATAATAAAATAGGTCCATATTGG
779 TCCTTTTTATAAAAAGTATGGACACTTTCAACATATTATAATAAAATAGGTCCATATTGG
59209 AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTAT
1 AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTAT
59274 AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT
66 AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT
* * *
59339 ACAACCTATATCGACACTTTATAATGTTGTGTCGGTACTTTATGTCCAGATTGGAA-TAAAATGT
131 ACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGT
59403 GTCGATACCATTTAAAAAAGTGTCG
196 GTCGATACCATTTAAAAAAGTGTCG
59428 GTAATTTGAA
Statistics
Matches: 1041, Mismatches: 10, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
836 32 0.03
837 405 0.39
838 466 0.45
839 118 0.11
840 20 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (838 bp):
AAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTAT
AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCT
ACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGT
GTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGAT
AATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATC
GACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATT
TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAACGTAATAGATAATTTTGTAATA
TAACCGGTATAAAAATGTGTCGATACCTTTTTATAAAGTGTCGATACTTTTTTCACTGTGGAAAA
CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAA
TGATTAATTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTTAATATTATTTTATAA
AATATCAAAACACTCAACTAATTTTTTGTGCAAATCAAATTATTAAATTAATATTGTAGGTGGAA
AACATGAAACATACTTAAAAAATATTGAAACATAAATTACATATCTTTAAAAAAAAGTATCGATC
CTTTTTATAAAAAGTATGGACACTTTCAACATATTATAATAAAATAGGTCCATATTGG
Found at i:62031 original size:23 final size:23
Alignment explanation
Indices: 62000--62063 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
61990 ATAGGTAAAC
*
62000 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
62023 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
62046 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
62064 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:62070 original size:23 final size:23
Alignment explanation
Indices: 62000--62072 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
61990 ATAGGTAAAC
* **
62000 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
62023 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
62046 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
62069 ATAT
1 ATAT
62073 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:62461 original size:23 final size:23
Alignment explanation
Indices: 62430--62493 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
62420 ATAGGTAAAC
*
62430 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
62453 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
62476 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
62494 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:62500 original size:23 final size:23
Alignment explanation
Indices: 62430--62502 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
62420 ATAGGTAAAC
* **
62430 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
62453 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
62476 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
62499 ATAT
1 ATAT
62503 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:62801 original size:25 final size:25
Alignment explanation
Indices: 62767--62817 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
62757 ACAACAAATC
*
