Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007423.1 Kokia drynarioides strain JFW-HI SEQ_122043, 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: 239210
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Warning! 11 characters in sequence are not A, C, G, or T
Found at i:1670 original size:13 final size:13
Alignment explanation
Indices: 1652--1677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1642 TCTTTGTACC
1652 TGTATCATAAATA
1 TGTATCATAAATA
1665 TGTATCATAAATA
1 TGTATCATAAATA
1678 GACGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TGTATCATAAATA
Found at i:4836 original size:21 final size:21
Alignment explanation
Indices: 4804--4862 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4794 TTTTTAAAAA
*
4804 TTTAACTTTTTTATATAT-AT
1 TTTAAATTTTTTATATATAAT
*
4824 TTTAGAATTTTTTAAATATAAT
1 TTTA-AATTTTTTATATATAAT
*
4846 TTTAAATTTTTTTTATA
1 TTTAAATTTTTTATATA
4863 AATATTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 23 0.70
22 6 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAAATTTTTTATATATAAT
Found at i:4860 original size:23 final size:21
Alignment explanation
Indices: 4782--4857 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
4772 TCAAAATTAT
*
4782 TATTTTAGAAAATTTTTAAA-A
1 TATTTTAG-AATTTTTTAAATA
* *
4803 -A-TTTA-ACTTTTTTATATA
1 TATTTTAGAATTTTTTAAATA
4821 TATTTTAGAATTTTTTAAATA
1 TATTTTAGAATTTTTTAAATA
4842 TAATTTTA-AATTTTTT
1 T-ATTTTAGAATTTTTT
4858 TTATAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.18
18 1 0.02
19 5 0.11
20 5 0.11
21 20 0.44
22 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (21 bp):
TATTTTAGAATTTTTTAAATA
Found at i:4890 original size:42 final size:43
Alignment explanation
Indices: 4782--4897 Score: 109
Period size: 39 Copynumber: 2.8 Consensus size: 43
4772 TCAAAATTAT
** * *
4782 TATTTTAGAAAATTTTTAA-A-AA-TTTAA-CTTTTTTATATA
1 TATTTTAGAAAATTTGAAATATAATTTTAATTTTTTTTATAAA
** *
4821 TATTTTAGAATTTTTTAAATATAATTTTAAATTTTTTTTATAAA
1 TATTTTAGAAAATTTGAAATATAATTTT-AATTTTTTTTATAAA
*
4865 TATTTT-GAAAATTTGAAA-ATTATTTTAATTTTT
1 TATTTTAGAAAATTTGAAATATAATTTTAATTTTT
4898 GTTGAAAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
39 16 0.25
40 1 0.02
41 9 0.14
42 10 0.16
43 11 0.17
44 16 0.25
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (43 bp):
TATTTTAGAAAATTTGAAATATAATTTTAATTTTTTTTATAAA
Found at i:7201 original size:3 final size:3
Alignment explanation
Indices: 7193--7229 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7183 AGGGTTTAAA
7193 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
7230 TGTCGAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9055 original size:41 final size:40
Alignment explanation
Indices: 9013--9151 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
9003 TCTCGTGGCT
* * * *
9013 TGCTAAGTCGTAGCTTGAATGTTCAACACTGGCTAATAGCT
1 TGCTAAGTCGAAGCTTGAAT-TTCATCACTGGCTCATAGCC
*
9054 TGCTAAG-CTGAAGCTTGAA-TTCTATCACCGGCTCATAGCC
1 TGCTAAGTC-GAAGCTTGAATTTC-ATCACTGGCTCATAGCC
* * *
9094 TGCTAAGCCGAAGCTTGAGTTTTATCACTGGCTCATAGCC
1 TGCTAAGTCGAAGCTTGAATTTCATCACTGGCTCATAGCC
**
9134 TGCTAAGTTAAAGCTTGA
1 TGCTAAGTCGAAGCTTGA
9152 GTTCTTATCC
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
39 3 0.04
40 61 0.73
41 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (40 bp):
TGCTAAGTCGAAGCTTGAATTTCATCACTGGCTCATAGCC
Found at i:9101 original size:40 final size:40
Alignment explanation
Indices: 9043--9156 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
9033 GTTCAACACT
* * *
9043 GGCTAATAGCTTGCTAAGCTGAAGCTTGAATTCTATCACC
1 GGCTCATAGCCTGCTAAGCTGAAGCTTGAGTTCTATCACC
* * *
9083 GGCTCATAGCCTGCTAAGCCGAAGCTTGAGTTTTATCACT
1 GGCTCATAGCCTGCTAAGCTGAAGCTTGAGTTCTATCACC
* *
9123 GGCTCATAGCCTGCTAAGTTAAAGCTTGAGTTCT
1 GGCTCATAGCCTGCTAAGCTGAAGCTTGAGTTCT
9157 TATCCAAAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (40 bp):
GGCTCATAGCCTGCTAAGCTGAAGCTTGAGTTCTATCACC
Found at i:13398 original size:11 final size:11
Alignment explanation
Indices: 13379--13428 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
13369 AAAACAACAT
*
13379 CCAATATAAAG
1 CCAACATAAAG
13390 CCAACATAAAG
1 CCAACATAAAG
*
13401 CTAACATAAAG
1 CCAACATAAAG
* *
13412 TCATCATAAAG
1 CCAACATAAAG
13423 CCAACA
1 CCAACA
13429 AAAAACAACA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (11 bp):
CCAACATAAAG
Found at i:15941 original size:21 final size:21
Alignment explanation
Indices: 15915--15955 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15905 TTCGAAGGAC
*
15915 AAGAAGAGAAAGCGCAAAGAT
1 AAGAAGAAAAAGCGCAAAGAT
*
15936 AAGAAGAAAAAGTGCAAAGA
1 AAGAAGAAAAAGCGCAAAGA
15956 AGAAGGCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.27, T:0.05
Consensus pattern (21 bp):
AAGAAGAAAAAGCGCAAAGAT
Found at i:15978 original size:3 final size:3
Alignment explanation
Indices: 15972--16003 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15962 CGAGCGCTCA
*
15972 AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16004 AGCCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:16717 original size:10 final size:10
Alignment explanation
Indices: 16702--16740 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
16692 AAATATGCAC
16702 AAAAAGAAAG
1 AAAAAGAAAG
16712 AAAAAGAAAG
1 AAAAAGAAAG
*
16722 AAGAAAAAAAG
1 AA-AAAGAAAG
16733 -AAAAGAAA
1 AAAAAGAAA
16741 TATATTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 6 0.23
10 13 0.50
11 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:20090 original size:185 final size:185
Alignment explanation
Indices: 19771--20142 Score: 708
Period size: 185 Copynumber: 2.0 Consensus size: 185
19761 ACCTTTTAAC
19771 TTAATGATTTTGACTTTTAACTTTAGAAAGCGTAAACATTTATCAAAACGACGTAGTTTTACCTT
1 TTAATGATTTTGACTTTTAACTTTAGAAAGCGTAAACATTTATCAAAACGACGTAGTTTTACCTT
19836 TTCTTATTCGGATTTTCGAATAATTCGAATTGTATAATTTATATCCAAGTCAAACCGAAAAACTT
66 TTCTTATTCGGATTTTCGAATAATTCGAATTGTATAATTTATATCCAAGTCAAACCGAAAAACTT
19901 AATTTTTTATTCGAGTTGATCTGAATAACTCGATTAACTCAAATAACTCGAACTA
131 AATTTTTTATTCGAGTTGATCTGAATAACTCGATTAACTCAAATAACTCGAACTA
* * *
19956 TTAATGGTTTTGACTTTTAACTTTAGAAAGGGTAAACATTTATCAAAACGACGTAGTTTTGCCTT
1 TTAATGATTTTGACTTTTAACTTTAGAAAGCGTAAACATTTATCAAAACGACGTAGTTTTACCTT
*
20021 TTTTTATTCGGATTTTCGAATAATTCGAATTGTATAATTTATATCCAAGTCAAACCGAAAAACTT
66 TTCTTATTCGGATTTTCGAATAATTCGAATTGTATAATTTATATCCAAGTCAAACCGAAAAACTT
20086 AATTTTTTATTCGAGTTGATCTGAATAACTCGATTAACTCAAATAACTCGAACTA
131 AATTTTTTATTCGAGTTGATCTGAATAACTCGATTAACTCAAATAACTCGAACTA
20141 TT
1 TT
20143 TAATTCAAAA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 183 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (185 bp):
TTAATGATTTTGACTTTTAACTTTAGAAAGCGTAAACATTTATCAAAACGACGTAGTTTTACCTT
TTCTTATTCGGATTTTCGAATAATTCGAATTGTATAATTTATATCCAAGTCAAACCGAAAAACTT
AATTTTTTATTCGAGTTGATCTGAATAACTCGATTAACTCAAATAACTCGAACTA
Found at i:23160 original size:21 final size:21
Alignment explanation
Indices: 23130--23170 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23120 TAACGGGCAT
23130 GATGACGTGGCAAGTTAACTA
1 GATGACGTGGCAAGTTAACTA
* *
23151 GATGATGTGGCCAGTTAACT
1 GATGACGTGGCAAGTTAACT
