Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 1 of 17
Found at i:7286 original size:1 final size:1
Alignment explanation
Indices: 7280--7347 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
7270 CCTTCTCTTC
* ** * * * * *
7280 AAAAAAAAAAAAGAGCAAAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7345 AAA
1 AAA
7348 CAAAGGAAAA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:7301 original size:13 final size:13
Alignment explanation
Indices: 7281--7351 Score: 90
Period size: 13 Copynumber: 5.2 Consensus size: 13
7271 CTTCTCTTCA
7281 AAAAAAAAAAAGAGC
1 AAAAAAAAAAA-A-C
7296 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
7309 AAAAAAACAAAAA-
1 AAAAAAA-AAAAAC
7322 AAAAACAAAAAAAC
1 AAAAA-AAAAAAAC
*
7336 AAAAAAACAAAAC
1 AAAAAAAAAAAAC
7349 AAA
1 AAA
7352 GGAAAAGAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
13 28 0.54
14 13 0.25
15 11 0.21
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:7304 original size:19 final size:19
Alignment explanation
Indices: 7280--7352 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
7270 CCTTCTCTTC
*
7280 AAAAAAAAAAAAGAGCAAAA
1 AAAAAAAAAAAAGAAC-AAA
*
7300 AAAAAAAACAAAAAAACAAA
1 AAAAAAAA-AAAAGAACAAA
7320 AAAAAAACAAAAA-AACAAA
1 AAAAAAA-AAAAAGAACAAA
*
7339 AAAACAAAACAAAG
1 AAAA-AAAAAAAAG
7353 GAAAAGAGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 14 0.30
20 25 0.54
21 7 0.15
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAGAACAAA
Found at i:7321 original size:32 final size:32
Alignment explanation
Indices: 7280--7375 Score: 99
Period size: 32 Copynumber: 2.9 Consensus size: 32
7270 CCTTCTCTTC
7280 AAAAA-AAAAAAAGAGCAAAAAAAAAAAACAA
1 AAAAACAAAAAAAGAGCAAAAAAAAAAAACAA
* *
7311 AAAAACAAAAAAAAAACAAAAAAACAAAAA-AA
1 AAAAACAAAAAAAGAGCAAAAAAA-AAAAACAA
*
7343 CAAAACAAAGGAAAAGAG-AGAAAAGAAAAAAAC
1 AAAAACAAA--AAAAGAGCA-AAAA-AAAAAAAC
7376 CTACTTAAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
31 5 0.09
32 26 0.49
33 6 0.11
34 14 0.26
35 2 0.04
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (32 bp):
AAAAACAAAAAAAGAGCAAAAAAAAAAAACAA
Found at i:7341 original size:16 final size:16
Alignment explanation
Indices: 7279--7347 Score: 79
Period size: 16 Copynumber: 4.3 Consensus size: 16
7269 GCCTTCTCTT
* *
7279 CAAAAAAAAAAAAGAG
1 CAAAAAAAAAAAACAA
7295 CAAAAAAAAAAAACAA
1 CAAAAAAAAAAAACAA
*
7311 -AAAAACAAAAAAAAAA
1 CAAAAA-AAAAAAACAA
7327 CAAAAAAACAAAAA-AA
1 CAAAAAAA-AAAAACAA
7343 CAAAA
1 CAAAA
7348 CAAAGGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
15 5 0.11
16 32 0.68
17 10 0.21
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAACAA
Found at i:7343 original size:27 final size:26
Alignment explanation
Indices: 7296--7347 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
7286 AAAAAAGAGC
7296 AAAAAAAAAAAACAAAAAAACAAAAA
1 AAAAAAAAAAAACAAAAAAACAAAAA
7322 AAAAACAAAAAAACAAAAAAACAAAA
1 AAAAA-AAAAAAACAAAAAAACAAAA
7348 CAAAGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAACAAAAAAACAAAAA
Found at i:8424 original size:55 final size:55
Alignment explanation
Indices: 8340--9408 Score: 1527
Period size: 55 Copynumber: 19.3 Consensus size: 55
8330 TCCGCTTTTT
***
8340 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
8395 AGTCCTCAAAGAGTAGGGCACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
8450 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
8505 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
8560 AATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
8615 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
8670 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
8725 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
8780 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
8835 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * *
8890 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*** *
8945 AGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
9006 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
9061 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
9116 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
9171 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
9226 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * *
9281 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * ** *
9336 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAACCCACATGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
9391 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
9409 TACAATTTAT
Statistics
Matches: 939, Mismatches: 54, Indels: 42
0.91 0.05 0.04
Matches are distributed among these distances:
54 18 0.02
55 848 0.90
56 22 0.02
57 1 0.00
59 1 0.00
60 4 0.00
61 45 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:8530 original size:27 final size:27
Alignment explanation
Indices: 8445--8530 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
8435 TTGGTGGCAT
8445 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
8472 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
8500 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
8527 TTTC
1 TTTC
8531 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:9068 original size:29 final size:29
Alignment explanation
Indices: 9036--9123 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
9026 CCTCTTAAAG
9036 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
9065 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
9091 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
9120 CCCA
1 CCCA
9124 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:9336 original size:29 final size:29
Alignment explanation
Indices: 9189--9336 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
9179 AAGAACAGGA
*
9189 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
9218 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
9244 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
9273 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
9299 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
9328 CACCTTTCA
1 CACCTTTCA
9337 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:10063 original size:21 final size:21
Alignment explanation
Indices: 10037--10093 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
10027 AAAAAAATTA
10037 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
10058 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
10079 AATGTATCGATACAT
1 AATGTATCGATACAT
10094 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:10173 original size:19 final size:19
Alignment explanation
Indices: 10149--10216 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
10139 AATTCAACAA
10149 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
10168 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
10183 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
10200 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
10217 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:10188 original size:13 final size:13
Alignment explanation
Indices: 10170--10194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10160 ACATAAGTTT
10170 TGTATCGATACAA
1 TGTATCGATACAA
10183 TGTATCGATACA
1 TGTATCGATACA
10195 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10192 original size:32 final size:32
Alignment explanation
Indices: 10151--10213 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
10141 TTCAACAATT
*
10151 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
10183 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
10214 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:10261 original size:20 final size:20
Alignment explanation
Indices: 10236--10290 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
10226 GCCAAAGAAA
*
10236 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
10256 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
10276 TGTATCGATACATTT
1 TGTATCGATACATTT
10291 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:12802 original size:28 final size:27
Alignment explanation
Indices: 12735--12807 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
12725 CTTCACAATC
* *
12735 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
12762 GGGGATACTCCAACCCCGTTAGTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
12790 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
12808 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:12852 original size:51 final size:51
Alignment explanation
Indices: 12790--12960 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
12780 TTAGTTCTGA
* * *
12790 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
12841 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
12894 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
12946 GAGGATACTCCAACC
1 GGGGATACTCCAACC
12961 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:12979 original size:28 final size:28
Alignment explanation
Indices: 12943--13024 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
12933 ATTTTTCACA
*
12943 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
12971 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
12999 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
13025 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:16385 original size:20 final size:20
Alignment explanation
Indices: 16360--16413 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
16350 GTTTGAAGCA
16360 ATGTATCGATACAAT-T-CAAC
1 ATGTATCGATACAATGTGC--C
*
16380 ATGTATCAATACAATGTGCC
1 ATGTATCGATACAATGTGCC
16400 ATGTATCGATACAA
1 ATGTATCGATACAA
16414 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:18820 original size:19 final size:20
Alignment explanation
Indices: 18785--18825 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18775 AGAAAGATGA
18785 GAAAATAAAATTAAAAAAAG
1 GAAAATAAAATTAAAAAAAG