62767 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
62792 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
62817 A
1 A
62818 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:63401 original size:39 final size:39
Alignment explanation
Indices: 63358--63483 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
63348 TCCGATGCTC
* *
63358 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
63397 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
63436 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
63475 ATCAAAATC
1 ATCAAAATC
63484 TACAACTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:63917 original size:23 final size:23
Alignment explanation
Indices: 63886--63949 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
63876 ATAGGTAAAC
*
63886 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
63909 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
63932 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
63950 TGATTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:63956 original size:23 final size:23
Alignment explanation
Indices: 63886--63958 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
63876 ATAGGTAAAC
* ***
63886 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGATT
*
63909 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GATT
63932 ATATAATGTAATAGGTAGTGATT
1 ATATAATGTAATAGGTAGTGATT
63955 ATAT
1 ATAT
63959 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGATT
Found at i:72303 original size:11 final size:11
Alignment explanation
Indices: 72287--72315 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
72277 TGTTATGCCC
72287 TTATATTTATT
1 TTATATTTATT
72298 TTATATTTATT
1 TTATATTTATT
72309 TTA-ATTT
1 TTATATTT
72316 TGGTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTTATT
Found at i:77507 original size:73 final size:72
Alignment explanation
Indices: 77425--78056 Score: 378
Period size: 73 Copynumber: 8.6 Consensus size: 72
77415 TTTTTTCTTA
* * *
77425 AAACAAAATTTCGTCTTCCTTGAGACAGTTTCTCTTGAAACAAAGTTTCGTTTCCCTTGAGTCAG
1 AAAC-AAATTTTGTCTTCCTTGAGACAGTTTCCCTTGAAACAAA-TTTCGTTTCCCTTGAGACAG
77490 TTTCCCTGG
64 TTTCCCTGG
* * *
77499 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAAAATTTCGTTTCCCTTGAGACAGTT
1 AAACAAATTTTGTCTTCCTTGAGACAGTTTCCCTTGAAACAAATTTCGTTTCCCTTGAGACAGTT
*
77564 TCTCTTGG
66 TC-CCTGG
**** * *
77572 AATA-AGGCATTGTCTTCCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATT
1 AA-ACAAATTTTGTCTTCCTTGAGACAGTTTCCCTTGAAACAAATTTCGTTTCCCTTGAGACAGT
* *
77636 TTCTCTTG
65 TTCCCTGG
* * * * ** * * *
77644 AAACATATTTTATC-TCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATATCGCTTGAGATAGT
1 AAACAAATTTTGTCTTC-CTTGAGACAGTTTCCCTTGAAACAAATTTCGTTTCCCTTGAGACAGT
*
77708 TT-CCTTG
65 TTCCCTGG
* * ** * *
77715 AAACAGAAGATTTTATC-TCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCTCTTGA
1 AAAC--AA-ATTTTGTCTTC-CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTCGTTTCCCTTGA
* *
77779 GATAGTTTCCCTTG
59 GACAGTTTCCCTGG
* * * * * * ** * * *
77793 AAACAGATTTTATCTTGCTTTAGATAGTTTCCCTTAAAACAGAAGATTTTATCTCACTTGAGATA
1 AAACAAATTTTGTCTTCCTTGAGACAGTTTCCCTTGAAAC--AA-ATTTCGTTTCCCTTGAGACA
*
77858 GTTTCCCTTG
63 GTTTCCCTGG
* * ** * ** * * *
77868 AAACAAATTTTATC-TCGCTTGAGATAGTTTCCCTCAAAATAGAAGATTTTATCTCGCTTGAGAT
1 AAACAAATTTTGTCTTC-CTTGAGACAGTTTCCCT-TGAA-ACAA-ATTTCGTTTCCCTTGAGAC
*
77932 AGTTTCCCTTG
62 AGTTTCCCTGG
* * * * * * ** * * *
77943 AAATAGATTTT-TATCGCTCTTGAGATAGTTTCCCTTGAAACATATTTTATCTCGCTTGAGATAG