23171 TGGCACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
GATGACGTGGCAAGTTAACTA
Found at i:24235 original size:30 final size:33
Alignment explanation
Indices: 24179--24240 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
24169 GCATGTGTTG
*
24179 TATTAAATGTTTGTTTCTAGTCTGATAGTGATA
1 TATTAAATGGTTGTTTCTAGTCTGATAGTGATA
24212 TATTAAATGGTTG-TT-TA-TCTGATAGTGAT
1 TATTAAATGGTTGTTTCTAGTCTGATAGTGAT
24241 GAGTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.43
31 2 0.07
32 2 0.07
33 12 0.43
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.48
Consensus pattern (33 bp):
TATTAAATGGTTGTTTCTAGTCTGATAGTGATA
Found at i:35009 original size:26 final size:26
Alignment explanation
Indices: 34957--35157 Score: 163
Period size: 26 Copynumber: 7.7 Consensus size: 26
34947 TAGTAATTTA
* * *
34957 GCTCATACGAGCTCAG-TCAGCAAATC
1 GCTCTTACGAGC-CAGTTCAGTATATC
* *
34983 GCTCTTACAAGCTAGTAT-AGTATATC
1 GCTCTTACGAGCCAGT-TCAGTATATC
* *
35009 GCTCTTATGAGCCAGTTCAGTATATT
1 GCTCTTACGAGCCAGTTCAGTATATC
* * *
35035 GCTATTTCGAGCCAGTACAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* * * **
35061 GCTCATATGAGCTAGTTCAACATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* * * *
35087 ACTCTTTCGAGCTAGTGCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* *
35113 ACTCTTACGAACCAGTTCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* *
35139 GCTCTTAGGAGCCAATTCA
1 GCTCTTACGAGCCAGTTCA
35158 ACATATTGCT
Statistics
Matches: 135, Mismatches: 37, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
25 3 0.02
26 131 0.97
27 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (26 bp):
GCTCTTACGAGCCAGTTCAGTATATC
Found at i:35108 original size:78 final size:78
Alignment explanation
Indices: 35004--35163 Score: 187
Period size: 78 Copynumber: 2.1 Consensus size: 78
34994 CTAGTATAGT
* * ** * * *
35004 ATATCGCTCTTATGAGCCAGTTCAGTATATTGCTATTTCGAGCCAGTACAGTATATCGCTCATAT
1 ATATCACTCTTATGAGCCAGTGCAGTATATCACTATTACGAACCAGTACAGTATATCGCTCATAG
* *
35069 GAGCTAGTTCAAC
66 GAGCCAATTCAAC
* * * *
35082 ATATCACTCTT-TCGAGCTAGTGCAGTATATCACTCTTACGAACCAGTTCAGTATATCGCTCTTA
1 ATATCACTCTTAT-GAGCCAGTGCAGTATATCACTATTACGAACCAGTACAGTATATCGCTCATA
35146 GGAGCCAATTCAAC
65 GGAGCCAATTCAAC
35160 ATAT
1 ATAT
35164 TGCTCCCAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 67 0.99
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (78 bp):
ATATCACTCTTATGAGCCAGTGCAGTATATCACTATTACGAACCAGTACAGTATATCGCTCATAG
GAGCCAATTCAAC
Found at i:35144 original size:52 final size:52
Alignment explanation
Indices: 34980--35144 Score: 195
Period size: 52 Copynumber: 3.2 Consensus size: 52
34970 CAGTCAGCAA
* * *
34980 ATCGCTCTTACAAGCTAGTATAGTATATCGCTCTTATGAGCCAGTTCAGTAT
1 ATCGCTCTTTCGAGCTAGTACAGTATATCGCTCTTATGAGCCAGTTCAGTAT
* * * * * **
35032 ATTGCTATTTCGAGCCAGTACAGTATATCGCTCATATGAGCTAGTTCAACAT
1 ATCGCTCTTTCGAGCTAGTACAGTATATCGCTCTTATGAGCCAGTTCAGTAT
* * * * *
35084 ATCACTCTTTCGAGCTAGTGCAGTATATCACTCTTACGAACCAGTTCAGTAT
1 ATCGCTCTTTCGAGCTAGTACAGTATATCGCTCTTATGAGCCAGTTCAGTAT
35136 ATCGCTCTT
1 ATCGCTCTT
35145 AGGAGCCAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 90 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
ATCGCTCTTTCGAGCTAGTACAGTATATCGCTCTTATGAGCCAGTTCAGTAT
Found at i:35385 original size:24 final size:24
Alignment explanation
Indices: 35357--35484 Score: 150
Period size: 24 Copynumber: 5.3 Consensus size: 24
35347 GCTAATGTAT
* *
35357 GTTTATGCTTTTCAGCCACTATAT
1 GTTTATGCTTGTCAGCCACTATAC
* *
35381 ATTTATGCTCGTCAGCCACTATAC
1 GTTTATGCTTGTCAGCCACTATAC
* *
35405 GTTTATGCTTGTGAGCTACTATAC
1 GTTTATGCTTGTCAGCCACTATAC
*
35429 GTTTATGCTCAGT-AGCCACTATAC
1 GTTTATGCT-TGTCAGCCACTATAC
* * *
35453 GTTTATGGTCGTCAGCCACTGTAC
1 GTTTATGCTTGTCAGCCACTATAC
35477 GTTTATGC
1 GTTTATGC
35485 AATACGTTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.02
24 84 0.95
25 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (24 bp):
GTTTATGCTTGTCAGCCACTATAC
Found at i:38966 original size:24 final size:24
Alignment explanation
Indices: 38927--39191 Score: 287
Period size: 24 Copynumber: 11.0 Consensus size: 24
38917 TTTTTATCTG
*
38927 AGTGGCTGACGCGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAC
* *
38951 AATGGCTAACGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAC
* * * *
38975 AATGGTTGACGAGCATAAATGTAT
1 AGTGGCTGACGAGCATAAACGTAC
* *
38999 AGTGTCTAACGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAC
* * *
39023 AGTGACTGATGAGCATAAACATAC
1 AGTGGCTGACGAGCATAAACGTAC
* * * * *
39047 AGTGGTTGGCAAGCATAAAAGTAT
1 AGTGGCTGACGAGCATAAACGTAC
* *
39071 AATGGTTGACGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAC
* * *
39095 AGTGGTTGACAAGCATAAACGTAT
1 AGTGGCTGACGAGCATAAACGTAC
39119 AGTGGCTGACGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAC
**
39143 AGTGGCTGACGAGCATAAACACAC
1 AGTGGCTGACGAGCATAAACGTAC
* * *
39167 AGTGGTTAACGAGCATAAACATAC
1 AGTGGCTGACGAGCATAAACGTAC
39191 A
1 A
39192 TTAGTTGGCG
Statistics
Matches: 200, Mismatches: 41, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 200 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (24 bp):
AGTGGCTGACGAGCATAAACGTAC
Found at i:39370 original size:26 final size:26
Alignment explanation
Indices: 39340--39410 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
39330 ATATGTCATA
39340 TGGCTCGTAAGAGCGATATACTACAC
1 TGGCTCGTAAGAGCGATATACTACAC
*
39366 TGGCTCGTAAGAGCGATATACTGCAC
1 TGGCTCGTAAGAGCGATATACTACAC
* *
39392 TGGCTCGAAAGAGTGATAT
1 TGGCTCGTAAGAGCGATAT
39411 GTTGAACTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (26 bp):
TGGCTCGTAAGAGCGATATACTACAC
Found at i:42398 original size:18 final size:18
Alignment explanation
Indices: 42365--42399 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42355 TCACATCCTG
**
42365 ATCAGATGCATTCACATA
1 ATCAGATGCAACCACATA
42383 ATCAGATGCAACCACAT
1 ATCAGATGCAACCACAT
42400 GCTCGTATGT
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:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
ATCAGATGCAACCACATA
Found at i:46768 original size:23 final size:25
Alignment explanation
Indices: 46722--46775 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
46712 TCATTACAAT
*
46722 TTTTCTATTTAATTCTTTATTTTA-
1 TTTTCTATTTAATTCTTTACTTTAG
46746 TTTTCT-TTTAATTCTCTT-CTTTAG
1 TTTTCTATTTAATTCT-TTACTTTAG
46770 TTTTCT
1 TTTTCT
46776 GTAGGAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTCTATTTAATTCTTTACTTTAG
Found at i:48452 original size:12 final size:12
Alignment explanation
Indices: 48435--48485 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
48425 GGGTGTTGAG
* *
48435 GAAGAGGAGGAA
1 GAAGAGAAGAAA
48447 GAAGAGAAGAAA
1 GAAGAGAAGAAA
48459 GAAGAAGAA-AAA
1 GAAG-AGAAGAAA
48471 G-AGAGAA-AAA
1 GAAGAGAAGAAA
48481 GAAGA
1 GAAGA
48486 AGAATTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 8 0.23
11 5 0.14
12 18 0.51
13 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAAGAGAAGAAA
Found at i:48466 original size:10 final size:9
Alignment explanation
Indices: 48451--48486 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
48441 GAGGAAGAAG
