Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008392.1 Hibiscus syriacus cultivar Beakdansim tig00111157_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: 522134
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:992 original size:35 final size:35
Alignment explanation
Indices: 941--1010 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
931 AAATTTAAAG
941 TACAATGAGTAAAATAAAAGAGAAT-AAGTTCAGTT
1 TACAATGAGTAAAAT-AAAGAGAATAAAGTTCAGTT
* *
976 TACAGTGAGTAAAATAAAGAGAGTAAAGTTCAGTT
1 TACAATGAGTAAAATAAAGAGAATAAAGTTCAGTT
1011 ACCAAATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (35 bp):
TACAATGAGTAAAATAAAGAGAATAAAGTTCAGTT
Found at i:4860 original size:24 final size:23
Alignment explanation
Indices: 4833--4878 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4823 AAATAAAAAA
4833 ATGTGCAAAAAAACAGAGATAAAT
1 ATGT-CAAAAAAACAGAGATAAAT
* *
4857 ATGTCACAAAGACAGAGATAAA
1 ATGTCAAAAAAACAGAGATAAA
4879 CGTGCAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (23 bp):
ATGTCAAAAAAACAGAGATAAAT
Found at i:6981 original size:17 final size:17
Alignment explanation
Indices: 6959--6997 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
6949 AACGGTCAAC
6959 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6976 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6993 GGTCA
1 GGTCA
6998 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:7011 original size:9 final size:9
Alignment explanation
Indices: 6993--7072 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
6983 GGTCGGGTCG
*
6993 GGTCAGACC
1 GGTCAAACC
7002 GGTCAAACC
1 GGTCAAACC
*
7011 GGTTCGAACC
1 GG-TCAAACC
*
7021 GGTTGAAACC
1 GG-TCAAACC
7031 GGTCAAACC
1 GGTCAAACC
7040 GGTCAGAACC
1 GGTCA-AACC
*
7050 GGTTGAAAACC
1 GG-T-CAAACC
*
7061 GGTTAAACC
1 GGTCAAACC
7070 GGT
1 GGT
7073 TTCCAGCAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 29 0.48
10 23 0.38
11 7 0.12
12 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:7033 original size:29 final size:31
Alignment explanation
Indices: 6999--7073 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
6989 GTCGGGTCAG
6999 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
7028 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
7058 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
7074 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:14232 original size:7 final size:7
Alignment explanation
Indices: 14220--14250 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
14210 GTCAAAGAAA
14220 GTCAACG
1 GTCAACG
14227 GTCAACG
1 GTCAACG
14234 GTCAACG
1 GTCAACG
14241 GTCAACG
1 GTCAACG
14248 GTC
1 GTC
14251 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:14257 original size:5 final size:5
Alignment explanation
Indices: 14247--14299 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
14237 AACGGTCAAC
* *
14247 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC--G GGTCG GGTCG
14296 GGTC
1 GGTC
14300 AACGGTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:14272 original size:17 final size:17
Alignment explanation
Indices: 14252--14306 Score: 110
Period size: 17 Copynumber: 3.2 Consensus size: 17
14242 TCAACGGTCG
14252 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
14269 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
14286 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
14303 GGTC
1 GGTC
14307 AAACCGGTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:14295 original size:22 final size:22
Alignment explanation
Indices: 14240--14282 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14230 AACGGTCAAC
14240 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
14262 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
14283 AACGGTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:14324 original size:10 final size:10
Alignment explanation
Indices: 14305--14393 Score: 87
Period size: 10 Copynumber: 9.1 Consensus size: 10
14295 GGGTCAACGG
14305 TCAAACCGGT
1 TCAAACCGGT
*
14315 TCAGACCGG-
1 TCAAACCGGT
*
14324 TCAAACTGGT
1 TCAAACCGGT
*
14334 TCGAACCGGT
1 TCAAACCGGT
*
14344 TGAAACCGG-
1 TCAAACCGGT
14353 TCAAACCGG-
1 TCAAACCGGT
14362 TCAGAACCGGT
1 TCA-AACCGGT
*
14373 TGAAAACCGGT
1 T-CAAACCGGT
14384 T-AAACCGGT
1 TCAAACCGGT
14393 T
1 T
14394 TCCAGCAGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
9 27 0.41
10 29 0.44
11 9 0.14
12 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:14326 original size:19 final size:19
Alignment explanation
Indices: 14302--14393 Score: 96
Period size: 19 Copynumber: 4.7 Consensus size: 19
14292 GTCGGGTCAA
*
14302 CGGTCAAACCGGTTCAGAC
1 CGGTCAAACCGGTTCAAAC
* *
14321 CGGTCAAACTGGTTCGAAC
1 CGGTCAAACCGGTTCAAAC
*
14340 CGGTTGAAACCGG-TCAAAC
1 CGG-TCAAACCGGTTCAAAC
*
14359 CGGTCAGAACCGGTTGAAAAC
1 CGGTCA-AACCGGTT-CAAAC
*
14380 CGGTTAAACCGGTT
1 CGGTCAAACCGGTT
14394 TCCAGCAGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.03
19 33 0.55
20 16 0.27
21 9 0.15
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (19 bp):
CGGTCAAACCGGTTCAAAC
Found at i:14342 original size:29 final size:29
Alignment explanation
Indices: 14303--14392 Score: 55
Period size: 29 Copynumber: 3.1 Consensus size: 29
14293 TCGGGTCAAC
*
14303 GGTCAAACCGGTTCAG-ACCGG-TCAAACT
1 GGTCAAACCGG-TCAGAACCGGTTCAAACC
* *
14331 GGTTCGAACCGGT-TGAAACCGG-TCAAACC
1 GG-TCAAACCGGTCAG-AACCGGTTCAAACC
* *
14360 GGTCAGAACCGGTTGAAAACCGGTT-AAACC
1 GGTCA-AACCGG-TCAGAACCGGTTCAAACC
14390 GGT
1 GGT
14393 TTCCAGCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 27 0.55
30 15 0.31
31 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.18
Consensus pattern (29 bp):
GGTCAAACCGGTCAGAACCGGTTCAAACC
Found at i:16135 original size:18 final size:18
Alignment explanation
Indices: 16109--16143 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16099 TCGAAAGGAC
*
16109 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
16127 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
16144 CCGGATGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:19826 original size:19 final size:19
Alignment explanation
Indices: 19801--19883 Score: 122
Period size: 19 Copynumber: 4.6 Consensus size: 19
19791 AGGAGCCGTT
19801 TGAGCCGAGCCGTTTGA--
1 TGAGCCGAGCCGTTTGAGC
19818 --A-CCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
19834 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
19853 TGAGCCAAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
19872 TGAGCCGAGCCG
1 TGAGCCGAGCCG
19884 AGCCGCCTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
14 13 0.22
15 1 0.02
18 1 0.02
19 44 0.75
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:19878 original size:14 final size:14
Alignment explanation
Indices: 19793--19840 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
19783 GAAGCATGAG
19793 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
19807 GAGCCGTTTGAACC
1 GAGCCGTTTGAGCC
*
19821 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
19835 GAGCCG
1 GAGCCG
19841 AGCCGTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.21
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:19902 original size:38 final size:36
Alignment explanation
Indices: 19818--19905 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 36
19808 AGCCGTTTGA
*
19818 ACCGAGCCGTTTGAGCTGAGCCGAGCCGTTTGAGCTG
1 ACCGAGCCGTTTGAGCTGAGCCGAGCCG-TAGAGCTG
* *
19855 AGCCAAGCCGTTTGAGCTGAGCCGAGCCG-AGCCGCCTAG
1 A-CCGAGCCGTTTGAGCTGAGCCGAGCCGTAG-AG-CT-G
19894 ACCGAGCCGTTT
1 ACCGAGCCGTTT
19906 ACTGTTGACC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 1 0.02
37 2 0.05
38 38 0.88
39 2 0.05
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (36 bp):
ACCGAGCCGTTTGAGCTGAGCCGAGCCGTAGAGCTG
Found at i:25802 original size:10 final size:9
Alignment explanation
Indices: 25767--25865 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
25757 GCTGCTGGAA
*
25767 ACCGGTTTA
1 ACCGGTTTG
*
25776 ACCGGTTTTCA
1 ACCGG-TTT-G
25787 ACCGGTTCTG
1 ACCGGTT-TG
25797 ACCGGTTTG
1 ACCGGTTTG
*
25806 ACCGGTTTCA
1 ACCGGTTT-G
*
25816 ACCGGTTCG
1 ACCGGTTTG
25825 AACCGGTTTG
1 -ACCGGTTTG
*
25835 ACCGGTCTG
1 ACCGGTTTG
25844 AACCGGTTTG
1 -ACCGGTTTG
*
25854 ACCGGTCTG
1 ACCGGTTTG
25863 ACC
1 ACC
25866 CGACCCGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:25811 original size:19 final size:19
Alignment explanation
Indices: 25768--25865 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
25758 CTGCTGGAAA
* * *
25768 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
25788 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
25807 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
