Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_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: 2156694
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 11 of 11
Found at i:1939990 original size:16 final size:16
Alignment explanation
Indices: 1939969--1939999 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1939959 GTGTGTTTTT
1939969 GGTGGAAGAGACAAGC
1 GGTGGAAGAGACAAGC
*
1939985 GGTGGAAGAGGCAAG
1 GGTGGAAGAGACAAG
1940000 AGAGCAGCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.48, T:0.06
Consensus pattern (16 bp):
GGTGGAAGAGACAAGC
Found at i:1941250 original size:15 final size:15
Alignment explanation
Indices: 1941232--1941307 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
1941222 ATGAAATTCT
1941232 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
1941247 AATTATTTATATAAA
1 AATTATTTAAATAAA
**
1941262 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
1941275 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
1941289 AATTATTTATATAAA
1 AATTATTTAAATAAA
1941304 AATT
1 AATT
1941308 CATCGATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.12
14 6 0.12
15 33 0.69
16 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:1941282 original size:42 final size:42
Alignment explanation
Indices: 1941231--1941322 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
1941221 AATGAAATTC
1941231 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1941272 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1941314 TAATATATT
1 TAATATATT
1941323 ATTTTATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
Found at i:1941357 original size:21 final size:21
Alignment explanation
Indices: 1941315--1941354 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1941305 ATTCATCGAT
*
1941315 AATATATTATTTTATTATTTA
1 AATATATTATTGTATTATTTA
1941336 AATATATTA-TGTATTATTT
1 AATATATTATTGTATTATTT
1941355 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
AATATATTATTGTATTATTTA
Found at i:1941370 original size:28 final size:28
Alignment explanation
Indices: 1941319--1941372 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1941309 ATCGATAATA
*
1941319 TATTATTTTATTATTTAAATATATTATG
1 TATTATTTTAATATTTAAATATATTATG
*
1941347 TATTATTTTAAT-TTTAATTAATATTA
1 TATTATTTTAATATTTAAAT-ATATTA
1941373 AATTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTATTTTAATATTTAAATATATTATG
Found at i:1943893 original size:245 final size:244
Alignment explanation
Indices: 1943465--1943954 Score: 946
Period size: 245 Copynumber: 2.0 Consensus size: 244
1943455 TAACACCAAA
1943465 ATACTACCGATCAAAGCAGGGGGAGCGGCGACGGAAGGAGGACGAAATCACGCACGACGAATTTT
1 ATACTACCGATCAAAGCAGGGGGAGCGGCGACGGAAGGAGGACGAAATCACGCACGACGAATTTT
1943530 AGAGAATCCCGATAGCCAGAACGAGTGGGTGAAAAGGCTATTTTAGACAACGGGGACGAGAAATA
66 AGAGAATCCCGATAGCCAGAACGAGTGGGTGAAAAGGCTATTTTAGACAACGGGGACGAGAAATA
1943595 TGAAATACCTAAGGGAGATGGGGGATAGATATTACCGGGAAAGCAGTAAAACAAAACACTGTTGG
131 TGAAATACCTAAGGGAGATGGGGGATAGATATTACCGGGAAAGCAGTAAAACAAAACACTGTTGG
1943660 TATGAATTCATTCCTGACACTTGGTAATATG-CCCCATCCAAACGTGGG
196 TATGAATTCATTCCTGACACTTGGTAATATGCCCCCATCCAAACGTGGG
1943708 ATACTACCGATCAAAGCAGGGGGAGCGGCGACGGAAGGAGGACGGAAATCACGCACGACGAATTT
1 ATACTACCGATCAAAGCAGGGGGAGCGGCGACGGAAGGAGGAC-GAAATCACGCACGACGAATTT
1943773 TAGAGAATCCCGATAGCCAGAACGAAGTGGGTGAAAAGGCTATTTTAGACAACGGGGACGAGAAA
65 TAGAGAATCCCGATAGCCAGAACG-AGTGGGTGAAAAGGCTATTTTAGACAACGGGGACGAGAAA
1943838 TATGAAATACCTAAGGGAGATGGGGGATAGATATTACCGGGAAAGCAGTAAAACAAAACACTGTT
129 TATGAAATACCTAAGGGAGATGGGGGATAGATATTACCGGGAAAGCAGTAAAACAAAACACTGTT
1943903 GGTATGAATTCATTCCTGACACTTGGTAATATGCCCCCCATCCAAACGTGGG