1 AAACAAATTTTGTCT-TC-CTTGAGACAGTTTCCCTTGAAACAAATTTCGTTTCCCTTGAGACAG
*
78007 TTTCCCTTG
64 TTTCCCTGG
* * *
78016 AAACATATTTTATC-TCGCTTGAGATAGTTTCCCTTGAAACA
1 AAACAAATTTTGTCTTC-CTTGAGACAGTTTCCCTTGAAACA
78057 TAAGATTTTA
Statistics
Matches: 480, Mismatches: 60, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
71 11 0.02
72 98 0.20
73 136 0.28
74 44 0.09
75 135 0.28
76 24 0.05
77 23 0.05
78 9 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (72 bp):
AAACAAATTTTGTCTTCCTTGAGACAGTTTCCCTTGAAACAAATTTCGTTTCCCTTGAGACAGTT
TCCCTGG
Found at i:77570 original size:109 final size:109
Alignment explanation
Indices: 77390--77684 Score: 335
Period size: 109 Copynumber: 2.7 Consensus size: 109
77380 TTTTCCTAAG
* ** * * *
77390 AACAAATTTTGTTTCAATGGAGACATTTTTTCTTAAAACAAAATTTCGTCTT-CCTTGAGACAGT
1 AACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAA-AAAATTTCGT-TTCCCTTGAGACAGT
* *
77454 TTCTCTTGAAACAAAG-TTTCGT-TTCCCTTGAGTCAGTTTCCCTGGA
64 TTCTCTTGAAACAAAGCATT-GTCTT-CCTTGAGACAGTTTCCCTGGA
*
77500 AACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAAAATTTCGTTTCCCTTGAGACAGTTT
1 AACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAAAAAATTTCGTTTCCCTTGAGACAGTTT
* * * *
77565 CTCTTGGAATAAGGCATTGTCTTCCTTGAGACAGTTTCCCTTGA
66 CTCTTGAAACAAAGCATTGTCTTCCTTGAGACAGTTTCCCTGGA
* * * ** * * *
77609 AACAAATTTCGTCTCCCTTGAGACATTTTCTCTTGAAACATATTTTATCTCGCTTGAGATAGTTT
1 AACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAAAAAATTTCGTTTCCCTTGAGACAGTTT
*
77674 CCCTTGAAACA
66 CTCTTGAAACA
77685 GATTTTATAT
Statistics
Matches: 157, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
108 2 0.01
109 120 0.76
110 35 0.22
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (109 bp):
AACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAAAAAATTTCGTTTCCCTTGAGACAGTTT
CTCTTGAAACAAAGCATTGTCTTCCTTGAGACAGTTTCCCTGGA
Found at i:77764 original size:39 final size:38
Alignment explanation
Indices: 77443--78295 Score: 855
Period size: 36 Copynumber: 22.9 Consensus size: 38
77433 TTTCGTCTTC
* * ** * *
77443 CTTGAGACAGTTTCTCTTGAAACAAAG-TTTCGTTTCC
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
* * *
77480 CTTGAG-TCAGTTTCCCTGGAAAC-AA-ATTTTGTCTCC
1 CTTGAGAT-AGTTTCCCTTGAAACAAAGATTTTATCTCG
* * ** * *
77516 CTTGAGACAGTTTCTCTTGAAA-AAA-ATTTCGTTTCC
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
* * * * * * *
77552 CTTGAGACAGTTTCTCTTGGAATAAGGCATTGTCT-TC-
1 CTTGAGATAGTTTCCCTTGAAACAAAG-ATTTTATCTCG
* ** *
77589 CTTGAGACAGTTTCCCTTGAAAC-AA-ATTTCGTCTCC
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
* * * *
77625 CTTGAGACATTTTCTCTTGAAAC--ATATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
*
77661 CTTGAGATAGTTTCCCTTGAAAC--AGATTTTATATCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
77697 CTTGAGATAGTTT-CCTTGAAACAGAAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
*
77735 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCT
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
*
77774 CTTGAGATAGTTTCCCTTGAAAC--AGATTTTATCTTG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
* * *
77810 CTTTAGATAGTTTCCCTTAAAACAGAAGATTTTATCTCA
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
77849 CTTGAGATAGTTTCCCTTGAAAC-AA-ATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
** *
77885 CTTGAGATAGTTTCCCTCAAAATAGAAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
* * *
77924 CTTGAGATAGTTTCCCTTG-AA-ATAGATTTTTATCGCT
1 CTTGAGATAGTTTCCCTTGAAACAAAGA-TTTTATCTCG
*