25827 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
25846 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
25864 CC
1 CC
25866 CGACCCGACC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
18 6 0.09
19 40 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.29, G:0.28, T:0.29
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:25829 original size:29 final size:28
Alignment explanation
Indices: 25767--25865 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 28
25757 GCTGCTGGAA
*
25767 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
25797 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* * *
25825 AACCGGTTTGACCGGTCTGAACCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCG
*
25854 ACCGGTCTGACC
1 ACCGGTTTGACC
25866 CGACCCGACC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
28 12 0.19
29 38 0.60
30 13 0.21
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.28
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:25883 original size:17 final size:17
Alignment explanation
Indices: 25861--25899 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
25851 TTGACCGGTC
25861 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
25878 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
25895 TGACC
1 TGACC
25900 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:25899 original size:7 final size:7
Alignment explanation
Indices: 25889--25919 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
25879 GACCCGACCC
25889 GACCGTT
1 GACCGTT
25896 GACCGTT
1 GACCGTT
25903 GACCGTT
1 GACCGTT
25910 GACCGTT
1 GACCGTT
25917 GAC
1 GAC
25920 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:27903 original size:16 final size:17
Alignment explanation
Indices: 27884--27916 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27874 TAAATTCTTT
27884 AAAAATAAGA-AAAATA
1 AAAAATAAGATAAAATA
*
27900 AAAAGTAAGATAAAATA
1 AAAAATAAGATAAAATA
27917 CTCTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAAATAAGATAAAATA
Found at i:29374 original size:18 final size:18
Alignment explanation
Indices: 29351--29385 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29341 TTCTAAGCTA
* *
29351 GGGTATCGATACTAAATG
1 GGGTATCAATACCAAATG
29369 GGGTATCAATACCAAAT
1 GGGTATCAATACCAAAT
29386 TTTGGTTTGA
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:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (18 bp):
GGGTATCAATACCAAATG
Found at i:33432 original size:3 final size:3
Alignment explanation
Indices: 33424--33456 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33414 GACTATATAT
33424 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33457 TGCTAGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:40568 original size:60 final size:60
Alignment explanation
Indices: 40366--40556 Score: 267
Period size: 60 Copynumber: 3.2 Consensus size: 60
40356 CGGCTTCGGT
* * * *
40366 TCTAAATCCTTCTTTGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTAGCTT-CAGC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTCCTTGGCTTCCA-C
* * * * *
40426 TCTGCATCCTTCTTTGGCTTTAATTTCTCTTCATAGTTCATATCCTCCCTTGGCTTCCAC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTCCTTGGCTTCCAC
*
40486 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCATTCCTTGGCTTCCAC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTCCTTGGCTTCCAC
*
40546 TCTAAATCCTT
1 TCTACATCCTT
40557 AGCCGACTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 112 0.98
61 2 0.02
ACGTcount: A:0.19, C:0.30, G:0.08, T:0.42
Consensus pattern (60 bp):
TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTCCTTGGCTTCCAC
Found at i:40574 original size:60 final size:60
Alignment explanation
Indices: 40456--40574 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
40446 TAATTTCTCT
* * * **** * *
40456 TCATAGTTCATATCCTCCCTTGGCTTCCACTCTACATCCTTCTTTGGCTTTAATTCCTCC
1 TCATAGTACATATCATCCCTTGGCTTCCACTCTAAATCCTTAGCCGACTTTAAATCCTCC
*
40516 TCATAGTACATATCATTCCTTGGCTTCCACTCTAAATCCTTAGCCGACTTTAAATCCTC
1 TCATAGTACATATCATCCCTTGGCTTCCACTCTAAATCCTTAGCCGACTTTAAATCCTC
40575 GATATTTATC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.39
Consensus pattern (60 bp):
TCATAGTACATATCATCCCTTGGCTTCCACTCTAAATCCTTAGCCGACTTTAAATCCTCC
Found at i:44709 original size:37 final size:37
Alignment explanation
Indices: 44668--44738 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
44658 AACATAGCGT
*
44668 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
*
44705 TAGAGTTCTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATA
44739 TGATCCAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:45200 original size:3 final size:3
Alignment explanation
Indices: 45192--45272 Score: 60
Period size: 3 Copynumber: 26.7 Consensus size: 3
45182 AACAGTATAT
* * *
45192 TTA TTA TTA -TA TATA TT- TAA TTA TATA TTT TTA TTA TCTA TTA TTT
1 TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA
* *
45238 TTA TTA TTA TTG TT- TTA CTTT TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
45273 TATTCTTTCG
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 5 0.08
3 46 0.74
4 11 0.18
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45208 original size:16 final size:16
Alignment explanation
Indices: 45187--45247 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45177 ATTCCAACAG
45187 TATATTTATTATTATA
1 TATATTTATTATTATA
45203 TATATTTA--ATTATA
1 TATATTTATTATTATA
*
45217 TATTTTTATTATCTAT-
1 TATATTTATTAT-TATA
*
45233 TATTTTTATTATTAT
1 TATATTTATTATTAT
45248 TGTTTTACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 13 0.32
15 3 0.07
16 22 0.54
17 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTATTATTATA
Found at i:45214 original size:14 final size:14
Alignment explanation
Indices: 45187--45228 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
45177 ATTCCAACAG
45187 TATATTTATTATTATA
1 TATATTTA--ATTATA
45203 TATATTTAATTATA
1 TATATTTAATTATA
*
45217 TAT-TTTTATTAT
1 TATATTTAATTAT
45229 CTATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 9 0.36
16 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTTAATTATA
Found at i:45254 original size:30 final size:28
Alignment explanation
Indices: 45191--45276 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 28
45181 CAACAGTATA
*
45191 TTTATTATTATATATATTTAATTATATATT
1 TTTATTATTAT-TAT-TTTTATTATATATT
45221 TTTATTATCTATTATTTTTATTAT-TATT
1 TTTATTAT-TATTATTTTTATTATATATT
* * * *
45249 GTT-TTACTTTTTATTATTATTATTTATT
1 TTTATTA-TTATTATTTTTATTATATATT
45277 CTTTCGGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 16 0.33
28 11 0.22
29 8 0.16
30 11 0.22
31 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (28 bp):
TTTATTATTATTATTTTTATTATATATT
Found at i:45349 original size:35 final size:34
Alignment explanation
Indices: 45302--45368 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
45292 TCTCTCTCTC
45302 TATATATATATATATCATCACTAT-TATATATTT
1 TATATATATATATATCATCACTATGTATATATTT
* *
45335 TATATATTACTATATTTTATCACTATGTATATAT
1 TATATA-TA-TATATATCATCACTATGTATATAT
45369 ACTTTTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 2 0.07
35 14 0.48
36 7 0.24
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.52
Consensus pattern (34 bp):
TATATATATATATATCATCACTATGTATATATTT
Found at i:45350 original size:17 final size:16
Alignment explanation
Indices: 45323--45368 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 16
45313 ATATCATCAC
45323 TATTATATATTTTATA
1 TATTATATATTTTATA
45339 TATTACTATATTTTATCA
1 TATTA-TATATTTTAT-A
45357 CTATGTATATAT
1 -TAT-TATATAT
45369 ACTTTTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 1 0.04
19 8 0.31
20 2 0.08
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATATATTTTATA
Found at i:45405 original size:25 final size:26
Alignment explanation
Indices: 45364--45412 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
45354 TCACTATGTA
45364 TATATACTTTTGATATTT-TTATTAC
1 TATATACTTTTGATATTTGTTATTAC
*
45389 TATATA-TTTTGGTTATTTGTTATT
1 TATATACTTTT-GATATTTGTTATT
45413 TGATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.63
Consensus pattern (26 bp):
TATATACTTTTGATATTTGTTATTAC
Found at i:45489 original size:22 final size:23
Alignment explanation
Indices: 45459--45501 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
45449 TTTCCATTTT
* *
45459 TATTTATTTTA-TATTTTCTTAA
1 TATTCATTTTATTACTTTCTTAA
45481 TATTCATTTTATTACTTTCTT
1 TATTCATTTTATTACTTTCTT
45502 TCTTATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTCATTTTATTACTTTCTTAA
Found at i:48982 original size:22 final size:19
Alignment explanation