194 GGTATGAATTCATTCCTGACACTTGGTAATATG-CCCCCATCCAAACGTGGG
1943955 TATATTCATT
Statistics
Matches: 243, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
243 43 0.18
244 45 0.19
245 138 0.57
247 17 0.07
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (244 bp):
ATACTACCGATCAAAGCAGGGGGAGCGGCGACGGAAGGAGGACGAAATCACGCACGACGAATTTT
AGAGAATCCCGATAGCCAGAACGAGTGGGTGAAAAGGCTATTTTAGACAACGGGGACGAGAAATA
TGAAATACCTAAGGGAGATGGGGGATAGATATTACCGGGAAAGCAGTAAAACAAAACACTGTTGG
TATGAATTCATTCCTGACACTTGGTAATATGCCCCCATCCAAACGTGGG
Found at i:1964089 original size:22 final size:22
Alignment explanation
Indices: 1964061--1964104 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1964051 TACCATAGCA
**
1964061 TAGTATCGGTACCATAGTATGG
1 TAGTATCAATACCATAGTATGG
*
1964083 TAGTATCAATACCATGGTATGG
1 TAGTATCAATACCATAGTATGG
1964105 GTATCGATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATGG
Found at i:1964522 original size:55 final size:55
Alignment explanation
Indices: 1964433--1964761 Score: 432
Period size: 55 Copynumber: 6.0 Consensus size: 55
1964423 ATATCAGTAC
* * * *
1964433 TACATGCACTATGTGTTCAAACCTACGAGATTCATCATGAGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
* * *
1964488 TACAAGCACTTTGTGTGCAAACCCATGGGATTCATCATGAGTTGATGAATAACCA
1 TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
* * *
1964543 TACAAGCACTATGTGTACAAACCCACAGGATTCATCATGAGTTGATGAATAACTG
1 TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
* * * *
1964598 TA-TAGACACTATATGTGCAAACCCACAGGATTCATCATGAGTTGATAAATAACCG
1 TACAAG-CACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
* ** *
1964653 TACAGGCGTTATGTGTGC-AACCCACGGGATTCATCATGAGTTAATGAATAACC-
1 TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
* * *
1964706 TACAAGCACTATGCGTGC-AACCCACGGAATTCATCATGAGTTGATGAATTACCG
1 TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
1964760 TA
1 TA
1964762 TAGGCATTAC
Statistics
Matches: 238, Mismatches: 33, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
53 46 0.19
54 36 0.15
55 155 0.65
56 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (55 bp):
TACAAGCACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCG
Found at i:1971433 original size:53 final size:53
Alignment explanation
Indices: 1971373--1971678 Score: 349
Period size: 53 Copynumber: 5.9 Consensus size: 53
1971363 TTCGATCAGT
* * * * *
1971373 GGGTTCACTCCCTCTTACTTCAGGGAGTAGAACTTGAACAATATTCAT-CTTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC-TGCATAC
* * *
1971426 AGGTTCACT-CCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCATA-
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* * *
1971477 -----CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACATTCTTTTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* * * * *
1971525 GGGTTCGCTCCTTATTGCTTCAAGGAGTAGAACTCAAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* * * * * *
1971578 GGGTTTGCTCCTTCTTACTTCAGGGAGTAGAACTCAAACAATCTTATGCATAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
1971631 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1971679 GTGTGAATCT
Statistics
Matches: 216, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
46 3 0.01
47 38 0.18
51 1 0.00
52 35 0.16
53 139 0.64
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
Found at i:1972230 original size:42 final size:42
Alignment explanation
Indices: 1972115--1972354 Score: 168
Period size: 42 Copynumber: 5.8 Consensus size: 42
1972105 TCTTATGGAT
* * * * * *
1972115 CCGAAGGATTT-ATCATCTTACTCGAGAGACTCACAAATGAC
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGC
* *
1972156 CCGAAGGATTTAATCATCATGCTCAAAAGACTTACTAATGGC