77961 CTTGAGATAGTTTCCCTTGAAAC--ATATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
*
77997 CTTGAGATAGTTTCCCTTGAAAC--ATATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
*
78033 CTTGAGATAGTTTCCCTTGAAACATAAGATTTTATCTCA
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
* * * *
78072 CTTGAGATAATTTCCCTCGAAACAGAAAATTTTATCTCT
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
* * **
78111 TTTGAGATAGTTTCTCTTGAAAC--AGATTTTATCTAT
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
* *
78147 CTTGAGATATTTTCCTTTGAAAC--AGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
78183 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
* *
78222 ATTGAGATAATTTCCCTTGAAACATAAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACA-AAGATTTTATCTCG
* **
78261 CTTGAGATAGTTTCACTCCAAACAAAAGATTTTAT
1 CTTGAGATAGTTTCCCTTGAAAC-AAAGATTTTAT
78296 AAAAAAACTA
Statistics
Matches: 703, Mismatches: 83, Indels: 58
0.83 0.10 0.07
Matches are distributed among these distances:
34 4 0.01
35 12 0.02
36 328 0.47
37 73 0.10
38 33 0.05
39 252 0.36
40 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (38 bp):
CTTGAGATAGTTTCCCTTGAAACAAAGATTTTATCTCG
Found at i:78284 original size:150 final size:149
Alignment explanation
Indices: 77589--78274 Score: 881
Period size: 150 Copynumber: 4.6 Consensus size: 149
77579 CATTGTCTTC
* ** * * * *
77589 CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTCGTCTCCCTTGAGACATTTTCTCTTGAAACAT-
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACATA
* *
77650 -ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATATCGCTTGAGATAGTTT-CCT
66 GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATCTAGCTTGAGATAGTTTCCCT
77713 TGAAACAGAAGATTTTATCTCG
131 TGAAAC---AGATTTTATCTCG
* *
77735 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAC--A
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACATA
* * *
77798 GATTTTATCTTGCTTTAGATAGTTTCCCTTAAAACAGAAGATTTTATCTCA-CTTGAGATAGTTT
66 GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC---AGATTTTATCT-AGCTTGAGATAGTTT
*
77862 CCCTTGAAACAAATTTTATCTCG
127 CCCTTGAAACAGATTTTATCTCG
** * *
77885 CTTGAGATAGTTTCCCTCAAAATAGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTG-AA-ATA
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACATA
* * * *
77948 GATTTTTATCGCTCTTGAGATAGTTTCCCTTGAAACATATTTTATCTCGCTTGAGATAGTTTCCC
66 GA-TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATCTAGCTTGAGATAGTTTCCC
*
78013 TTGAAACATATTTTATCTCG
130 TTGAAACAGATTTTATCTCG
* * * *
78033 CTTGAGATAGTTTCCCTTGAAACATAAGATTTTATCTCACTTGAGATAATTTCCCTCGAAACAGA
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACA-T
* ** * * * *
78098 AAATTTTATCTCTTTTGAGATAGTTTCTCTTGAAACAGATTTTATCTATCTTGAGATATTTTCCT
65 AGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATCTAGCTTGAGATAGTTTCCC
78163 TTGAAACAGATTTTATCTCG
130 TTGAAACAGATTTTATCTCG
*
78183 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGATTGAGATAATTTCCCTTGAAACATA
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACAT-
78248 AGATTTTATCTCGCTTGAGATAGTTTC
65 AGATTTTATCTCGCTTGAGATAGTTTC
78275 ACTCCAAACA
Statistics
Matches: 471, Mismatches: 51, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
146 22 0.05
148 98 0.21
149 63 0.13
150 226 0.48
151 30 0.06
152 23 0.05
153 9 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (149 bp):
CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCCCTTGAAACATA
GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGATTTTATCTAGCTTGAGATAGTTTCCCT
TGAAACAGATTTTATCTCG