Indices: 48955--49023 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 19
48945 GTTCAGTATT
48955 CGTCCCGAAGGACTGCTATATA
1 CGTCCCGAAGGACT-C-AT-TA
* *
48977 TGTCCCGTAGGAC-CATTA
1 CGTCCCGAAGGACTCATTA
48995 CGTCCCGAAGGA--C--TA
1 CGTCCCGAAGGACTCATTA
49010 CGTCCCGAAGGACT
1 CGTCCCGAAGGACT
49024 ACAGAACCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.34
17 1 0.02
18 12 0.29
19 2 0.05
20 1 0.02
22 11 0.27
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (19 bp):
CGTCCCGAAGGACTCATTA
Found at i:49013 original size:15 final size:15
Alignment explanation
Indices: 48993--49025 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48983 GTAGGACCAT
48993 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
49008 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
49023 TAC
1 TAC
49026 AGAACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.15
Consensus pattern (15 bp):
TACGTCCCGAAGGAC
Found at i:55732 original size:22 final size:19
Alignment explanation
Indices: 55705--55773 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 19
55695 GTTCAGTATT
55705 CGTCCCGAAGGACTGCTATATA
1 CGTCCCGAAGGACT-C-AT-TA
* *
55727 TGTCCCGTAGGAC-CATTA
1 CGTCCCGAAGGACTCATTA
55745 CGTCCCGAAGGA--C--TA
1 CGTCCCGAAGGACTCATTA
55760 CGTCCCGAAGGACT
1 CGTCCCGAAGGACT
55774 ACAGAACCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.34
17 1 0.02
18 12 0.29
19 2 0.05
20 1 0.02
22 11 0.27
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (19 bp):
CGTCCCGAAGGACTCATTA
Found at i:55763 original size:15 final size:15
Alignment explanation
Indices: 55743--55775 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55733 GTAGGACCAT
55743 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
55758 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
55773 TAC
1 TAC
55776 AGAACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.15
Consensus pattern (15 bp):
TACGTCCCGAAGGAC
Found at i:57467 original size:12 final size:12
Alignment explanation
Indices: 57446--57507 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
57436 AATCAAGAAC
57446 AAAAAGA-AAAA
1 AAAAAGAGAAAA
57457 AAAATAGA-AAAA
1 AAAA-AGAGAAAA
57469 AACAAAGAGAAAAA
1 AA-AAAGAG-AAAA
57483 TAAAAAGAGAAAA
1 -AAAAAGAGAAAA
57496 AACAAAG-GAAAA
1 AA-AAAGAGAAAA
57508 TTGAAGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.09
12 19 0.42
13 10 0.22
14 10 0.22
15 2 0.04
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:57479 original size:14 final size:14
Alignment explanation
Indices: 57443--57507 Score: 68
Period size: 13 Copynumber: 4.9 Consensus size: 14
57433 TCCAATCAAG
*
57443 AACAAAAAG-AAAA
1 AACAAAGAGAAAAA
*
57456 AA-AAATAGAAAAA
1 AACAAAGAGAAAAA
57469 AACAAAGAGAAAAA
1 AACAAAGAGAAAAA
57483 TAA-AAAGAG-AAAA
1 -AACAAAGAGAAAAA
57496 AACAAAG-GAAAA
1 AACAAAGAGAAAA
57508 TTGAAGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
12 8 0.18
13 19 0.42
14 16 0.36
15 2 0.04
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (14 bp):
AACAAAGAGAAAAA
Found at i:57479 original size:26 final size:27
Alignment explanation
Indices: 57443--57507 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
57433 TCCAATCAAG
*
57443 AACAAAAAGAAAAA-AAAATAGA-AAAA
1 AACAAAGAGAAAAATAAAA-AGAGAAAA
57469 AACAAAGAGAAAAATAAAAAGAGAAAA
1 AACAAAGAGAAAAATAAAAAGAGAAAA
57496 AACAAAG-GAAAA
1 AACAAAGAGAAAA
57508 TTGAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (27 bp):
AACAAAGAGAAAAATAAAAAGAGAAAA
Found at i:58680 original size:32 final size:32
Alignment explanation
Indices: 58572--58666 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
58562 TGAAGGCATC
58572 TTTGAAGATTCAACATCAGATATTGGGGCATTT
1 TTTG-AGATTCAACATCAGATATTGGGGCATTT
* * * *
58605 TTTGAGATTTAACATCAAATGTTGGGGTATTT
1 TTTGAGATTCAACATCAGATATTGGGGCATTT
*
58637 TTTGAGATTCAACATCGGATATTGGGGCAT
1 TTTGAGATTCAACATCAGATATTGGGGCAT
58667 ATTTGGGAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 49 0.92
33 4 0.08
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (32 bp):
TTTGAGATTCAACATCAGATATTGGGGCATTT
Found at i:71695 original size:9 final size:9
Alignment explanation
Indices: 71656--71696 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
71646 CCGGTTTTCA
71656 ACCGGTTCTG
1 ACCGG-TCTG
71666 ACCGGTCTG
1 ACCGGTCTG
*
71675 AACCGGTTTG
1 -ACCGGTCTG
71685 ACCGGTCTG
1 ACCGGTCTG
71694 ACC
1 ACC
71697 CGACCGACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:71732 original size:22 final size:22
Alignment explanation
Indices: 71707--71748 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
71697 CGACCGACCG
71707 ACCCGACCCGACCGTTGACCCA
1 ACCCGACCCGACCGTTGACCCA
*
71729 ACCCGACCGGACCGTTGACC
1 ACCCGACCCGACCGTTGACC
71749 GTTGACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.48, G:0.21, T:0.10
Consensus pattern (22 bp):
ACCCGACCCGACCGTTGACCCA
Found at i:78890 original size:9 final size:9
Alignment explanation
Indices: 78864--78907 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
78854 GCTGCTGGAA
78864 ACCGGTTCTG
1 ACCGGTT-TG
78874 ACCGGTTTG
1 ACCGGTTTG
*
78883 ATCGGTTTCG
1 ACCGGTTT-G
78893 ACCGGTTTG
1 ACCGGTTTG
78902 ACCGGT
1 ACCGGT
78908 CTGAACCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:78915 original size:19 final size:18
Alignment explanation
Indices: 78864--78911 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
78854 GCTGCTGGAA
78864 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
* *
78883 ATCGGTTTCGACCGGTTTG
1 ACCGGTCT-GACCGGTTTG
78902 ACCGGTCTGA
1 ACCGGTCTGA
78912 ACCGATCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:78955 original size:12 final size:12
Alignment explanation
Indices: 78938--78975 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
78928 CGACCGACCC
78938 GACCCGACCGTT
1 GACCCGACCGTT
78950 GACCCGACC--T
1 GACCCGACCGTT
*
78960 GACCTGACCGTT
1 GACCCGACCGTT
78972 GACC
1 GACC
78976 GTTGACCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.16
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:78962 original size:10 final size:10
Alignment explanation
Indices: 78908--78968 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
78898 TTTGACCGGT
* *
78908 CTGAACCGAT
1 CTGACCCGAC
78918 CTGACCCGAC
1 CTGACCCGAC
78928 C-GA-CCGAC
1 CTGACCCGAC
*
78936 CCGACCCGAC
1 CTGACCCGAC
78946 CGTTGACCCGAC
1 C--TGACCCGAC
*
78958 CTGACCTGAC
1 CTGACCCGAC
78968 C
1 C
78969 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 6 0.14
9 4 0.09
10 24 0.56
12 9 0.21
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.11
Consensus pattern (10 bp):
CTGACCCGAC
Found at i:78963 original size:22 final size:22
Alignment explanation
Indices: 78931--78975 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
78921 ACCCGACCGA
78931 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
* *
78953 CCGACCTGACCTGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
78975 C
1 C
78976 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.13
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:78976 original size:7 final size:7
Alignment explanation
Indices: 78964--78988 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
78954 CGACCTGACC
78964 TGACCGT
1 TGACCGT
78971 TGACCGT
1 TGACCGT
78978 TGACCGT
1 TGACCGT
78985 TGAC
1 TGAC
78989 TTTCTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (7 bp):
TGACCGT
Found at i:82576 original size:41 final size:40
Alignment explanation
Indices: 82409--82578 Score: 130
Period size: 41 Copynumber: 4.1 Consensus size: 40
82399 ATCTCGTACT
* *
82409 TTAGTGGCAGTTTTGAAGAGAACTCTGCAATTTCACGTTACA
1 TTAGTGGCATTTTTGAAGAAAAC-C-GCAATTTCACGTTACA
* ** * * *
82451 TTAGAGG--TGTTTTGTAA-AATCGCCACAATTTCATGTTATA
1 TTAGTGGCAT-TTTTG-AAGAA-AACCGCAATTTCACGTTACA
* * * *
82491 TTAGTGGCGTTTTTTAAAGAAAATGCCGCAATTTCACATAACA
1 TTAGTGGC-ATTTTTGAAGAAAA--CCGCAATTTCACGTTACA
82534 TTAGTGGCATTTTTGAAGAAAACACGCAATTTCACGTTACA
1 TTAGTGGCATTTTTGAAGAAAAC-CGCAATTTCACGTTACA
82575 TTAG
1 TTAG
82579 CGGGGTTCGT
Statistics
Matches: 97, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
40 20 0.21
41 28 0.29
42 27 0.28
43 22 0.23
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (40 bp):
TTAGTGGCATTTTTGAAGAAAACCGCAATTTCACGTTACA
Found at i:85778 original size:22 final size:22
Alignment explanation
Indices: 85752--85794 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
85742 ATAATGATTA
85752 AAATTTGTGGACCCTTATTTTT
1 AAATTTGTGGACCCTTATTTTT
* *
85774 AAATTTTTGGATCCTTATTTT
1 AAATTTGTGGACCCTTATTTT
85795 ATTGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (22 bp):
AAATTTGTGGACCCTTATTTTT
Found at i:85838 original size:61 final size:61
Alignment explanation