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGC
* *
1972198 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGAT
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGG-C
** **** * * * * * **
1972241 TTGCTTAACTAC-TCTTCA-G-T-G-AAGGCTTACCAATTAC
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGC
* * * * *
1972278 CCGAAGGATTTAACCATCATGCTTGAAAGACTTACTGATGGT
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGC
*
1972320 CCGAAGGATTTCATCATCATGCTCAAAAGACTTAC
1 CCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
1972355 AGATAAAACT
Statistics
Matches: 145, Mismatches: 47, Indels: 13
0.71 0.23 0.06
Matches are distributed among these distances:
37 3 0.02
38 14 0.10
39 2 0.01
40 2 0.01
41 13 0.09
42 107 0.74
43 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
CCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGC
Found at i:1982310 original size:22 final size:22
Alignment explanation
Indices: 1982282--1982358 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
1982272 ACATGGCTGC
1982282 TGCAACCGGGTTCGGGTCTGGT
1 TGCAACCGGGTTCGGGTCTGGT
1982304 TGCAACCGGGTTCGGGTCTGGT
1 TGCAACCGGGTTCGGGTCTGGT
* *
1982326 TGCAACCGAGTTCGGATCTGGT
1 TGCAACCGGGTTCGGGTCTGGT
*
1982348 TGTAACCGGGT
1 TGCAACCGGGT
1982359 CTGGGTCGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.13, C:0.22, G:0.38, T:0.27
Consensus pattern (22 bp):
TGCAACCGGGTTCGGGTCTGGT
Found at i:1982365 original size:44 final size:44
Alignment explanation
Indices: 1982282--1982380 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
1982272 ACATGGCTGC
* * *
1982282 TGCAACCGGGTTCGGGTCTGGTTGCAACCGGGTTCGGGTCTGGT
1 TGCAACCGAGTTCGGATCTGGTTGCAACCGGGTTCGGGTCGGGT
*
1982326 TGCAACCGAGTTCGGATCTGGTTGTAACCGGG-TCTGGGTCGGGT
1 TGCAACCGAGTTCGGATCTGGTTGCAACCGGGTTC-GGGTCGGGT
* *
1982370 CGTAACCGAGT
1 TGCAACCGAGT
1982381 CTCACTTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.13, C:0.22, G:0.38, T:0.26
Consensus pattern (44 bp):
TGCAACCGAGTTCGGATCTGGTTGCAACCGGGTTCGGGTCGGGT
Found at i:1984807 original size:20 final size:20
Alignment explanation
Indices: 1984782--1984834 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1984772 TGATTCAATC
*
1984782 AGTATCGATACCAAAAGGGG
1 AGTATCGATACCAAAAGGGA
*
1984802 AGTATCGATACC-GAAGGGA
1 AGTATCGATACCAAAAGGGA
1984821 AGGTATCGATACCA
1 A-GTATCGATACCA
1984835 TTTCGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (20 bp):
AGTATCGATACCAAAAGGGA
Found at i:1984924 original size:20 final size:22
Alignment explanation
Indices: 1984884--1984928 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1984874 ATAATATATG
1984884 TACCATAGTATGGTAGTATCGA
1 TACCATAGTATGGTAGTATCGA
*
1984906 TACCATGGTAT-GT-GTATCGA
1 TACCATAGTATGGTAGTATCGA
1984926 TAC
1 TAC
1984929 TGAGGAGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 10 0.45
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (22 bp):
TACCATAGTATGGTAGTATCGA
Found at i:1986690 original size:63 final size:64
Alignment explanation
Indices: 1986579--1986709 Score: 246
Period size: 63 Copynumber: 2.0 Consensus size: 64
1986569 ATCGTAGCAG
1986579 GGCATTGTGACCTTATGCTTGATCACCCATGTTGACTCGATTACGGTTGGCTTCTCTTCAACGAT
1 GGCATTGTGACCTTATGCTTGAT-ACCCATGTTGACTCGATTACGGTTGGCTTCTCTTCAACGAT
1986644 GGCATTGTGACCTTATGCTTGAT-CCCATGTTGACTCGATTACGGTTGGCTTCTCTTCAACGAT
1 GGCATTGTGACCTTATGCTTGATACCCATGTTGACTCGATTACGGTTGGCTTCTCTTCAACGAT
1986707 GGC
1 GGC
1986710 GGTTCTTTCA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 43 0.65
65 23 0.35
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (64 bp):
GGCATTGTGACCTTATGCTTGATACCCATGTTGACTCGATTACGGTTGGCTTCTCTTCAACGAT