48451 AGAAGAAAGA
1 AGAAGAAA-A
48461 AGAAGAAAA
1 AGAAGAAAA
48470 AGAGAGAAAA
1 AGA-AGAAAA
48480 AGAAGAA
1 AGAAGAA
48487 GAATTTGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:48484 original size:19 final size:21
Alignment explanation
Indices: 48448--48489 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
48438 GAGGAGGAAG
48448 AAGAGAAGAAAGAAGAAGAAA
1 AAGAGAAGAAAGAAGAAGAAA
*
48469 AAGAGAGAAAAAGAAGAAGAA
1 AAGAGA-AGAAAGAAGAAGAA
48490 TTTGTAGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAGAGAAGAAAGAAGAAGAAA
Found at i:48955 original size:17 final size:17
Alignment explanation
Indices: 48900--48958 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
48890 ATAGTTGTCA
**
48900 TTGCATTTGAATTGTCT
1 TTGCATTTGAATTGTAG
*
48917 TTGCATTT-TATCTGTTAG
1 TTGCATTTGAAT-TG-TAG
*
48935 -TGCATTTGCATTGTAG
1 TTGCATTTGAATTGTAG
48951 TTGCATTT
1 TTGCATTT
48959 TTATTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 5 0.15
17 26 0.76
18 3 0.09
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.53
Consensus pattern (17 bp):
TTGCATTTGAATTGTAG
Found at i:51371 original size:26 final size:26
Alignment explanation
Indices: 51342--51438 Score: 104
Period size: 26 Copynumber: 3.7 Consensus size: 26
51332 AGCACGATCA
* * *
51342 CTCGTATGAGCGATATACTATACTAG
1 CTCGTAAGAACGATATACTATACTGG
* * *
51368 CTCGAAAGAACGATATATTGTACTGG
1 CTCGTAAGAACGATATACTATACTGG
**
51394 CTCGTAAGAAAAATATACTATACTGG
1 CTCGTAAGAACGATATACTATACTGG
* *
51420 CTCGTAAGAGCGATTTACT
1 CTCGTAAGAACGATATACT
51439 GATTGAGCTT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (26 bp):
CTCGTAAGAACGATATACTATACTGG
Found at i:52757 original size:12 final size:12
Alignment explanation
Indices: 52740--52764 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52730 ACGGAAAAGG
52740 AAAATTAGCAGA
1 AAAATTAGCAGA
52752 AAAATTAGCAGA
1 AAAATTAGCAGA
52764 A
1 A
52765 TAGTCCCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAATTAGCAGA
Found at i:56644 original size:13 final size:13
Alignment explanation
Indices: 56623--56656 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56613 ACAATATCAT
56623 AATAATAATCCTA
1 AATAATAATCCTA
*
56636 AATATTAATCCTA
1 AATAATAATCCTA
*
56649 AAAAATAA
1 AATAATAA
56657 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:65789 original size:23 final size:22
Alignment explanation
Indices: 65759--65825 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
65749 TCATATTAAA
65759 CATTGTATCTAAACAAAACCATC
1 CATTGTATCTAAA-AAAACCATC
*
65782 CATTGTATCTAAAAAAACCGTC
1 CATTGTATCTAAAAAAACCATC
* *
65804 AATTATATCTAAATAAAACCAT
1 CATTGTATCTAAA-AAAACCAT
65826 TCATCTATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.28
Consensus pattern (22 bp):
CATTGTATCTAAAAAAACCATC
Found at i:65812 original size:22 final size:23
Alignment explanation
Indices: 65764--65825 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
65754 TTAAACATTG
* *
65764 TATCTAAACAAAACCATCCATTG
1 TATCTAAACAAAACCATCAATTA
*
65787 TATCTAAA-AAAACCGTCAATTA
1 TATCTAAACAAAACCATCAATTA
*
65809 TATCTAAATAAAACCAT
1 TATCTAAACAAAACCAT
65826 TCATCTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (23 bp):
TATCTAAACAAAACCATCAATTA
Found at i:69102 original size:9 final size:9
Alignment explanation
Indices: 69088--69310 Score: 72
Period size: 9 Copynumber: 23.3 Consensus size: 9
69078 ATAACAGTAA
69088 ACATAACAT
1 ACATAACAT
*
69097 ACATAATAT
1 ACATAACAT
69106 ACATTATATACAT
1 AC---ATA-ACAT
*
69119 ACAGTAAACAAG
1 ACA-T-AAC-AT
69131 ACAT-ACAT
1 ACATAACAT
69139 A-ATTATACAT
1 ACA-TA-ACAT
* *
69149 ATATAATAT
1 ACATAACAT
69158 ACATAACAGT
1 ACATAACA-T
69168 AAACATAACAT
1 --ACATAACAT
69179 ACAT-ACA-
1 ACATAACAT
*
69186 A-ATATACAA
1 ACATA-ACAT
69195 ACATAACACT
1 ACATAACA-T
69205 AAACATAACAT
1 --ACATAACAT
*
69216 ACATAATAT
1 ACATAACAT
* *
69225 ACATATCAC
1 ACATAACAT
69234 ACAT-ACA-
1 ACATAACAT
*
69241 A-ATATACAA
1 ACATA-ACAT
69250 ACATAACAGTAT
1 ACATAAC---AT
69262 GGACTATAACAT
1 --AC-ATAACAT
69274 ACATAACACT
1 ACATAACA-T
69284 ACATAACAT
1 ACATAACAT
69293 ACAT-A-AT
1 ACATAACAT
69300 ACAT-ACAT
1 ACATAACAT
69308 ACA
1 ACA
69311 CAAATAGTAA
Statistics
Matches: 167, Mismatches: 14, Indels: 67
0.67 0.06 0.27
Matches are distributed among these distances:
6 4 0.02
7 10 0.06
8 20 0.12
9 61 0.37
10 26 0.16
11 7 0.04
12 27 0.16
13 5 0.03
14 2 0.01
15 5 0.03
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (9 bp):
ACATAACAT
Found at i:69217 original size:25 final size:25
Alignment explanation
Indices: 69168--69257 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 25
69158 ACATAACAGT
*
69168 AAACATAACATACATACAAATATAC
1 AAACATAACATACATACAAACATAC
*
69193 AAACATAACACTAAACATAACATACATA-
1 AAACATAACA-T--ACAT-ACAAACATAC
* * *
69221 ATATACATATCACACATACAAATATAC
1 A-A-ACATAACATACATACAAACATAC
69248 AAACATAACA
1 AAACATAACA
69258 GTATGGACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
25 17 0.33
26 9 0.18
27 5 0.10
28 5 0.10
29 8 0.16
30 7 0.14
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.20
Consensus pattern (25 bp):
AAACATAACATACATACAAACATAC
Found at i:69291 original size:19 final size:20
Alignment explanation
Indices: 69145--69308 Score: 71
Period size: 21 Copynumber: 7.5 Consensus size: 20
69135 ACATAATTAT
* *
69145 ACATATATAATATACATAAC
1 ACATACATAACATACATAAC
* * *
69165 AGTAAACATAACATACATACAA
1 A-CATACATAACATACATA-AC
*
69187 ATATACA-AACATAACACTAAAC
1 ACATACATAACAT-ACA-T-AAC
*
69209 ATAACATACATAATATACATATCAC
1 ---ACATACATAACATACATA--AC
*
69234 ACATACAAATATACAAACATAAC
1 ACATAC--ATA-ACATACATAAC
*
69257 AGTATGGACTATAACATACATAAC
1 A-CAT--AC-ATAACATACATAAC
*
69281 AC-TACATAACATACATAAT
1 ACATACATAACATACATAAC
69300 ACATACATA
1 ACATACATA
69309 CACAAATAGT
Statistics
Matches: 110, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
19 15 0.14
20 14 0.13
21 21 0.19
22 11 0.10
23 5 0.05
24 17 0.15
25 21 0.19
26 6 0.05
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (20 bp):
ACATACATAACATACATAAC
Found at i:69292 original size:119 final size:117
Alignment explanation
Indices: 69070--69302 Score: 269
Period size: 119 Copynumber: 2.0 Consensus size: 117
69060 ATAAACAGTC
* * *
69070 ATACAAACATAACAGTAAACATAACATACATAATATACATTATATACATACAGTAAACAAGACAT
1 ATACAAACATAACACTAAACATAACATACATAATATACATTATACACATACAATAAACAAGACAT
* * *
69135 ACATAATTATACATATATAATATACATAACAGTAAACATAACATACATACAAAT
66 ACATAAGTATACATATATAACATACATAACACTAAACAT-ACATA-ATACAAAT
*
69189 ATACAAACATAACACTAAACATAACATACATAATATACA-TATCACACATACAAATATACAA-AC
1 ATACAAACATAACACTAAACATAACATACATAATATACATTAT-ACACATAC-AATAAACAAGAC
* ** *
69252 ATA-A-CAGTATGGA-CTATAACATACATAACACTACATAACATACATAATACA
64 ATACATAAGTATACATATATAACATACATAACACT--A-AACATACATAATACA
69303 TACATACACA
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
116 16 0.16
117 10 0.10
118 10 0.10
119 55 0.56
120 7 0.07
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (117 bp):
ATACAAACATAACACTAAACATAACATACATAATATACATTATACACATACAATAAACAAGACAT
ACATAAGTATACATATATAACATACATAACACTAAACATACATAATACAAAT
Found at i:69293 original size:55 final size:51
Alignment explanation