Indices: 85773--85891 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
85763 CCCTTATTTT
* *
85773 TAAATTTTTGGATCCTTATTTTATTGAAAAATTACATATTTTATTTTATATATTTTTAATA
1 TAAATTTGTGGACCCTTATTTTATTGAAAAATTACATATTTTATTTTATATATTTTTAATA
85834 TAAATTTGTGGACCCTTATTTTATTGAAAAATTACATATTTTATTTTATATATTTTTA
1 TAAATTTGTGGACCCTTATTTTATTGAAAAATTACATATTTTATTTTATATATTTTTA
85892 CTCGTAAGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (61 bp):
TAAATTTGTGGACCCTTATTTTATTGAAAAATTACATATTTTATTTTATATATTTTTAATA
Found at i:86524 original size:28 final size:28
Alignment explanation
Indices: 86471--86527 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
86461 TTCTCTATCT
* *
86471 ATATTATACCATTAAATCGATGCTTAAA
1 ATATTATACCATCAAATCAATGCTTAAA
*
86499 ATATTATACCATCAAA-CTAATTCTTAAA
1 ATATTATACCATCAAATC-AATGCTTAAA
86527 A
1 A
86528 ATAATGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (28 bp):
ATATTATACCATCAAATCAATGCTTAAA
Found at i:90845 original size:27 final size:27
Alignment explanation
Indices: 90813--90873 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
90803 ATAAAAAAAG
* * * *
90813 TCGGGTTAGGTGAAGGGTATATATTTT
1 TCGGGTCAGGTGAAGGATATAAAATTT
* *
90840 TCGGGTCGGGTGAATGATATAAAATTT
1 TCGGGTCAGGTGAAGGATATAAAATTT
90867 TCGGGTC
1 TCGGGTC
90874 GGATTGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.08, G:0.33, T:0.36
Consensus pattern (27 bp):
TCGGGTCAGGTGAAGGATATAAAATTT
Found at i:100182 original size:15 final size:15
Alignment explanation
Indices: 100147--100180 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
100137 GTTGGGAAAC
100147 TTTTTAGAAAAATAT
1 TTTTTAGAAAAATAT
*
100162 TTTTTA-AATAATAT
1 TTTTTAGAAAAATAT
100176 TTTTT
1 TTTTT
100181 TATTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTTAGAAAAATAT
Found at i:101073 original size:24 final size:22
Alignment explanation
Indices: 101021--101065 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
101011 TTTAAAATTG
*
101021 AATTAATTAAATTTTTTCTTCA
1 AATTAATCAAATTTTTTCTTCA
101043 ATCATTAATCAAATTATTTTCTT
1 A--ATTAATCAAATT-TTTTCTT
101066 TTAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
24 11 0.58
25 7 0.37
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTAATCAAATTTTTTCTTCA
Found at i:101076 original size:27 final size:26
Alignment explanation
Indices: 101008--101084 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
100998 TTAAGACAAA
* *
101008 TTCTTTAAAATTGAATTAATTAAATTTT
1 TTCTTTTAAATT--ATTAATCAAATTTT
* *
101036 TTC--TTCAATCATTAATCAAATTATT
1 TTCTTTTAAATTATTAATCAAATT-TT
*
101061 TTCTTTTAAATTATTAATCGAATT
1 TTCTTTTAAATTATTAATCAAATT
101085 GAATATATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
24 11 0.28
25 5 0.13
26 4 0.10
27 16 0.41
28 3 0.08
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (26 bp):
TTCTTTTAAATTATTAATCAAATTTT
Found at i:101393 original size:60 final size:61
Alignment explanation
Indices: 101274--101394 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 61
101264 TACAATATGT
* *
101274 ATTTAACATATATAATATAAGCAAAAAAGTACCTCAGACCCTTATACTTTTTTCCAAAAAC
1 ATTTAACATATATAATATAAGCAAAAAAGTACCTCAGACCCTCATACTTTTTTCAAAAAAC
* **
101335 ATTTAACATATATAATATAAGC-AAAAAGTACCTCAGACCCTCGTGTTTTTTTCAAAAAAC
1 ATTTAACATATATAATATAAGCAAAAAAGTACCTCAGACCCTCATACTTTTTTCAAAAAAC
101395 TAATGTGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 33 0.60
61 22 0.40
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (61 bp):
ATTTAACATATATAATATAAGCAAAAAAGTACCTCAGACCCTCATACTTTTTTCAAAAAAC
Found at i:102488 original size:16 final size:16
Alignment explanation
Indices: 102453--102493 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
102443 GTTTACTTCA
*
102453 GAATGATT-AAACGTT
1 GAATGATTCAAACGCT
*
102468 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
102484 GAATGATTCA
1 GAATGATTCA
102494 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:103088 original size:18 final size:18
Alignment explanation
Indices: 103065--103100 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
103055 TTATTCTGTC
103065 ATTAAATAATAAAAATTA
1 ATTAAATAATAAAAATTA
103083 ATTAAATAATAAAAATTA
1 ATTAAATAATAAAAATTA
103101 TACGAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATAATAAAAATTA
Found at i:107861 original size:22 final size:22
Alignment explanation
Indices: 107833--107874 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
107823 AAATTTTATT
107833 GCTATAAAATATAGAGAAAATC
1 GCTATAAAATATAGAGAAAATC
107855 GCTATAAAATATAGAGAAAA
1 GCTATAAAATATAGAGAAAA
107875 AAGATCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (22 bp):
GCTATAAAATATAGAGAAAATC
Found at i:107933 original size:22 final size:22
Alignment explanation
Indices: 107908--107954 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
107898 AATTGCATTT
*
107908 TAAAAAATA-AGATAAAATAAGA
1 TAAAAAA-ACAGATAAAATAAAA
*
107930 TAAAAAAACAGATAAGATAAAA
1 TAAAAAAACAGATAAAATAAAA
107952 TAA
1 TAA
107955 CATATAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAAAAACAGATAAAATAAAA
Found at i:107946 original size:17 final size:17
Alignment explanation
Indices: 107924--107971 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
107914 ATAAGATAAA
107924 ATAAGATAAAAAAACAG
1 ATAAGATAAAAAAACAG
* *
107941 ATAAGATAAAATAACAT
1 ATAAGATAAAAAAACAG
*
107958 ATAACATATAAAAA
1 ATAAGATA-AAAAA
107972 TAGAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (17 bp):
ATAAGATAAAAAAACAG
Found at i:108052 original size:11 final size:11
Alignment explanation
Indices: 107985--108052 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
107975 AAAATATTAT
*
107985 TAATAAATAAA
1 TAATTAATAAA
* *
107996 GAATAAATTAAA
1 TAATTAA-TAAA
108008 TAATTAATAAAA
1 TAATTAAT-AAA
108020 TATTATTAATAAA
1 TA--ATTAATAAA
**
108033 TAAAGAATAAA
1 TAATTAATAAA
108044 TAATTAATA
1 TAATTAATA
108053 CAAAAGAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
11 21 0.46
12 14 0.30
13 5 0.11
14 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAATTAATAAA
Found at i:108348 original size:23 final size:22
Alignment explanation
Indices: 108304--108345 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
108294 CAGGTTTTTT
108304 TTTATTGTATTGAAAAAAAATA
1 TTTATTGTATTGAAAAAAAATA
108326 TTTATTGTATTGAAAAAAAA
1 TTTATTGTATTGAAAAAAAA
108346 ATAGATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTATTGTATTGAAAAAAAATA
Found at i:108779 original size:29 final size:29
Alignment explanation
Indices: 108736--108818 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
108726 CTCACCTAAC
108736 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
108766 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
108795 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
108819 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:113544 original size:29 final size:29
Alignment explanation
Indices: 113501--113583 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
113491 CTCACCTAAC
113501 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
113531 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
113560 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
113584 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:114684 original size:22 final size:22
Alignment explanation
Indices: 114643--114683 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
114633 AAATTTTATT
114643 GCTATAAAATATAGAGAAAATC
1 GCTATAAAATATAGAGAAAATC
114665 GCTAT-AAATATAGAGAAAA
1 GCTATAAAATATAGAGAAAA
114684 AAGATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (22 bp):
GCTATAAAATATAGAGAAAATC
Found at i:114741 original size:21 final size:21
Alignment explanation
Indices: 114717--114821 Score: 69
Period size: 21 Copynumber: 5.2 Consensus size: 21
114707 AATTGCATTT
114717 TAAAAAATAAGATAAAATAAA
1 TAAAAAATAAGATAAAATAAA
*
114738 TAAAAAA-ACAGATAAGATAAA
1 TAAAAAATA-AGATAAAATAAA
* * * *
114759 TAACATATAACATATAA-AAA
1 TAAAAAATAAGATAAAATAAA
* * *
114779 TAGAAAAT-ATAT-TAATAAA
1 TAAAAAATAAGATAAAATAAA
* *
114798 TAAAGAATAA-ATTAAAT-AA
1 TAAAAAATAAGATAAAATAAA
114817 TAAAA
1 TAAAA
114822 TATTATTAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
18 3 0.05
19 20 0.31
20 13 0.20
21 28 0.43
22 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAAATAAGATAAAATAAA
Found at i:114806 original size:19 final size:19
Alignment explanation
Indices: 114784--114842 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
114774 AAAAATAGAA
114784 AATATATTAATAAATAAAG
1 AATATATTAATAAATAAAG
*
114803 AATAAATTAA-ATAAT-AA-
1 AATATATTAATA-AATAAAG
114820 AATATTATTAAT-AATAAAG
1 AATA-TATTAATAAATAAAG
114839 AATA
1 AATA
114843 AATAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 7 0.21
18 10 0.30