Found at i:78573 original size:98 final size:98
Alignment explanation
Indices: 78298--78719 Score: 496
Period size: 98 Copynumber: 4.3 Consensus size: 98
78288 GATTTTATAA
** *
78298 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGAAAATTTTCAATGAATTTTTAAAAGGAAGC
1 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
* * *
78363 TAAACCTAATTTTTAGGGGTTTCTTGACAACTT
66 TAAGCCTAATTTTTAGGGGTTCCTAGACAACTT
* * ** *
78396 AGAAACAAAGTTTGATTTTTAGGGGTTTCTTGATGAT--TTTT-AATGAGTTTTTAAAAGGAAGC
1 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
78458 TAAGCCTAATTTTTAGGGGTTCCTAGACAACTT
66 TAAGCCTAATTTTTAGGGGTTCCTAGACAACTT
* * * *
78491 AGAAACTAAGCCTGATTTTCAGGCGTTTCTTGATGATGATTTTCAATGCGTTTTTCAAAGGAAGC
1 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
* * * * *
78556 TAAGCCTATTTTTTAGGGGTTCTTTGATAATTT
66 TAAGCCTAATTTTTAGGGGTTCCTAGACAACTT
* * *
78589 AAAAACTAAGCCTGATTTTTAGGGGTTTCTT-A--ATGATTTTCAAGGAGTTTTTAAGAGGAAGC
1 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
* ** * ** *
78651 CAAGTTTAATTTATAGGGGTTATTTGATGACAACTA
66 TAAGCCTAATTTTTAGGGGTT-CCT-A-GACAACTT
*
78687 AAAAACTAAGCTTGATTTTCAGGGGTTTCTTGA
1 AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGA
78720 CGATTATCTC
Statistics
Matches: 276, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
95 124 0.45
96 6 0.02
97 5 0.02
98 140 0.51
99 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (98 bp):
AAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
TAAGCCTAATTTTTAGGGGTTCCTAGACAACTT
Found at i:78639 original size:193 final size:196
Alignment explanation
Indices: 78297--78719 Score: 566
Period size: 193 Copynumber: 2.2 Consensus size: 196
78287 AGATTTTATA
78297 AAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGAAAATTTTCAATGAATTTTTAAAAGGAAG
1 AAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGAAAATTTTCAATGAATTTTTAAAAGGAAG
* **
78362 CTAAACCTAATTTTTAGGGGTTTCTTGACAACTTAGAAACAAAGTTTGATTTTTAGGGGTTTCTT
66 CTAAACCTAATTTTTAGGGGTTTCTTGACAACTTAAAAACAAAGCCTGATTTTTAGGGGTTTCTT
* * * * *
78427 GATGATTTTTAATGAGTTTTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTT-CCT-A-GACAAC
131 AATGATTTTCAAGGAGTTTTTAAAAGGAAGCCAAGCCTAATTTATAGGGGTTACCTGATGACAAC
78489 T
196 T
* * * ** ** *
78490 TAGAAACTAAGCCTGATTTTCAGGCGTTTCTTGATGATGATTTTCAATGCGTTTTTCAAAGGAAG
1 AAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGAAAATTTTCAATGAATTTTTAAAAGGAAG
* * * * *
78555 CTAAGCCTATTTTTTAGGGG-TTCTTTGATAATTTAAAAACTAAGCCTGATTTTTAGGGGTTTCT
66 CTAAACCTAATTTTTAGGGGTTTC-TTGACAACTTAAAAACAAAGCCTGATTTTTAGGGGTTTCT
* ** **
78619 TAATGATTTTCAAGGAGTTTTTAAGAGGAAGCCAAGTTTAATTTATAGGGGTTATTTGATGACAA
130 TAATGATTTTCAAGGAGTTTTTAAAAGGAAGCCAAGCCTAATTTATAGGGGTTACCTGATGACAA
78684 CT
195 CT
*
78686 AAAAAACTAAGCTTGATTTTCAGGGGTTTCTTGA
1 AAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGA
78720 CGATTATCTC
Statistics
Matches: 196, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
192 3 0.02
193 154 0.79
194 1 0.01
195 1 0.01
196 37 0.19
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (196 bp):
AAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGAAAATTTTCAATGAATTTTTAAAAGGAAG
CTAAACCTAATTTTTAGGGGTTTCTTGACAACTTAAAAACAAAGCCTGATTTTTAGGGGTTTCTT
AATGATTTTCAAGGAGTTTTTAAAAGGAAGCCAAGCCTAATTTATAGGGGTTACCTGATGACAAC
T
Found at i:78884 original size:36 final size:37
Alignment explanation
Indices: 78843--78923 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
78833 TGTTTCTTTG
**
78843 GAAACAAAG-TTTGTCTCCCTTGAGACAGTTTTTCTT
