Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003689.1 Hibiscus syriacus cultivar Beakdansim tig00007879_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68942
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1062 original size:182 final size:180
Alignment explanation
Indices: 716--1661 Score: 1331
Period size: 182 Copynumber: 5.2 Consensus size: 180
706 CAGGTAAAAT
*
716 ATGATAAAACCGGTAAACCA-CTACCGGATATATTGAAAGTGTCGATAAATTAATATAA--ATCG
1 ATGATAAAACCGGTAAA-AAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCG
*
778 ACACTTTTGTAATTT-AAAGAGAAGAAGTTATAGCG-CTATAAAGTGTCGATACTTTATACAAAT
65 ACACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAAT
* * *
841 GTATCGATCTATAGCAATATAACAGGTAATAATATGACAAAACCGGTGCCATT
130 GTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGT-CCA-A
**
894 ATGATAAAACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
959 CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATG
66 CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATG
* * *
1024 TATCAATCCATAGCAATATAATAGGTAATAATATGACAAAACAGATCTCAAA
131 TATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTC-C-AA
*
1076 ATGATAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
* *
1141 CACTTTTG-ATATTTAAAAGAGAATAAGTTATAACGCCTAAAAAGTGTCGA-ACTTTATACAAAT
66 CACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAAT
* *
1204 GTATCGATACATATCAATATAACA-GTAATAATATGACAAAACAGGTCTCGAA
130 GTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTC-C-AA
*
1256 ATGATAAAACCGGTAAAAA-CTACCGGATATATTGAAAGTGTCGATAAATTAAATATAATTATCG
1 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATT-AATATAAGTATCG
* *
1320 ACACTTTTAT-ATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATATTTTATACAAAT
65 ACACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAAT
* *
1383 GTATCGATCCATAGCAATATAACATGTAATAATATGACAAAACAGGTTTCGAA
130 GTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGG--TCCAA
* * *
1436 ATGATAAAATCGGTAAAAAGCTATCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
* * * *
1501 TACTTTCGTAATTTAAAAGAGAAGAAATTATAGCGTCTAAAAAGTGTCGATACTTTATGA-AAAT
66 CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-ACAAAT
* * * * * * *
1565 ATATCGATCCATAACAATAAAATAGGTAAAAATATGACAAAACCGGTATCGAA
130 GTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGG--TCCAA
* ** * *
1618 ATGACAAAACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
1 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCG
1662 GTACTTTAAT
Statistics
Matches: 696, Mismatches: 54, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
177 1 0.00
178 66 0.09
179 90 0.13
180 144 0.21
181 110 0.16
182 283 0.41
183 2 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (180 bp):
ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATG
TATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCCAA
Found at i:1384 original size:360 final size:362
Alignment explanation
Indices: 716--1661 Score: 1396
Period size: 360 Copynumber: 2.6 Consensus size: 362
706 CAGGTAAAAT
* *
716 ATGATAAAACCGGTAAACCA-CTACCGGATATATTGAAAGTGTCGATAAATTAATATAA--ATCG
1 ATGATAAAACCGGTAAA-AAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCG
*
778 ACACTTTTGTAATTT-AAAGAGAAGAAGTTATAGCGCTATAAAGTGTCGATACTTTATACAAATG
65 ACACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCTAAAAAGTGTCGATACTTTATACAAATG
* *
842 TATCGATCTATAGCAATATAACAGGTAATAATATGACAAAACCGGTGC-C-ATTATGATAAAACC
130 TATCGATC-ATAACAATATAACAGGTAATAATATGACAAAACCGGT-CTCGA-AATGATAAAACC
*
905 GGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAA
192 GGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTATAA
970 TTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCAATCCAT
257 TTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCAATCCAT
*
1035 AGCAATATAATAGGTAATAATATGACAAAACAGATCTCAAA
322 AGCAATATAACAGGTAATAATATGACAAAACAGATCTCAAA
1076 ATGATAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
* *
1141 CACTTTTG-ATATTTAAAAGAGAATAAGTTATAACGCCTAAAAAGTGTCGA-ACTTTATACAAAT
66 CACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAGCG-CTAAAAAGTGTCGATACTTTATACAAAT
* *
1204 GTATCGATACATATCAATATAACA-GTAATAATATGACAAAACAGGTCTCGAAATGATAAAACCG
129 GTATCGAT-CATAACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGATAAAACCG
** *
1268 GTAAA-AACTACCGGATATATTGAAAGTGTCGATAAATTAAATATAATTATCGACACTTTTAT-A
193 GTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATT-AATATAAGTATCGACACTTTTATAA
* *
1331 TTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATATTTTATACAAATGTATCGATCCAT
257 TTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCAATCCAT
* * * *
1395 AGCAATATAACATGTAATAATATGACAAAACAGGTTTCGAA
322 AGCAATATAACAGGTAATAATATGACAAAACAGATCTCAAA
* *
1436 ATGATAAAATCGGTAAAAAGCTATCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
* * *
1501 TACTTTCGTAATTTAAAAGAGAAGAAATTATAGCGTCTAAAAAGTGTCGATACTTTATGA-AAAT
66 CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCG-CTAAAAAGTGTCGATACTTTAT-ACAAAT
* * * * * *
1565 ATATCGATCCATAACAATAAAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAAACCG
129 GTATCGAT-CATAACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGATAAAACCG
* * *
1630 GTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
193 GTAAACCGCTACCGGATATATTGAAAGTGTCG
1662 GTACTTTAAT
Statistics
Matches: 531, Mismatches: 40, Indels: 27
0.89 0.07 0.05
Matches are distributed among these distances:
359 1 0.00
360 230 0.43
361 92 0.17
362 119 0.22
363 75 0.14
364 14 0.03
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (362 bp):
ATGATAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
CACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCTAAAAAGTGTCGATACTTTATACAAATGT
ATCGATCATAACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGATAAAACCGGTA
AACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTATAATTTA
AAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCAATCCATAGCA
ATATAACAGGTAATAATATGACAAAACAGATCTCAAA
Found at i:1612 original size:20 final size:19
Alignment explanation
Indices: 1589--1634 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
1579 CAATAAAATA
1589 GGTAAAAATATGACAAAACC
1 GGTAAAAA-ATGACAAAACC
**
1609 GGTATCGAAATGACAAAACC
1 GGTA-AAAAATGACAAAACC
1629 GGTAAA
1 GGTAAA
1635 GCGCTACCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (19 bp):
GGTAAAAAATGACAAAACC
Found at i:4964 original size:86 final size:88
Alignment explanation
Indices: 4817--4978 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 88
4807 AAATAGGTCA
* *
4817 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGTTAATA-TT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
4881 TCCGGTTAAATACCTATTTTATT
66 TCCGGTTAAATACCTATTTTATT
* * *
4904 ATATAAGTGCTACCTATTACATTATA-AAGCGTTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
4968 TTCGGTTAAAT
66 TCCGGTTAAAT
4979 GATATAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 31 0.46
87 37 0.54
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (88 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
TCCGGTTAAATACCTATTTTATT
Found at i:7810 original size:29 final size:29
Alignment explanation
Indices: 7776--7834 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7766 CCTAAATTAA
7776 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
7805 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
7834 T
1 T
7835 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:12462 original size:28 final size:29
Alignment explanation
Indices: 12430--12493 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
12420 GTTCACACCT
12430 AAATTA-ATTTGATGTCATTGCTTACATC
1 AAATTAGATTTGATGTCATTGCTTACATC
*
12458 AAATTAGTTTTGATGTCATTGCTTACATC
1 AAATTAGATTTGATGTCATTGCTTACATC
*
12487 AATTTAG
1 AAATTAG
12494 TTAGGTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (29 bp):
AAATTAGATTTGATGTCATTGCTTACATC
Found at i:12471 original size:29 final size:29
Alignment explanation
Indices: 12437--12495 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
12427 CCTAAATTAA
12437 TTTGATGTCATTGCTTACATCAAATTAGT
1 TTTGATGTCATTGCTTACATCAAATTAGT
*
12466 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAAATTAGT
12495 T
1 T
12496 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAAATTAGT
Found at i:13685 original size:32 final size:32
Alignment explanation
Indices: 13625--13686 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
13615 ATATCTAAAG
* **
13625 TATTTTTTTGTCAAAATAAGTACCTAAAGTTA
1 TATTGTTTTGTCAAAATAAAAACCTAAAGTTA
* *
13657 TATTGTTTTGTTAAAATAAAAACTTAAAGT
1 TATTGTTTTGTCAAAATAAAAACCTAAAGT
13687 ATTTTTGGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (32 bp):
TATTGTTTTGTCAAAATAAAAACCTAAAGTTA
Found at i:15289 original size:53 final size:55
Alignment explanation
Indices: 15180--15289 Score: 197
Period size: 53 Copynumber: 2.0 Consensus size: 55
15170 TTCCTTTTCC
15180 TTTTTATATTATAATTTAATGATTATATATATAATTTTAAATTAAGTATTTCAAA
1 TTTTTATATTATAATTTAATGATTATATATATAATTTTAAATTAAGTATTTCAAA
*
15235 TTTTTATATTATAATTTAATGA-T-TATATATAATTTTAAATTAAGTATTTTAAA
1 TTTTTATATTATAATTTAATGATTATATATATAATTTTAAATTAAGTATTTCAAA
15288 TT
1 TT
15290 AATTAATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 31 0.57
54 1 0.02
55 22 0.41
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (55 bp):
TTTTTATATTATAATTTAATGATTATATATATAATTTTAAATTAAGTATTTCAAA
Found at i:15301 original size:17 final size:18
Alignment explanation
Indices: 15272--15306 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15262 TATAATTTTA
15272 AATTAAGTATTTTAAATT
1 AATTAAGTATTTTAAATT
*
15290 AATTAA-TATTTTTAATT
1 AATTAAGTATTTTAAATT
15307 TTTGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTAAGTATTTTAAATT
Found at i:16243 original size:79 final size:79
Alignment explanation
Indices: 16093--16250 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
16083 TGTAACATTT
* * *
16093 CCGGTAAAGTGCCCAATAATAACAAAATCGGTAGAAAAATAATGTTTTAGGTAGCGCTTTACCAG
1 CCGGTAAAGCGCCCAATAATAACAAAACCGGTAGAAAAATAATGTTTTAGGTAACGCTTTACCAG
* *
16158 ATATGTTAACAAAA
66 AAATGTTAAAAAAA
* *** * *
16172 CCGGTAAAGCGCCCAATAATAAC-AAACCGGTATAAATAATAATGTTTTAGGTAATTTTTTATCG
1 CCGGTAAAGCGCCCAATAATAACAAAACCGGTAGAAA-AATAATGTTTTAGGTAACGCTTTACCA
16236 GAAATGTTAAAAAAA
65 GAAATGTTAAAAAAA
16251 TAATAACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 11 0.16
79 56 0.84
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (79 bp):
CCGGTAAAGCGCCCAATAATAACAAAACCGGTAGAAAAATAATGTTTTAGGTAACGCTTTACCAG
AAATGTTAAAAAAA
Found at i:21964 original size:18 final size:18
Alignment explanation
Indices: 21941--21980 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
21931 AGGCATTTGA
21941 TCCTCTGGCT-GTGCTTGT
1 TCCTCT-GCTCGTGCTTGT
21959 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCGTGCTTGT
21977 TCCT
1 TCCT
21981 TGTGCTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.33, G:0.23, T:0.45
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:23548 original size:22 final size:23
Alignment explanation
Indices: 23522--23582 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
23512 AAAACCCCAG
23522 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
*
23545 GGGGGAATCAGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
* *
23567 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
23583 TCTGTACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:25506 original size:32 final size:34
Alignment explanation
Indices: 25469--25538 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
25459 ACTTACAAAC
*
25469 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
* *
25501 TCCCTAGCTTTTACATGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
25535 TCCC
1 TCCC
25539 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
Found at i:25912 original size:21 final size:21
Alignment explanation
Indices: 25887--25950 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
25877 CCGTTAGACA
*
25887 GGGGGAATCGGTACCCCATGG
1 GGGGGAATCTGTACCCCATGG
*
25908 GGGGGAATCTGTTCCCCATGG
1 GGGGGAATCTGTACCCCATGG
*
25929 GGGGGAATCTGTACCCCTTGG
1 GGGGGAATCTGTACCCCATGG
25950 G
1 G
25951 CAATCTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.16, C:0.23, G:0.41, T:0.20
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCATGG
Found at i:27386 original size:19 final size:20
Alignment explanation
Indices: 27343--27390 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
27333 TCTAAATCAT
*
27343 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
27363 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
27382 TTTTCAAAA
1 TTTTCAAAA
27391 GAAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:32909 original size:72 final size:72
Alignment explanation
Indices: 32828--32971 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
32818 GTGTCTAAAT
32828 TTCCGTCACTGTTATTAATCTTTTTGAGTAAAAAAAACATAGTCACAAAAATCATAAGTAACTGT
1 TTCCGTCACTGTTATTAATCTTTTTGAGTAAAAAAAACATAGTCACAAAAATCATAAGTAACTGT
32893 GACAAAA
66 GACAAAA
32900 TTCCGTCACTGTTATTAATCTTTTTGAGTAAAAAAAACATAGTCACAAAAATCATAAGTAACTGT
1 TTCCGTCACTGTTATTAATCTTTTTGAGTAAAAAAAACATAGTCACAAAAATCATAAGTAACTGT
32965 GACAAAA
66 GACAAAA
32972 CTCATTAAGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (72 bp):
TTCCGTCACTGTTATTAATCTTTTTGAGTAAAAAAAACATAGTCACAAAAATCATAAGTAACTGT
GACAAAA
Found at i:33417 original size:41 final size:42
Alignment explanation
Indices: 33339--33419 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 42
33329 CACAAAATGA
* * * *
33339 TACTTTAGCGGCGTTTCTTAAACAAACTCTGCGATAGAGTAG
1 TACTTTAGCGGCATTTCTTAAACAAACGCCGCAATAGAGTAG
* *
33381 TACTTTAGCGGCATTT-TTATACAAACGCCGTAATAGAGT
1 TACTTTAGCGGCATTTCTTAAACAAACGCCGCAATAGAGT
33420 TAGTTTATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 18 0.55
42 15 0.45
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
TACTTTAGCGGCATTTCTTAAACAAACGCCGCAATAGAGTAG
Found at i:33582 original size:84 final size:83
Alignment explanation
Indices: 33376--33607 Score: 227
Period size: 83 Copynumber: 2.8 Consensus size: 83
33366 TCTGCGATAG
* * * * * *
33376 AGTAGTACTTTAGCGGCATTTTTATACAAACGCCGTAATAGAGTTAGTTTATAGTGGTATTTTTT
1 AGTAGTACTTTAGCGGCGTTTTTATATAAAAGCCGTAATAGGGTTAGTTTATAGTGGCATTTTTC
* * *
33441 CAACAAAAGCCACGATAT
66 CAAAAAAAGCCACAATAA
* * * * *
33459 AGTAGTATTTTAGTGGCGTTTTTATATAAATA-TCGTAATAGGGTTTGTTTATAGTGGCGTTTTT
1 AGTAGTACTTTAGCGGCGTTTTTATATAAA-AGCCGTAATAGGGTTAGTTTATAGTGGCATTTTT
*
33523 CCAAAAAAAATGCCGCAATAA
65 CC-AAAAAAA-GCCACAATAA
* * * * *
33544 AG-AGTACTTTAGCGGTGTTTTAATATAAAAGCCTTAATAGGGTTCA-TCTATAGTGACATTTTT
1 AGTAGTACTTTAGCGGCGTTTTTATATAAAAGCCGTAATAGGGTT-AGTTTATAGTGGCATTTTT
33607 C
65 C
33608 AAGCAAACGC
Statistics
Matches: 119, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
83 55 0.46
84 55 0.46
85 9 0.08
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (83 bp):
AGTAGTACTTTAGCGGCGTTTTTATATAAAAGCCGTAATAGGGTTAGTTTATAGTGGCATTTTTC
CAAAAAAAGCCACAATAA
Found at i:37373 original size:43 final size:43
Alignment explanation
Indices: 37290--37376 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
37280 ATTAATCTTA
* ** *
37290 GCGGCGTTTGTATCCAAAAACGCCACTATAAATTTAACCTTTT
1 GCGGCATTTGTATAAAAAAACGCCACTATAAATTCAACCTTTT
* *
37333 GCGGCATTTGTATAAAAAAACGCCGCTATAGA-TCAGACCTTTT
1 GCGGCATTTGTATAAAAAAACGCCACTATAAATTCA-ACCTTTT
37376 G
1 G
37377 TGGTGTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
GCGGCATTTGTATAAAAAAACGCCACTATAAATTCAACCTTTT
Found at i:38437 original size:27 final size:28
Alignment explanation
Indices: 38399--38462 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
38389 ACCAAAGAAC
*
38399 TATATGTGTTATTTATCCT-AAAAAAAT
1 TATATGGGTTATTTATCCTAAAAAAAAT
38426 TATATGGGTTATTTATCCTAAAAAAAAT
1 TATATGGGTTATTTATCCTAAAAAAAAT
38454 TATATGGGT
1 TATATGGGT
38463 CAATATCCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (28 bp):
TATATGGGTTATTTATCCTAAAAAAAAT
Found at i:38469 original size:27 final size:27
Alignment explanation
Indices: 38412--38470 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
38402 ATGTGTTATT
* *
38412 TATCCTAAAAAAATTATATGGGTTATT
1 TATCCTAAAAAAATTATATGGGTCATA
38439 TATCCTAAAAAAAATTATATGGGTCA-A
1 TATCCT-AAAAAAATTATATGGGTCATA
38466 TATCC
1 TATCC
38471 AGTTACACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (27 bp):
TATCCTAAAAAAATTATATGGGTCATA
Found at i:38948 original size:20 final size:19
Alignment explanation
Indices: 38923--38968 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38913 TCTCCCAGGC
*
38923 GATTTTTCCGAAAAATGATT
1 GATTTTTCCG-AAAATCATT
**
38943 GATTTTTTTGAAAATCATT
1 GATTTTTCCGAAAATCATT
38962 GATTTTT
1 GATTTTT
38969 TTATAACGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (19 bp):
GATTTTTCCGAAAATCATT
Found at i:38969 original size:20 final size:19
Alignment explanation
Indices: 38934--38970 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38924 ATTTTTCCGA
*
38934 AAAATGATTGATTTTTTTG
1 AAAATCATTGATTTTTTTG
38953 AAAATCATTGATTTTTTT
1 AAAATCATTGATTTTTTT
38971 ATAACGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (19 bp):
AAAATCATTGATTTTTTTG
Found at i:39821 original size:33 final size:34
Alignment explanation
Indices: 39775--39841 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
39765 ACTTATATAT
*
39775 TTAAAATTCAATAAAAATACAA-TAAAAAAAGAA
1 TTAAAAGTCAATAAAAATACAATTAAAAAAAGAA
* * *
39808 TTAAAAGTGAATAAAATTATAATTAAAAAAAGAA
1 TTAAAAGTCAATAAAAATACAATTAAAAAAAGAA
39842 GGTAAAGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (34 bp):