Found at i:1990366 original size:19 final size:19
Alignment explanation
Indices: 1990342--1990388 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1990332 TAGATTTCCC
1990342 CTATACGTATAGTGAGCTT
1 CTATACGTATAGTGAGCTT
* *
1990361 CTATACATATAGTGAGTTT
1 CTATACGTATAGTGAGCTT
1990380 CTATACGTA
1 CTATACGTA
1990389 CTTCAACGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (19 bp):
CTATACGTATAGTGAGCTT
Found at i:1990866 original size:17 final size:16
Alignment explanation
Indices: 1990850--1990891 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1990840 AAAGGAAAAG
1990850 GAAATTAAAAAATAAA
1 GAAATTAAAAAATAAA
* *
1990866 GAAATAAAGAAAATGAA
1 GAAATTAA-AAAATAAA
1990883 GAAA-TAAAA
1 GAAATTAAAA
1990892 GAAAGGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 2 0.09
16 9 0.41
17 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (16 bp):
GAAATTAAAAAATAAA
Found at i:1990874 original size:25 final size:26
Alignment explanation
Indices: 1990846--1990895 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1990836 ACAAAAAGGA
* *
1990846 AAAGGAAATTAAAAAAT-AAAGAAAT
1 AAAGAAAATGAAAAAATAAAAGAAAT
*
1990871 AAAGAAAATGAAGAAATAAAAGAAA
1 AAAGAAAATGAAAAAATAAAAGAAA
1990896 GGGGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (26 bp):
AAAGAAAATGAAAAAATAAAAGAAAT
Found at i:1992933 original size:83 final size:82
Alignment explanation
Indices: 1992846--1993123 Score: 316
Period size: 83 Copynumber: 3.4 Consensus size: 82
1992836 ATGCGACCTT
* *
1992846 GAATCCGAAGAAGCAAGATCATTCCAAAATTTGACATCCTCAAACAAATGAGCAAATCATTTTAA
1 GAATCCGAAGGAGCAAGATCATTCCCAAATTTGACATCCTCAAACAAATGAGCAAATCATTTTAA
*
1992911 CAGTTACTTGGAGTCCTC
66 CA-TGACTTGGAGTCCTC
* * * * *
1992929 GAATCCGAAGGAGCAAGATCATTCCCAGA-TTGGCATCCTGAAACAAAGGTGCAAATCA-TTTAA
1 GAATCCGAAGGAGCAAGATCATTCCCAAATTTGACATCCTCAAACAAATGAGCAAATCATTTTAA
1992992 CAATGACTTGGCA-T-CTC
66 C-ATGACTTGG-AGTCCTC
* *
1993009 -AATTCGAAGGAGCAAGATCATTCCCATATTTGGA-ATCCTCAAACAAATGAGCAAATCATTTTA
1 GAATCCGAAGGAGCAAGATCATTCCCAAATTT-GACATCCTCAAACAAATGAGCAAATCATTTTA
*
1993072 ACTATGACTTGGCGTCCTC
65 AC-ATGACTTGGAGTCCTC
* ** * * *
1993091 AAATTTGAATGAGCAAGATCGTTCTCAAATTTG
1 GAATCCGAAGGAGCAAGATCATTCCCAAATTTG
1993124 GCGTCCCTAG
Statistics
Matches: 166, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
79 26 0.16
80 26 0.16
81 31 0.19
82 31 0.19
83 52 0.31
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (82 bp):
GAATCCGAAGGAGCAAGATCATTCCCAAATTTGACATCCTCAAACAAATGAGCAAATCATTTTAA
CATGACTTGGAGTCCTC
Found at i:2001671 original size:60 final size:60
Alignment explanation
Indices: 2001529--2001693 Score: 170
Period size: 60 Copynumber: 2.8 Consensus size: 60
2001519 ACTTTAATTT
* * * * *
2001529 TAAATTGGTCTTCAAACTTTTAAAGATTCCAATTTCATCCTCAAACTATGAATCTCATTC
1 TAAATTGGTCCTCAAACTTTTGAACATTCTAATTTCATCCTCAAACTATGAACCTCATTC
*** * * *
2001589 TAAATCAATCCTTAAACTTTTGAACATTCTAATTTCATACCT-AAACTATGACCCTCTTTC
1 TAAATTGGTCCTCAAACTTTTGAACATTCTAATTTCAT-CCTCAAACTATGAACCTCATTC
* * * * *
2001649 TAAATTGGTCCCCAAACATTTGAATATTTTAATTTCATCCCCAAA
1 TAAATTGGTCCTCAAACTTTTGAACATTCTAATTTCATCCTCAAA
2001694 TTCATGTAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
59 2 0.02
60 78 0.94
61 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (60 bp):
TAAATTGGTCCTCAAACTTTTGAACATTCTAATTTCATCCTCAAACTATGAACCTCATTC
Found at i:2011520 original size:46 final size:45
Alignment explanation
Indices: 2011390--2011522 Score: 194
Period size: 45 Copynumber: 2.9 Consensus size: 45
2011380 TTTTTCTTAT
* *
2011390 CAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATTATAC
1 CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* * *
2011435 CAATATAATTACCATTTATTCTATAAGCTCGTAAGCTTATTTTTC
1 CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* *
2011480 CAATATACTTACAATTTAATCCCATAAGCTCGTAAGCTTATTT
1 CAATATAATTACCATTT-ATCCCATAAGCTCGTAAGCTTATTT
2011523 GCATGGTTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 55 0.71
46 23 0.29
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (45 bp):
CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:2011732 original size:59 final size:59
Alignment explanation
Indices: 2011638--2011759 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
2011628 CTAACCTGAG
** *
2011638 TATGACACATAAGGTCGTGCCCACCAACTGTACTAGGTATTCTTAAGTGCAGTCCCAAA
1 TATGACACATAAGGTCGTGCCCACCAACTACACTAGGTATCCTTAAGTGCAGTCCCAAA
* * * *
2011697 TATGACACATAAGGTCGTGCCCACCATA-TACACTAGGTATCCTTTAGTGTATTCCCGAA
1 TATGACACATAAGGTCGTGCCCACCA-ACTACACTAGGTATCCTTAAGTGCAGTCCCAAA
2011756 TATG
1 TATG
2011760 CAACCTGCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCAACTACACTAGGTATCCTTAAGTGCAGTCCCAAA
Found at i:2013563 original size:45 final size:46
Alignment explanation
Indices: 2013513--2013611 Score: 191
Period size: 46 Copynumber: 2.2 Consensus size: 46
2013503 CCATTAAATA
2013513 TTATTTTCCAACATTT-AAAAATGTGAAAATAATATTTTTATTTTC
1 TTATTTTCCAACATTTAAAAAATGTGAAAATAATATTTTTATTTTC
2013558 TTATTTTCCAACATTTAAAAAATGTGAAAATAATATTTTTATTTTC
1 TTATTTTCCAACATTTAAAAAATGTGAAAATAATATTTTTATTTTC
2013604 TTATTTTC
1 TTATTTTC
2013612 GTGACCCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 16 0.30
46 37 0.70
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (46 bp):
TTATTTTCCAACATTTAAAAAATGTGAAAATAATATTTTTATTTTC
Found at i:2015494 original size:18 final size:19
Alignment explanation
Indices: 2015473--2015518 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
2015463 TTTAAGCATC
2015473 TCTCATTTT-TTTTCTTCT
1 TCTCATTTTCTTTTCTTCT
*
2015491 TCTC-TTTTCTTTTCTTTT
1 TCTCATTTTCTTTTCTTCT
2015509 TCT-ATTTTCT
1 TCTCATTTTCT
2015519 GTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTCATTTTCTTTTCTTCT
Found at i:2015500 original size:13 final size:13
Alignment explanation
Indices: 2015482--2015541 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
2015472 CTCTCATTTT
*
2015482 TTTTCTTCTTCTC
1 TTTTCTTTTTCTC
2015495 TTTTC-TTTTCT-
1 TTTTCTTTTTCTC
*
2015506 TTTTCTATTTTCTG
1 TTTTCT-TTTTCTC
2015520 TTTTCTTTTTC-C
1 TTTTCTTTTTCTC
2015532 TTTT-TTTTTC
1 TTTTCTTTTTC
2015542 ATATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 11 0.26
12 9 0.21
13 16 0.38
14 6 0.14
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:2015516 original size:7 final size:6
Alignment explanation
Indices: 2015481--2015541 Score: 63
Period size: 6 Copynumber: 10.0 Consensus size: 6
2015471 TCTCTCATTT
*
2015481 TTTTTC TTCTTC TCTTTTC -TTTTC TTTTTC TATTTTC TGTTTTC TTTTTC
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC T-TTTTC T-TTTTC TTTTTC
*
2015531 CTTTT- TTTTTC
1 TTTTTC TTTTTC
2015542 ATATATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 9 0.20
6 21 0.46
7 16 0.35
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:2015517 original size:31 final size:31
Alignment explanation
Indices: 2015482--2015541 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
2015472 CTCTCATTTT
2015482 TTTTCT-TCTTCTCTTTT-CTTTTCTTTTTCTA
1 TTTTCTGTCTTCT-TTTTCCTTTT-TTTTTCTA
*
2015513 TTTTCTGTTTTCTTTTTCCTTTTTTTTTC
1 TTTTCTGTCTTCTTTTTCCTTTTTTTTTC
2015542 ATATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (31 bp):
TTTTCTGTCTTCTTTTTCCTTTTTTTTTCTA
Found at i:2019512 original size:23 final size:23
Alignment explanation