Indices: 69169--69308 Score: 140
Period size: 55 Copynumber: 2.6 Consensus size: 51
69159 CATAACAGTA
69169 AACATAACAT-ACATACAAATATACAAACATAACACTAAACATAACATACAT
1 AACAT-ACATAACATACAAATATACAAACATAACACTAAACATAACATACAT
* * *
69220 AATATACATATCACACATACAAATATACAAACATAACAGTATGGACTATAACATACAT
1 AACATAC--AT-A-ACATACAAATATACAAACATAACACTA--AAC-ATAACATACAT
* *
69278 AACACTACATAACATACATA-ATACATACATA
1 AACA-TACATAACATACAAATATACAAACATA
69309 CACAAATAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
50 2 0.03
51 4 0.05
52 2 0.03
54 10 0.14
55 34 0.46
56 1 0.01
57 4 0.05
58 14 0.19
59 3 0.04
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.22
Consensus pattern (51 bp):
AACATACATAACATACAAATATACAAACATAACACTAAACATAACATACAT
Found at i:76338 original size:31 final size:31
Alignment explanation
Indices: 76302--76366 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
76292 CAACAAAAAC
*
76302 AAAAAATAACAA-TTAGATATAATACGAATTA
1 AAAAAATAA-AAGTTAGATATAATACGAAATA
*
76333 AAAAAATAAAAGTTATATATAATACGAAATA
1 AAAAAATAAAAGTTAGATATAATACGAAATA
76364 AAA
1 AAA
76367 CAGAGTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.25
Consensus pattern (31 bp):
AAAAAATAAAAGTTAGATATAATACGAAATA
Found at i:76395 original size:27 final size:27
Alignment explanation
Indices: 76363--76449 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
76353 AATACGAAAT
*
76363 AAAACAGAGTCAAAACCCAAAAATAAC
1 AAAACAGAGTCAAAACCCAAAAATAAA
* *
76390 AAAACATAGTCAAAACTCAGAAAA-AAA
1 AAAACAGAGTCAAAACCCA-AAAATAAA
* *
76417 AAAATAGTGTCAAAACCCAAAAAATAAA
1 AAAACAGAGTCAAAACCC-AAAAATAAA
76445 AAAAC
1 AAAAC
76450 CTCATCGATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 37 0.76
28 12 0.24
ACGTcount: A:0.66, C:0.17, G:0.07, T:0.10
Consensus pattern (27 bp):
AAAACAGAGTCAAAACCCAAAAATAAA
Found at i:85607 original size:42 final size:42
Alignment explanation
Indices: 85561--85684 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
85551 CATTGAATAA
* *
85561 ACCGAAGTAATTATACTGGGACATAAGTGCATCATCGGACAT
1 ACCGAAGTAATTATATTGGCACATAAGTGCATCATCGGACAT
* * * * *
85603 ACCGAAGAAAATATATTAGCACGTAAGTGCATCATCGGATAT
1 ACCGAAGTAATTATATTGGCACATAAGTGCATCATCGGACAT
** *
85645 ATTGAA-TCAATTATATTGGCACACATAGTGCATCATCGGA
1 ACCGAAGT-AATTATATTGGCACATA-AGTGCATCATCGGA
85685 TAAACTGAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
42 52 0.79
43 14 0.21
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (42 bp):
ACCGAAGTAATTATATTGGCACATAAGTGCATCATCGGACAT
Found at i:87409 original size:76 final size:76
Alignment explanation
Indices: 87322--87484 Score: 310
Period size: 76 Copynumber: 2.1 Consensus size: 76
87312 AAGTAAAAAT
87322 ATAAAAATAAAATTCAAAATATACAAAAAATACAATCACTTTAAACATAACCTTTAAATTTTTAC
1 ATAAAAATAAAATTCAAAATATACAAAAAATACAATCACTTTAAACATAACCTTTAAATTTTTAC
87387 TCTATAATTTA
66 TCTATAATTTA
87398 ATAAAAATAAAATTCAAAATATACAAAAAATACAATCACTTTAAACATAACCTTTAAATTTTTAC
1 ATAAAAATAAAATTCAAAATATACAAAAAATACAATCACTTTAAACATAACCTTTAAATTTTTAC
87463 TCTATAATTTA
66 TCTATAATTTA
87474 AGT-AAAATAAA
1 A-TAAAAATAAA
87485 TAATTACCCA
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
76 85 0.99
77 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (76 bp):
ATAAAAATAAAATTCAAAATATACAAAAAATACAATCACTTTAAACATAACCTTTAAATTTTTAC
TCTATAATTTA
Found at i:89717 original size:21 final size:21
Alignment explanation
Indices: 89688--89727 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89678 AAGTTGTTAC
*
89688 TTTGTAAATGAAATTTTTTTG
1 TTTGGAAATGAAATTTTTTTG
**
89709 TTTGGAAATGTCATTTTTT
1 TTTGGAAATGAAATTTTTT
89728 ATACAATAAA
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:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (21 bp):
TTTGGAAATGAAATTTTTTTG
Found at i:90280 original size:3 final size:3
Alignment explanation
Indices: 90272--90299 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
90262 ATTCCAACAT
90272 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
90300 TCTGCAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:90472 original size:99 final size:99
Alignment explanation
Indices: 90301--90500 Score: 373
Period size: 99 Copynumber: 2.0 Consensus size: 99
90291 AATAATAATT
90301 CTGCAATGGAAAGGTGTGGCTGTTGGGTGTCGATGGCAAGCTTTTGTTGCATATGTGAACGCTGG
1 CTGCAATGGAAAGGTGTGGCTGTTGGGTGTCGATGGCAAGCTTTTGTTGCATATGTGAACGCTGG
*
90366 TTGTTATTACGTGGTTGGGATTCCCTTCGGCACC
66 TTGTTATTAAGTGGTTGGGATTCCCTTCGGCACC
* *
90400 CTGCAATGGAAAGGTGTGGCTGTTGGGTGTGGATGGCAAGCTTTTGTTGCATATGTTAACGCTGG
1 CTGCAATGGAAAGGTGTGGCTGTTGGGTGTCGATGGCAAGCTTTTGTTGCATATGTGAACGCTGG
90465 TTGTTATTAAGTGGTTGGGATTCCCTTCGGCACC
66 TTGTTATTAAGTGGTTGGGATTCCCTTCGGCACC
90499 CT
1 CT
90501 ACTCGGCTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.34
Consensus pattern (99 bp):
CTGCAATGGAAAGGTGTGGCTGTTGGGTGTCGATGGCAAGCTTTTGTTGCATATGTGAACGCTGG
TTGTTATTAAGTGGTTGGGATTCCCTTCGGCACC
Found at i:91044 original size:38 final size:37
Alignment explanation
Indices: 90974--91045 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
90964 ATTACAAAAA
* * *
90974 AAAATATTTTAAAATAATTTTCAAAATTTTAAAATTC
1 AAAATATTTTAAAAAAATTTACAAAATATTAAAATTC
91011 AAAATATTTATAAAAAAAGTTTACAAAA-ATTAAAA
1 AAAATATTT-TAAAAAAA-TTTACAAAATATTAAAA
91046 AGAATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 9 0.30
38 13 0.43
39 8 0.27
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATATTTTAAAAAAATTTACAAAATATTAAAATTC
Found at i:91297 original size:21 final size:21
Alignment explanation
Indices: 91280--91330 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
91270 TCGATTTGAT
91280 TCAACTTGAATTTCATTTCAC
1 TCAACTTGAATTTCATTTCAC
*
91301 TCAATTTGAATTTCATTTCAC
1 TCAACTTGAATTTCATTTCAC
91322 TCAACTTGA
1 TCAACTTGA
91331 TTCGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (21 bp):
TCAACTTGAATTTCATTTCAC
Found at i:98358 original size:21 final size:21
Alignment explanation
Indices: 98332--98374 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
98322 TTATTAATAA
98332 GACTAAGTCTTAAGGG-GATTT
1 GACTAAGTCTT-AGGGAGATTT
98353 GACTAAGTCTTAGGGAGATTT
1 GACTAAGTCTTAGGGAGATTT
98374 G
1 G
98375 TTAGCTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (21 bp):
GACTAAGTCTTAGGGAGATTT
Found at i:98553 original size:40 final size:40
Alignment explanation
Indices: 98504--98595 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
98494 GAAAATGCCA
* * * ***
98504 CAAACGGTAAAGCAATAGCAG-CGTTTTTCCATAAATGTCG
1 CAAAAGGTAAAGCAATAAC-GTCGTTTTCCCATAAACACCG
*
98544 CAAAAGGTAAAGCAATAACGTTGTTTTCCCATAAACACCG
1 CAAAAGGTAAAGCAATAACGTCGTTTTCCCATAAACACCG
98584 CAAAAGGTAAAG
1 CAAAAGGTAAAG
98596 AGAATTAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (40 bp):
CAAAAGGTAAAGCAATAACGTCGTTTTCCCATAAACACCG
Found at i:101133 original size:87 final size:87
Alignment explanation
Indices: 101030--101282 Score: 321
Period size: 86 Copynumber: 2.9 Consensus size: 87
101020 GTTAGTGGCA
* *
101030 TTTGTAGGAAAAGCACCGCTAAAGATCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
1 TTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
**
101095 AGACCATGTTCTTATAGCGGGG
66 AGACCATGTTCTTATAGCGACG