19 16 0.48
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AATATATTAATAAATAAAG
Found at i:114832 original size:17 final size:17
Alignment explanation
Indices: 114782--114837 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
114772 ATAAAAATAG
114782 AAAATA-TATTAATAAAT
1 AAAATATTATTAAT-AAT
*
114799 AAAGA-ATAAATTAAATAAT
1 AAA-ATAT-TATT-AATAAT
114818 AAAATATTATTAATAAT
1 AAAATATTATTAATAAT
114835 AAA
1 AAA
114838 GAATAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 13 0.41
18 5 0.16
19 11 0.34
20 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATTATTAATAAT
Found at i:114836 original size:36 final size:35
Alignment explanation
Indices: 114782--114853 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
114772 ATAAAAATAG
114782 AAAATATATTAATAAATAAAGAATAAATTAAATAAT
1 AAAATATATTAATAAATAAAGAATAAA-TAAATAAT
*
114818 AAAATATTATTAAT-AATAAAGAATAAATAATTAAT
1 AAAATA-TATTAATAAATAAAGAATAAATAAATAAT
114853 A
1 A
114854 CAAAGAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.24
36 19 0.56
37 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (35 bp):
AAAATATATTAATAAATAAAGAATAAATAAATAAT
Found at i:115132 original size:22 final size:22
Alignment explanation
Indices: 115104--115145 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
115094 AGGTTTTTTT
115104 TTTATTGTATTGAAAAAAAATA
1 TTTATTGTATTGAAAAAAAATA
115126 TTTATTGTATTGAAAAAAAA
1 TTTATTGTATTGAAAAAAAA
115146 AATAGATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTATTGTATTGAAAAAAAATA
Found at i:119335 original size:26 final size:26
Alignment explanation
Indices: 119306--119355 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
119296 TATCACTTAT
119306 GTTTGTGTTTTGTTCATTTTGCCTAC
1 GTTTGTGTTTTGTTCATTTTGCCTAC
119332 GTTTGTGTTTTGTTCATTTTGCCT
1 GTTTGTGTTTTGTTCATTTTGCCT
119356 CACTGATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.06, C:0.14, G:0.20, T:0.60
Consensus pattern (26 bp):
GTTTGTGTTTTGTTCATTTTGCCTAC
Found at i:119476 original size:17 final size:17
Alignment explanation
Indices: 119454--119487 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
119444 GGTCACCATG
119454 AGTTAACTATCGTTAAC
1 AGTTAACTATCGTTAAC
119471 AGTTAACTATCGTTAAC
1 AGTTAACTATCGTTAAC
119488 GTATTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
AGTTAACTATCGTTAAC
Found at i:130462 original size:186 final size:182
Alignment explanation
Indices: 130211--130780 Score: 555
Period size: 186 Copynumber: 3.1 Consensus size: 182
130201 TATAGTTTTT
* * * * *
130211 ATCTCAACTTAATTTTTTAGTGACCAATAATATTTTTTAGCACAATCCGATTTATTAATGCGATT
1 ATCTCAACCTAATTTCTTAGCGACCAATAATATTTTTGAGCACAATCGGATTTATTAATGCGATT
* *
130276 GATAATATTTTTAACTTTCAACTTATTTTATTAGCGTAGCTATTTTTTTGACCAATTTGTTAAAT
66 GATGATATTTTTAGCTTTCAACTTATTTT-TTA-CGTAGCTATTTTTTTGACC-ATTTGTTAAAT
* * *
130341 TTCGGTAATATTTTCGGTCCAAAATCAAATTTGTTAAAAAAACTTATAACATTCACG
128 TTCGGTAACATTTTCGGTCC-AAACCGAATTTGTTAAAAAAACTTATAACATTCA-G
* *
130398 ATCTCAACCTAATTTCTTAGGGACCAATAACT-TTTTTGA-CACAATCGGATTTATTAACGCGAT
1 ATCTCAACCTAATTTCTTAGCGACCAATAA-TATTTTTGAGCACAATCGGATTTATTAATGCGAT
** * * *
130461 TGATGATA-TTTCGGGTTTCAACTTATTTTGTTACTGTGGCTATTTTCTTTGACCTGTTTGTTAA
65 TGATGATATTTTTAGCTTTCAACTTATTTT-TTAC-GTAGCTATTTT-TTTGACC-ATTTGTTAA
* *
130525 ACTTT-GGTAACATTTTCGGTCTAGACCGAATTTGTT-AAAAAACTTATAGA-ATTCA-
126 A-TTTCGGTAACATTTTCGGTCCAAACCGAATTTGTTAAAAAAACTTATA-ACATTCAG
* * * * * * ** *
130580 ATCTTAACAC-AATTTCTTAGCGATCGATAGTGTTCTTGAGCGTAATCGGATTTGTTAATGCGAT
1 ATCTCAAC-CTAATTTCTTAGCGACCAATAATATTTTTGAGCACAATCGGATTTATTAATGCGAT
* * * * * *
130644 TGATGATTTTTTTAGCTTTCAGCTTATTTTTGTCATTGTAACTATTTTTTT-ACTCATATGCTAA
65 TGATGATATTTTTAGCTTTCAACTTATTTTT-T-A-CGTAGCTATTTTTTTGAC-CATTTGTTAA
* ** * *
130708 ATTCCGGTAACATTTTAAGTCCAAACCGAATTTGTTAAATAAACTTATAACATTTTAG
126 ATTTCGGTAACATTTTCGGTCCAAACCGAATTTGTTAAAAAAACTTATAACA-TTCAG
*
130766 ATTTCAACCTAATTT
1 ATCTCAACCTAATTT
130781 ACTAGTTATT
Statistics
Matches: 314, Mismatches: 50, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
181 1 0.00
182 31 0.10
183 66 0.21
184 52 0.17
185 56 0.18
186 71 0.23
187 36 0.11
188 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (182 bp):
ATCTCAACCTAATTTCTTAGCGACCAATAATATTTTTGAGCACAATCGGATTTATTAATGCGATT
GATGATATTTTTAGCTTTCAACTTATTTTTTACGTAGCTATTTTTTTGACCATTTGTTAAATTTC
GGTAACATTTTCGGTCCAAACCGAATTTGTTAAAAAAACTTATAACATTCAG
Found at i:133384 original size:63 final size:63
Alignment explanation
Indices: 133317--133443 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
133307 AGAAGCATTG
* ** * * *
133317 GAAAGATTTGGAGAAGTGCTTGCTAGAGTATGAGTTGAAAGAACAACAATTTGTGTTGAAAGA
1 GAAAGATTTGGAGAAGGGCTTGAGAGAGTATGAGTCGAAAGAACAACAATTTGGGGTGAAAGA
* * *
133380 GAAAGATTTGGAGAAGGGTTTGAGAGAGTATGAGTCGAAAGAAGAGCAATTTGGGGTGAAAGA
1 GAAAGATTTGGAGAAGGGCTTGAGAGAGTATGAGTCGAAAGAACAACAATTTGGGGTGAAAGA
133443 G
1 G
133444 GAGAGTTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.38, C:0.05, G:0.34, T:0.24
Consensus pattern (63 bp):
GAAAGATTTGGAGAAGGGCTTGAGAGAGTATGAGTCGAAAGAACAACAATTTGGGGTGAAAGA
Found at i:133838 original size:231 final size:227
Alignment explanation
Indices: 133136--133842 Score: 655
Period size: 231 Copynumber: 3.1 Consensus size: 227
133126 TGGGAGGAGG
* * *
133136 TTGGGTTGAAAGAAAAAGATTTGGAAAATTGCTTGAGAGACTACGAGTTGAAAGAAGAGCAATTT
1 TTGGGTTGAAAGAGAAAGATTTGGAAAA-TGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTT
* * *
133201 GGACTGAAAGAGAAGGG-TTTTGGGAAACGTTGTATGGAGTTTGAGTTGGAAGAAAAAGCTTTGG
65 GG-CTGAAAGAG--GGGATTTT-GGAAGCGATGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGG
* *** * * * * * *
133265 AAGAACGTCGTAGAAATCTTGAATGCCATGTAAAACAATGCGAGAAGCATTGGAAAGATTTGGAG
126 AAGAACGTCGTAGAAATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATGGAAAAAATTGGAC
* * * * *
133330 AAGTGCTTGCTAGAGTATGAGTTGAAAGAACA-ACAAT
191 AACTGCATG-GAGAATATGAGTTGAAAGAACAGAGAAT
* ** * *
133367 TTGTGTTGAAAGAGAAAGATTTGGAGAAGGGTTTGAGAGAGTATGAGTCGAAAGAAGAGCAATTT
1 TTGGGTTGAAAGAGAAAGATTTGGA-AAATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTT
* * * *
133432 GGGGTGAAAGAGGAGAGTTTTCGGAAGCGGTGTGTGGAGTTTGAGTTGGAAGAAAAGGCTTTGGA
65 -GGCTGAAAGAGGGGA-TTTT-GGAAGCGATGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGA
* * * * * *
133497 AGAACGCCGTAGAGATCTTGAACTTTGTAT-TAAAA-AATGTGAGCAGC-A-GCGTAGAGA--GG
127 AGAACGTCGTAGAAATCTTG-ACTTT-AATGTAAAACAATGTGAGCAGCAATG-GAAAAAATTGG
** * * ** * *
133556 TTAAGTTG-ATGGAGAAAATG-G-CAAAAGATCAGTTGGAGGAAG
189 ACAA-CTGCATGGAGAATATGAGTTGAAAGAACA----GA-GAAT
* * * *
133598 TTCGGTTGAAAGAGAAAGAATTGGACAAATGCTTGAGAGAGTATGAGTTGAAAGAGGAACAATTT
1 TTGGGTTGAAAGAGAAAGATTTGGA-AAATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTT
*
133663 AGGCTGAAAGAGGCGGATTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAGAAAAGGCTTTGGA
65 -GGCTGAAAGAGG-GGATTTTG-GAAGCGATGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGA
*
133728 AGAACGTCGTAGATATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATGGAAAAAATTGGACA
127 AGAACGTCGTAGAAATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATGGAAAAAATTGGACA
*
133793 ACTGCATGAGAGATTATGAGTTGAAAGAACAGA-AAT
192 ACTGCATG-GAGAATATGAGTTGAAAGAACAGAGAAT
133829 TTGGGTTGAAAGAG
1 TTGGGTTGAAAGAG
133843 GAGAGTTTTC
Statistics
Matches: 377, Mismatches: 73, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
225 7 0.02
226 1 0.00
227 6 0.02
228 6 0.02
229 7 0.02
230 14 0.04
231 289 0.77
232 18 0.05
233 7 0.02
234 7 0.02
235 7 0.02
236 1 0.00
237 7 0.02
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.24
Consensus pattern (227 bp):
TTGGGTTGAAAGAGAAAGATTTGGAAAATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTTG
GCTGAAAGAGGGGATTTTGGAAGCGATGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAA
CGTCGTAGAAATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATGGAAAAAATTGGACAACTG
CATGGAGAATATGAGTTGAAAGAACAGAGAAT
Found at i:133894 original size:168 final size:168
Alignment explanation
Indices: 133611--133946 Score: 469
Period size: 168 Copynumber: 2.0 Consensus size: 168
133601 GGTTGAAAGA
* * **
133611 GAAAGAATTGGACAAATGCTTGAGAGAGTATGAGTTGAAAGAGGAACAATTTAGGCTGAAAGAGG
1 GAAAAAATTGGACAAATGCATGAGAGAGTATGAGTTGAAAGAACAACAATTTAGGCTGAAAGAGG
* * *
133676 CGGATTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAGAAAAGGCTTTGGAAGAACGTCGTAGA
66 AGGATTTTCAGAAGCGATATATGGAGTTTGAGTCGGAAGAAAAGGCTTTGGAAGAACGTCGTAGA
*
133741 TATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATG
131 GATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATG
* * * *
133779 GAAAAAATTGGACAACTGCATGAGAGATTATGAGTTGAAAGAACAGA-AATTTGGGTTGAAAGAG
1 GAAAAAATTGGACAAATGCATGAGAGAGTATGAGTTGAAAGAACA-ACAATTTAGGCTGAAAGAG