Indices: 2019480--2019569 Score: 126
Period size: 23 Copynumber: 3.9 Consensus size: 23
2019470 ATCTTATATG
2019480 GCACTACGGTGCATTTCTACACT
1 GCACTACGGTGCATTTCTACACT
*
2019503 GCACTTCGGTGCATTTCTACACT
1 GCACTACGGTGCATTTCTACACT
* *
2019526 GCACTTCGGTGCAATTCTACACT
1 GCACTACGGTGCATTTCTACACT
* **
2019549 ACACTACACTGCATTTCTACA
1 GCACTACGGTGCATTTCTACA
2019570 ATGGATTAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (23 bp):
GCACTACGGTGCATTTCTACACT
Found at i:2020362 original size:19 final size:19
Alignment explanation
Indices: 2020338--2020384 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2020328 CATTTAATGC
2020338 ATCGATGCATAAGGAGTGA
1 ATCGATGCATAAGGAGTGA
*
2020357 ATCGATGCATAAGGAGTGC
1 ATCGATGCATAAGGAGTGA
2020376 ATCGATGCA
1 ATCGATGCA
2020385 CATGTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (19 bp):
ATCGATGCATAAGGAGTGA
Found at i:2022470 original size:12 final size:12
Alignment explanation
Indices: 2022453--2022503 Score: 93
Period size: 12 Copynumber: 4.2 Consensus size: 12
2022443 CGTAGGTTAC
2022453 AGAAGCGAGAAG
1 AGAAGCGAGAAG
2022465 AGAAGCGAGAAG
1 AGAAGCGAGAAG
2022477 AGAAGCGAGAAG
1 AGAAGCGAGAAG
2022489 AGAAGCGAAGAAG
1 AGAAGCG-AGAAG
2022502 AG
1 AG
2022504 CAAGACAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 31 0.82
13 7 0.18
ACGTcount: A:0.51, C:0.08, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAGCGAGAAG
Found at i:2023605 original size:21 final size:21
Alignment explanation
Indices: 2023580--2023619 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2023570 TTTAAAATGT
2023580 GTATCGATGCACAGCTACAGA
1 GTATCGATGCACAGCTACAGA
*
2023601 GTATCGATGCACTGCTACA
1 GTATCGATGCACAGCTACA
2023620 ATAACTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
GTATCGATGCACAGCTACAGA
Found at i:2024144 original size:46 final size:45
Alignment explanation
Indices: 2024012--2024144 Score: 203
Period size: 45 Copynumber: 2.9 Consensus size: 45
2024002 AATTTCTTAT
*
2024012 CAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* * *
2024057 TAATATAATAACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* *
2024102 CAATATACTTACCATTTAATCCCATAAGCTCATAAGCTTATTT
1 CAATATAATTACCATTT-ATCCCATAAGCTCGTAAGCTTATTT
2024145 GCACGTTTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 55 0.71
46 23 0.29
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (45 bp):
CAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:2024379 original size:59 final size:59
Alignment explanation
Indices: 2024260--2024381 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
2024250 CTAACCCGAG
* ** * *
2024260 TATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATCCTTAAGTACAGTCCCGAA
1 TATGACACATAAGGTCGTGCCCACCATATACAATAGGTATCCTTAAGTACAGTCCAGAA
* * ** *
2024319 TATGACATATAAGGTCGTGCCCACCATATACAATAGGTATCCTTTAGTGTATTCCAGAA
1 TATGACACATAAGGTCGTGCCCACCATATACAATAGGTATCCTTAAGTACAGTCCAGAA
2024378 TATG
1 TATG
2024382 CAGCCTACTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCATATACAATAGGTATCCTTAAGTACAGTCCAGAA
Found at i:2024706 original size:23 final size:24
Alignment explanation
Indices: 2024666--2024713 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
2024656 AGTCTTCCCG
2024666 ATGATGTATAAAAAATCTATGTAC
1 ATGATGTATAAAAAATCTATGTAC
2024690 ATGATGTAT-AAAAATCTATGTAC
1 ATGATGTATAAAAAATCTATGTAC
2024713 A
1 A
2024714 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAAAATCTATGTAC
Found at i:2026269 original size:30 final size:30
Alignment explanation
Indices: 2026243--2026301 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2026233 TTTGGTCCTT
* *
2026243 AAACTTT-TCAAAGTTTATACTTTGGTCACC