* *
18805 GAAAATAGAA-TAAAAAGAG
1 GAAAATAAAATTAAAAAAAG
18824 GA
1 GA
18826 GAAAGGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (20 bp):
GAAAATAAAATTAAAAAAAG
Found at i:19330 original size:37 final size:37
Alignment explanation
Indices: 19288--19512 Score: 158
Period size: 37 Copynumber: 6.2 Consensus size: 37
19278 TCAAAATGAC
*
19288 TTTCAAAACCTCTCATGAAGATATTTTATCAAGAAAT
1 TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
* * * * *
19325 TTTCAAAAACTCTTATGAGGATATCTTATTAAGAAAG
1 TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
* * *
19362 TTTCATAGCCTCTCATGAAGATATTTTATTAAGAAAA
1 TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
* ** * * * * **
19399 TTCCAAAGTCTCTCTTGAATATACTTCA--AAGTTAT
1 TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
* * * * *
19434 TCTCAAAA-CT-TCAAG-A-ATATTTTATCAATAAAA
1 TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
* *
19467 TTTCAAAGCCTCTCATG-AGTATATTTTATTAGGAAAT
1 TTTCAAAACCTCTCATGAAG-ATATTTTATTAAGAAAT
*
19504 TTTTAAAAC
1 TTTCAAAAC
19513 TTTTCATATG
Statistics
Matches: 139, Mismatches: 43, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
31 6 0.04
32 1 0.01
33 12 0.09
34 4 0.03
35 14 0.10
37 102 0.73
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (37 bp):
TTTCAAAACCTCTCATGAAGATATTTTATTAAGAAAT
Found at i:19677 original size:36 final size:36
Alignment explanation
Indices: 19632--19706 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
19622 CTTTCTTGAG
19632 GATACTTCAAA-ATGAT-TTTACAAAGCCTCTTCA-AAA
1 GATACTTCAAATA-GATGTTT-CAAAGCCTC-TCACAAA
* *
19668 GATATTTCAACTAGATGTTTCAAAGCCTCTCACAAA
1 GATACTTCAAATAGATGTTTCAAAGCCTCTCACAAA
19704 GAT
1 GAT
19707 GTATCATTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
35 3 0.09
36 27 0.79
37 4 0.12
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (36 bp):
GATACTTCAAATAGATGTTTCAAAGCCTCTCACAAA
Found at i:29050 original size:13 final size:13
Alignment explanation
Indices: 29032--29122 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
29022 ACATTACTTG
29032 GTATCGATACATT
1 GTATCGATACATT
29045 GTATCGATACATATTGCTT
1 GTATCGATAC--A----TT
29064 GGTATCGATACATT
1 -GTATCGATACATT
29078 GTATCGATACATATTGCTT
1 GTATCGATAC--A----TT
29097 GGTATCGATACATT
1 -GTATCGATACATT
29111 GTATCGATACAT
1 GTATCGATACAT
29123 GTTCTTTGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 32 0.50
14 4 0.06
15 2 0.03
18 2 0.03
19 4 0.06
20 20 0.31
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:29054 original size:33 final size:33
Alignment explanation
Indices: 29011--29140 Score: 208
Period size: 33 Copynumber: 4.0 Consensus size: 33
29001 AACCCTTGAA
* * *
29011 TGTATTGATACACATTACTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTGGTATCGATACAT
29044 TGTATCGATACATATTGCTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTGGTATCGATACAT
29077 TGTATCGATACATATTGCTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTGGTATCGATACAT
* *
29110 TGTATCGATACATGTT-CTTTGTATCGATACA
1 TGTATCGATACATATTGCTTGGTATCGATACA
29141 CCATAAAATG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 14 0.15
33 78 0.85
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTGGTATCGATACAT
Found at i:29070 original size:20 final size:20
Alignment explanation
Indices: 29045--29109 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
29035 TCGATACATT
29045 GTATCGATACATATTGCTTG
1 GTATCGATACATATTGCTTG
29065 GTATCGATAC--A----TT-
1 GTATCGATACATATTGCTTG
29078 GTATCGATACATATTGCTTG
1 GTATCGATACATATTGCTTG
29098 GTATCGATACAT
1 GTATCGATACAT
29110 TGTATCGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 2 0.05
15 1 0.03
18 1 0.03
19 2 0.05
20 22 0.58
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTG
Found at i:29729 original size:34 final size:35
Alignment explanation
Indices: 29664--29729 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
29654 TAAGTGATTG
* * *
29664 AGAGGTTTTATCTTAGCTTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCTCTTCTAAAAGATAGGGA
29699 AGAGGTTCTATCTTAGC-CTTCTAAAAGATAG
1 AGAGGTTCTATCTTAGCTCTTCTAAAAGATAG
29730 TGTTGTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCTCTTCTAAAAGATAGGGA
Found at i:31162 original size:16 final size:16
Alignment explanation
Indices: 31138--31178 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
31128 GTCAAAGAGC
*
31138 AAAAAAAAAGGAAAAT
1 AAAAGAAAAGGAAAAT
*
31154 AAAAGAAAAGGTAAAT
1 AAAAGAAAAGGAAAAT
31170 AAAAGAAAA
1 AAAAGAAAA
31179 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAAAGAAAAGGAAAAT
Found at i:31993 original size:110 final size:110
Alignment explanation
Indices: 31859--32073 Score: 358
Period size: 110 Copynumber: 2.0 Consensus size: 110
31849 CTTGACTTAG
* * * *
31859 GGACTTTTATGTCATTTCATGCACTATAATGACATTTTTCATAACTTATAAATCTTTATGTCATT
1 GGACTTTTATGTCATTTCAAGCACTATAAAGACATTTTTCATAACTTAAAAACCTTTATGTCATT
* * *
31924 TCATGGATTTTAGGGTCATTCTAGTAATTTTCCATGATTCAAAAA
66 TCATGGATTTTAAGGTCATTATAGTAATTTGCCATGATTCAAAAA
*
31969 GGACTTTTATGTCATTTCAAGCACTATAAAGTCATTTTTCATAACTTAAAAACCTTTATGTCATT
1 GGACTTTTATGTCATTTCAAGCACTATAAAGACATTTTTCATAACTTAAAAACCTTTATGTCATT
32034 TCATGGATTTTAAGGTCATTATAGTAATTTGCCATGATTC
66 TCATGGATTTTAAGGTCATTATAGTAATTTGCCATGATTC
32074 GTGACAATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 97 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (110 bp):
GGACTTTTATGTCATTTCAAGCACTATAAAGACATTTTTCATAACTTAAAAACCTTTATGTCATT
TCATGGATTTTAAGGTCATTATAGTAATTTGCCATGATTCAAAAA
Found at i:32141 original size:56 final size:56
Alignment explanation
Indices: 32031--32166 Score: 159
Period size: 56 Copynumber: 2.4 Consensus size: 56
32021 CCTTTATGTC
* *
32031 ATTTCATGGATTTTAAGGTCATTATAGTAATTTGCCATGATTCGTGACAATTTATGAA
1 ATTTCATGCATTTTAAGGTC--TATAGTAATTTGCCATGATTAGTGACAATTTATGAA
* ** *
32089 ATTTCATGCATTTTAAGGTCTCTAGTAATTTGCCATGATATAG-GACCTTTTATGCA
1 ATTTCATGCATTTTAAGGTCTATAGTAATTTGCCATGAT-TAGTGACAATTTATGAA
**
32145 ATTTCATATATTTT-AGGTCTAT
1 ATTTCATGCATTTTAAGGTCTAT
32167 TTTAGGCATT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
55 7 0.10
56 40 0.59
57 2 0.03
58 19 0.28
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (56 bp):
ATTTCATGCATTTTAAGGTCTATAGTAATTTGCCATGATTAGTGACAATTTATGAA
Found at i:32437 original size:78 final size:77
Alignment explanation
Indices: 32348--32613 Score: 259
Period size: 78 Copynumber: 3.5 Consensus size: 77
32338 TCGTTAGTGG
* * *
32348 TATTTAGGTAATACTACTTTAAAACTAAGTCCTTAAGATCATGTGGGAACTTTTATGTTGAAACA
1 TATTTAAGTAATACTACTTTAAAACTAAGTCCTTAAGATCATAT-GGAACTTTCATGTTGAAACA
**
32413 TGTCTATTAAAGC
65 TGTCTATTAGGGC
* * * * *
32426 TATCTAAGTAATACTACCTTAAGACTAAGTCCTTAGGATCTTATGGAA-TCTTCATGTTG-AACA
1 TATTTAAGTAATACTACTTTAAAACTAAGTCCTTAAGATCATATGGAACT-TTCATGTTGAAACA
*
32489 TGTCTATTAGGGT
65 TGTCTATTAGGGC
* * * * ** * * *
32502 TATTTAAGAAATAATACTTTAAAATTGAGTTTTTAAGATCATATAGGAACCTTCGTGTCGAAACA
1 TATTTAAGTAATACTACTTTAAAACTAAGTCCTTAAGATCATAT-GGAACTTTCATGTTGAAACA
* *
32567 TGTCTGTTAGGGG
65 TGTCTATTAGGGC
* * *
32580 TATTTAGGTAATACTAC-CTAAAACTTAGTCCTTA
1 TATTTAAGTAATACTACTTTAAAACTAAGTCCTTA
32614 GGATATCTAA
Statistics
Matches: 149, Mismatches: 35, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
76 48 0.32
77 35 0.23
78 66 0.44
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (77 bp):
TATTTAAGTAATACTACTTTAAAACTAAGTCCTTAAGATCATATGGAACTTTCATGTTGAAACAT
GTCTATTAGGGC
Found at i:33474 original size:20 final size:20
Alignment explanation
Indices: 33416--33476 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
33406 TAGTTTTAAA
*
33416 TATATTTTATTAAATATAGT
1 TATATTTTATTAAATATATT
*
33436 TATATTTTATTAAGTATATT
1 TATATTTTATTAAATATATT
33456 TATATTTTATTAAATATATT
1 TATATTTTATTAAATATATT
33476 T
1 T
33477 TAAGTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TATATTTTATTAAATATATT
Found at i:36881 original size:21 final size:23
Alignment explanation
Indices: 36844--36891 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
36834 GATAGTTAAA
36844 GAGTGCAAAATGAAAAA-AAAAT
1 GAGTGCAAAATGAAAAAGAAAAT
*
36866 GAGTGCACAA-GAAAAAGAAAAT
1 GAGTGCAAAATGAAAAAGAAAAT
36888 -AGTG
1 GAGTG
36892 ATATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.58, C:0.06, G:0.23, T:0.12
Consensus pattern (23 bp):
GAGTGCAAAATGAAAAAGAAAAT
Found at i:43032 original size:20 final size:19
Alignment explanation
Indices: 42989--43032 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
42979 TCAAAAGTCG
* * *
42989 TGTTAAATAGATATTTATT
1 TGTTAAATAAAAATTTAAT
43008 TGTTAAATAAAAATTATAAT
1 TGTTAAATAAAAATT-TAAT
43028 TGTTA
1 TGTTA
43033 CATATATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (19 bp):
TGTTAAATAAAAATTTAAT
Found at i:43558 original size:13 final size:13
Alignment explanation
Indices: 43540--43579 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
43530 ACATTATGCT
43540 TTGTATCGATACA
1 TTGTATCGATACA
43553 TTGTATCGATACA
1 TTGTATCGATACA
43566 TTGTATCGATACA
1 TTGTATCGATACA
43579 T
1 T
43580 GTTTACTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:43686 original size:33 final size:32
Alignment explanation
Indices: 43649--43746 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
43639 TACCCCTGTT
43649 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
43682 TGTATCGATACATGATGAATTGTATCGATACAA
1 TGTATCGATACATGA-GAATTGTATCGATACAA
43715 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
43747 TTGCTTCTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
33 61 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:43687 original size:13 final size:13
Alignment explanation
Indices: 43669--43726 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
43659 CATGGCACAT
43669 TGTATCGATACAA
1 TGTATCGATACAA
43682 TGTATCGATAC-A
1 TGTATCGATACAA
*
43694 TG-AT-G--A-AT
1 TGTATCGATACAA
43702 TGTATCGATACAA
1 TGTATCGATACAA
43715 TGTATCGATACA
1 TGTATCGATACA