TTAAAAGTCAATAAAAATACAATTAAAAAAAGAA
Found at i:40081 original size:20 final size:19
Alignment explanation
Indices: 40054--40098 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
40044 AAACAATTAA
*
40054 TTTTAAAAGTAAATAAAAT
1 TTTTAAAAATAAATAAAAT
* *
40073 TTTTCAAAAATATATGAAAT
1 TTTT-AAAAATAAATAAAAT
40093 TTTTAA
1 TTTTAA
40099 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
TTTTAAAAATAAATAAAAT
Found at i:41233 original size:182 final size:181
Alignment explanation
Indices: 40923--41946 Score: 1360
Period size: 182 Copynumber: 5.6 Consensus size: 181
40913 GATACAAATG
* * * * * *
40923 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
*
40988 AAACCGGTAAAATGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAA-ACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
41053 CT-GAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTAT
130 -TGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGATACTTTAT
* ** *
41105 GAAAATGTATAAATCCATAACAATATAACAGCTAAAAATATGACAAAACCAGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
* * * *
41170 AAACAGGTAAATAACTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATTGACACTTT
66 AAACCGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * *
41235 TGAAATTTAAAAGAGAAGAAGTTATAGTGCCTATAAAGTGTCGATACTTTAA
130 TGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGATACTTTAT
* *
41287 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CATGTCTAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCA-GTCTCAAAATGAC
* * * * * * *
41351 AAAACCTGTAAAAAGATATCGGATATGTTGAAAATGACGATAATTTAATATAAGTATTGACACTT
65 AAAACCGGTAAAAA-CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* *
41416 TTGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGCCGACACTTTAT
129 TTGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGATACTTTAT
* ** *
41469 GAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
** * *
41534 AAACCGGTAAAGCGCTACC-GAATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGACACTT
66 AAACCGGTAAA-AACTACCAG-ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* ** *
41598 TTGGAATTTAAAAGAGAATAAGTTATAACGCCTATAAAA-TGTTGATACTTT-T
129 TTGGAATTTAAAAGAGAAGAAGTTATAGTGCCTA-AAAAGTGTCGATACTTTAT
* * *
41650 AAAAAATATATCGATCCATAATAATATAA-AGGTAAAAATATGACAAAA-CAGATCTAAAAAATG
1 -AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAG-TCT-CAAAATG
*
41713 ACAAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
63 ACAAAACCGGTAAAAA-CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
* * * *
41778 TTTTGGAATTTAATAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
127 TTTTGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGATACTTTAT
* * *
41833 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
* ** * *
41898 AAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATA
41947 AGTACGCGTA
Statistics
Matches: 735, Mismatches: 89, Indels: 36
0.85 0.10 0.04
Matches are distributed among these distances:
180 2 0.00
181 30 0.04
182 674 0.92
183 27 0.04
184 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
AAACCGGTAAAAACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTT
GGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGATACTTTAT
Found at i:41580 original size:364 final size:363
Alignment explanation
Indices: 40923--41946 Score: 1550
Period size: 364 Copynumber: 2.8 Consensus size: 363
40913 GATACAAATG
* * * * * **
40923 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CAGTCTAAAAATGACA
* *
40988 AAACCGGTAAAATGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
65 AAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
**
41053 CT-GAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTATGAAAATGTATAA
130 -TGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
* * * *
41117 ATCCATAACAATATAACAGCTAAAAATATGACAAAACCAGTCTCAAAATGACAAAACAGGTAAAT
194 ATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGGTAAAG
** * *
41182 AACTACC-AGATATATTGAAAGTGTCGATACTTTAATATAAGTATTGACACTTTTGAAATTTAAA
259 CGCTACCGA-ATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGACACTTTTGAAATTTAAA
** *
41246 AGAGAAGAAGTTATAGTGCCTATAAAGTGTCGATACTTTAA
323 AGAGAAGAAGTTATAACGCCTATAAAATGTCGATACTTTAA
*
41287 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTAAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACA-GTCTAAAAATGACA
* * * * * *
41352 AAACCTGTAAAAAGATATCGGATATGTTGAAAATGACGATAATTTAATATAAGTATTGACACTTT
65 AAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
41417 TGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGCCGACACTTTATGAAAATGTATCGA
130 TGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
41482 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGGTAAAGC
195 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGGTAAAGC
*
41547 GCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGACACTTTTGGAATTTAAAAG
260 GCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGACACTTTTGAAATTTAAAAG
* * *
41612 AGAATAAGTTATAACGCCTATAAAATGTTGATACTTTTA
325 AGAAGAAGTTATAACGCCTATAAAATGTCGATACTTTAA
* *
41651 AAAAATATATCGATCCATAATAATATAA-AGGTAAAAATATGACAAAACAGATCTAAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAG-TCT-AAAAATGAC
41715 AAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
64 AAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * * **
41780 TTGGAATTTAATAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCG
129 TTGGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
** * *
41845 ATCCATAACAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAATCGGTAAAG
194 ATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGGTAAAG
*
41910 CGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
259 CGCTACCGAATATGTTGAAAGTGTCGATACTTTAATA
41947 AGTACGCGTA
Statistics