1 AAACTTTACCAAA-TTTATAATTTGGTCACC
2026273 AAACTTTACCAAATTTATAATTTGGTCAC
1 AAACTTTACCAAATTTATAATTTGGTCAC
2026302 TAAATTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTACCAAATTTATAATTTGGTCACC
Found at i:2027197 original size:46 final size:45
Alignment explanation
Indices: 2027065--2027197 Score: 203
Period size: 45 Copynumber: 2.9 Consensus size: 45
2027055 AATTTCTTAT
* *
2027065 CAATATATTTACCATTTATCCTATAAGCTCATAAGCTTATTTTAC
1 CAATATAATTACCATTTATCCCATAAGCTCATAAGCTTATTTTAC
* * *
2027110 CAATATAATTACCATTCATTCCATAAGCTCATAAGCTTATTTTTC
1 CAATATAATTACCATTTATCCCATAAGCTCATAAGCTTATTTTAC
*
2027155 CAATATACTTACCATTTAATCCCATAAGCTCATAAGCTTATTT
1 CAATATAATTACCATTT-ATCCCATAAGCTCATAAGCTTATTT
2027198 GTATGGTTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 55 0.70
46 24 0.30
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (45 bp):
CAATATAATTACCATTTATCCCATAAGCTCATAAGCTTATTTTAC
Found at i:2029300 original size:24 final size:24
Alignment explanation
Indices: 2029268--2029316 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2029258 AGTCTTCCCG
2029268 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
2029292 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
2029316 A
1 A
2029317 ATGTTATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:2030932 original size:30 final size:29
Alignment explanation
Indices: 2030864--2030939 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
2030854 TTAATTTTTT
* *
2030864 AAAATTATATTTTGGTCCCTAAACTTTTC
1 AAAATTATAATTTGGTCCCTAAACTTTCC
* *
2030893 AAAGTTTATACTTTGGTCACC-AAACTTTACC
1 AAA-ATTATAATTTGGTC-CCTAAACTTT-CC
2030924 AAAATTATAATTTGGT
1 AAAATTATAATTTGGT
2030940 TACTAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.08
30 30 0.77
31 6 0.15
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (29 bp):
AAAATTATAATTTGGTCCCTAAACTTTCC
Found at i:2037255 original size:21 final size:19
Alignment explanation
Indices: 2037199--2037259 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 19
2037189 ATATAAAATA
2037199 TATTTAATATATTAAGAATTT
1 TATTTAAT-TATTAA-AATTT
2037220 TAGTTTTATATTATTAAAATATGT
1 TA--TTTA-ATTATTAAAAT-T-T
2037244 TATTTAATTATTAAAA
1 TATTTAATTATTAAAA
2037260 ATATAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
21 12 0.34
22 7 0.20
23 11 0.31
24 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TATTTAATTATTAAAATTT
Found at i:2037260 original size:22 final size:21
Alignment explanation
Indices: 2037199--2037263 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
2037189 ATATAAAATA
*
2037199 TATTTAATATATTAAGAAT-TT
1 TATTTAAT-TATTAAAAATATT
2037220 TAGTTTTATATTATT-AAAATATGT
1 TA--TTTA-ATTATTAAAAATAT-T
2037244 TATTTAATTATTAAAAATAT
1 TATTTAATTATTAAAAATAT
2037264 AAAAATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 8 0.22
22 15 0.41
23 9 0.24
24 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTTAATTATTAAAAATATT
Found at i:2037274 original size:42 final size:41
Alignment explanation
Indices: 2037228--2037330 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
2037218 TTTAGTTTTA
*
2037228 TATTATTAAAATATGTTATTTAA-TTATTAAAAATATAA-AAAT
1 TATTA-TAAAATATATTATTTAACTT-TT-AAAATATAATAAAT
2037270 TATTATAAAATATATTATTTTAACCTTTTAAAATATAATAAAT
1 TATTATAAAATATATTA-TTTAA-CTTTTAAAATATAATAAAT
*
2037313 AATTAT-AAATATATTATT
1 TATTATAAAATATATTATT
2037331 ATAAAATATA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
41 13 0.24
42 29 0.53
43 11 0.20
44 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
TATTATAAAATATATTATTTAACTTTTAAAATATAATAAAT
Found at i:2037286 original size:15 final size:15
Alignment explanation