43727 TGATGAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 2 0.05
11 2 0.05
12 4 0.11
13 24 0.65
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43707 original size:20 final size:20
Alignment explanation
Indices: 43682--43747 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
43672 ATCGATACAA
43682 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
43702 TGTATCGATAC------AA-
1 TGTATCGATACATGATGAAT
43715 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
43735 TGTATCGATACAT
1 TGTATCGATACAT
43748 TGCTTCTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 2 0.05
19 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGATGAAT
Found at i:53967 original size:20 final size:20
Alignment explanation
Indices: 53942--53982 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53932 TACATAATGA
53942 TATTAATCGACAAATTTTTT
1 TATTAATCGACAAATTTTTT
** *
53962 TATTAATTTACCAATTTTTT
1 TATTAATCGACAAATTTTTT
53982 T
1 T
53983 TAAACATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTAATCGACAAATTTTTT
Found at i:55188 original size:22 final size:24
Alignment explanation
Indices: 55162--55206 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
55152 TCATACATAA
55162 ATATTAAATATTT-T-TTTATTGC
1 ATATTAAATATTTGTATTTATTGC
*
55184 ATATTAACTATTTGTATTTATTG
1 ATATTAAATATTTGTATTTATTG
55207 TCTTTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 1 0.05
24 7 0.35
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (24 bp):
ATATTAAATATTTGTATTTATTGC
Found at i:55450 original size:2 final size:2
Alignment explanation
Indices: 55443--55469 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55433 GAAACATTCA
55443 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 A
55470 CAGATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55546 original size:20 final size:21
Alignment explanation
Indices: 55518--55566 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
55508 TAGATAATTT
55518 TTATA-TTTAT-ATCATAATAA
1 TTATATTTTATCAT-ATAATAA
*
55538 -TATATTTTATCATGTAATAA
1 TTATATTTTATCATATAATAA
55558 TTATATTTT
1 TTATATTTT
55567 TAAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATATTTTATCATATAATAA
Found at i:55564 original size:21 final size:19
Alignment explanation
Indices: 55518--55582 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 19
55508 TAGATAATTT
55518 TTATATTTATATCATAATAA
1 TTATATTT-TATCATAATAA
55538 -TATATTTTATCATGTAATAA
1 TTATATTTTATCA--TAATAA
55558 TTATATTTT-T-A-AATATA
1 TTATATTTTATCATAATA-A
55575 TTATATTT
1 TTATATTT
55583 ATATAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.10
17 9 0.22
18 5 0.12
19 8 0.20
20 7 0.17
21 8 0.20
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATATTTTATCATAATAA
Found at i:55627 original size:17 final size:18
Alignment explanation
Indices: 55581--55627 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 18
55571 TATATTATAT
55581 TTATATAAATTTTAATGTA
1 TTATATAAATTTTAA-GTA
55600 TTA-AT-AA--TTAA-TA
1 TTATATAAATTTTAAGTA
55613 TTATATAAATTTTAA
1 TTATATAAATTTTAA
55628 AATATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 5 0.21
14 2 0.08
15 6 0.25
17 6 0.25
18 2 0.08
19 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATATAAATTTTAAGTA
Found at i:55650 original size:16 final size:16
Alignment explanation
Indices: 55629--55679 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
55619 AAATTTTAAA
55629 ATATTTATATTATTTT
1 ATATTTATATTATTTT
*
55645 ATATTTTTATTATTTT
1 ATATTTATATTATTTT
*
55661 -TA-TTATAATATATTT
1 ATATTTATATTAT-TTT
55676 ATAT
1 ATAT
55680 AAATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 17 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTATATTATTTT
Found at i:56910 original size:16 final size:15
Alignment explanation
Indices: 56877--56921 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
56867 TGAAATAATT
56877 TAAATA-TAAATAAA
1 TAAATATTAAATAAA
*
56891 TAAATATTATATAGAA
1 TAAATATTAAATA-AA
*
56907 TAAATATTTAATAAA
1 TAAATATTAAATAAA
56922 AATATGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
TAAATATTAAATAAA
Found at i:57501 original size:56 final size:56
Alignment explanation
Indices: 57422--57571 Score: 282
Period size: 56 Copynumber: 2.7 Consensus size: 56
57412 GGATTCCTTC
*
57422 TATGCCTTGGGACTAAAAGAGATTTCTCATGCTTCCAACTTTATAGCTTCTTCTTT
1 TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAACTTTATAGCTTCTTCTTT
*
57478 TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAACTTTATAGCTTCTTTTTT
1 TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAACTTTATAGCTTCTTCTTT
57534 TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAA
1 TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAA
57572 TTGAGCCACT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 92 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (56 bp):
TATGCCTTGGGACTAAAAGAGATTTCTCATCCTTCCAACTTTATAGCTTCTTCTTT
Found at i:61269 original size:13 final size:13
Alignment explanation
Indices: 61251--61276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61241 TACAGCAAGT
61251 ATGTATCGATACA
1 ATGTATCGATACA
61264 ATGTATCGATACA
1 ATGTATCGATACA
61277 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:63527 original size:21 final size:21
Alignment explanation
Indices: 63494--63538 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
63484 TTGCAAGTTG
*
63494 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
63516 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
63536 AAA
1 AAA
63539 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:65362 original size:15 final size:15
Alignment explanation
Indices: 65342--65372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65332 TAAAAATGTC
*
65342 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
65357 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
65372 C
1 C
65373 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:67466 original size:20 final size:20
Alignment explanation
Indices: 67387--67466 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
67377 AATGTCCAAA
*
67387 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
67407 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
67432 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
67452 TTGTATCGATACATT
1 ATGTATCGATACATT
67467 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:67470 original size:13 final size:13
Alignment explanation
Indices: 67452--67490 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
67442 ACATTTTTCT
67452 TTGTATCGATACA
1 TTGTATCGATACA
67465 TTGTATCGATACA
1 TTGTATCGATACA
*
67478 CTGTATCGATACA
1 TTGTATCGATACA
67491 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:67654 original size:20 final size:19
Alignment explanation
Indices: 67613--67655 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
67603 ATCTTTTGCA
67613 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
67633 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
67653 AAA
1 AAA
67656 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:67657 original size:21 final size:20
Alignment explanation
Indices: 67611--67657 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
67601 AAATCTTTTG
67611 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
67632 C-AAATAACTTCGTTTTTCA-T
1 CAAAAT-ACTT-GTTTTTCACT
67652 CAAAAT
1 CAAAAT
67658 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:70055 original size:13 final size:13
Alignment explanation
Indices: 70037--70062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70027 TACAGCAAGT
70037 ATGTATCGATACA
1 ATGTATCGATACA
70050 ATGTATCGATACA
1 ATGTATCGATACA
70063 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72444 original size:37 final size:37
Alignment explanation
Indices: 72370--72444 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
72360 TTCGGGTTTG
**
72370 GGTCAATTAAGTTTAACACTCATGTTAATCGGTTTTA
1 GGTCAATTAAGTTTAACACTCATGTTAATCGACTTTA
* * *
72407 GGTCAATTATGTTTAACACTTGA-GTTTATCGACTTTA
1 GGTCAATTAAGTTTAACAC-TCATGTTAATCGACTTTA
72444 G
1 G
72445 TCATTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (37 bp):
GGTCAATTAAGTTTAACACTCATGTTAATCGACTTTA
Found at i:72512 original size:16 final size:16
Alignment explanation
Indices: 72488--72527 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
72478 TTGGAGTCAA
* *
72488 TTCAGGTTCGGATTAT
1 TTCAAGTTCGGATCAT
72504 TTCAAGTTCGGATCAT
1 TTCAAGTTCGGATCAT
72520 TTCAAGTT
1 TTCAAGTT
72528 AGAGCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (16 bp):
TTCAAGTTCGGATCAT
Found at i:72552 original size:16 final size:16
Alignment explanation
Indices: 72533--72587 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
72523 AAGTTAGAGC
*
72533 CATTTTAGTTTTAGGT
1 CATTTTAGATTTAGGT
* *
72549 CATTTTAGGTTTGGGT
1 CATTTTAGATTTAGGT
*
72565 CA-TTTAGAATTTAAGT
1 CATTTTAG-ATTTAGGT
72581 CATTTTA
1 CATTTTA
72588 AACTCAAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 5 0.16
16 23 0.72
17 4 0.12
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (16 bp):
CATTTTAGATTTAGGT
Found at i:73086 original size:28 final size:26
Alignment explanation
Indices: 73047--73109 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
73037 TTTTTTACAC
*
73047 TTTTTT-ATTTATGTTGTGTTTAAAT
1 TTTTTTCATTTATGTTATGTTTAAAT
* *
73072 TATTTTTCATATTATTTTATGTTTTAAT
1 T-TTTTTCAT-TTATGTTATGTTTAAAT
73100 TTTTTT-ATTT
1 TTTTTTCATTT
73110 TGTGTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 3 0.09
26 7 0.22
27 7 0.22
28 15 0.47
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTTTTCATTTATGTTATGTTTAAAT
Found at i:73251 original size:16 final size:18
Alignment explanation
Indices: 73215--73252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73205 TCATATATTT
73215 TTTAATGTCATAATCATA
1 TTTAATGTCATAATCATA
*
73233 TTTAATGT-ATTAT-ATA
1 TTTAATGTCATAATCATA
73249 TTTA
1 TTTA
73253 TATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTAATGTCATAATCATA
Found at i:76245 original size:3 final size:3
Alignment explanation
Indices: 76237--76263 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
76227 AAACTAGTAA
76237 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
76264 TGACCCTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:77839 original size:20 final size:18
Alignment explanation
Indices: 77814--77851 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
77804 ATAAGGTAAT
77814 ATTATGATATTTACATTTTA
1 ATTATGA-ATTTA-ATTTTA
77834 ATTATGAATTTAATTTTA
1 ATTATGAATTTAATTTTA
77852 TCCAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTATGAATTTAATTTTA
Found at i:78286 original size:17 final size:19
Alignment explanation
Indices: 78261--78298 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
78251 TCTCATATCA
*
78261 ATAATATAAA-TA-TAAAT
1 ATAACATAAATTATTAAAT
78278 ATAACATAAATTATTAAAT
1 ATAACATAAATTATTAAAT
78297 AT
1 AT
78299 TTTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAACATAAATTATTAAAT
Found at i:78391 original size:29 final size:29
Alignment explanation
Indices: 78355--78410 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
78345 CTTAGTTAAA
78355 TATGTTATATCATATTTAAT-TTGAATAT
1 TATGTTATATCATATTTAATATTGAATAT
*
78383 TATGTTTATATCATATTTTATATTGAAT
1 TATG-TTATATCATATTTAATATTGAAT
78411 TCAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (29 bp):
TATGTTATATCATATTTAATATTGAATAT
Found at i:79022 original size:164 final size:164
Alignment explanation
Indices: 78647--79276 Score: 658
Period size: 163 Copynumber: 3.8 Consensus size: 164
78637 TATTTAATAA
* * * * *
78647 TATTTAATAATTCAATATCTTTTGAGTTAAAAAAGTTTTAAGTT-ACTGATTATTAAATTATACA
1 TATTTAATAATTCAATATCATTTGTGTTAAAAAAGTTTTAAATTGATTGATTATTAAATTATATA
* * * * * * *
78711 TAATTGGTAACTACTACTTTTATTTTTACAAGATATATATT-AAAGAATATTTTCATTTCTTATT
66 TAATTGATAATTA-TATTTTTATTTCTACTAGATATATATTGAAA-ATTATTTTCATTTCTTAGT
* *
78775 GGCTT-AA-TTGAGTTTAATTAATGGTTAATCTATG
129 GGCTTAAATTTCAGTTTAATTAATGGTTAATCAATG
* *
78809 TATTTAATAATTCAATATCATTTGTGCTAAAAAAAGTTTTAAGTTGATTGATTATTAAATTATAT
1 TATTTAATAATTCAATATCATTTGTG-TTAAAAAAGTTTTAAATTGATTGATTATTAAATTATAT
* * * * * *
78874 ATAGTAGATAATTTTGATTTTTATTTCTACTATATATATA-TGAATATTATTTTCACTTCTTAGT
65 ATAATTGATAATTAT-ATTTTTATTTCTACTAGATATATATTGAAAATTATTTTCATTTCTTAGT
78938 GGCTTAAATTTCAGGTTTAATTAATGGTTAATCAATG
129 GGCTTAAATTTCA-GTTTAATTAATGGTTAATCAATG
* * *
78975 TATATAATAATTCAATATCATTTTTGTTAAGAAA-TTTTAAATTGATTGATTATTAAA--ATATA
1 TATTTAATAATTCAATATCATTTGTGTTAAAAAAGTTTTAAATTGATTGATTATTAAATTATATA
* *
79037 TATTTGATAATTACAATTTTTATTTCTA-TAAGATATATATTGAAAATTATTTTCATTTCTTAGT
66 TAATTGATAATTA-TATTTTTATTTCTACT-AGATATATATTGAAAATTATTTTCATTTCTTAGT
* * *
79101 AGATAAAATTTCAAGTTTAATTAAAT--TCTAATCGAA-G
129 GGCTTAAATTTC-AGTTTAATT-AATGGT-TAATC-AATG
* * *
79138 TATTTAATAATTCGATATCATTTGTGTTAAAAAAGTTTTAAATTGTTTTATTATTAAATTATATA
1 TATTTAATAATTCAATATCATTTGTGTTAAAAAAGTTTTAAATTGATTGATTATTAAATTATATA
* * * * ** * * *
79203 -AATTTCATAACTACGA-TCTTATTTCTAAAAGATATATATTGAAGATTATTTTTATTTCTTAAT
66 TAA-TTGATAATTA-TATTTTTATTTCTACTAGATATATATTGAAAATTATTTTCATTTCTTAGT
*
79266 AGCTTAAATTT
129 GGCTTAAATTT
79277 TGATTCTATT
Statistics
Matches: 397, Mismatches: 52, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
161 1 0.00
162 61 0.15
163 115 0.29
164 99 0.25
165 60 0.15
166 61 0.15
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (164 bp):
TATTTAATAATTCAATATCATTTGTGTTAAAAAAGTTTTAAATTGATTGATTATTAAATTATATA
TAATTGATAATTATATTTTTATTTCTACTAGATATATATTGAAAATTATTTTCATTTCTTAGTGG
CTTAAATTTCAGTTTAATTAATGGTTAATCAATG
Found at i:79253 original size:328 final size:326
Alignment explanation
Indices: 78651--79276 Score: 735
Period size: 328 Copynumber: 1.9 Consensus size: 326
78641 TAATAATATT
*
78651 TAATAATTCAATATCTTTTGAGTTAAAAAAGTTTTAAGTTACTGATTATTAAATTATACATAATT
1 TAATAATTCAATATCTTTTGAGTTAAAAAAGTTTTAAATTACTGATTATTAAA-TATACATAATT
* * * * * * *
78716 GGTAACTACTACTTTTATTTTTACAAGATATATATTAAAGAATATTTTCATTTCTTATTGGCTTA
65 GATAACTACAACTTTTATTTCTACAAGATATATATTAAAGAATATTTTCATTTCTTAGTAGATAA
* * *
78781 ATTGAGTTTAATTAATGGTTAATCTATGTATTTAATAATTCAATATCATTTGTGCTAAAAAAAGT
130 ATTAAGTTTAATTAAT-GTTAATCGAAGTATTTAATAATTCAATATCATTTGTGCTAAAAAAAGT
* * * * ** * ** *
78846 TTTAAGTTGATTGATTATTAAATTATATATAGTAGATAATTTTGATTTTTATTTCTACTATATAT
194 TTTAAATTGATTGATTATTAAATTATATAAAGTACATAACTACGATTCTTATTTCTAAAAGATAT
* * *
78911 ATATGAATATTATTTTCACTTCTTAGTGGCTTAAATTTCAGGTTTAATTAATGGTTAATCAATGT
259 ATATGAAGATTATTTTCACTTCTTAATAGCTTAAATTTCAGGTTTAATTAATGGTTAATCAATGT
78976 ATA
324 ATA
* * * * *
78979 TAATAATTCAATATCATTTT-TGTTAAGAAA-TTTTAAATTGATTGATTATTAAA-ATATATATT
1 TAATAATTCAATATC-TTTTGAGTTAAAAAAGTTTTAAATT-ACTGATTATTAAATATACATAAT
* * * *
79041 TGATAATTACAATTTTTATTTCTATAAGATATATATTGAAA-ATTATTTTCATTTCTTAGTAGAT
64 TGATAACTACAACTTTTATTTCTACAAGATATATATT-AAAGAATATTTTCATTTCTTAGTAGAT
* *
79105 AAAATTTCAAGTTTAATTAAAT-TCTAATCGAAGTATTTAATAATTCGATATCATTTGTG-TTAA
128 -AAA-TT-AAGTTTAATT-AATGT-TAATCGAAGTATTTAATAATTCAATATCATTTGTGCTAAA
* * * *
79168 AAAAGTTTTAAATTGTTTTATTATTAAATTATATAAATTTCATAACTACGA-TCTTATTTCTAAA
188 AAAAGTTTTAAATTGATTGATTATTAAATTATATAAAGTACATAACTACGATTCTTATTTCTAAA
* *
79232 AGATATATATTGAAGATTATTTTTATTTCTTAATAGCTTAAATTT
253 AGATATATA-TGAAGATTATTTTCACTTCTTAATAGCTTAAATTT
79277 TGATTCTATT
Statistics
Matches: 248, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
326 57 0.23
327 31 0.12
328 112 0.45
329 45 0.18
330 3 0.01
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (326 bp):
TAATAATTCAATATCTTTTGAGTTAAAAAAGTTTTAAATTACTGATTATTAAATATACATAATTG
ATAACTACAACTTTTATTTCTACAAGATATATATTAAAGAATATTTTCATTTCTTAGTAGATAAA
TTAAGTTTAATTAATGTTAATCGAAGTATTTAATAATTCAATATCATTTGTGCTAAAAAAAGTTT
TAAATTGATTGATTATTAAATTATATAAAGTACATAACTACGATTCTTATTTCTAAAAGATATAT
ATGAAGATTATTTTCACTTCTTAATAGCTTAAATTTCAGGTTTAATTAATGGTTAATCAATGTAT
A
Found at i:81010 original size:230 final size:226
Alignment explanation
Indices: 80501--81127 Score: 794
Period size: 230 Copynumber: 2.7 Consensus size: 226
80491 GCAAACATTT
* * * *
80501 TTAAGTAGTTAAAATTTATTAAATGATAATTGTAAGTTAGGATTTATGAAATAATTAAATCTTGT
1 TTAAGTAGTTAAAATTTATCAAATGACAATTGTAAGTTAGGTTTTATGAAATAACTAAATCTTGT
* * * * * *
80566 GTCATTAT-AGA-TATGACAGCTTTTAATTTTAATCTGTTCATCACATAGGCTATGAAAAAAGAT
66 GTCATTATAATATTATGGCAACTTTTAATTTTAATCTATTTATCACATAAGCTATGAAAAAAGAT
* * *
80629 TTGAGAGCTTTGTTTTTTAGAGAAAGGATAATTGCTCATATATTTTTTATTATTATAATATTTTA
131 TTGAGAGCTTTGTTTTTTAGAGAATGGATAATTACTCACATATTTTTTATTATTATAATATTTTA
* *
80694 AATAATACTTTAACAATTATAAGTAGATCTC
196 AATAATAATTTAACAATTATAAGTAGACCTC
* * * *
80725 TCAAGTAGTTAAAATTTATCAAACGACTATTGTAAAGTTAGATTTTATGAAATAACTAAATCTTG
1 TTAAGTAGTTAAAATTTATCAAATGACAATTGT-AAGTTAGGTTTTATGAAATAACTAAATCTTG
* * *
80790 TGTCATTATAAATATTATGGTAACTTTTAATTTTAATCTATTTATCACAAAAGCTAT-AAATAAT
65 TGTCATTAT-AATATTATGGCAACTTTTAATTTTAATCTATTTATCACATAAGCTATGAAA-AAA
*
80854 GATTTGAGAGCTTTGTTTTTCTAGAGAATGGATAATTACTCACATATTTTTTGTTATTATAATAT
128 GATTTGAGAGCTTTGTTTTT-TAGAGAATGGATAATTACTCACATATTTTTTATTATTATAATAT
*
80919 TTTAAATAATATATTTAACAATTATGAGTAGACCTC
192 TTTAAATAATA-ATTTAACAATTATAAGTAGACCTC
* * *
80955 TTAAGTAGTTAAAATTTATCAAATGACAATTGTGAAGCTAGGTTTTATGAAATAACTAAATTTTA
1 TTAAGTAGTTAAAATTTATCAAATGACAATTGT-AAGTTAGGTTTTATGAAATAACTAAATCTTG
* * * * *
81020 TGTCATTATAGGTATTTTGGCAAATTTTAAGTTTAATTTTAATTTTTCATCACATAAGCTATGAA
65 TGTCATTATA-ATATTATGGCAACTTTTAATTTTAA-TCT-A--TTT-ATCACATAAGCTATGAA
** *
81085 AAAAGATTTGAGAGCTCTACTTTTTT-GAAAATGGATAATTACT
124 AAAAGATTTGAGAGCT-TTGTTTTTTAGAGAATGGATAATTACT
81128 AATGATTTTT
Statistics
Matches: 345, Mismatches: 43, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
224 28 0.08
225 37 0.11
227 5 0.01
228 57 0.17
229 52 0.15
230 107 0.31
231 2 0.01
232 1 0.00
234 19 0.06
235 28 0.08
236 9 0.03
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (226 bp):
TTAAGTAGTTAAAATTTATCAAATGACAATTGTAAGTTAGGTTTTATGAAATAACTAAATCTTGT
GTCATTATAATATTATGGCAACTTTTAATTTTAATCTATTTATCACATAAGCTATGAAAAAAGAT
TTGAGAGCTTTGTTTTTTAGAGAATGGATAATTACTCACATATTTTTTATTATTATAATATTTTA
AATAATAATTTAACAATTATAAGTAGACCTC
Found at i:85365 original size:20 final size:20
Alignment explanation
Indices: 85340--85393 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
85330 CGTTTGAAGA
* *
85340 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTACC
*
85360 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTACC
*
85380 ATGTATTGATACAA
1 ATGTATCGATACAA
85394 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:88041 original size:27 final size:27
Alignment explanation
Indices: 88003--88069 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
87993 CAAAAAATAT
88003 TGTATCGATACATCTAGGTTTTCCAGA
1 TGTATCGATACATCTAGGTTTTCCAGA
88030 TGTATCGATACATCTAGGTTTTCCAGA
1 TGTATCGATACATCTAGGTTTTCCAGA
*
88057 TGTATTGATACAT
1 TGTATCGATACAT
88070 TGAAGATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
TGTATCGATACATCTAGGTTTTCCAGA
Found at i:88295 original size:16 final size:16
Alignment explanation
Indices: 88274--88307 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
88264 AGCTAGTAGG
88274 TGGAGGAGTGGACATA
1 TGGAGGAGTGGACATA
88290 TGGAGGAGTGGACATA
1 TGGAGGAGTGGACATA
88306 TG
1 TG
88308 TGGGGACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.44, T:0.21
Consensus pattern (16 bp):
TGGAGGAGTGGACATA
Found at i:88580 original size:19 final size:19
Alignment explanation
Indices: 88556--88702 Score: 132
Period size: 19 Copynumber: 8.7 Consensus size: 19
88546 CAAACCGTAA
88556 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
88575 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
88594 TTGTATCGATAC------G
1 TTGTATCGATACATAAGTG
*
88607 ATGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
88626 TTGTATCGATAC------G
1 TTGTATCGATACATAAGTG
*
88639 ATGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