1 GAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCCCTT
*
78879 GAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTT
1 GAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCCCTT
78916 GAAACAAA
1 GAAACAAA
78924 ATCTTTGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 9 0.22
37 32 0.78
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (37 bp):
GAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCCCTT
Found at i:78902 original size:37 final size:36
Alignment explanation
Indices: 78843--79089 Score: 131
Period size: 36 Copynumber: 7.2 Consensus size: 36
78833 TGTTTCTTTG
**
78843 GAAACAAAGTTTGTCTCCCTTGAGACAGTTTTTCTT
1 GAAACAAAGTTTGTCTCCCTTGAGACAGTTTCCCTT
*
78879 GAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTT
1 GAAACAAAG-TTTGTCTCCCTTGAGACAGTTTCCCTT
* * * *
78916 GAAACAAA----ATCT---TTGATATC-CTTTCCCTC
1 GAAACAAAGTTTGTCTCCCTTGAGA-CAGTTTCCCTT
* *
78945 GAAACGAA-TTGTGTCTCCCTTGAGACAGTTTCTCTT
1 GAAACAAAGTT-TGTCTCCCTTGAGACAGTTTCCCTT
*
78981 GAAACACAA----ATCT---TTGAGATC-GTTTCCCTT
1 GAAACA-AAGTTTGTCTCCCTTGAGA-CAGTTTCCCTT
* **
79011 GAAACAAA-TTT-TATCCTTCTACAGACAGTTTCCCTT
1 GAAACAAAGTTTGTCTCC--CTTGAGACAGTTTCCCTT
* *
79047 GAAACGAA-TTT-TATCCCTCTGGAGACAGTTTCCCTT
1 GAAACAAAGTTTGTCTCCCT-T-GAGACAGTTTCCCTT
79083 GAAACAA
1 GAAACAA
79090 GAAATTTTAT
Statistics
Matches: 165, Mismatches: 23, Indels: 46
0.71 0.10 0.20
Matches are distributed among these distances:
29 21 0.13
30 21 0.13
31 3 0.02
32 3 0.02
33 6 0.04
34 2 0.01
35 2 0.01
36 73 0.44
37 34 0.21
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (36 bp):
GAAACAAAGTTTGTCTCCCTTGAGACAGTTTCCCTT
Found at i:79009 original size:66 final size:65
Alignment explanation
Indices: 78879--79051 Score: 206
Period size: 66 Copynumber: 2.6 Consensus size: 65
78869 AGTTTTTCTT
* * *
78879 GAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGATATCCTTTCCCT
1 GAAACAAA-TTGTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAGATCCTTTCCCT
78944 C
65 C
* * *
78945 GAAACGAATTGTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGATCGTTTCCCT
1 GAAACAAATTGTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAGATCCTTTCCCT
*
79010 T
65 C
* **
79011 GAAACAAATT-T-TATCCTTCTACAGACAGTTTCCCTTGAAAC
1 GAAACAAATTGTGTCTCC--CTTGAGACAGTTTCCCTTGAAAC
79052 GAATTTTATC
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
64 4 0.04
65 32 0.35
66 56 0.61
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (65 bp):
GAAACAAATTGTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAGATCCTTTCCCTC
Found at i:79049 original size:36 final size:36
Alignment explanation
Indices: 79002--79089 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
78992 CTTTGAGATC
*
79002 GTTTCCCTTGAAACAAATTTTATCCTTCTACAGACA
1 GTTTCCCTTGAAACAAATTTTATCCCTCTACAGACA
* **
79038 GTTTCCCTTGAAACGAATTTTATCCCTCTGGAGACA
1 GTTTCCCTTGAAACAAATTTTATCCCTCTACAGACA
79074 GTTTCCCTTGAAACAA
1 GTTTCCCTTGAAACAA
79090 GAAATTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTATCCCTCTACAGACA
Found at i:79190 original size:73 final size:74
Alignment explanation
Indices: 79069--79256 Score: 245
Period size: 73 Copynumber: 2.5 Consensus size: 74
79059 ATCCCTCTGG
*
79069 AGACAG-TTTCCCTTGAAACAAGAAATTTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTT
1 AGACAGTTTTCCCTTGAAAC-A-AAATTGTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTT
*
79133 CGTCTCGCTTA
64 CATCTCGCTTA
* * *
79144 AGACAGTTTTCCCTTGAAACAAAA-TGTATCTTACTCGAGATGGTTTTTCTTGAAACCAACTTTA