* * * * *
101117 TTTGTGGGAAAAGCACCGGTAAAGACCATGTTATATAGCGGTGTTTGTGGGAAAAATGCCGCTAA
1 TTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
*
101182 AAACCATGTTC-TATAGCGACG
66 AGACCATGTTCTTATAGCGACG
**** * * * *
101203 TTTGTGGGAAAAGTGTTGTTAAAGACCATGCTCTATAGCGGGGTTTGTGGGAAAAGTGTCATTAA
1 TTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
*
101268 AGATCATGTT-TTATA
66 AGACCATGTTCTTATA
101283 ACTGCGTTTT
Statistics
Matches: 141, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
86 73 0.52
87 68 0.48
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (87 bp):
TTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
AGACCATGTTCTTATAGCGACG
Found at i:101240 original size:86 final size:87
Alignment explanation
Indices: 101030--101257 Score: 305
Period size: 87 Copynumber: 2.6 Consensus size: 87
101020 GTTAGTGGCA
* * * * *
101030 TTTGTAGGAAAAGCACCGCTAAAGATCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGTTAA
1 TTTGTGGGAAAAGCACCGGTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGCCGCTAA
* **
101095 AGACCATGTTCTTATAGCGGGG
66 AAACCATGTTCTTATAGCGACG
* *
101117 TTTGTGGGAAAAGCACCGGTAAAGACCATGTTATATAGCGGTGTTTGTGGGAAAAATGCCGCTAA
1 TTTGTGGGAAAAGCACCGGTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGCCGCTAA
101182 AAACCATGTTC-TATAGCGACG
66 AAACCATGTTCTTATAGCGACG
**** * *
101203 TTTGTGGGAAAAGTGTTGTTAAAGACCATGCTCTATAGCGGGGTTTGTGGGAAAA
1 TTTGTGGGAAAAGCACCGGTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAA
101258 GTGTCATTAA
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
86 55 0.45
87 68 0.55
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (87 bp):
TTTGTGGGAAAAGCACCGGTAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAATGCCGCTAA
AAACCATGTTCTTATAGCGACG
Found at i:101261 original size:43 final size:43
Alignment explanation
Indices: 101049--101282 Score: 288
Period size: 43 Copynumber: 5.4 Consensus size: 43
101039 AAAGCACCGC
* *
101049 TAAAGATCATGTTCTATAGCGGGGTTTGTGGGAAAAATGTCGT
1 TAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAGTGTCGT
*** *
101092 TAAAGACCATGTTCTTATAGCGGGGTTTGTGGGAAAAGCACCGG
1 TAAAGACCATGTTC-TATAGCGGGGTTTGTGGGAAAAGTGTCGT
* * * * *
101136 TAAAGACCATGTTATATAGCGGTGTTTGTGGGAAAAATGCCGC
1 TAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAGTGTCGT
* ** *
101179 TAAAAACCATGTTCTATAGCGACGTTTGTGGGAAAAGTGTTGT
1 TAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAGTGTCGT
* *
101222 TAAAGACCATGCTCTATAGCGGGGTTTGTGGGAAAAGTGTCAT
1 TAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAGTGTCGT
* *
101265 TAAAGATCATGTTTTATA
1 TAAAGACCATGTTCTATA
101283 ACTGCGTTTT
Statistics
Matches: 161, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 124 0.77
44 37 0.23
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGACCATGTTCTATAGCGGGGTTTGTGGGAAAAGTGTCGT
Found at i:104324 original size:14 final size:14
Alignment explanation
Indices: 104305--104332 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
104295 ATACTCTTTT
104305 TCTAACAATTAACC
1 TCTAACAATTAACC
104319 TCTAACAATTAACC
1 TCTAACAATTAACC
104333 AACACTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
TCTAACAATTAACC
Found at i:113131 original size:51 final size:51
Alignment explanation
Indices: 113063--113161 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
113053 AAAGAGTCTG
113063 ATGACTAAGTGTAATCGTGAGTAAACAAATCCTCTACGGATTAAAGGTCCA
1 ATGACTAAGTGTAATCGTGAGTAAACAAATCCTCTACGGATTAAAGGTCCA
* * *
113114 ATGATTAAGTGTTATCGTGAGTAAACGAATCCTCTACGGATTAAAGGT
1 ATGACTAAGTGTAATCGTGAGTAAACAAATCCTCTACGGATTAAAGGT
113162 GAGTAAACGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGACTAAGTGTAATCGTGAGTAAACAAATCCTCTACGGATTAAAGGTCCA
Found at i:113166 original size:30 final size:30
Alignment explanation
Indices: 113130--113188 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
113120 AAGTGTTATC
113130 GTGAGTAAACGAATCCTCTACGGATTAAAG
1 GTGAGTAAACGAATCCTCTACGGATTAAAG
*
113160 GTGAGTAAACGAATCCTCTATGGATTAAA
1 GTGAGTAAACGAATCCTCTACGGATTAAA
113189 TGTCCGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (30 bp):
GTGAGTAAACGAATCCTCTACGGATTAAAG
Found at i:123518 original size:22 final size:22
Alignment explanation
Indices: 123466--123523 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
123456 ATTATATTTT
* *
123466 AATATTTAAAATATAGTTTATA
1 AATATTTAAATTATAGTTTACA
* *
123488 CATATTTAAATTATATTTTACA
1 AATATTTAAATTATAGTTTACA
*
123510 AATAATTAATATTA
1 AATATTTAA-ATTA
123524 ATTGCTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (22 bp):
AATATTTAAATTATAGTTTACA
Found at i:123899 original size:18 final size:18
Alignment explanation
Indices: 123867--123918 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
123857 GTGGGATGAG
123867 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
123883 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
123901 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
123919 CAACTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:124353 original size:13 final size:13
Alignment explanation
Indices: 124337--124361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124327 TTTAATCCAT
124337 CATTATAATAAAC
1 CATTATAATAAAC
124350 CATTATAATAAA
1 CATTATAATAAA
124362 AATCAGTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
CATTATAATAAAC
Found at i:126206 original size:20 final size:21
Alignment explanation
Indices: 126181--126223 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
126171 TGATTTTAGG
126181 GGAAATT-GGATGGTGGGGTT
1 GGAAATTGGGATGGTGGGGTT
126201 GGAAATTGGGATGGTGGGGTT
1 GGAAATTGGGATGGTGGGGTT
126222 GG
1 GG
126224 TCAGGCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.19, C:0.00, G:0.53, T:0.28
Consensus pattern (21 bp):
GGAAATTGGGATGGTGGGGTT
Found at i:135445 original size:26 final size:28
Alignment explanation
Indices: 135414--135467 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
135404 TTAGGTCTTT
135414 TTATTT-AA-AAATAATATATTAATTTA
1 TTATTTAAAGAAATAATATATTAATTTA
135440 TTATTTAAAAGAAATAATATATTAATTT
1 TTATTT-AAAGAAATAATATATTAATTT
135468 TTGAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.24
28 2 0.08
29 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TTATTTAAAGAAATAATATATTAATTTA
Found at i:135787 original size:30 final size:30
Alignment explanation
Indices: 135720--135799 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
135710 TTTAAATTTT
* * **
135720 TATATTTTTATAATTTTTAAAAGATTAAGT
1 TATAATTTTATTATTTTTAAAAGATTAAAA
*
135750 TAAAATTTTATTATTTTTAAAATG-TTAAAA
1 TATAATTTTATTATTTTTAAAA-GATTAAAA
135780 TATAATTTTATT-TTTATTAA
1 TATAATTTTATTATTT-TTAA
135800 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 3 0.07
30 38 0.90
31 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TATAATTTTATTATTTTTAAAAGATTAAAA
Found at i:137769 original size:29 final size:29
Alignment explanation
Indices: 137693--137769 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
137683 AATAGATCTA
*
137693 AAATTTTAAAT-TCGAAAAGTATAAAAATT
1 AAATTTTAAATAT-AAAAAGTATAAAAATT
* * * *
137722 GAATTCCTAAAAATAAAAA-TATAAAGATT
1 AAATT-TTAAATATAAAAAGTATAAAAATT