* * *
133843 GA-GAGTTTTCAGAAGCGGTATATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGGAGAACGTCGTA
65 GAGGA-TTTTCAGAAGCGATATATGGAGTTTGAGTCGGAAGAAAAGGCTTTGGAAGAACGTCGTA
* * * *
133907 GAGATTTTGAGTTTAGTGTAAAGCAATGTGAGCAGCAATG
129 GAGATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATG
133947 TAAAGAGGTG
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
167 2 0.01
168 144 0.98
169 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (168 bp):
GAAAAAATTGGACAAATGCATGAGAGAGTATGAGTTGAAAGAACAACAATTTAGGCTGAAAGAGG
AGGATTTTCAGAAGCGATATATGGAGTTTGAGTCGGAAGAAAAGGCTTTGGAAGAACGTCGTAGA
GATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATG
Found at i:133983 original size:399 final size:399
Alignment explanation
Indices: 133400--134241 Score: 1199
Period size: 399 Copynumber: 2.1 Consensus size: 399
133390 GAGAAGGGTT
* * * * * * *
133400 TGAGAGAGTATGAGTCGAAAGAAGAGCAATTTGGGGTGAAAGAGGAGAGTTTTCGGAAGCGGTGT
1 TGAGAGATTATGAGTTGAAAGAACAGAAATTTGGGTTGAAAGAGGAGAGTTTTCAGAAGCGGTAT
* *
133465 GTGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGCCGTAGAGATCTTGAACTTTGTATTAA
66 ATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGCCGTAGAGATCTTGAACTTTGTAGTAA
* * * ** *
133530 AAAATGTGAGCAGCAGCGTAGAGAGGTTAAGTTGATGGAGAAAATGGCAAAAGATCA-GTTGGAG
131 AAAATGTGAGCAGCAACGTAAAGAGGTGAAGTTGACAGAGAAAATAGCAAAAGAT-AGGTTGGAG
* * * *
133594 GAAGTTCGGTTGAAAGAGAAAGAATTGGACAA-ATGCTTGAGAGAGTATGAGTTGAAAGAGGAAC
195 GAAGTTCGGTTGAAAGAGAAAGAATTGAACAAGA-ACTTGAGAGAGTATGAGTTGAAAAAAGAAC
* * * * *
133658 AATTTAGGCTGAAAGAGGCGGATTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAGAAAAGGCT
259 AAATTAGGCTGAAAGAGGAGGACTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAAAAAAGGAT
* * * *
133723 TTGGAAGAACGTCGTAGATATCTTGACTTTAATGTAAAACAATGTGAGCAGCAATGGAAAAAATT
324 TTGGAAGAACGTCGTACATATCTTGAATTTAATGTAAAACAAGGTGAGCAGCAATGGAAAAAACT
133788 GGACAACTGCA
389 GGACAACTGCA
133799 TGAGAGATTATGAGTTGAAAGAACAGAAATTTGGGTTGAAAGAGGAGAGTTTTCAGAAGCGGTAT
1 TGAGAGATTATGAGTTGAAAGAACAGAAATTTGGGTTGAAAGAGGAGAGTTTTCAGAAGCGGTAT
* * * *
133864 ATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGGAGAACGTCGTAGAGATTTTG-AGTTTAGT-GTA
66 ATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGCCGTAGAGATCTTGAACTTT-GTAGTA
* * * *
133927 AAGCAATGTGAGCAGCAATGTAAAGAGGTGAAGTTGACAGAG-ATATCAGTAAAAGATAGGTTGG
130 AA-AAATGTGAGCAGCAACGTAAAGAGGTGAAGTTGACAGAGAAAAT-AGCAAAAGATAGGTTGG
* * * *
133991 AGGAAGTTGGGTTGAAAGAGAAAGATTTGAAGAAGAACTTGAGAGAGTATGAGTTGAAAAAAGAG
193 AGGAAGTTCGGTTGAAAGAGAAAGAATTGAACAAGAACTTGAGAGAGTATGAGTTGAAAAAAGAA
*
134056 CAAATTAGGCTGAAAGAGGAGGACTTTGAGAAGCGATGTCTGGAGTTTGAGTCGGAAAAAAAGGA
258 CAAATTAGGCTGAAAGAGGAGGACTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAAAAAAGGA
*
134121 TTTGGCAGAACGTCGTACATATCTTGAATTTAATGTAAAACAAGGTGAGCAGCAATGGAAAAAAC
323 TTTGGAAGAACGTCGTACATATCTTGAATTTAATGTAAAACAAGGTGAGCAGCAATGGAAAAAAC
**
134186 TGGACAACTGTT
388 TGGACAACTGCA
*
134198 TGAGAGATTATGAGTTGAAAGAACAAAAATTTGGGTTGAAAGAG
1 TGAGAGATTATGAGTTGAAAGAACAGAAATTTGGGTTGAAAGAG
134242 AAAGATTTGG
Statistics
Matches: 393, Mismatches: 45, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
398 12 0.03
399 380 0.97
400 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.24
Consensus pattern (399 bp):
TGAGAGATTATGAGTTGAAAGAACAGAAATTTGGGTTGAAAGAGGAGAGTTTTCAGAAGCGGTAT
ATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGCCGTAGAGATCTTGAACTTTGTAGTAA
AAAATGTGAGCAGCAACGTAAAGAGGTGAAGTTGACAGAGAAAATAGCAAAAGATAGGTTGGAGG
AAGTTCGGTTGAAAGAGAAAGAATTGAACAAGAACTTGAGAGAGTATGAGTTGAAAAAAGAACAA
ATTAGGCTGAAAGAGGAGGACTTTGAGAAGCGATGTATGGAGTTTGAGTCGGAAAAAAAGGATTT
GGAAGAACGTCGTACATATCTTGAATTTAATGTAAAACAAGGTGAGCAGCAATGGAAAAAACTGG
ACAACTGCA
Found at i:137746 original size:12 final size:12
Alignment explanation
Indices: 137706--137752 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
137696 GTGATAATTT
137706 TTATTATTTAT-
1 TTATTATTTATA
* * *
137717 TTTTTAATTAAAA
1 TTATT-ATTTATA
137730 TTATTATTTATA
1 TTATTATTTATA
137742 TTATTATTTAT
1 TTATTATTTAT
137753 CCAACTAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:138435 original size:9 final size:10
Alignment explanation
Indices: 138388--138447 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
138378 ATTAGTTGAA
*
138388 TAAAATTAAT
1 TAAAAATAAT
*
138398 TAAATAATAAAA
1 TAAA-AAT-AAT
138410 TAAATAATAAT
1 TAAA-AATAAT
* *
138421 TTAAAAT-TT
1 TAAAAATAAT
138430 TAAAAATAAT
1 TAAAAATAAT
138440 TAAAAATA
1 TAAAAATA
138448 GCATAGTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 7 0.17
10 16 0.40
11 7 0.17
12 10 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:143405 original size:12 final size:12
Alignment explanation
Indices: 143390--143459 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
143380 GATACATTAC
143390 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
143402 CTGATTTCTGAT
1 CTGAATTCTGTT
*
143414 CTGGATTCTGTT
1 CTGAATTCTGTT
*
143426 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
143438 CTGAATTATGTT
1 CTGAATTCTGTT
* *
143450 TTGATTTCTG
1 CTGAATTCTG
143460 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:143409 original size:48 final size:48
Alignment explanation
Indices: 143353--143461 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 48
143343 AAATATTTTA
* *
143353 TCTGATTTCTGA-CTTGAATTCTGTTCTGATA-CATTACCTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGTTCTGATATC-TGACCTGAATTATGT
* *
143401 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATCTGAATTATGT
1 TCTGATTTCTGATCTGAATTCTGTTCTGATATCTGACCTGAATTATGT
*
143449 TTTGATTTCTGAT
1 TCTGATTTCTGAT
143462 ATCTCCGTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 52 0.96
49 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.49
Consensus pattern (48 bp):
TCTGATTTCTGATCTGAATTCTGTTCTGATATCTGACCTGAATTATGT
Found at i:143421 original size:24 final size:24
Alignment explanation
Indices: 143353--143461 Score: 123
Period size: 24 Copynumber: 4.5 Consensus size: 24
143343 AAATATTTTA
143353 TCTGATTTCTGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
* * *
143377 TCTGA-TACATTACCTGAATTCTGT
1 TCTGATTTC-TGATCTGAATTCTGT
*
143401 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
143425 TCTGATATCTGATCTGAATTATGT
1 TCTGATTTCTGATCTGAATTCTGT
*
143449 TTTGATTTCTGAT
1 TCTGATTTCTGAT
143462 ATCTCCGTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.03
24 66 0.93
25 3 0.04
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:148497 original size:12 final size:12
Alignment explanation
Indices: 148482--148551 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
148472 GATACATTAC
148482 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
148494 CTGATTTCTGAT
1 CTGAATTCTGTT
*
148506 CTGGATTCTGTT
1 CTGAATTCTGTT
* *
148518 CTGATAAT-TGAT
1 CTGA-ATTCTGTT
148530 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
148542 TTGATTTCTG
1 CTGAATTCTG
148552 ATATCTCTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:148550 original size:48 final size:48
Alignment explanation
Indices: 148445--148553 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
148435 AAACATTTTA
* *
148445 TCTGATTTCCGA-CTTGAATTCTGTTCTGATACATTACCTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATACATTACCTGAATTCTGT
*
148493 TCTGATTTCTGATCTGGATTCTGTTCTGATA-ATTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATACATT-ACCTGAATTCTGT
*
148541 TTTGATTTCTGAT
1 TCTGATTTCTGAT
148554 ATCTCTGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
47 3 0.05
48 51 0.93
49 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATACATTACCTGAATTCTGT
Found at i:148553 original size:24 final size:24
Alignment explanation
Indices: 148445--148553 Score: 107
Period size: 24 Copynumber: 4.5 Consensus size: 24
148435 AAACATTTTA
*
148445 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
* * *
148469 TCTGA-TACATTACCTGAATTCTGT
1 TCTGATTTC-TGATCTGAATTCTGT
*
148493 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
148517 TCTGATAAT-TGATCTGAATTCTGT
1 TCTGAT-TTCTGATCTGAATTCTGT
*
148541 TTTGATTTCTGAT
1 TCTGATTTCTGAT
148554 ATCTCTGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
23 3 0.04
24 62 0.90
25 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:149930 original size:25 final size:25
Alignment explanation
Indices: 149880--149930 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
149870 CGCTTAATTT
**
149880 AAAATTTTAAAGAAAATAAACTTAA
1 AAAATTTTAAAGAAAATAAAAATAA
*
149905 AAAATTTTATAGAAAA-AGAAAATAA
1 AAAATTTTAAAGAAAATA-AAAATAA
149930 A
1 A
149931 TTACCTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (25 bp):
AAAATTTTAAAGAAAATAAAAATAA