88658 TTGTATCGATAC------G
1 TTGTATCGATACATAAGTG
* *
88671 ATGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
88690 TTGTATCGATACA
1 TTGTATCGATACA
88703 ATGTATCGTT
Statistics
Matches: 103, Mismatches: 7, Indels: 36
0.71 0.05 0.25
Matches are distributed among these distances:
13 36 0.35
19 67 0.65
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:88613 original size:13 final size:13
Alignment explanation
Indices: 88595--88682 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
88585 ACATAAGTGT
88595 TGTATCGATACGA
1 TGTATCGATACGA
*
88608 TGTATCGATACATAAGTGT
1 TGTATCGATAC------GA
88627 TGTATCGATACGA
1 TGTATCGATACGA
*
88640 TGTATCGATACATAAGTGT
1 TGTATCGATAC------GA
88659 TGTATCGATACGA
1 TGTATCGATACGA
88672 TGTATCGATAC
1 TGTATCGATAC
88683 ATAAGTTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 24
0.68 0.05 0.28
Matches are distributed among these distances:
13 35 0.59
19 24 0.41
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (13 bp):
TGTATCGATACGA
Found at i:88617 original size:32 final size:32
Alignment explanation
Indices: 88576--88710 Score: 252
Period size: 32 Copynumber: 4.2 Consensus size: 32
88566 ACATAAGTGT
88576 TGTATCGATACATAAGTGTTGTATCGATACGA
1 TGTATCGATACATAAGTGTTGTATCGATACGA
88608 TGTATCGATACATAAGTGTTGTATCGATACGA
1 TGTATCGATACATAAGTGTTGTATCGATACGA
88640 TGTATCGATACATAAGTGTTGTATCGATACGA
1 TGTATCGATACATAAGTGTTGTATCGATACGA
* *
88672 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACGA
88704 TGTATCG
1 TGTATCG
88711 TTACGAAGCT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 101 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACGA
Found at i:88773 original size:13 final size:13
Alignment explanation
Indices: 88755--88781 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88745 ATTACTCAAA
88755 TGTATCGATACAT
1 TGTATCGATACAT
88768 TGTATCGATACAT
1 TGTATCGATACAT
88781 T
1 T
88782 TGATCTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:90799 original size:654 final size:655
Alignment explanation
Indices: 89544--90857 Score: 2477
Period size: 654 Copynumber: 2.0 Consensus size: 655
89534 GTTTATCATC
*
89544 ATTTTAATGATCCTAACATGTTTCCATGACCTTCTTAAGATCATCATGCATGATTGTGACTTTGG
1 ATTTTAATGATCCTAACATGTTTCCATGACCTTCTTAAGATCATCATGCATGATTATGACTTTGG
89609 ATGTGGTAGTTCTAGGATTATTGTGATGATTTTGATGATTTGAAGTCATTTGTGTGCCTAAAATG
66 ATGTGGTAGTTCTAGGATTATTGTGATGATTTTGATGATTTGAAGTCATTTGTGTGCCTAAAATG
89674 CCATATTCATCTCCATCATATTGACAGCCCATGATTCATGCATTTTGAGCTATGCTTCATGCATT
131 CCATATTCATCTCCATCATATTGACAGCCCATGATTCATGCATTTTGAGCTATGCTTCATGCATT
*
89739 TATGGCATGTTCAGCACCTCTATGAATGTTGTTCATCATGTCCTTGCATGATCATCATACTTGTT
196 TATGGCATGTTCAGCACCTCCATGAATGTTGTTCATCATGTCCTTGCATGATCATCATACTTGTT
89804 TGCATCAAAACAGATTTTCAAACACCCCTCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGAT
261 TGCATCAAAACAGATTTTCAAACACCCCTCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGAT
89869 TAGCTTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTCAGGT
326 TAGCTTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTCAGGT
* *
89934 CTAGAAACATGATTAAAACAAGTCCAAGGCTCTGATTTTTGAACCAAAATGGCCCTCCATCATGC
391 CTAGAAACATGATTAAAACAAGTCCAAGACTCTGATTTTTGAACCAAAATGGCCCTCCAGCATGC
*
89999 TTAAATGTTTGTGCCTTGGTTTTGTATCAAATCATGAGTGGTATTGATCAACGGGCTGTTTCTTC
456 TTAAATGTTTGTGCCTTGGTTTTGTATCAAATCATGAGTGGTATTGATCAACGGGCTGTTTCATC
* * * *
90064 GTCCCAAACTACTCTGGGGTAGTGCAAATGAGTTCGTGATGCTCATACCACTCTCTCCTGTCGGT
521 ATCCCAAACTACTCCGGGGTAGTGAAAATGAGTTCGTGATGCTCATACCACTCTCTCCTATCGGT
*
90129 CATGGACGTTCGGATGTCCATGACTCGAGTTTAAATCCGTAAACACGTAGCAAACCAAGACCAGT
586 CATGGACGTTCGGATGTCCATGACTCGAGTTTAAATCCGTAAACACGTACCAAACCAAGACCAGT
90194 CCCCT
651 CCCCT
*
90199 ATTTTAATGATCCTAACATGTTTCCATGACCTTCTTAAGATCATCATGCATGATTATGGCTTTGG
1 ATTTTAATGATCCTAACATGTTTCCATGACCTTCTTAAGATCATCATGCATGATTATGACTTTGG
90264 ATGTGGTAGTTCTAGGATTATTGTGATGATTTTGATGATTTGAAGTCATTTGTGTGCCTAAAATG
66 ATGTGGTAGTTCTAGGATTATTGTGATGATTTTGATGATTTGAAGTCATTTGTGTGCCTAAAATG
* *
90329 CCATATTCATTTCCATCATGTTGACAGCCCATGATTCATGCATTTTGAGCTATGCTTCATGCATT
131 CCATATTCATCTCCATCATATTGACAGCCCATGATTCATGCATTTTGAGCTATGCTTCATGCATT
*
90394 TATGGCATGTTCAGTACCTCCATGAATGTTGTTCATCATGTCCTTGCATGATCATCATACTTGTT
196 TATGGCATGTTCAGCACCTCCATGAATGTTGTTCATCATGTCCTTGCATGATCATCATACTTGTT
90459 TGCATCAAAACAGATTTTCAAACACCCCTCAAGTTAAGTTC-AGCTAGCCTCAATCAATGAGGAT
261 TGCATCAAAACAGATTTTCAAACACCCCTCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGAT
90523 TAGCTTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTCAGGT
326 TAGCTTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTCAGGT
90588 CTAGAAACATGATTAAAACAAGTCCAAGACTCTGATTTTTGAACCAAAATGGCCCTCCAGCATGC
391 CTAGAAACATGATTAAAACAAGTCCAAGACTCTGATTTTTGAACCAAAATGGCCCTCCAGCATGC
90653 TTAAATGTTTGTGCCTTGGTTTTGTATCAAATCATGAGTGGTATTGATCAACGGGCTGTTTCATC
456 TTAAATGTTTGTGCCTTGGTTTTGTATCAAATCATGAGTGGTATTGATCAACGGGCTGTTTCATC
*
90718 ATCCCAAACTACTCCGGGGTAGTGAAAATGAGTTCGTGATGCTCATACCACTCTCTCCTATTGGT
521 ATCCCAAACTACTCCGGGGTAGTGAAAATGAGTTCGTGATGCTCATACCACTCTCTCCTATCGGT
*
90783 CATGGACGTTCGGATGTCCATGACTCGAGTTTAAATCCGTAAACACGTACCAAACCAAGACTAGT
586 CATGGACGTTCGGATGTCCATGACTCGAGTTTAAATCCGTAAACACGTACCAAACCAAGACCAGT
90848 CCCCT
651 CCCCT
90853 ATTTT
1 ATTTT
90858 GCTCTGTTTC
Statistics
Matches: 643, Mismatches: 16, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
654 348 0.54
655 295 0.46
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (655 bp):
ATTTTAATGATCCTAACATGTTTCCATGACCTTCTTAAGATCATCATGCATGATTATGACTTTGG
ATGTGGTAGTTCTAGGATTATTGTGATGATTTTGATGATTTGAAGTCATTTGTGTGCCTAAAATG
CCATATTCATCTCCATCATATTGACAGCCCATGATTCATGCATTTTGAGCTATGCTTCATGCATT
TATGGCATGTTCAGCACCTCCATGAATGTTGTTCATCATGTCCTTGCATGATCATCATACTTGTT
TGCATCAAAACAGATTTTCAAACACCCCTCAAGTTAAGTTCAAGCTAGCCTCAATCAATGAGGAT
TAGCTTGGATTTAAGCTTTTTATCAAATTGACACTTCAATCTTGGGGTAAATTTAGTTTTCAGGT
CTAGAAACATGATTAAAACAAGTCCAAGACTCTGATTTTTGAACCAAAATGGCCCTCCAGCATGC
TTAAATGTTTGTGCCTTGGTTTTGTATCAAATCATGAGTGGTATTGATCAACGGGCTGTTTCATC
ATCCCAAACTACTCCGGGGTAGTGAAAATGAGTTCGTGATGCTCATACCACTCTCTCCTATCGGT
CATGGACGTTCGGATGTCCATGACTCGAGTTTAAATCCGTAAACACGTACCAAACCAAGACCAGT
CCCCT
Found at i:95954 original size:52 final size:52
Alignment explanation
Indices: 95876--96023 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 52
95866 CGAAATATGA
95876 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
95928 AAATTTGCATGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
*** *
95980 AAA-TTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
96024 AAGATTAGTG
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
50 1 0.01
51 33 0.38
52 47 0.55
53 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:96017 original size:20 final size:20
Alignment explanation
Indices: 95992--96044 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
95982 ATTGCCTGCA
95992 TGTATCGATACAAAGATTAG
1 TGTATCGATACAAAGATTAG
96012 TGTATCGATACAAAGATTAG
1 TGTATCGATACAAAGATTAG
96032 TGTATCGATACAA
1 TGTATCGATACAA
96045 TGTATCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAGATTAG
Found at i:96050 original size:13 final size:13
Alignment explanation
Indices: 96032--96056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96022 CAAAGATTAG
96032 TGTATCGATACAA
1 TGTATCGATACAA
96045 TGTATCGATACA
1 TGTATCGATACA
96057 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:96134 original size:33 final size:33
Alignment explanation
Indices: 96097--96163 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
96087 AGTAGCTTAA
96097 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
96130 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
96163 A
1 A
96164 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:96137 original size:13 final size:13
Alignment explanation
Indices: 96119--96143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96109 CAAAAAAATA
96119 TGTATCGATACAT
1 TGTATCGATACAT
96132 TGTATCGATACA
1 TGTATCGATACA
96144 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102222 original size:20 final size:20
Alignment explanation
Indices: 102197--102254 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
102187 CTGCCAGTTT
*
102197 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
* *
102217 CATGTATCGATTCAA-TGAA
1 CATGTATCGATACAATTGTA
102236 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
102255 TCGATACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:102256 original size:13 final size:13
Alignment explanation
Indices: 102238--102262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102228 TCAATGAACA
102238 TGTATCGATACAT
1 TGTATCGATACAT
102251 TGTATCGATACA
1 TGTATCGATACA
102263 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102294 original size:83 final size:83
Alignment explanation
Indices: 102207--102372 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
102197 CATGTATCGA
*
102207 TACAATTGTCCATGTATCGATTCAATGAACATGTATCGATACATTGTATCGATACAAAGCATAAT
1 TACAATTGTCCATGTATCGATACAATGAACATGTATCGATACATTGTATCGATACAAAGCATAAT
*
102272 GTATCGATACATTTGGGT
66 GTATCGATACATCTGGGT
102290 TACAATTGTCCATGTATCGATACAATGAACATGTATCGATACATTGTATCGATACAAAGCATAAT
1 TACAATTGTCCATGTATCGATACAATGAACATGTATCGATACATTGTATCGATACAAAGCATAAT
102355 GTATCGATACATCTGGGT
66 GTATCGATACATCTGGGT
102373 GTGTATCGAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (83 bp):
TACAATTGTCCATGTATCGATACAATGAACATGTATCGATACATTGTATCGATACAAAGCATAAT
GTATCGATACATCTGGGT
Found at i:102339 original size:13 final size:13
Alignment explanation
Indices: 102321--102345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102311 ACAATGAACA
102321 TGTATCGATACAT
1 TGTATCGATACAT
102334 TGTATCGATACA
1 TGTATCGATACA
102346 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102362 original size:33 final size:32
Alignment explanation
Indices: 102302--102366 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
102292 CAATTGTCCA