137751 AAATTTTAAATATATAAAA
1 AAATTTTAAATATA-AAAA
137770 ACTTTCAACA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
28 7 0.19
29 21 0.57
30 8 0.22
31 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATTTTAAATATAAAAAGTATAAAAATT
Found at i:139820 original size:30 final size:30
Alignment explanation
Indices: 139784--139848 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
139774 CAACTTAATA
* *
139784 AACAAATGCCTATAAAATAGTAACAAAATT
1 AACAAATGCCTATAAAATAATAACAAAAAT
* *
139814 AACAAATGCCTCTAAAATAATAATAAAAAT
1 AACAAATGCCTATAAAATAATAACAAAAAT
139844 AACAA
1 AACAA
139849 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.60, C:0.14, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAAATGCCTATAAAATAATAACAAAAAT
Found at i:145315 original size:10 final size:10
Alignment explanation
Indices: 145263--145361 Score: 53
Period size: 10 Copynumber: 10.1 Consensus size: 10
145253 TTAGGAGTTT
* *
145263 TAAAACATTT
1 TAAAAAATTA
*
145273 TAAAAAATAA
1 TAAAAAATTA
145283 T-AAAAATTA
1 TAAAAAATTA
*
145292 TAAAAACAACTA
1 T-AAAA-AATTA
145304 TAAAAAATTA
1 TAAAAAATTA
145314 T--AAAATTA
1 TAAAAAATTA
* * **
145322 TTAGAAATCG
1 TAAAAAATTA
***
145332 TAAGTTATTA
1 TAAAAAATTA
145342 TAAAAAATTA
1 TAAAAAATTA
145352 T-AAAAATTA
1 TAAAAAATTA
145361 T
1 T
145362 TAGAAATGGT
Statistics
Matches: 67, Mismatches: 17, Indels: 11
0.71 0.18 0.12
Matches are distributed among these distances:
8 8 0.12
9 17 0.25
10 30 0.45
11 7 0.10
12 5 0.07
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:153378 original size:21 final size:21
Alignment explanation
Indices: 153354--153394 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
153344 AAGTGACTTT
*
153354 ACTTAATCCGCAAGTAACCAG
1 ACTTAATCCGCAAGAAACCAG
*
153375 ACTTAATCTGCAAGAAACCA
1 ACTTAATCCGCAAGAAACCA
153395 ATTTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (21 bp):
ACTTAATCCGCAAGAAACCAG
Found at i:156983 original size:23 final size:21
Alignment explanation
Indices: 156944--156985 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
156934 AAACAGAATA
156944 AGTTTTTTGTTTTGGTTTTTC
1 AGTTTTTTGTTTTGGTTTTTC
156965 AGTTTTATTGTTCTTGGTTTT
1 AGTTTT-TTGTT-TTGGTTTT
156986 AAAAAACCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.07, C:0.05, G:0.19, T:0.69
Consensus pattern (21 bp):
AGTTTTTTGTTTTGGTTTTTC
Found at i:161931 original size:16 final size:16
Alignment explanation
Indices: 161910--161941 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
161900 CGTATAATAA
161910 CTCTAACAATAATTTG
1 CTCTAACAATAATTTG
161926 CTCTAACAATAATTTG
1 CTCTAACAATAATTTG
161942 GCATAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
CTCTAACAATAATTTG
Found at i:172962 original size:24 final size:25
Alignment explanation
Indices: 172910--172962 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
172900 TTTAAAATGA
*
172910 GAATTAAAATATAGTATGATAAAAT
1 GAATAAAAATATAGTATGATAAAAT
*
172935 -AATAAAAATAT-TTATGA-AAATAT
1 GAATAAAAATATAGTATGATAAA-AT
172958 GAATA
1 GAATA
172963 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 7 0.29
24 14 0.58
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (25 bp):
GAATAAAAATATAGTATGATAAAAT
Found at i:181189 original size:23 final size:23
Alignment explanation
Indices: 181148--181209 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
181138 TTAAATTAAA
181148 TTTAATATT-AA--GATAATCAC
1 TTTAATATTAAATTGATAATCAC
*
181168 TTTAATATTAAATTGATAATCAT
1 TTTAATATTAAATTGATAATCAC
*
181191 TTTAATATTAAATTAATAA
1 TTTAATATTAAATTGATAA
181210 AATATTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
23 26 0.70
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTAATATTAAATTGATAATCAC
Found at i:181208 original size:11 final size:11
Alignment explanation
Indices: 181169--181267 Score: 53
Period size: 11 Copynumber: 8.8 Consensus size: 11
181159 GATAATCACT
181169 TTAATATTAAA
1 TTAATATTAAA
* * **
181180 TTGATAATCATT
1 TTAAT-ATTAAA
181192 TTAATATTAAA
1 TTAATATTAAA
181203 TTAATA--AAA
1 TTAATATTAAA
*
181212 -TATTATTAAA
1 TTAATATTAAA
*
181222 ATAAGTATTAAA
1 TTAA-TATTAAA
181234 TTAA-ATTTAATA
1 TTAATA-TTAA-A
181246 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
181259 ATAATATTA
1 TTAATATTA
181268 TTTTTGGAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 20
0.67 0.12 0.20
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 4 0.06
11 24 0.36
12 22 0.33
13 4 0.06
14 4 0.06
15 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:183526 original size:1 final size:1
Alignment explanation
Indices: 183522--183546 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
183512 ATTGAAAGAG
183522 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
183547 AATTTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:185113 original size:31 final size:31
Alignment explanation
Indices: 185078--185138 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
185068 ACAATCCAAT
185078 GACTTAAATAAAAACTTTTGAATAGTTCAGC
1 GACTTAAATAAAAACTTTTGAATAGTTCAGC
*
185109 GACTTAAATGAAAACTTTTGAATAGTTCAG
1 GACTTAAATAAAAACTTTTGAATAGTTCAG
185139 TGACCAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTTGAATAGTTCAGC
Found at i:188884 original size:165 final size:165
Alignment explanation
Indices: 188591--188887 Score: 389
Period size: 165 Copynumber: 1.8 Consensus size: 165
188581 TTAGTAGAGT
* * * * **
188591 TCATGTACTTATTGATGTGTTCTTGGGTTATGAAACCATAGCAAACATTTTAGTTTGCATATAGT
1 TCATGTACTTACTAATGTGTCCTCGACTTATGAAACCATAGCAAACATTTTAGTTTGCATATAGT
* * ** * * *
188656 TCCGTCTCTTTGAGTAATAGGAAGTACTCTCATTCTATTAATCTATTAGGACTCTCGATAGAGAT
66 TCCGTCTCTTTGAGTAATAGGAAGTAATCTCACTCTAAAAATCTATCAGGACTCACCATAGAGAT
188721 GGAATCATAATTTTTAGTAGAGTTAAGAGACAAAA
131 GGAATCATAATTTTTAGTAGAGTTAAGAGACAAAA
** ** *
188756 TCATGTACTTACTAATGTGTCCTCGACTTATGAAACCATAGCAAATGTTTTAGTTTGGGTGTAGT
1 TCATGTACTTACTAATGTGTCCTCGACTTATGAAACCATAGCAAACATTTTAGTTTGCATATAGT
* * *
188821 TCCGTCTCTTTGAGTAATAGGAGGTAATTTTACTCTAAAAATCTATCACGG-CTCACCATAGAGA
66 TCCGTCTCTTTGAGTAATAGGAAGTAATCTCACTCTAAAAATCTATCA-GGACTCACCATAGAGA
188885 TGG
130 TGG
188888 GAGACAATTT
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
165 108 0.98
166 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (165 bp):
TCATGTACTTACTAATGTGTCCTCGACTTATGAAACCATAGCAAACATTTTAGTTTGCATATAGT
TCCGTCTCTTTGAGTAATAGGAAGTAATCTCACTCTAAAAATCTATCAGGACTCACCATAGAGAT
GGAATCATAATTTTTAGTAGAGTTAAGAGACAAAA
Found at i:196080 original size:23 final size:23
Alignment explanation
Indices: 196041--196100 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
196031 TTTATATATT
*
196041 TATTTTTA-ATTTATCAAATAATA
1 TATTTTTATAATTATCAAA-AATA
*
196064 TATTTTTATAATT-TCAAAAGTA
1 TATTTTTATAATTATCAAAAATA
*
196086 TAATTTTATTAATTA
1 TATTTTTA-TAATTA
196101 AATGAGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 10 0.32
23 18 0.58
24 3 0.10
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTTATAATTATCAAAAATA
Found at i:196443 original size:31 final size:31
Alignment explanation
Indices: 196405--196463 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
196395 GTCACTAACG
*