Matches: 600, Mismatches: 55, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
362 1 0.00
363 25 0.04
364 573 0.95
365 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (363 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGTCTAAAAATGACAA
AACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTT
GGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGAT
CCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGGTAAAGCG
CTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGACACTTTTGAAATTTAAAAGA
GAAGAAGTTATAACGCCTATAAAATGTCGATACTTTAA
Found at i:42445 original size:19 final size:19
Alignment explanation
Indices: 42378--42439 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
42368 CTTTTATTTA
42378 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
42397 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
*
42416 ATATTATAGGTACAAAATG
1 ATATTATAGGTAAAAAATG
42435 ATATT
1 ATATT
42440 TGAGGTTGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.34
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:43753 original size:22 final size:22
Alignment explanation
Indices: 43702--43757 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
43692 AATATTTATG
*
43702 TTTTTTTATATAAAATGATATTA
1 TTTTATTATATAAAATGATA-TA
*
43725 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATATA
43747 CTTTTATTATA
1 -TTTTATTATA
43758 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATATA
Found at i:45951 original size:19 final size:19
Alignment explanation
Indices: 45927--45977 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
45917 AAATGTAGGG
45927 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
45946 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
* *
45965 ATAATTTTATATA
1 TTAATTTTGTATA
45978 TGAATGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:47062 original size:177 final size:177
Alignment explanation
Indices: 46766--47129 Score: 640
Period size: 177 Copynumber: 2.1 Consensus size: 177
46756 CATTTATAAC
*
46766 AAGTGTCGATCCCAAAAACATTGAAACCCATAATTATAATGTAATATGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATATGTAAATTAACAATGTAAC
* *
46831 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATTGACACAAATAAAACAAG
66 CGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAG
*
46896 TGTTGATACTTTTGGTCCAGAAT-TATTTCAAAACCAAGTGCACTAAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC-AAA
* *
46943 AAGTGTCGATCCCAAAAATATCGAAACCCATACTTATAATGTAATATGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATATGTAAATTAACAATGTAAC
*
47008 CGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAACAAG
66 CGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAG
*
47073 TGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACAAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAAA
47120 AAGTGTCGAT
1 AAGTGTCGAT
47130 ACATTTGTCG
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
177 159 0.89
178 19 0.11
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (177 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATATGTAAATTAACAATGTAAC
CGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAG
TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAAA
Found at i:47140 original size:12 final size:12
Alignment explanation
Indices: 47123--47147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47113 GCACAAAAAG
47123 TGTCGATACATT
1 TGTCGATACATT
47135 TGTCGATACATT
1 TGTCGATACATT
47147 T
1 T
47148 ATAATAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGTCGATACATT
Found at i:47474 original size:586 final size:596
Alignment explanation
Indices: 46360--47745 Score: 2073
Period size: 586 Copynumber: 2.3 Consensus size: 596
46350 GTCGATACAT
*
46360 TTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACA
1 TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACA
* *
46425 ATGTAACCGGTCTAATTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATA
66 ATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATA
*
46490 AAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACTAAAAA-----G-
131 AAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCAC-AAAAAGTGTCGA
*
46549 ------TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
194 TACATTTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATG
* *
46608 TAATAGGTAAATTAACAATGTAACCGGACTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA
259 TAATAGGTAAATTAACAATGTAACCGGACTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAA
46673 AATTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTG
324 AATTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTG
* * **
46738 CACTAAAAAGTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAACCCATAATTAT
389 CACGAAAAAGTGTCAATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTAT
*
46803 AATGTAATATGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTA
454 AATGTAATATGTAAATTAACAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTA
* *
46868 CAAAAAGTATTGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAAT-TATTTC-AA-AA-
519 CAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAACAAG
*
46929 C-CAAGTG-C-AC
584 CAAAAGTGTCAAC
* * *
46939 -TA-AA-AAGTGTCGATCCCAAAAATATCGAAACCCATACTTATAATGTAATATGTAAATTAACA
1 TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACA
* *
47001 ATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATA
66 ATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATA
47066 AAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACAAAAAGTGTCGATA
131 AAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACAAAAAGTGTCGATA
*
47131 CATTTGTCGATACATTTATAATAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
196 CATTTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* * *
47196 ATAGGTAAATTAGCAATGTAACTGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAA
261 ATAGGTAAATTAACAATGTAACCGGACTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAA
* * * *
47261 TTATCGAGACAAATATAACAAGTGTCGATACTTTTGGTCTAGAATATATTTCTAAACCAAGTGCA
326 TTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGCA
* *
47326 CGGAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAA
391 CGAAAAAGTGTCAATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAA
*
47391 TGTAATA-GATAAATTAACAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAC
456 TGTAATATG-TAAATTAACAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
47455 AAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAAGCAA
520 AAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTC-AAA-CAA
47520 GTGCATTGAAAAGTGTCAATAC
583 --GC----AAAAGTGTC-A-AC
47542 ATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAA
1 --TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAA
* * * * *
47607 CAATTTAACCGGTCTAAATATAACGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAA
64 CAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAA
** * * *
47672 TCTAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTT-TAAAAACCAAGTGCAGGAAAAAGTGT
129 TAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCT--AAACCAAGTGCA-CAAAAAGTGT
47736 CGATACATTT
191 CGATACATTT
47746 ATAACAAGTA
Statistics
Matches: 723, Mismatches: 46, Indels: 45
0.89 0.06 0.06
Matches are distributed among these distances:
574 5 0.01
575 17 0.02
576 148 0.20
577 2 0.00
578 2 0.00
579 1 0.00
585 1 0.00
586 347 0.48
587 6 0.01
589 2 0.00
591 2 0.00
594 1 0.00
599 5 0.01
600 1 0.00
603 2 0.00
606 2 0.00
607 3 0.00
608 145 0.20
609 12 0.02
610 19 0.03
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (596 bp):
TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACA
ATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATA
AAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACAAAAAGTGTCGATA
CATTTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
ATAGGTAAATTAACAATGTAACCGGACTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAA
TTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGCA
CGAAAAAGTGTCAATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAA
TGTAATATGTAAATTAACAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
AAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAACAAGCA
AAAGTGTCAAC
Found at i:47482 original size:199 final size:198
Alignment explanation
Indices: 46348--47835 Score: 1942
Period size: 199 Copynumber: 7.5 Consensus size: 198
46338 GTAAACTTAT
46348 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
46413 GGTAAATTAACAATGTAACCGGTCTAATTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * *
46478 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCA-G
*
46543 AAAAA
194 GAAAA
*
46548 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
46613 GGTAAATTAACAATGTAACCGGACTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAATTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * * **
46678 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGCACTA
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA-GG
46743 AAAA
195 AAAA
* * *
46747 GTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
46812 TGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * * * **
46877 TTGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAAT-TATTTCAAAACCAAGTGCACTA
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA-GG
46941 AAAA
195 AAAA
** * *
46945 GTGTCGAT-C--CCA-AA-AA-TATCG-------AAAC--CCATA--C----TTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
46989 TGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
*
47054 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACAA
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTG--C--
*
47119 AAAGTGTCGATACAT
192 --A--G--GA-A-AA
* *
47134 TTGTCGATACATTTATAATAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
47199 GGTAAATTAGCAATGTAACTGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAATTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * *
47264 TCGAGACAAATATAACAAGTGTCGATACTTTTGGTCTAGAATATATTTCTAAACCAAGTGCACGG
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA-GG
47329 AAAA
195 AAAA
*
47333 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
47398 GATAAATTAACAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * *
47463 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAAGCAAGTGCATTG
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA-GG
47528 AAAA
195 AAAA
* *
47532 GTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
47597 GGTAAATTAACAATTTAACCGGTCTAAATATAACGGTTTATGAGAAAACAGGTATACATAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * *
47662 TCGACACAAATCTAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTT-TAAAAACCAAGTGCAG
131 TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCT--AAACCAAGTGCAG
47726 GAAAAA
194 G-AAAA
* * * * *
47732 GTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGAAACCCAAAATTTTAGTGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *** * *
47797 TGTTATTTTGTAATGTAACCGGTATAAATATACTGGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
47836 AATTTGAAAA
Statistics
Matches: 1153, Mismatches: 99, Indels: 72
0.87 0.07 0.05
Matches are distributed among these distances:
177 116 0.10
178 16 0.01
180 1 0.00
181 1 0.00
183 2 0.00
184 1 0.00
185 4 0.00
187 1 0.00
188 1 0.00
189 8 0.01
190 1 0.00
192 5 0.00
193 4 0.00
194 4 0.00
195 6 0.01
197 1 0.00
198 34 0.03
199 535 0.46
200 272 0.24
201 2 0.00
202 4 0.00
203 1 0.00
204 4 0.00
206 1 0.00
208 1 0.00
210 127 0.11
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (198 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
TCGACACAAATATAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAGGA
AAA