*
102302 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
102334 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
102367 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:102521 original size:22 final size:22
Alignment explanation
Indices: 102472--102521 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
102462 GTATTTTTAC
*
102472 TTAAAAACATTTGAATTAAAGT
1 TTAAAAACATTTGAATTAAACT
* *
102494 TCAAAAACATTTG-TTTATAACT
1 TTAAAAACATTTGAATTA-AACT
102516 TTAAAA
1 TTAAAA
102522 CTTTCATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (22 bp):
TTAAAAACATTTGAATTAAACT
Found at i:104545 original size:424 final size:422
Alignment explanation
Indices: 103354--104549 Score: 1083
Period size: 422 Copynumber: 2.8 Consensus size: 422
103344 CAAATAAGCT
* *
103354 TTAAAACTATT-TCAAAACCTTGCCACTTTAGTCAAAGATTTTTTTGAGTTAATTCTTATAAAAA
1 TTAAAACTATTCT-AAAACCTTGCCACTTTGGCCAAAG-TTTTTTTGAGTTAATTCTTATAAAAA
* * * * * * * * * * *
103418 CTAATGAGATATTCTCTCCAATACTCAAGATGATAATTTTTTTCTTGATTACTCATATAT-ATTC
64 CTAATAAGATAATCT-T-GAACACTCAAGATGATAAATTTTATCTTAATTACCCACACATCTTTC
* * * * * * * * **
103482 ATATGTTTTGTGGTATATCAAAAAAATTGTTTAACTGAAGCAGT-TGTGGTTAAAATTATAAGCA
127 ATATGTTTTATGGTATA-C-CAAACATTATCTGATTCAAGCA-TATGTGGTTAGGATTATAAGCA
* * ** * * * **
103546 AGATAATATCAAAGTATAACATTTTTCTTATAA-AGTCATAAGTAATATGAAGTTAAATAATTAC
189 AAATAATATCAAAGTATAACATTTCTCACATAAGA-TCATAAGTAATATCAAGTCAAATGAGCAC
* * * * * *** *
103610 TTATATAACTATCAAATGAATAAATTGAT-ATAAACACTAAGTGATTTACCAAATGCGAT-CTTA
253 TTGTACAACTATCACATGAATATATT-ATCATAAACACTAAGTGTTTTACCAAACAAGATCCTCA
** * * * * * * * * * *
103673 GTATTAAATCATGTACATTGAGCTTGTTTTTGTAGCAAGCACCTAGATGTTACA-TCAAATCTAC
317 -TATCGAATCATATTCATTAAACTTGTTTTTATAACAAGCACTTACATGTTACATTAAAAT-TAT
*** * * *** * *
103737 CGGAACTTTAA-TCAAT-GGAAACATTTATTTGCTTCACAAGTAA
380 TAAAACTTCAACT-AGTAGG-ATTGTTTACTCGCTTCACAAGTAA
** * *
103780 TTAAAACTATTCTAAAACCTTGCCACTTTGGTTAAAGTTTTTTTTAGTTAATTCTTATAAAAGCT
1 TTAAAACTATTCTAAAACCTTGCCACTTTGGCCAAAGTTTTTTTGAGTTAATTCTTATAAAAACT
* * * * * * * *
103845 AATGAGATACTCTTGATCACTCAAGATGATAAATTTTTTCTTGATTACTCATACATCTTTTATAT
66 AATAAGATAATCTTGAACACTCAAGATGATAAATTTTATCTTAATTACCCACACATCTTTCATAT
* * *
103910 GTTTTATGGTATATCAAACATTGTTTGATTCAAGCATATGTGGTTAGGATTATAAGCAAAATAAT
131 GTTTTATGGTATACCAAACATTATCTGATTCAAGCATATGTGGTTAGGATTATAAGCAAAATAAT
* * * *
103975 ATCAAAGTATAACATTTCTCATATAAGATTATAAGTAATCTCAAGTTAAATGAGCACTTGTACAA
196 ATCAAAGTATAACATTTCTCACATAAGATCATAAGTAATATCAAGTCAAATGAGCACTTGTACAA
* * * * * *
104040 CTATCACATGATTATATTGTCATAAACGCTAAGTGTTTTACCAAATAGGATCCTCATATTGAATC
261 CTATCACATGAATATATTATCATAAACACTAAGTGTTTTACCAAACAAGATCCTCATATCGAATC
*
104105 ATGTTCATTAAACTTGTTTTTATAACAAGCACTTACATGTTACATTAAAATTATTAAAACTTCAA
326 ATATTCATTAAACTTGTTTTTATAACAAGCACTTACATGTTACATTAAAATTATTAAAACTTCAA
104170 CTAGTAGGATTGTTTACTCGCTTCACAAGTAA
391 CTAGTAGGATTGTTTACTCGCTTCACAAGTAA
* * *
104202 TTAAAACTATTTTAAAACCTTTCCA-TATTGGCCAATGATTTTTTTGAGTTAATTCTTATAAAAA
1 TTAAAACTATTCTAAAACCTTGCCACT-TTGGCCAAAG-TTTTTTTGAGTTAATTCTTATAAAAA
*
104266 CTAATAAGATATTATCTTGAACACTCAATATGATAAATTTTATCTTAATTACCCACACATC-TTC
64 CTAATAAGATA--ATCTTGAACACTCAAGATGATAAATTTTATCTTAATTACCCACACATCTTTC
* * * ** * * *
104330 ATATGTTTTGTGTTATACCAAACATTATCTGGTTGGAGCATTTGTGGTTAGGATTCTAAGCAAGA
127 ATATGTTTTATGGTATACCAAACATTATCTGATTCAAGCATATGTGGTTAGGATTATAAGCAAAA
* *
104395 TAATATCAGAA-TATAACATTTCTCACATAAGGTCATAAGTAATATCAAGTCAAATGATCA-TT-
192 TAATATCA-AAGTATAACATTTCTCACATAAGATCATAAGTAATATCAAGTCAAATGAGCACTTG
* * ** * *
104457 TAGGCAATTATCACATGAATATATTATCATAAATACTATTTAG-TTTATCAAACAAGA-CCTTTA
256 TA--CAACTATCACATGAATATATTATCATAAACACTAAGT-GTTTTACCAAACAAGATCC-TCA
* *
104520 TATCGAATTATATTCATTGAACTTGTTTTT
317 TATCGAATCATATTCATTAAACTTGTTTTT
104550 GCAATGAACA
Statistics
Matches: 643, Mismatches: 109, Indels: 38
0.81 0.14 0.05
Matches are distributed among these distances:
421 3 0.00
422 242 0.38
423 87 0.14
424 195 0.30
425 82 0.13
426 33 0.05
427 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (422 bp):
TTAAAACTATTCTAAAACCTTGCCACTTTGGCCAAAGTTTTTTTGAGTTAATTCTTATAAAAACT
AATAAGATAATCTTGAACACTCAAGATGATAAATTTTATCTTAATTACCCACACATCTTTCATAT
GTTTTATGGTATACCAAACATTATCTGATTCAAGCATATGTGGTTAGGATTATAAGCAAAATAAT
ATCAAAGTATAACATTTCTCACATAAGATCATAAGTAATATCAAGTCAAATGAGCACTTGTACAA
CTATCACATGAATATATTATCATAAACACTAAGTGTTTTACCAAACAAGATCCTCATATCGAATC
ATATTCATTAAACTTGTTTTTATAACAAGCACTTACATGTTACATTAAAATTATTAAAACTTCAA
CTAGTAGGATTGTTTACTCGCTTCACAAGTAA
Found at i:106879 original size:22 final size:21
Alignment explanation
Indices: 106832--106883 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
106822 GTAAGACTAG
* * *
106832 GTATTCATACATTAAACTGAA
1 GTATTGATACATTAAAATAAA
106853 GTATTGATACATTAATAATAAA
1 GTATTGATACATTAA-AATAAA
106875 GTATTGATA
1 GTATTGATA
106884 TGTTATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (21 bp):
GTATTGATACATTAAAATAAA
Found at i:110385 original size:20 final size:21
Alignment explanation
Indices: 110362--110403 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
110352 TATTTAGATG
110362 TATCAATACATTGTG-TATTA
1 TATCAATACATTGTGATATTA
* *
110382 TATCAATATATTTTGATATTA
1 TATCAATACATTGTGATATTA
110403 T
1 T
110404 CTCTACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
TATCAATACATTGTGATATTA
Found at i:110487 original size:20 final size:20
Alignment explanation
Indices: 110462--110506 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
110452 GTATCGATAC
110462 ATACATTGTG-TATTATATCG
1 ATACATTGTGATA-TATATCG
* *
110482 ATACATTTTGATATGTATCG
1 ATACATTGTGATATATATCG
110502 ATACA
1 ATACA
110507 AATGAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATACATTGTGATATATATCG
Found at i:110546 original size:95 final size:95
Alignment explanation
Indices: 110367--110556 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 95
110357 AGATGTATCA
* ** *
110367 ATACATTGTGTATTATATCAATATATTTTGATATTATCTCTACAAATGAGAGTTTCAAGATTTCT
1 ATACATTGTGTATTATATCAATACATTTTGATATTATCGATACAAATGAGAGTTTCAAGATTTCC
* * *
110432 TTAGCTACTGCTAATCAAATGTATCGATAC
66 TTAGCTACTGCCAATCAAATATATCAATAC
* * * *
110462 ATACATTGTGTATTATATCGATACATTTTGATATGTATCGATACAAATGAGGGTTTTAGGATTTC
1 ATACATTGTGTATTATATCAATACATTTTGATAT-TATCGATACAAATGAGAGTTTCAAGATTTC
*
110527 CTTAGCTATTGCCAA-CAAATATATCAATAC
65 CTTAGCTACTGCCAATCAAATATATCAATAC
110557 TTCATGTGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 45 0.55
96 37 0.45
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (95 bp):
ATACATTGTGTATTATATCAATACATTTTGATATTATCGATACAAATGAGAGTTTCAAGATTTCC
TTAGCTACTGCCAATCAAATATATCAATAC
Found at i:117485 original size:3 final size:3
Alignment explanation
Indices: 117477--117510 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
117467 CAACCTCAGT
*
117477 ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
117511 CTTGAAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:118571 original size:13 final size:13
Alignment explanation
Indices: 118553--118609 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
118543 GATTGCACAA
118553 TATCGATACATTG
1 TATCGATACATTG
118566 TATCGATACA-TG
1 TATCGATACATTG
*
118578 -A-CCA-A-A-TG
1 TATCGATACATTG
118586 TATCGATACATTG
1 TATCGATACATTG
118599 TATCGATACAT
1 TATCGATACAT
118610 GACCAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 4 0.11
11 2 0.05
12 3 0.08
13 23 0.62
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:118573 original size:33 final size:32
Alignment explanation
Indices: 118553--118628 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 32
118543 GATTGCACAA
118553 TATCGATACATTGTATCGATACATGACCAAATG
1 TATCGATACATTGTATCGATACATGACCAAA-G
118586 TATCGATACATTGTATCGATACATGACCAAATG
1 TATCGATACATTGTATCGATACATGACCAAA-G
118619 TATCGATACA
1 TATCGATACA
118629 GGTCATTGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACATTGTATCGATACATGACCAAAG
Found at i:118589 original size:20 final size:20
Alignment explanation
Indices: 118564--118628 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
118554 ATCGATACAT
118564 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
118584 TGTATCGATACAT-------
1 TGTATCGATACATGACCAAA
118597 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
118617 TGTATCGATACA
1 TGTATCGATACA
118629 GGTCATTGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 13 0.34
20 25 0.66
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:118699 original size:13 final size:13
Alignment explanation
Indices: 118681--118708 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
118671 ACACCCAAAA
118681 TGTATCGATACAT
1 TGTATCGATACAT
118694 TGTATCGATACAT
1 TGTATCGATACAT
118707 TG
1 TG
118709 GCTTGTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119846 original size:20 final size:19
Alignment explanation
Indices: 119821--119891 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
119811 CTGCCAATTA
119821 ATGTATCGATACATTCATGT
1 ATGTATCGATACATT-ATGT
119841 ATGTATCGATACATTATGT
1 ATGTATCGATACATTATGT
* *
119860 ATTATATCGATACATTTTGAT
1 A-TGTATCGATACATTATG-T
*
119881 ATGTATTGATA
1 ATGTATCGATA
119892 TAAATAGGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.11
20 38 0.84
21 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATTATGT
Found at i:120596 original size:14 final size:15
Alignment explanation
Indices: 120573--120605 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
120563 TATCAAATAG
120573 TTAATATTTATTTTA
1 TTAATATTTATTTTA
*
120588 TTAAT-TTTATTTTT
1 TTAATATTTATTTTA
120602 TTAA
1 TTAA
120606 AATATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAATATTTATTTTA
Found at i:120993 original size:15 final size:15
Alignment explanation
Indices: 120973--121022 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
120963 TACTTAAAAA
120973 TTTTTAAACTATATT
1 TTTTTAAACTATATT
*
120988 TTTTT-ATC-ATA-T
1 TTTTTAAACTATATT
*
121000 TTTTTAAATATATATT
1 TTTTTAAA-CTATATT