196405 TTTTAGATCATTTCTATTTTGGGCACTCACA
1 TTTTAGATCATTTCTATTTTGGCCACTCACA
** *
196436 TTTTAGATTGTTTCTTTTTTGGCCACTC
1 TTTTAGATCATTTCTATTTTGGCCACTC
196464 TTCATTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.51
Consensus pattern (31 bp):
TTTTAGATCATTTCTATTTTGGCCACTCACA
Found at i:196637 original size:24 final size:25
Alignment explanation
Indices: 196604--196653 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
196594 TATGAAAAAA
*
196604 TAAAAAACAT-AATATTATT-TATG
1 TAAAAAACATAAATAATATTATATG
196627 TAAAAATACATAAATAATATTATATG
1 TAAAAA-ACATAAATAATATTATATG
196653 T
1 T
196654 GTCTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 8 0.35
26 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
TAAAAAACATAAATAATATTATATG
Found at i:196643 original size:28 final size:30
Alignment explanation
Indices: 196583--196651 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
196573 ATAATTAAAT
196583 ATAA-ATTATATTATGAAAAAATAAAAAAC
1 ATAATATTATATTATGAAAAAATAAAAAAC
* * *
196612 ATAATATTAT-TTATGTAAAAATACATAA-
1 ATAATATTATATTATGAAAAAATAAAAAAC
196640 ATAATATTATAT
1 ATAATATTATAT
196652 GTGTCTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.29
29 20 0.57
30 5 0.14
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (30 bp):
ATAATATTATATTATGAAAAAATAAAAAAC
Found at i:202353 original size:20 final size:21
Alignment explanation
Indices: 202328--202366 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
202318 TTGATTTAGG
202328 GTGTTTTAAG-TTAAAAATGA
1 GTGTTTTAAGTTTAAAAATGA
*
202348 GTGTTTTAGGTTTAAAAAT
1 GTGTTTTAAGTTTAAAAAT
202367 ATACTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (21 bp):
GTGTTTTAAGTTTAAAAATGA
Found at i:203419 original size:26 final size:24
Alignment explanation
Indices: 203380--203439 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
203370 ATCAATACGA
203380 AAAAAAATAGTAATACAATATTAATT
1 AAAAAAAT-GTAATACAATATTAA-T
*
203406 AAAAAAATGTTAATACAATTTTAAT
1 AAAAAAATG-TAATACAATATTAAT
*
203431 AGAAAAATG
1 AAAAAAATG
203440 AGAGTTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (24 bp):
AAAAAAATGTAATACAATATTAAT
Found at i:207226 original size:13 final size:13
Alignment explanation
Indices: 207210--207244 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
207200 TTTTTCTTTT
207210 TTCTTTTTTTCTC
1 TTCTTTTTTTCTC
*
207223 TTCTTTCTTTCTC
1 TTCTTTTTTTCTC
207236 TT-TTTTTTT
1 TTCTTTTTTT
207245 TTTATAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:209917 original size:3 final size:3
Alignment explanation
Indices: 209909--209951 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
209899 GTCAATTGTT
209909 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
209952 CCTTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:210100 original size:46 final size:46
Alignment explanation
Indices: 209951--210108 Score: 118
Period size: 46 Copynumber: 3.3 Consensus size: 46
209941 CTTCTTCTTC
* * *
209951 TCCTTTTATTTTGACATGAGAAGCTAATGGCCAAATATCAATTCTAA
1 TCCTTTTCTTTTTACATGAGAA-CTAATGGTCAAATATCAATTCTAA
* * * * *** * * * *
209998 TCCCTCTACATTTTTACATGACATCTGTCCAACACTCCAATGTCAATTGTAT
1 T-CCTTTTC-TTTTTACATGAGAAC--T--AATGGTCAAATATCAATTCTAA
210050 TCCTTTTCTTTTTACATGAGAACTAATGGTCAAATATCAATTCTAA
1 TCCTTTTCTTTTTACATGAGAACTAATGGTCAAATATCAATTCTAA
210096 TCCTTCTTCTTTT
1 TCCTT-TTCTTTT
210109 CTTGAGATTA
Statistics
Matches: 79, Mismatches: 25, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
46 20 0.25
47 8 0.10
48 6 0.08
49 11 0.14
50 14 0.18
51 5 0.06
52 15 0.19
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (46 bp):
TCCTTTTCTTTTTACATGAGAACTAATGGTCAAATATCAATTCTAA
Found at i:210784 original size:88 final size:89
Alignment explanation
Indices: 210635--210806 Score: 258
Period size: 88 Copynumber: 1.9 Consensus size: 89
210625 AAAACAAATG
* * *
210635 ACATTGGAGTGTTGGACAACTGTCATGTAAAATGTAGAGGGATTAGAATTGATATTTGGCCA-TT
1 ACATTGGAGTATTGAACAACTGTCATGTAAAAAGTAGAGGGATTAGAATTGATATTTGGCCATTT
210699 -AGCTTCTCATGTAAAAAAAAACAA
66 AAG-TTCTCATGTAAAAAAAAACAA
** *
210723 ACATTGGAGTATTGAACAGGTGTCATGTAAAAAGTAGAGGGGTTAGAATTGATATTTGGCCATTT
1 ACATTGGAGTATTGAACAACTGTCATGTAAAAAGTAGAGGGATTAGAATTGATATTTGGCCATTT
*
210788 AAGTTTTCATGTAAAAAAA
66 AAGTTCTCATGTAAAAAAA
210807 TTGACATTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
88 56 0.75
89 17 0.23
90 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (89 bp):
ACATTGGAGTATTGAACAACTGTCATGTAAAAAGTAGAGGGATTAGAATTGATATTTGGCCATTT
AAGTTCTCATGTAAAAAAAAACAA
Found at i:218564 original size:10 final size:9
Alignment explanation
Indices: 218530--218561 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
218520 AAAGGAATGT
218530 AAAAATGAA
1 AAAAATGAA
218539 AAAAATGAA
1 AAAAATGAA
218548 AAAAATGAA
1 AAAAATGAA
218557 AAAAA
1 AAAAA
218562 ATGGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAATGAA
Found at i:218712 original size:48 final size:48
Alignment explanation
Indices: 218658--218755 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
218648 TATGTTTGGA
218658 ATCAGATTTTTTTAAAAAATGGGCAATTTGCTCCTTTGGTATTTCCGC
1 ATCAGATTTTTTTAAAAAATGGGCAATTTGCTCCTTTGGTATTTCCGC
*
218706 ATCAGATTTTTTTTAAAAATGGGCAATTTGCTCCTTTGGTATTTCCGC
1 ATCAGATTTTTTTAAAAAATGGGCAATTTGCTCCTTTGGTATTTCCGC
218754 AT
1 AT
218756 TTTTTATTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (48 bp):
ATCAGATTTTTTTAAAAAATGGGCAATTTGCTCCTTTGGTATTTCCGC
Found at i:218973 original size:29 final size:29
Alignment explanation
Indices: 218928--219073 Score: 130
Period size: 29 Copynumber: 4.9 Consensus size: 29
218918 GAAGTTTTGT
* *
218928 TTTAACTCCCAAACTTTCTAAAAATTTAGA
1 TTTAAC-CCCAAACTTTCCAAAAATTTAAA
* * **
218958 TTTAACCCCTAACTTTCTAAAAATTTGGA
1 TTTAACCCCAAACTTTCCAAAAATTTAAA
* * * *
218987 TTTGACCCTTAAATTTTCCAAAAATTCAAA
1 TTTAACCC-CAAACTTTCCAAAAATTTAAA
* * *
219017 TTTGACCCCAAACTTCCCAAAAATTAAAA
1 TTTAACCCCAAACTTTCCAAAAATTTAAA
* *
219046 TTTAGCCCCCAAACTTTCCAAAATTTTA
1 TTTA-ACCCCAAACTTTCCAAAAATTTA
219074 TTTTTTACCT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
29 48 0.51
30 47 0.49
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (29 bp):
TTTAACCCCAAACTTTCCAAAAATTTAAA
Found at i:223816 original size:30 final size:30
Alignment explanation
Indices: 223771--223858 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
223761 AAAATTGCAT
* * *
223771 TTTAACTCCTAAACTTTCTAAAAATTCAAA
1 TTTAACCCCCAAACTTTCCAAAAATTCAAA
* * * **
223801 TTTAACCCTCGAACTTCCCAAAAATTTGAA
1 TTTAACCCCCAAACTTTCCAAAAATTCAAA
* *
223831 TTTAGCCCCCAAACTTTCCAAAATTTCA
1 TTTAACCCCCAAACTTTCCAAAAATTCA
223859 TTTTTGACCC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (30 bp):
TTTAACCCCCAAACTTTCCAAAAATTCAAA
Found at i:224035 original size:15 final size:15
Alignment explanation
Indices: 224015--224063 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
224005 TTGCATTATG
*
224015 TATTTTGTTTATTTT
1 TATTTTGTATATTTT
*
224030 TATTTT-TATATATT
1 TATTTTGTATATTTT
*
224044 TGTTTTGTATATTTAT
1 TATTTTGTATATTT-T
224060 TATT
1 TATT
224064 CATGTGATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.41
15 12 0.44
16 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