Found at i:48203 original size:15 final size:15
Alignment explanation
Indices: 48183--48240 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
48173 TTTCTCAAAG
48183 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
48198 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
48213 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
48230 CTCCTTCTCAA
1 CT-CTTCTCAA
48241 ACAATCGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:49414 original size:12 final size:12
Alignment explanation
Indices: 49388--49425 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
49378 CAAGATGTCA
*
49388 ATGAAGATGACG
1 ATGAAGATGATG
49400 ATGAAGATGATG
1 ATGAAGATGATG
*
49412 ATGATGATGATG
1 ATGAAGATGATG
49424 AT
1 AT
49426 CCAAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:50826 original size:24 final size:24
Alignment explanation
Indices: 50775--50827 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
50765 TTTCATTTAT
* * *
50775 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATGTA
50799 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGTTTGAATTTAAATGTA
50823 AATTT
1 AATTT
50828 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATGTA
Found at i:51343 original size:200 final size:200
Alignment explanation
Indices: 51000--52586 Score: 2060
Period size: 200 Copynumber: 7.9 Consensus size: 200
50990 TTATTCATTC
* * * * **
51000 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGCACGAA-AAAGGTGTCGATACA
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAC-AACAAA-GTGTCGATACA
* * * *
51063 TTTATAATAAGTGTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAA
64 TTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAAATAA
* * * *
51127 CAATGTAACCGGCCTAAATATACCGGTTTTTGAGAAAACAGGTATACATAAAGTATTGACACAAA
128 CAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAA
51192 TCCAACAA
193 TCCAACAA
* * * ** *
51200 GTGTCGATAGTTTTTGTCCAAAATGTATTTTCTAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * * *
51265 TATAACAAGTTTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAAATAACA
* * *
51329 ATGTAACCGGCCTAAATATACCAGTTTTTGAGAAAACA-GATATACATAAAGTATCGACACAAAT
130 ATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATG-TATACATAAAGTATCGACACAAAT
51393 CCAACAA
194 CCAACAA
*
51400 GTGTCGATACTTTTTGTCCAGAGTGTA-TTTAAAAACCAAGCGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* *
51464 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATACGTAAAATAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
* ** * *
51529 TGTAACTGGTCTAAATATACCAATTTATGAGAAAACATGTATACATAAATTATTGACACAAATCC
131 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
51594 AACAA
196 AACAA
51599 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
*
51664 TATAACAATTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
* * *
51729 TGTAAGCGGTCTAAATATACTGGTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATCC
131 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
51794 AACAA
196 AACAA
*
51799 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGCGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* *
51864 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATACGTAAAATAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
* * * * *
51929 TATAACTGGTCTAAATATACCGATTTATGAGAAAACATGAATACATAAATTATCGACACAAATCC
131 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
51994 AACAA
196 AACAA
* *
51999 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCATAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
52064 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
* * *
52129 TGTAAGCGGTCTAAATATACTGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATAC
131 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
*
52194 AATAA
196 AACAA
* ** *
52199 GTGTCGATACTTTTTGTCCAGAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * * * ** *
52264 TATAACATGTGTCGATCCCAAATACATCGAAACCTATAATTATAATGTAATAGGTCACTTTACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
* * * * * * * **
52329 TGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAAGTCTAAATAATGTATCGACACTTTAT
131 TGTAACCGGTCTAAATATACCGG-TTTATGAGAAAACATGTATACATAAAGTATCGACAC-AAAT
** ***
52394 -TTATTT
194 CCAACAA
* * * * * * * * * *
52400 GTGTCGATACTTTTTATCTATAATG-AATTCACAAACTATGTGCAC-GCTTAAAGTGTCGATACA
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAAC--AAAGTGTCGATACA
* * * * * * * ** *
52463 TTTACTAA-AAGTATCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGTCACTTTA
64 TTTA-TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAA
* * * * * * *
52527 CAATGTAACCGGTTTAAATTTACCGGTTTTATGAGCAAATAGGTCTACATAATGTATCGA
128 CAATGTAACCGGTCTAAATATACCGG-TTTATGAGAAAACATGTATACATAAAGTATCGA
52587 TATTTTGTAC
Statistics
Matches: 1264, Mismatches: 112, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
198 1 0.00
199 180 0.14
200 878 0.69
201 200 0.16
202 5 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
AACAA
Found at i:52487 original size:201 final size:200
Alignment explanation
Indices: 51000--52797 Score: 1075
Period size: 200 Copynumber: 9.0 Consensus size: 200
50990 TTATTCATTC
* * * * *
51000 GTGTCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGCACG-AAAAAGGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-AATTCCAAACCATGTGCACGCATAAA-GTGTCGATACAT
* * ** * * * * *
51064 TTATAATAAGTGTCGATACTAAAAACATCGAAACAC-ATAGA-TATAATGTAATAGGTAAAATAA
64 TTATAACAAGTATCGACCCCAAATACATCGAAAC-CGATA-ATTATAATGTAATAGGTCAATTTA
** * * * * * * *
51127 CAATGTAACCGGCCTAAATATACCGGTTTT-TGAGAAAACAGGTATACATAAAGTATTGACAC-A
127 CAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTT
* * ***
51190 AATCCAACAA
192 TAT-AAATTT
* * * * * *
51200 GTGTCGATAGTTTTTGTCCAAAATGTATTTTCTAAACCAAGTGCACG-ACAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-A-ATTCCAAACCATGTGCACGCATAAAGTGTCGATACAT