121016 TTTTTAA
1 TTTTTAA
121023 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 2 0.07
15 8 0.29
16 8 0.29
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAAACTATATT
Found at i:124096 original size:98 final size:99
Alignment explanation
Indices: 123961--124161 Score: 226
Period size: 98 Copynumber: 2.0 Consensus size: 99
123951 ATGGCTATAT
* * * ** *
123961 CTTTCATTGGTTGGCCTTATTGTTTCATCTTTGCACATCTGGAAAATGAGCAACATGGC-TTCAT
1 CTTTCATTGGTTAGCCTTATTGCTTCATATTCACACATCTGGAAAATGAACAACATGGCTTTC-T
*
124025 CCATTTTT-TATGCTGATGAGCATTATGATCACAC
65 CCATTTTTATATGCTGATGAGCATTATGACCACAC
* * * ** *
124059 CTTTCATTGGTTAGCCTTGTTGCTTCATATTCACACATTTGGAAGATGAACATTATGGCTTTCTT
1 CTTTCATTGGTTAGCCTTATTGCTTCATATTCACACATCTGGAAAATGAACAACATGGCTTTCTC
* ** *
124124 CTTTTTTATATGCTGATTTGCATTATGGCCACAC
66 CATTTTTATATGCTGATGAGCATTATGACCACAC
124158 CTTT
1 CTTT
124162 TAGCTCTATC
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
98 55 0.65
99 29 0.35
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (99 bp):
CTTTCATTGGTTAGCCTTATTGCTTCATATTCACACATCTGGAAAATGAACAACATGGCTTTCTC
CATTTTTATATGCTGATGAGCATTATGACCACAC
Found at i:126066 original size:28 final size:28
Alignment explanation
Indices: 126032--126104 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
126022 GAAATAAAAC
126032 CAGGGTTGGAGTATCCCCTTAGAAATAA
1 CAGGGTTGGAGTATCCCCTTAGAAATAA
126060 CAGGGTTGGAGTATCCCCTTAGAAATAA
1 CAGGGTTGGAGTATCCCCTTAGAAATAA
126088 CAGGGTTGGAGTATCCC
1 CAGGGTTGGAGTATCCC
126105 TGATTATAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCTTAGAAATAA
Found at i:126275 original size:51 final size:50
Alignment explanation
Indices: 126167--126286 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 50
126157 TCGAAAATAA
* * *
126167 CGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGG
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAGG
* * * * *
126217 CTAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA-TTTTGAAAATAAAGT
1 C-GGGGTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAG-AAAT-AAGG
*
126269 CGGGGTTGAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
126287 TCAGAAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
50 5 0.09
51 48 0.84
52 4 0.07
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAGG
Found at i:126367 original size:50 final size:51
Alignment explanation
Indices: 126301--126415 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
126291 AAATAACGGG
** * *
126301 GTTAGAGTATCCCCGATGGTGGAAATC-GATGTTTTGGAAATAAAATCGGA
1 GTTAGAGTATCCCCGATGGTAAAAAACTGATGTTTTAGAAATAAAATCGGA
* * *
126351 GTTAGAGTATCTCCGATTGTAAAAAACTGATGTTTTAGAAATAAAA-CCGA
1 GTTAGAGTATCCCCGATGGTAAAAAACTGATGTTTTAGAAATAAAATCGGA
*
126401 GGTTGGAGTATCCCC
1 -GTTAGAGTATCCCC
126416 TCAGAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
50 25 0.46
51 29 0.54
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTAGAGTATCCCCGATGGTAAAAAACTGATGTTTTAGAAATAAAATCGGA
Found at i:126598 original size:259 final size:259
Alignment explanation
Indices: 126130--126604 Score: 593
Period size: 259 Copynumber: 1.8 Consensus size: 259
126120 GGTATTTTGA
* * *
126130 AAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAA
1 AAATAAAACCGAGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGATGAAA
** * ** *
126195 AATCGATGCTTTAGAAATAAGGCTAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGA
66 AATCGATGCTTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTTGA
** * **
126260 AAATAAAGTCGGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTGGAA
131 AAATAAAACCGAGGTTGAAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTAAAA
*
126325 ATCGATGTTTTGGAAATAAAATCGGAGTTAGAGTATCTCCGATTGTAAAAAACTGATGTTTTAG
196 ATCGATGGTTTGGAAATAAAATCGGAGTTAGAGTATCTCCGATTGTAAAAAACTGATGTTTTAG
* * * *
126389 AAATAAAACCGAGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTAGAGTATCCTCGATGGTGGA
1 AAATAAAACCGAGGTTAGAGTATCCCCTCGA-AAATAACGGGGTTAGAGTATCCCCGATGATGAA
* * **
126453 AAATCGATG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTACGAAAAATTGATATTTT
65 AAATCGATGCTTTAG-AAATAAAACCAGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTT
* * * *
126517 -AGAAATAAAACCGAGGTTGGAGTAT-CTCTC-GAAAATAACGGGGTTGGAGTATCCTCGACT-G
129 GA-AAATAAAACCGAGGTTGAAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCCCCGA-TGG
* *
126578 TAAAAAATTGATGGTTTGGAAGTAAAA
191 T-AAAAATCGATGGTTTGGAAATAAAA
126605 ACATGAATGA
Statistics
Matches: 181, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
257 1 0.01
258 36 0.20
259 144 0.80
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (259 bp):
AAATAAAACCGAGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGATGAAA
AATCGATGCTTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTTGA
AAATAAAACCGAGGTTGAAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTAAAA
ATCGATGGTTTGGAAATAAAATCGGAGTTAGAGTATCTCCGATTGTAAAAAACTGATGTTTTAG
Found at i:126606 original size:130 final size:130
Alignment explanation
Indices: 126090--126604 Score: 551
Period size: 130 Copynumber: 4.0 Consensus size: 130
126080 AGAAATAACA
* * * * *
126090 GGGTTGGAGTATCCCTGATTAT-AGAAAATTGGTATTTTGAAAATAAAATCGGGGTTAGAGTATC
1 GGGTTGGAGTATCCCCGATTATGA-AAAATTGATATTTTGAAAATAAAACCGAGGTTGGAGTATC
** * * **
126154 CCCTC-GAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGGC
65 CCCTCAG-AAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAAC
**
126218 TA
129 CG
* * ** ** * *
126220 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGAAAATAAAGTCGGGGTTGAAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGAAAATAAAACCGAGGTTGGAGTATCC
* *
126285 CCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTG-GAAATCGATGTTTTGGAAATAAAATCG
66 CCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACCG
* * * * * * *
126349 GAGTTAGAGTATCTCCGATTGTAAAAAACTGATGTTTT-AGAAATAAAACCGAGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGA-AAATAAAACCGAGGTTGGAGTATC
* * *
126413 CCCTCAGAAATAACGGGGTTAGAGTATCCTCGATGGTGGAAAATCGATGTTTTGAAAATAAAACC
65 CCCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACC
126478 G
130 G
*
126479 GGGTTGGAGTATCCCCGATTACGAAAAATTGATATTTT-AGAAATAAAACCGAGGTTGGAGTAT-
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGA-AAATAAAACCGAGGTTGGAGTATC
* * * * * * *
126542 CTCTC-GAAAATAACGGGGTTGGAGTATCCTCGACT-GTAAAAAATTGATGGTTTGGAAGTAAAA
65 CCCTCAG-AAATAACGGGGTTAGAGTATCCCCGA-TGGTGAAAAATCGATGTTTTGGAAATAAAA
126605 ACATGAATGA
Statistics
Matches: 327, Mismatches: 52, Indels: 13
0.83 0.13 0.03
Matches are distributed among these distances:
128 2 0.01
129 156 0.48
130 167 0.51
131 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGAAAATAAAACCGAGGTTGGAGTATCC
CCTCAGAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACCG
Found at i:129695 original size:41 final size:41
Alignment explanation
Indices: 129595--129695 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
129585 TCCCACTTTT
* * * *
129595 TAAGGACAAAGG-AAAAGAGAATGAAACGGGTCTTGCTCCT
1 TAAGGACAAAGGAAAAAGAAAAGGAAACGGGTCCTGCTCCA
* *
129635 TAAGGACAAAGGAAGAAAGAAAAGGAAA-GTGTCCTGCTTCA
1 TAAGGACAAAGGAA-AAAGAAAAGGAAACGGGTCCTGCTCCA
129676 TAAGGACAAAGTGAAAAAGA
1 TAAGGACAAAG-GAAAAAGA
129696 GTACATCCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
40 12 0.23
41 26 0.50
42 14 0.27
ACGTcount: A:0.47, C:0.12, G:0.27, T:0.15
Consensus pattern (41 bp):
TAAGGACAAAGGAAAAAGAAAAGGAAACGGGTCCTGCTCCA
Found at i:129799 original size:42 final size:43
Alignment explanation
Indices: 129753--129866 Score: 115
Period size: 46 Copynumber: 2.6 Consensus size: 43
129743 CGTCCTACTT
129753 TTTGAGGATAAAAG-AAAAAGGAAAATAAAGTGCATCATGCTC
1 TTTGAGGATAAAAGAAAAAAGGAAAATAAAGTGCATCATGCTC
* * * * *
129795 TTTGAGAATTAAAAGGGAAAATAAGG-AAATGAAGTGCGTCCTGTTC
1 TTTGAGGA-TAAAA--GAAAA-AAGGAAAATAAAGTGCATCATGCTC
* *
129841 TTTGAGGACAAAGGAAAAAAGGAAAA
1 TTTGAGGATAAAAGAAAAAAGGAAAA
129867 GGCATCCTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
42 11 0.19
43 13 0.22
45 4 0.07
46 26 0.45
47 4 0.07
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.21
Consensus pattern (43 bp):
TTTGAGGATAAAAGAAAAAAGGAAAATAAAGTGCATCATGCTC
Found at i:130026 original size:121 final size:123
Alignment explanation
Indices: 129894--130281 Score: 415
Period size: 121 Copynumber: 3.3 Consensus size: 123
129884 GGCAAAGAAG
* * *
129894 AAAAGGAAAAGGCATCCTACTCTTTGGGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAA
* * ** *
129959 GGAAAAGGCGTCTTACTCTTTGAGGACT-G-AAGGTGCTATTAGCTTGTGTGGGCTTT
66 GGAAAAGGCGTCTTACTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
** * *
130015 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTAAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAA
* *
130080 GGAAAAGGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
66 GGAAAAGGCGTCTTACTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
*
130138 ------AAAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGTTTT---
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGTTTTAAA
* * * * *
130193 --G-AAAGGCGTCCTACTCTTTGAGGACTAGAAAA-TGCCATCAACTTATGTGGGCTTT
65 AGGAAAAGGCGTCTTACTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
* *
130248 -----G-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTG
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTG
130282 AAAGGGGAAA
Statistics
Matches: 235, Mismatches: 27, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
109 5 0.02
110 45 0.19
111 28 0.12
112 1 0.00
117 47 0.20
118 2 0.01
121 84 0.36
122 1 0.00
123 22 0.09
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (123 bp):
AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAA
GGAAAAGGCGTCTTACTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
Found at i:130082 original size:61 final size:61
Alignment explanation
Indices: 129894--130253 Score: 377
Period size: 61 Copynumber: 6.1 Consensus size: 61
129884 GGCAAAGAAG