TATTTTGTATATTTT
Found at i:229214 original size:25 final size:26
Alignment explanation
Indices: 229185--229263 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 26
229175 GTTCAAAGAA
* *
229185 AATTTTTTTTGAAATAAGATTCAGAG
1 AATTTTTTTTGAAACAACATTCAGAG
*
229211 -ATTTTTTTT-ATACAACATTCAGAG
1 AATTTTTTTTGAAACAACATTCAGAG
* *
229235 AATTTTTTTTGAGACATACATTCAAAG
1 AATTTTTTTTGAAACA-ACATTCAGAG
229262 AA
1 AA
229264 AATTCAAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.27
25 18 0.40
26 4 0.09
27 11 0.24
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (26 bp):
AATTTTTTTTGAAACAACATTCAGAG
Found at i:229215 original size:24 final size:25
Alignment explanation
Indices: 229188--229263 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
229178 CAAAGAAAAT
* *
229188 TTTTTTTGAAATAAGATTCAGAG-A
1 TTTTTTTGAAACAACATTCAGAGAA
* *
229212 TTTTTTTTATACAACATTCAGAGAA
1 TTTTTTTGAAACAACATTCAGAGAA
* *
229237 TTTTTTTTGAGACATACATTCAAAGAA
1 -TTTTTTTGAAACA-ACATTCAGAGAA
229264 AATTCAAATC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.45
25 1 0.02
26 11 0.26
27 11 0.26
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (25 bp):
TTTTTTTGAAACAACATTCAGAGAA
Found at i:229875 original size:20 final size:20
Alignment explanation
Indices: 229837--229875 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
229827 TATTTGTGTT
*
229837 TTATATATATTTATTGTTAC
1 TTATATATATTAATTGTTAC
229857 TTATAT-TATTAATTAGTTA
1 TTATATATATTAATT-GTTA
229876 ATATTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
TTATATATATTAATTGTTAC
Found at i:230792 original size:26 final size:26
Alignment explanation
Indices: 230757--230823 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
230747 AAATTTAAAA
* *
230757 TTTG-ATTTTATTTAATTTGTGATCC
1 TTTGCATTTTATTTAATATATGATCC
* * *
230782 TTTGCATTTTATTTTATATATGTTGC
1 TTTGCATTTTATTTAATATATGATCC
230808 TTTGCATTTTAATTTA
1 TTTGCATTTT-ATTTA
230824 TGTATGCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 4 0.12
26 26 0.76
27 4 0.12
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.61
Consensus pattern (26 bp):
TTTGCATTTTATTTAATATATGATCC
Found at i:234877 original size:21 final size:21
Alignment explanation
Indices: 234853--234903 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
234843 GAGATAATAT
*
234853 TACCGATACAAGT-GTGACTTC
1 TACCGATACAAGTCATG-CTTC
* *
234874 TACCGAAACATGTCATGCTTC
1 TACCGATACAAGTCATGCTTC
234895 TACCGATAC
1 TACCGATAC
234904 TAAAAACTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
TACCGATACAAGTCATGCTTC
Found at i:235955 original size:102 final size:103
Alignment explanation
Indices: 235777--236065 Score: 422
Period size: 102 Copynumber: 2.8 Consensus size: 103
235767 TTCCCATTTA
* *
235777 ATACTCACGATGACACAAAGTCACCGAACCTTA-AATCCGTAAAAGGA-TCTATATGCTCACGAT
1 ATACTCACGATGACAC-AAGTCATCGAACCTTATAATCCGT-AAAGGATTC-ATATACTCACGAT
235840 GACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
63 GACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
* * * *
235881 ATACTCACGATGACAC-AGTCATCGGACCTCATAATCCATAAAGGATTCATATACTTACGATGAC
1 ATACTCACGATGACACAAGTCATCGAACCTTATAATCCGTAAAGGATTCATATACTCACGATGAC
*
235945 ACATAGTCATTGGACCTCATAATCCGTGAAGGATTCAT
66 ACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
* * *
235983 ATACTCATGATGACACATAGTCATCGAACCTTATAATACGTAAAGGATTCATATACTCACAATGA
1 ATACTCACGATGACACA-AGTCATCGAACCTTATAATCCGTAAAGGATTCATATACTCACGATGA
*
236048 CACATAGTCATCGGACCT
65 CACATAGTCATTGGACCT
236066 TTTTGCATTT
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
102 84 0.51
103 8 0.05
104 74 0.45
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (103 bp):
ATACTCACGATGACACAAGTCATCGAACCTTATAATCCGTAAAGGATTCATATACTCACGATGAC
ACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
Found at i:236066 original size:52 final size:52
Alignment explanation
Indices: 235777--236065 Score: 397
Period size: 52 Copynumber: 5.6 Consensus size: 52
235767 TTCCCATTTA
* * * *
235777 ATACTCACGATGACACAAAGTCACCGAACCTTA-AATCCGTAAAAGGA-TCTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTC-AT
* *
235829 ATGCTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
235881 ATACTCACGATGACAC--AGTCATCGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
235931 ATACTTACGATGACACATAGTCATTGGACCTCATAATCCGTGAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
235983 ATACTCATGATGACACATAGTCATCGAACCTTATAATACGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
236035 ATACTCACAATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
236066 TTTTGCATTT
Statistics
Matches: 210, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
50 47 0.22
52 154 0.73
53 9 0.04
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:236083 original size:154 final size:153
Alignment explanation
Indices: 235777--236065 Score: 393
Period size: 154 Copynumber: 1.9 Consensus size: 153
235767 TTCCCATTTA
* *
235777 ATACTCACGATGACACAAAGTCACCGAACCTTAAATCCGTAAAAGGATCTATATGCTCACGATGA
1 ATACTCACGATGACACAAAGTCACCGAACCTCAAATCCGTAAAAGGATCTATATACTCACGATGA
* * * *
235842 CACATAGTCATTGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACAGTCATCGGA
66 CACATAGTCATCGAACCTCATAATACGTAAAGGATTCATATACTCACAATGACACAGTCATCGGA
235907 CCTCATAATCCATAAAGGATTCAT
131 CCT-ATAATCCATAAAGGATTCAT
* * ** * * *
235931 ATACTTACGATGACACATAGTCATTGGACCTCATAATCCGT-GAAGGAT-TCATATACTCATGAT
1 ATACTCACGATGACACAAAGTCACCGAACCTCA-AATCCGTAAAAGGATCT-ATATACTCACGAT
*
235994 GACACATAGTCATCGAACCTTATAATACGTAAAGGATTCATATACTCACAATGACACATAGTCAT
64 GACACATAGTCATCGAACCTCATAATACGTAAAGGATTCATATACTCACAATGACAC--AGTCAT
236059 CGGACCT
127 CGGACCT
236066 TTTTGCATTT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
153 1 0.01
154 96 0.82
155 7 0.06
156 13 0.11
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (153 bp):
ATACTCACGATGACACAAAGTCACCGAACCTCAAATCCGTAAAAGGATCTATATACTCACGATGA
CACATAGTCATCGAACCTCATAATACGTAAAGGATTCATATACTCACAATGACACAGTCATCGGA
CCTATAATCCATAAAGGATTCAT
Found at i:236758 original size:100 final size:100
Alignment explanation
Indices: 236645--236844 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
236635 TATTCACTAA
236645 GCAAAAAAAATTATATACAACATACTTAAATCATTTCAATAATTTACAAAAAAAATAAATCAATT
1 GCAAAAAAAATTATATACAACATACTTAAATCATTTCAATAATTTACAAAAAAAATAAATCAATT
236710 ATTTACTATACGAACTTACTAGATGCACTTGCAGT
66 ATTTACTATACGAACTTACTAGATGCACTTGCAGT
*
236745 GCAAAAAAAATTATATACAATATACTTAAATCATTTCAATAATTTACAAAAAAAATAAATCAATT
1 GCAAAAAAAATTATATACAACATACTTAAATCATTTCAATAATTTACAAAAAAAATAAATCAATT
* *
236810 ATTTACTGTACGAACTTACTGGATGCACTTGCAGT
66 ATTTACTATACGAACTTACTAGATGCACTTGCAGT
236845 TAAATTGAAC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (100 bp):
GCAAAAAAAATTATATACAACATACTTAAATCATTTCAATAATTTACAAAAAAAATAAATCAATT
ATTTACTATACGAACTTACTAGATGCACTTGCAGT
Found at i:239184 original size:2 final size:2
Alignment explanation
Indices: 239177--239209 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
239167 CCTGTATAAG
239177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
239210 C
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.