1 AGACAGTTTTCCCTTGAAACAAAATTGTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCA
*
79208 TCTCGCTTG
66 TCTCGCTTA
* *
79217 AGACAATTTTCCCTTGAAACAAGAAAATTTTATCTCACTC
1 AGACAGTTTTCCCTTGAAAC---AAAATTGTATCTCACTC
79257 AAGAGAAGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
73 62 0.63
74 3 0.03
75 7 0.07
76 17 0.17
77 10 0.10
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (74 bp):
AGACAGTTTTCCCTTGAAACAAAATTGTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCA
TCTCGCTTA
Found at i:79235 original size:37 final size:37
Alignment explanation
Indices: 79033--79236 Score: 119
Period size: 36 Copynumber: 5.5 Consensus size: 37
79023 ATCCTTCTAC
* * * * *
79033 AGACAG-TTTCCCTTGAAACGAATTTTATCCCTCTGG
1 AGACAGTTTTCCCTTGAAACCAACTTTATCTCGCTTG
* * * *
79069 AGACAG-TTTCCCTTGAAACAAGAAATTTTATCTCACTCG
1 AGACAGTTTTCCCTTGAAAC---CAACTTTATCTCGCTTG
** * * ** *
79108 AGATGGTTTT-TCTTAAAACCAACTTCGTCTCGCTTA
1 AGACAGTTTTCCCTTGAAACCAACTTTATCTCGCTTG
* * * ** *
79144 AGACAGTTTTCCCTTGAAACAAAATGTATCTTACTCG
1 AGACAGTTTTCCCTTGAAACCAACTTTATCTCGCTTG
** *
79181 AGATGGTTTT-TCTTGAAACCAACTTTATCTCGCTTG
1 AGACAGTTTTCCCTTGAAACCAACTTTATCTCGCTTG
*
79217 AGACAATTTTCCCTTGAAAC
1 AGACAGTTTTCCCTTGAAAC
79237 AAGAAAATTT
Statistics
Matches: 121, Mismatches: 41, Indels: 11
0.70 0.24 0.06
Matches are distributed among these distances:
36 63 0.52
37 31 0.26
39 24 0.20
40 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (37 bp):
AGACAGTTTTCCCTTGAAACCAACTTTATCTCGCTTG
Found at i:79754 original size:136 final size:136
Alignment explanation
Indices: 79536--79982 Score: 536
Period size: 136 Copynumber: 3.3 Consensus size: 136
79526 TAAATTGGTC
* * *
79536 AACATTTCAAAAGGAAAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAACAAGTTCATAA
1 AACATTTCAAATGGAAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAACAAGTTTATAA
* * * *
79601 TGAAAAGAGCTTCTTCGACCTATCACTCGATTCACGATATTTCAAATCAGTGACACCTCACTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCAGTGACACCTCACTTGA
79666 GGGATT
131 GGGATT
* * * * *
79672 GACATTTCAAATGCAAAGTTCATATTGAGAAGAACTCATCCGACAGAGGGAGAATACGTTTATAA
1 AACATTTCAAATGGAAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAACAAGTTTATAA
* * * *
79737 TGAGAAGAGTTTGTTCGACCTATCACTCGATTCATAACATTTCAAATCAGTGAAACCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCAGTGACACCTCACTTGA
*
79802 GGGATC
131 GGGATT
* * * * * * * * *
79808 AACGTTTCCAGTGGAGAGGTCATAATGAGAAGAACTCCTCCGACAGAGGGAGAAGAATTTTTTAA
1 AACATTTCAAATGGAAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAACAAGTTTATAA
* * * *** ** *
79873 TGAGAAGAACTTGTTTGACCTTTTGTTCGATTCATGACATTTCAAATCAGCAACACCTCACTCGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCAGTGACACCTCACTTGA
79938 GGGATT
131 GGGATT
* * *
79944 AACATTTCTAGTGGAGAA-TTCATAATGAAAAGAACTCAT
1 AACATTTCAAATGGA-AAGTTCATAATGAGAAGAACTCAT
79983 TCGTTAAGGG
Statistics
Matches: 260, Mismatches: 50, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
136 259 1.00
137 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (136 bp):
AACATTTCAAATGGAAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAACAAGTTTATAA
TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCAGTGACACCTCACTTGA
GGGATT
Found at i:80092 original size:40 final size:42
Alignment explanation
Indices: 80037--80139 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 42
80027 TTAGCTTGTT
* * * * *
80037 TCCATCGCGTAAGGAGTTGGAACATCACCGA-CTTTTCTC-A-
1 TCCATCACATAAGGAGTTGGAACAACACC-ATCATTTCGCTAG
* *