* * *
129894 AAAAGGAAAAGGCATCCTACTCTTTGGGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * ** *
129955 AAAAGGAAAAGGCGTCTTACTCTTTGAGGACT-GAAGGTGCTATTAGCTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
130015 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
130076 AAAAGGAAAAGGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
130138 ------AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
130192 ----TG-AAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCATCAACTTATGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
*
130248 GAAAGG
1 AAAAGG
130254 CGTCCTGCTC
Statistics
Matches: 255, Mismatches: 35, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.01
55 65 0.25
56 27 0.11
60 52 0.20
61 85 0.33
62 23 0.09
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (61 bp):
AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:130199 original size:55 final size:55
Alignment explanation
Indices: 129901--130278 Score: 321
Period size: 55 Copynumber: 6.6 Consensus size: 55
129891 AAGAAAAGGA
* * *
129901 AAAGGCATCCTACTCTTTGGGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT-----G
* * ** * ** *
129961 AAAAGGCGTCTTACTCTTTGAGGACT-GAAGGTGCTATTAGCTTGTGTGGGCTTTAAAAGG
1 -AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G
* ** *
130021 AAAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGG
1 -AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G
* * * * *
130082 AAAAGGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTTA
1 -AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTG
* * *
130139 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG
* * *
130194 AAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCATCAACTTATGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG
130249 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
130279 GTGAAAGGGG
Statistics
Matches: 275, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
54 5 0.02
55 93 0.34
56 27 0.10
60 48 0.17
61 82 0.30
62 20 0.07
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:132315 original size:467 final size:463
Alignment explanation
Indices: 131418--132536 Score: 1133
Period size: 467 Copynumber: 2.4 Consensus size: 463
131408 TAAATTTTAT
* * * * * * * *
131418 AAATTAAAGCAAAGAATGCA-AATAACATCTAGAGCCAATCATCTTATTAAATACAA-AACCAAT
1 AAATGAAAGCAAAGAATGCATACT-ACACCTACAACCAAACTTCTTATCAAATA-AATAACCAAT
* * * * * * *
131481 TAAAATCAGAATTACTTACATTGCATCTACTAACATTGAATGAA-TTAAGC-TCATAATGTCAAA
64 TAAGATCAAAATTACCTACAATGCATTTACTGACATTGAATGAATTTAAGCTTC-TAAAGTCAAA
*
131544 CTTTCCTAATCAAATTGCATTTTCTAGCCCATATCCTTAACC-AATCAATCAATAAATTAAACT-
128 CTTTCCTAATCAAATTGCATTTTCTAGCCCATATCTTTAACCAAATCAATCAATAAATTAAACTA
* * * * *
131607 TCAATAAATGCATATATTTATAATTCAATAGAAACATCCATGATAGTTTTAGTTGAAAGTGTATG
193 TCAACAAATGCATATATTTATAATTCAATAAAAACATCCATGATAGTTTCAATTAAAAGTGTATG
* * * * * *
131672 AAATTCACCATTGATACCGACAATGGAATAAGTAATAATATATCATTTAGTATTTGAATTGTTGT
258 AAATTCACCATTGATACCAACAATGGAACAAGCAATAATATATCATCTAGTATTTGAACTGTAGT
* ** * * * * * *
131737 CTAATGATGCAACAATGTTTTTTTTTTAAGCATCTATTTGATGTTACATTCTATTAGCAAATATT
323 CTAATGATACAACAATGTTCATTTTTTAAGCATCTATCTGATGTTACATTCGATCAACAAAGACT
* * * * **
131802 AGTTCCATTTTTTCTACCACTTACATCACATATATATTAATTAGCTTGCCTTTACTACCATTTTC
388 AGTTCCATTTCTTCTACCACTTACATCACACATATATCAATTAGCTTGCCTCTACTACCATCATC
* **
131867 TTTAACAATGA
453 ATTAACAAACA
* * *
131878 AAATGAAAGCAAGGAATGCATA-TGATATCC-ACAACCAAACATT-TTATCAAATATAA-AACTA
1 AAATGAAAGCAAAGAATGCATACT-ACA-CCTACAACCAAAC-TTCTTATCAAATA-AATAACCA
* * * * * *
131939 GTTAAGATTAGAATTACCTATAATG-TTTCTATTCGCACA-T-AATGAATTTAAGCTTCTAAAGT
62 ATTAAGATCAAAATTACCTACAATGCATT-TACT-G-ACATTGAATGAATTTAAGCTTCTAAAGT
* * *
132001 CAAACTTCCCTGATCAAATTGCATTTTTTAGCCCATATCTTTAACCAAATCAATCAATAAATTAA
124 CAAACTTTCCTAATCAAATTGCATTTTCTAGCCCATATCTTTAACCAAATCAATCAATAAATTAA
* * * *
132066 ACTAT-AACAAATTCATATATTTATTTAAAAATTTAGTAAAAACATGCATGATAGTTTCAATTAA
189 ACTATCAACAAATGCATATATTTA--T---AATTCAATAAAAACATCCATGATAGTTTCAATTAA
* * * * *
132130 AAGTGTATGTAATTCACTATT-ATTACCAACAATGGAACGAGCAATCATATATCATCTATTATTT
249 AAGTGTATGAAATTCACCATTGA-TACCAACAATGGAACAAGCAATAATATATCATCTAGTATTT
* * * *
132194 GAACTGTAGTCTAATGATACAATAATG-TCATTTTTTAAGTATTTATCTGATGTTACCTT-GATC
313 GAACTGTAGTCTAATGATACAACAATGTTCATTTTTTAAGCATCTATCTGATGTTACATTCGAT-
* * * * *
132257 CAACAAAGACTAG-TCCATATTCTT-TGCTACTTATATCACAAACATATATCATTTAGCTTTCCT
377 CAACAAAGACTAGTTCCAT-TTCTTCTACCACTTACATCAC--ACATATATCAATTAGCTTGCCT
*
132320 CTACTATCATCATCATTAACAAACA
439 CTACTACCATCATCATTAACAAACA
* * *
132345 AAATGAAAGCAAAGAATGCATACTACACCTATAGCCAATCTTCTTATCAAATAAATAACCAATTA
1 AAATGAAAGCAAAGAATGCATACTACACCTACAACCAAACTTCTTATCAAATAAATAACCAATTA
* * * *
132410 AGATCAAAATTACCTACATTGCATTTACTGACATTGAATGAATTTAAGCTTATAAAGTTAAATTT
66 AGATCAAAATTACCTACAATGCATTTACTGACATTGAATGAATTTAAGCTTCTAAAGTCAAACTT
* * * * *
132475 TCTTTATCAAATTGCACTTTCTAGCCCATGTCTTTAACCAAATCAATCAATAAATTGAACTA
131 TCCTAATCAAATTGCATTTTCTAGCCCATATCTTTAACCAAATCAATCAATAAATTAAACTA
132537 CAAACATGCA
Statistics
Matches: 534, Mismatches: 98, Indels: 47
0.79 0.14 0.07
Matches are distributed among these distances:
459 1 0.00
460 71 0.13
461 57 0.11
462 42 0.08
463 1 0.00
464 1 0.00
465 22 0.04
466 48 0.09
467 288 0.54
468 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (463 bp):
AAATGAAAGCAAAGAATGCATACTACACCTACAACCAAACTTCTTATCAAATAAATAACCAATTA
AGATCAAAATTACCTACAATGCATTTACTGACATTGAATGAATTTAAGCTTCTAAAGTCAAACTT
TCCTAATCAAATTGCATTTTCTAGCCCATATCTTTAACCAAATCAATCAATAAATTAAACTATCA
ACAAATGCATATATTTATAATTCAATAAAAACATCCATGATAGTTTCAATTAAAAGTGTATGAAA
TTCACCATTGATACCAACAATGGAACAAGCAATAATATATCATCTAGTATTTGAACTGTAGTCTA
ATGATACAACAATGTTCATTTTTTAAGCATCTATCTGATGTTACATTCGATCAACAAAGACTAGT
TCCATTTCTTCTACCACTTACATCACACATATATCAATTAGCTTGCCTCTACTACCATCATCATT
AACAAACA
Found at i:135980 original size:21 final size:21
Alignment explanation
Indices: 135947--135991 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
135937 TTGCAAGTTG
*
135947 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
135969 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
135989 AAA
1 AAA
135992 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:137816 original size:15 final size:15
Alignment explanation
Indices: 137796--137826 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137786 TAAAAATGTC
*
137796 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
137811 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
137826 C
1 C
137827 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:139916 original size:20 final size:20
Alignment explanation
Indices: 139837--139916 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
139827 AATGTCCAAA
*
139837 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
139857 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
139882 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
139902 TTGTATCGATACATT
1 ATGTATCGATACATT
139917 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:139920 original size:13 final size:13
Alignment explanation
Indices: 139902--139940 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
139892 ACATTTTTCT
139902 TTGTATCGATACA
1 TTGTATCGATACA
139915 TTGTATCGATACA
1 TTGTATCGATACA
*
139928 CTGTATCGATACA
1 TTGTATCGATACA
139941 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:140085 original size:21 final size:21
Alignment explanation
Indices: 140061--140107 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
140051 AAATCTTTTG
140061 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
140082 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
140102 CAAAAT
1 CAAAAT
140108 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:140104 original size:20 final size:19
Alignment explanation
Indices: 140063--140105 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
140053 ATCTTTTGCA
140063 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
140083 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
140103 AAA
1 AAA
140106 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:142500 original size:13 final size:13
Alignment explanation
Indices: 142482--142507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142472 TACAGCAAGT
142482 ATGTATCGATACA
1 ATGTATCGATACA
142495 ATGTATCGATACA
1 ATGTATCGATACA
142508 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:146289 original size:48 final size:48
Alignment explanation
Indices: 146218--146311 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
146208 TTGACTTGCT
146218 ATAAAGGAAATGTATTTAACTTTTAATAAAGATGTATAAAGTGTAAGC
1 ATAAAGGAAATGTATTTAACTTTTAATAAAGATGTATAAAGTGTAAGC
*
146266 ATAAAGGCAATGTATTTAACTTTTAATAAAGATGTATAAAGTGTAA
1 ATAAAGGAAATGTATTTAACTTTTAATAAAGATGTATAAAGTGTAA
146312 ACATTGTTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (48 bp):
ATAAAGGAAATGTATTTAACTTTTAATAAAGATGTATAAAGTGTAAGC
Found at i:148765 original size:9 final size:9
Alignment explanation
Indices: 148745--148776 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
148735 ATTCTTATGC
148745 TTTTATGTCA
1 TTTTA-GTCA
148755 TTTTAGTCA
1 TTTTAGTCA
148764 TTTTAGTCA
1 TTTTAGTCA
148773 TTTT
1 TTTT
148777 CCATAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (9 bp):
TTTTAGTCA
Found at i:148917 original size:38 final size:38
Alignment explanation
Indices: 148875--148961 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
148865 ATGCTTTGTA
*
148875 ATGTCATTTAAGTTATTTTTCATGACCTAA-ATATTTTT
1 ATGTCATTTAAGTCATTTTTCATGACCTAAGA-ATTTTT
* *
148913 ATGTCATTTAGGTCATTTTTCATGATCTAAGAATTTTT
1 ATGTCATTTAAGTCATTTTTCATGACCTAAGAATTTTT
148951 ATG-CAATTTAA
1 ATGTC-ATTTAA
148962 CATATTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.02
38 41 0.95
39 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (38 bp):
ATGTCATTTAAGTCATTTTTCATGACCTAAGAATTTTT
Done.