Found at i:150858 original size:21 final size:23
Alignment explanation
Indices: 150834--150879 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
150824 ATGTATACCC
150834 ACCTCTAGTT-GA-GGTATCGAT
1 ACCTCTAGTTGGAGGGTATCGAT
*
150855 A-C-CTATTTGGAGGGTATCGAT
1 ACCTCTAGTTGGAGGGTATCGAT
150876 ACCT
1 ACCT
150880 GCGTGGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 11 0.55
22 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (23 bp):
ACCTCTAGTTGGAGGGTATCGAT
Found at i:152122 original size:2 final size:2
Alignment explanation
Indices: 152117--152157 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
152107 ATGTTAAGTG
152117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
152158 TTCTATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:156554 original size:33 final size:33
Alignment explanation
Indices: 156506--156605 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 33
156496 GTTTGGCAAG
*
156506 ATTGGAAATTTAATCTTGGTTGGTGGCCAACTT
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
* *
156539 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
* *
156572 ATTGGAAAATT-CT-TTGGTAGGTGGCCAACTT
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
156603 ATT
1 ATT
156606 TTTCATGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.32
32 1 0.02
33 40 0.67
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (33 bp):
ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
Found at i:159239 original size:21 final size:22
Alignment explanation
Indices: 159210--159255 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
159200 TGTCCAGACA
** *
159210 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
159232 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
159253 AGT
1 AGT
159256 TTCAACAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:161219 original size:33 final size:33
Alignment explanation
Indices: 161171--161270 Score: 132
Period size: 33 Copynumber: 3.1 Consensus size: 33
161161 GTTTGGCAAG
* *
161171 ATTGGAAATTTAATCTTGGTTGGTGCCCAACTT
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
* *
161204 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
* *
161237 ATTGGAAAATT-CT-TTGGTAGGTGGCCAACTT
1 ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
161268 ATT
1 ATT
161271 TTTCATGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
31 19 0.32
32 1 0.02
33 39 0.66
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (33 bp):
ATTGGAAAATTAATCTTGGTTGGTGGCCAACTT
Found at i:165359 original size:23 final size:22
Alignment explanation
Indices: 165312--165409 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 22
165302 ATAAAATGCA
165312 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
*
165334 TCGAAGGACCACATAGATATGTC
1 CCGAAGGACCACATAGA-ATGTC
* * *
165357 TCGAAGGACCGCGTAGAAATGTC
1 CCGAAGGACCACATAG-AATGTC
* *
165380 CCGAAGGATCACGTAGAATTGTC
1 CCGAAGGACCACATAGAA-TGTC
165403 CCGAAGG
1 CCGAAGG
165410 TCCGCGTAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
21 1 0.02
22 16 0.24
23 48 0.73
24 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:165385 original size:46 final size:46
Alignment explanation
Indices: 165328--165420 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
165318 TGCCACATAG
* *
165328 AATGTCTCGAAGGACCACATAG-ATATGTCTCGAAGGACCGCGTAGA
1 AATGTCCCGAAGGACCACATAGAAT-TGTCCCGAAGGACCGCGTAGA
* * *
165374 AATGTCCCGAAGGATCACGTAGAATTGTCCCGAAGGTCCGCGTAGA
1 AATGTCCCGAAGGACCACATAGAATTGTCCCGAAGGACCGCGTAGA
165420 A
1 A
165421 CCCTCGACTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (46 bp):
AATGTCCCGAAGGACCACATAGAATTGTCCCGAAGGACCGCGTAGA
Found at i:165417 original size:23 final size:23
Alignment explanation
Indices: 165328--165420 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
165318 TGCCACATAG
* * * *
165328 AATGTCTCGAAGGACCACATAGA
1 AATGTCCCGAAGGTCCGCGTAGA
* * *
165351 TATGTCTCGAAGGACCGCGTAGA
1 AATGTCCCGAAGGTCCGCGTAGA
*
165374 AATGTCCCGAAGGAT-CACGTAGA
1 AATGTCCCGAAGG-TCCGCGTAGA
*
165397 ATTGTCCCGAAGGTCCGCGTAGA
1 AATGTCCCGAAGGTCCGCGTAGA
165420 A
1 A
165421 CCCTCGACTC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.02
23 58 0.98
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (23 bp):
AATGTCCCGAAGGTCCGCGTAGA
Found at i:167032 original size:27 final size:26
Alignment explanation
Indices: 166976--167034 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
166966 GTTAGCAAAA
**
166976 AATTATTTATTAAATTAATTGTAAAT
1 AATTATTTATTAAATTAATCATAAAT
*
167002 AATTATTTTTTGAAATTAATCAT-AAT
1 AATTATTTATT-AAATTAATCATAAAT
167028 CAATTAT
1 -AATTAT
167035 ATGTTATCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
AATTATTTATTAAATTAATCATAAAT
Found at i:169265 original size:31 final size:31
Alignment explanation
Indices: 169227--169301 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
169217 TTTAAATAGT
* *
169227 TATTATTTTTTATATTAATATATTATGTAAA
1 TATTATTTTTTATATTAAAATAATATGTAAA
* *
169258 TATTATTTTTT-TATTAAAATAATATTTATA
1 TATTATTTTTTATATTAAAATAATATGTAAA
169288 TAATTATTTATTTA
1 T-ATTATTT-TTTA
169302 GAATTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.43
31 18 0.49
32 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TATTATTTTTTATATTAAAATAATATGTAAA
Found at i:169281 original size:35 final size:34
Alignment explanation
Indices: 169219--169300 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 34
169209 TAGTATTTTT
* * * *
169219 TAAATAGTTATTATTTTTTATATTAATATATTATG
1 TAAATAGTTATTTTTTTTTAAAATAATAT-TTATA
169254 TAAATA-TTATTTTTTTATTAAAATAATATTTATA
1 TAAATAGTTATTTTTTT-TTAAAATAATATTTATA
* *
169288 TAATTATTTATTT
1 TAAATAGTTATTT
169301 AGAATTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 18 0.45
35 22 0.55
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (34 bp):
TAAATAGTTATTTTTTTTTAAAATAATATTTATA
Found at i:171099 original size:21 final size:21
Alignment explanation
Indices: 171073--171145 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
171063 TATGCCATCT
*
171073 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
171094 CCGCAGGGTTACATTTCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
171115 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
171136 CCGCAGGGTT
1 CCGCAGGGTT
171146 TTATACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:171707 original size:33 final size:34
Alignment explanation
Indices: 171657--171753 Score: 135
Period size: 33 Copynumber: 2.9 Consensus size: 34
171647 TAAATGTTTT
*
171657 TAAAATACAAATTATATTATTCGAAATTTAAA-A
1 TAAAATAAAAATTATATTATTCGAAATTTAAATA
* *
171690 TAAAATAAAAATAATATTATTC-AAATTTAAATT
1 TAAAATAAAAATTATATTATTCGAAATTTAAATA
* *
171723 TAAAATATAAATTATAGTATTCGAAATTTAA
1 TAAAATAAAAATTATATTATTCGAAATTTAA
171754 CATTAAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 9 0.16
33 39 0.70
34 8 0.14
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (34 bp):
TAAAATAAAAATTATATTATTCGAAATTTAAATA
Found at i:172373 original size:128 final size:128
Alignment explanation
Indices: 172145--172647 Score: 961
Period size: 128 Copynumber: 3.9 Consensus size: 128
172135 AGTTATTCAA
172145 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
172210 GACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
172273 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* *
172338 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCTTGTGAAAAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
172401 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* *
172466 GACGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATGTGAACAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
172529 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
172594 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
172648 CCGATTATAG
Statistics
Matches: 367, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 367 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:172728 original size:8 final size:8
Alignment explanation
Indices: 172715--172755 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
172705 TCACAATCTT
172715 TCAAATTC
1 TCAAATTC
172723 TCAAATTC
1 TCAAATTC
*
172731 TCAAACTC
1 TCAAATTC
172739 T-AAATTC
1 TCAAATTC
172746 TCAAATTC
1 TCAAATTC
172754 TC
1 TC
172756 TGAAAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAAATTC
Found at i:172745 original size:15 final size:16
Alignment explanation
Indices: 172715--172755 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
172705 TCACAATCTT
*
172715 TCAAATTCTCAAATTC
1 TCAAACTCTCAAATTC
172731 TCAAACTCT-AAATTC
1 TCAAACTCTCAAATTC
*
172746 TCAAATTCTC
1 TCAAACTCTC
172756 TGAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAACTCTCAAATTC
Found at i:180156 original size:21 final size:21
Alignment explanation
Indices: 180132--180171 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
180122 GCCCGGATCA
*
180132 TCGCGCCTCCGGTCACCATTG
1 TCGCGCCTCCGATCACCATTG
* *
180153 TCGCTCCTCTGATCACCAT
1 TCGCGCCTCCGATCACCAT
180172 CGTCTCTCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.42, G:0.17, T:0.28
Consensus pattern (21 bp):
TCGCGCCTCCGATCACCATTG
Found at i:181603 original size:19 final size:19
Alignment explanation
Indices: 181579--181664 Score: 56
Period size: 19 Copynumber: 5.3 Consensus size: 19
181569 TAGTTTTAAT
181579 CTAAGTCCTAGATTTAACC
1 CTAAGTCCTAGATTTAACC
*
181598 CTAAG---T---TTTAA-T
1 CTAAGTCCTAGATTTAACC
181610 CTAAGTCCTAGATTTAACC
1 CTAAGTCCTAGATTTAACC
*
181629 CTAAG---T---TTTAA-T
1 CTAAGTCCTAGATTTAACC
181641 CTAAGTCCTAGATTTAACC
1 CTAAGTCCTAGATTTAACC
181660 CTAAG
1 CTAAG
181665 GATAATTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 28
0.60 0.05 0.35
Matches are distributed among these distances:
12 10 0.20
13 10 0.20
15 2 0.04
16 2 0.04
18 10 0.20
19 15 0.31
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (19 bp):
CTAAGTCCTAGATTTAACC
Found at i:181682 original size:31 final size:31
Alignment explanation
Indices: 181570--181664 Score: 190
Period size: 31 Copynumber: 3.1 Consensus size: 31
181560 GCTGAAATAT
181570 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
1 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
181601 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
1 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
181632 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
1 AGTTTTAATCTAAGTCCTAGATTTAACCCTA
181663 AG
1 AG
181665 GATAATTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (31 bp):
AGTTTTAATCTAAGTCCTAGATTTAACCCTA
Found at i:182888 original size:41 final size:38
Alignment explanation
Indices: 182818--182992 Score: 105
Period size: 40 Copynumber: 4.6 Consensus size: 38
182808 TTTGAAAAAC
*
182818 ATATAATATATAGCTTTTAGAAAACGGTTTTTGAAAGCA
1 ATATAATATATAGCTTTTAAAAAACGG-TTTTGAAAGCA
** *
182857 ATATAATATATATTTTTTAAAAAAATGGGTTTTGAAA--A
1 ATATAATATATAGCTTTT-AAAAAA-CGGTTTTGAAAGCA
* * **
182895 ACATATATATAATATTCTTTTTGAAAACGTAGTTTTGAAA--A
1 ATATA-ATAT-ATA-GCTTTTAAAAAACG--GTTTTGAAAGCA
* * *
182936 TATATAATATATAG-TTTTAAAATA--TTTTTGAAAAC-
1 -ATATAATATATAGCTTTTAAAAAACGGTTTTGAAAGCA
*
182971 ATATAATATATAGTTTTTAAAA
1 ATATAATATATAGCTTTTAAAA
182993 TAGTTTTTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
34 21 0.19
35 8 0.07
38 12 0.11
39 21 0.19
40 23 0.21
41 21 0.19
42 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (38 bp):
ATATAATATATAGCTTTTAAAAAACGGTTTTGAAAGCA
Found at i:183010 original size:35 final size:35
Alignment explanation
Indices: 182789--183028 Score: 193
Period size: 34 Copynumber: 6.5 Consensus size: 35
182779 ACTTATTTAG
182789 TATAGTCTTTTAAAATATTTTTGAAAAACATATAATA
1 TATAGT-TTTTAAAATATTTTTG-AAAACATATAATA
* *
182826 TATAGCTTTTAGAAA-ACGGTTTTTGAAAGCAATATAATA
1 TATAGTTTTTA-AAATA---TTTTTGAAAAC-ATATAATA
* *
182865 TATATTTTTTAAAAAAATGGGTTTTGAAAAACATATATATAA
1 TATAGTTTTT-AAAATAT---TTTTG-AAAACATATA-AT-A
** * *
182907 TATTCTTTTTGAAAACGTAGTTTTGAAAATATATAATA
1 TATAGTTTTT-AAAA--TATTTTTGAAAACATATAATA
182945 TATAG-TTTTAAAATATTTTTGAAAACATATAATA
1 TATAGTTTTTAAAATATTTTTGAAAACATATAATA
182979 TATAGTTTTTAAAATAGTTTTTTG-AAA-ATATAATA
1 TATAGTTTTTAAAATA--TTTTTGAAAACATATAATA
*
183014 TAT-GTTTCTAAAATA
1 TATAGTTTTTAAAATA
183029 AATATAATAT
Statistics
Matches: 169, Mismatches: 16, Indels: 39
0.75 0.07 0.17
Matches are distributed among these distances:
34 35 0.21
35 21 0.12
36 13 0.08
37 19 0.11
38 8 0.05
39 27 0.16
40 21 0.12
41 11 0.07
42 13 0.08
44 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (35 bp):
TATAGTTTTTAAAATATTTTTGAAAACATATAATA
Found at i:187570 original size:16 final size:16
Alignment explanation
Indices: 187549--187609 Score: 122
Period size: 16 Copynumber: 3.8 Consensus size: 16
187539 ATGATTAAGC
187549 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
187565 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
187581 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
187597 GCTGAATGATTCA
1 GCTGAATGATTCA
187610 GAGGCTCTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (16 bp):
GCTGAATGATTCAAAT
Found at i:196465 original size:72 final size:72
Alignment explanation
Indices: 196360--196526 Score: 217
Period size: 72 Copynumber: 2.3 Consensus size: 72
196350 AACAAATTTG
* * * * *
196360 AACTCAGCTTCACAACGAATGAGTCACCCACGATTTCAAGTTCACGACGAAGGATATCGTTCCCA
1 AACTCAACTTCACAACGAATGAGCCACCCACGATTTCAACTTCACGACGAAGGATATCATGCCCA
196425 AGAGATC
66 AGAGATC
* * *
196432 AACTCAACTTCACAATGAATGAGCCACCTACGATTTCAACTTCACGACGAATGATATCATGCCCA
1 AACTCAACTTCACAACGAATGAGCCACCCACGATTTCAACTTCACGACGAAGGATATCATGCCCA
*
196497 ATAGATC
66 AGAGATC
* * * *
196504 GACTTAACTTCACAGCAAATGAG
1 AACTCAACTTCACAACGAATGAG
196527 TCATCTGCAT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (72 bp):
AACTCAACTTCACAACGAATGAGCCACCCACGATTTCAACTTCACGACGAAGGATATCATGCCCA
AGAGATC
Found at i:197043 original size:39 final size:39
Alignment explanation
Indices: 196993--197168 Score: 136
Period size: 40 Copynumber: 4.6 Consensus size: 39
196983 GTAGTCTTAA
*
196993 AAAATA-TTTTTGAAAAACATATAATATATA-ACTTTTAG
1 AAAATAGTTTTTG-AAAACATATAATATATAGAGTTTTAG
* ** *
197031 AAAATAGTTTTTGAAAGCAATATAATATATAGTTTTTTAA
1 AAAATAGTTTTTGAAAAC-ATATAATATATAGAGTTTTAG
* * * * *
197071 AAAATTGGTTTTGGTAAACATAT-ATATAATATAGTTTTTG
1 AAAA-TAGTTTTTGAAAACATATAATAT-ATAGAGTTTTAG
197111 AAAAT-GTATTTTTGAAAACATATAATATAT--AGTTTT--
1 AAAATAG--TTTTTGAAAACATATAATATATAGAGTTTTAG
*
197147 AAAATA-TTTATGAAAACATATA
1 AAAATAGTTTTTGAAAACATATA
197169 GTACATAGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
34 15 0.13
36 5 0.04
38 17 0.15
39 23 0.20
40 39 0.35
41 14 0.12
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.41
Consensus pattern (39 bp):
AAAATAGTTTTTGAAAACATATAATATATAGAGTTTTAG
Found at i:198657 original size:19 final size:20
Alignment explanation
Indices: 198633--198675 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
198623 CATTGATTTC
*
198633 ATTTTTTAAAAC-CTTTTTT
1 ATTTTTTAAAACACTTTTTA
*
198652 ATTTTTTAAAGCACTTTTTA
1 ATTTTTTAAAACACTTTTTA
198672 ATTT
1 ATTT
198676 CTCTTTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTTAAAACACTTTTTA
Found at i:198780 original size:54 final size:56
Alignment explanation
Indices: 198715--198819 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
198705 TTCTCTCAAA
* *
198715 ATTTAATATTTTCCTC-C-TT-TT-ATTTTATTATTATTTTTTTCTTTTTTAAAAAAG
1 ATTTAATATTTT-CTCACTTTATTGATTTTATT-TCATTTTTTTCTTTCTTAAAAAAG
*
198769 ATTTAATATTTTTTCACTTTATTGATTTTATTTCATTTTTTTCTTTCTTAA
1 ATTTAATATTTTCTCACTTTATTGATTTTATTTCATTTTTTTCTTTCTTAA
198820 CATTTTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 2 0.05
54 13 0.30
55 2 0.05
56 19 0.43
57 8 0.18
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (56 bp):
ATTTAATATTTTCTCACTTTATTGATTTTATTTCATTTTTTTCTTTCTTAAAAAAG
Found at i:199780 original size:9 final size:9
Alignment explanation
Indices: 199738--199815 Score: 52
Period size: 9 Copynumber: 8.0 Consensus size: 9
199728 TAAAAAGTAT
199738 TAAATAAATA
1 TAAATAAA-A
199748 TTAAAT-AAA
1 -TAAATAAAA
*
199757 TCAAAGAAAA
1 T-AAATAAAA
*
199767 AAAATAAAA
1 TAAATAAAA
199776 TAAATAAAA
1 TAAATAAAA
199785 TAAAAAATAAAA
1 T---AAATAAAA
199797 GT-AATAAAA
1 -TAAATAAAA
199806 TAAGATAAAA
1 TAA-ATAAAA
199816 CCCATAATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
8 2 0.04
9 28 0.51
10 11 0.20
11 5 0.09
12 8 0.15
13 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (9 bp):
TAAATAAAA
Found at i:199780 original size:23 final size:21
Alignment explanation
Indices: 199750--199805 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
199740 AATAAATATT
199750 AAATAAATCAAAGAAAAAAAATA
1 AAATAAAT-AAA-AAAAAAAATA
*
199773 AAATAAATAAAATAAAAAATA
1 AAATAAATAAAAAAAAAAATA
199794 AAAGT-AATAAAA
1 AAA-TAAATAAAA
199806 TAAGATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 19 0.61
22 4 0.13
23 8 0.26
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAAATAAAAAAAAAAATA
Found at i:201003 original size:19 final size:19
Alignment explanation
Indices: 200976--201027 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
200966 TAGTTAGGTG
200976 TTTAGTGGTTTAGTGGGTA
1 TTTAGTGGTTTAGTGGGTA
*
200995 TTTAATGGTTTAGTGGGTA
1 TTTAGTGGTTTAGTGGGTA
201014 TTTAGTGGTTTAGT
1 TTTAGTGGTTTAGT
201028 TGGTTGAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (19 bp):
TTTAGTGGTTTAGTGGGTA
Done.