* ** * * * * *
51264 TTATAACAAGTTTCGATACTAAAAACATCGAAACAC-ATAGA-TATAATGTAATAGGTAAAATAA
64 TTATAACAAGTATCGACCCCAAATACATCGAAAC-CGATA-ATTATAATGTAATAGGTCAATTTA
** * * * * * * * *
51327 CAATGTAACCGGCCTAAATATACCAGTTTT-TGAGAAAACAGATATACATAAAGTATCGACAC-A
127 CAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTT
* * ***
51390 AATCCAACAA
192 TAT-AAATTT
* * * ** * * * *
51400 GTGTCGATACTTTTTGTCCAGAGTGTATTTAAAAACCAAGCGCAC-AACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATG-AATTCCAAACCATGTGCACGCATAAAGTGTCGATACATT
* * * * * * * * *
51464 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATACGTAAAATAACAA
65 TATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAA
* * * ** * * * * * **
51529 TGTAACTGGTCTAAATATACC-AATTTATGAGAAAACATGTATACATAAAT-TATTGACAC-AAA
130 TGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAAT-AATGTATCGACACTTTA
* ***
51591 TCCAACAA
194 T-AAATTT
* * * ** * * *
51599 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAC-AACAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-A-ATTCCAAACCATGTGCACGCATAAAGTGTCGATACAT
* * * * * * * *
51663 TTATAACAATTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACA
64 TTATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACA
* * * * * * * * * **
51728 ATGTAAGCGGTCTAAATATACTGG-TTTATGAGAAAACAAGTATACATAAAGTATCGACAC-AAA
129 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTA
* ***
51791 TCCAACAA
194 T-AAATTT
* * * ** * * * *
51799 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGCGCAC-AACAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-A-ATTCCAAACCATGTGCACGCATAAAGTGTCGATACAT
* * * * * * * * *
51863 TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATACGTAAAATAACA
64 TTATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACA
* * * * * * * ** * **
51928 ATATAACTGGTCTAAATATACC-GATTTATGAGAAAACATGAATACATAAAT-TATCGACAC-AA
129 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAAT-AATGTATCGACACTTT
* ***
51990 ATCCAACAA
193 AT-AAATTT
* * * ** * ** *
51999 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCA-TAAAAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-A-ATTCCAAACCATGTGCACGCATAAAGTGTCGATACAT
* * * * * * *
52063 TTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACA
64 TTATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACA
* * * * * * * * * **
52128 ATGTAAGCGGTCTAAATATACTGG-TTTATGAGAAAACATGTATACATAAAGTATCGACAC-AAA
129 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTA
**
52191 TACAATAA
194 TA-AATTT
* * * * *
52199 GTGTCGATACTTTTTGTCCAGAATGTATTTTCCAAACCAAGTGCAC-AAAAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATG-A-ATTCCAAACCATGTGCACGCATAAAGTGTCGATACAT
* * * * *
52263 TTATAACATGTGTCGATCCCAAATACATCGAAACCTATAATTATAATGTAATAGGTCACTTTACA
64 TTATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACA
*
52328 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAAGTCTAAATAATGTATCGACACTTTA
129 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTA
**
52393 TTTATTT
194 TAAATTT
* * * *
52400 GTGTCGATACTTTTTATCTATAATGAATTCACAAACTATGTGCACGCTTAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGAATTC-CAAACCATGTGCACGCATAAAGTGTCGATACATT
* * *
52465 TACTAA-AAGTATCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGTCACTTTACA
65 TA-TAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACA
* * * * *
52529 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGCAAATAGGTCTACATAATGTATCGATATTTTG
129 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTA
*
52594 TACATTT
194 TAAATTT
* * * * * *
52601 GTGTAGATACTTTATGTCCATAATGAATGCC-AACCGATGTCCACGCATAAAGTTTCAATACATT
1 GTGTCGATACTTTTTGTCCATAATGAATTCCAAACC-ATGTGCACGCATAAAGTGTCGATACATT
*
52665 TATAAAAAGTATCGACCCCAAATACATC-AAGACCGGA-AATTATAATGTAATAGGTCAATTTAC
65 TATAACAAGTATCGACCCCAAATACATCGAA-ACC-GATAATTATAATGTAATAGGTCAATTTAC
* * ** *
52728 AATATAACCGGTTGAAATTTACCGGTGTAAAT-AGAAAATAGGTC-AACATAATGTGTCGACACT
128 AATGTAACCGGTTTAAATTTACCGGT-TTTATGAGAAAATAGGTCTAA-ATAATGTATCGACACT
*
52791 TTTTAAA
191 TTATAAA
52798 ATTACGCGTG
Statistics
Matches: 1436, Mismatches: 135, Indels: 54
0.88 0.08 0.03
Matches are distributed among these distances:
198 5 0.00
199 187 0.13
200 995 0.69
201 244 0.17
202 5 0.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCATAATGAATTCCAAACCATGTGCACGCATAAAGTGTCGATACATTT
ATAACAAGTATCGACCCCAAATACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAAT
GTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTATA
AATTT
Found at i:58632 original size:20 final size:20
Alignment explanation
Indices: 58609--58671 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
58599 ATCTAAATTC
58609 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
* **
58629 TAAACATATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
58652 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
58672 AATAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 5 0.15
23 13 0.39
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:58827 original size:24 final size:27
Alignment explanation
Indices: 58766--58819 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
58756 CCAATATATA
*
58766 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
58793 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
58820 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:59201 original size:24 final size:24
Alignment explanation
Indices: 59172--59219 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
59162 TAATTGGAAT
*
59172 TTAAAAGGTCTGATTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
*
59196 TTAAAATGTCTGACTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
59220 AAATCGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (24 bp):
TTAAAAGGTCTGACTGTTGGAAGA
Done.