80077 TCCATCACATAAGGAGTTGGATCAACATCATCATTTCGCTAG
1 TCCATCACATAAGGAGTTGGAACAACACCATCATTTCGCTAG
80119 TCCATCACATAAGGAGTTGGA
1 TCCATCACATAAGGAGTTGGA
80140 TCAGCATTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 30 0.57
41 1 0.02
42 21 0.40
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
TCCATCACATAAGGAGTTGGAACAACACCATCATTTCGCTAG
Found at i:80477 original size:21 final size:18
Alignment explanation
Indices: 80437--80473 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
80427 ACCCGGTAGG
80437 CCACCGATTTCTCCACTA
1 CCACCGATTTCTCCACTA
80455 CCACCGATTTCTCCACTA
1 CCACCGATTTCTCCACTA
80473 C
1 C
80474 TACCTCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.46, G:0.05, T:0.27
Consensus pattern (18 bp):
CCACCGATTTCTCCACTA
Found at i:81589 original size:11 final size:11
Alignment explanation
Indices: 81573--81601 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
81563 TGTTATGCCC
81573 TTATATTTATT
1 TTATATTTATT
81584 TTATATTTATT
1 TTATATTTATT
81595 TTA-ATTT
1 TTATATTT
81602 TGGTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTTATT
Found at i:84905 original size:23 final size:23
Alignment explanation
Indices: 84861--84905 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
84851 ATGGCACTAC
*
84861 GGTACAAATCTACGCGGTACTTT
1 GGTACAAATCTACGCGGAACTTT
* *
84884 GGTACAATTCTACGTGGAACTT
1 GGTACAAATCTACGCGGAACTT
84906 CCGTGCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (23 bp):
GGTACAAATCTACGCGGAACTTT
Found at i:91247 original size:45 final size:47
Alignment explanation
Indices: 91146--91249 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 47
91136 CCATTCAATA
* *
91146 GGTATCGATACCCTCTCAAACGAAAAAGAATCACAGAATGTCATGAG
1 GGTATCGATACCCTCTCAAACGAAAAAGAATAACAGAATGTCATAAG
* ** *
91193 GGTACCGATACCCTCTTGAAC-AAAAA-ACTAACAGAATG-CAGTAAG
1 GGTATCGATACCCTCTCAAACGAAAAAGAATAACAGAATGTCA-TAAG
91238 GGTATCGATACC
1 GGTATCGATACC
91250 TCAAAGGGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
44 2 0.04
45 24 0.49
46 5 0.10
47 18 0.37
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (47 bp):
GGTATCGATACCCTCTCAAACGAAAAAGAATAACAGAATGTCATAAG
Found at i:91908 original size:23 final size:23
Alignment explanation
Indices: 91874--91931 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
91864 CATCTTATAT
*
91874 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
91897 GGCACTTTGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
91920 GGCACTTCGGTG
1 GGCACTTCGGTG
91932 TATTTATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:95571 original size:46 final size:46
Alignment explanation
Indices: 95498--95589 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
95488 ACTGGAGCTC
* * * * *
95498 TTTGAGCTATTTTAGGGATTGGTGTTGCTTGATGGATAGGGGACTG
1 TTTGAGCTATTTCAGGGACTGGCGTTGCTTGACGGACAGGGGACTG
* *
95544 TTTGAGCTGTTTCAGGGACTGGCGTTGCTTGACGGACGGGGGACTG
1 TTTGAGCTATTTCAGGGACTGGCGTTGCTTGACGGACAGGGGACTG
95590 CACTGGAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.15, C:0.12, G:0.39, T:0.34
Consensus pattern (46 bp):
TTTGAGCTATTTCAGGGACTGGCGTTGCTTGACGGACAGGGGACTG
Found at i:104356 original size:10 final size:10
Alignment explanation
Indices: 104341--104375 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
104331 CAAATATAAC
*
104341 CTAAATAAAA
1 CTAAATACAA
*
104351 CTAAATGCAA
1 CTAAATACAA
104361 CTAAATACAA
1 CTAAATACAA
104371 CTAAA
1 CTAAA
104376 GTGATGTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.03, T:0.20
Consensus pattern (10 bp):
CTAAATACAA
Done.