Indices: 2037268--2037345 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 15
2037258 AAATATAAAA
2037268 ATTATTATAAAATAT
1 ATTATTATAAAATAT
* **
2037283 ATTATTTTAACCT-T
1 ATTATTATAAAATAT
** * *
2037297 -TTAAAATATAATAA
1 ATTATTATAAAATAT
*
2037311 ATAATTAT-AAATAT
1 ATTATTATAAAATAT
2037325 ATTATTATAAAATAT
1 ATTATTATAAAATAT
2037340 ATTATT
1 ATTATT
2037346 TTAATTATTT
Statistics
Matches: 44, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
13 6 0.14
14 12 0.27
15 26 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATTATAAAATAT
Found at i:2038225 original size:22 final size:22
Alignment explanation
Indices: 2038197--2038285 Score: 90
Period size: 23 Copynumber: 4.0 Consensus size: 22
2038187 CCGAAGTGCT
*
2038197 ACATAGAATGTCCCCAAGGACC
1 ACATAGAATGTCCCGAAGGACC
*
2038219 ACATAG-ATGTCCCGAAAGACC
1 ACATAGAATGTCCCGAAGGACC
* * * *
2038240 GCGTAGAAATATCCCGAATGACC
1 ACATAG-AATGTCCCGAAGGACC
*
2038263 ACGTAGAATTGTCCCGAAGGACC
1 ACATAGAA-TGTCCCGAAGGACC
2038286 GCGTAGAACC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.31
22 8 0.15
23 30 0.55
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (22 bp):
ACATAGAATGTCCCGAAGGACC
Found at i:2038262 original size:23 final size:23
Alignment explanation
Indices: 2038228--2038293 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
2038218 CACATAGATG
2038228 TCCCGAAAGACCGCGTAGAAATA
1 TCCCGAAAGACCGCGTAGAAATA
* * * *
2038251 TCCCGAATGACCACGTAGAATTG
1 TCCCGAAAGACCGCGTAGAAATA
*
2038274 TCCCGAAGGACCGCGTAGAA
1 TCCCGAAAGACCGCGTAGAA
2038294 CCCTCGACCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.15
Consensus pattern (23 bp):
TCCCGAAAGACCGCGTAGAAATA
Found at i:2040518 original size:21 final size:21
Alignment explanation
Indices: 2040492--2040570 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
2040482 TCCTTAAGGA
*
2040492 GTGGTCATTCGGGATATATAT
1 GTGGTCATTCGGGACATATAT
*
2040513 GTGGTCATTCGGGACATAGAT
1 GTGGTCATTCGGGACATATAT
* *
2040534 ATGGTCATTCGGGACATCTAT
1 GTGGTCATTCGGGACATATAT
*
2040555 GTGGTCATTTGGGACA
1 GTGGTCATTCGGGACA
2040571 AATTCTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (21 bp):
GTGGTCATTCGGGACATATAT
Found at i:2041276 original size:16 final size:17
Alignment explanation
Indices: 2041249--2041282 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2041239 CTTTTCATTC
2041249 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
2041266 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
2041282 T
1 T
2041283 GACACCTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:2044723 original size:21 final size:21
Alignment explanation
Indices: 2044697--2044775 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 21
2044687 TCCTTAAGGA
** * *
2044697 GTGGTCCTTTAGGAGATATAT
1 GTGGTCCTTCGGGACATCTAT
*
2044718 GTGGTCATTCGGGACATCTAT
1 GTGGTCCTTCGGGACATCTAT
*
2044739 ATGGTCCTTCGGGACATCTAT
1 GTGGTCCTTCGGGACATCTAT
*
2044760 GTGGTCCTTCGAGACA
1 GTGGTCCTTCGGGACA
2044776 AATTCTATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATCTAT
Found at i:2049618 original size:14 final size:14
Alignment explanation
Indices: 2049599--2049626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2049589 GATACCAGGG
2049599 TAATGGTATCGATA
1 TAATGGTATCGATA
2049613 TAATGGTATCGATA
1 TAATGGTATCGATA
2049627 CTATTAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TAATGGTATCGATA
Found at i:2050075 original size:54 final size:53
Alignment explanation
Indices: 2049955--2050089 Score: 191
Period size: 53 Copynumber: 2.5 Consensus size: 53
2049945 CCAAATAGGT
* * *
2049955 ACTAAATGTGCATTTTAC-ATAATTCATCCTATGTGGATGAATAACCTTTCGGC
1 ACTAAGTGTGCATTTCACGA-AATTCATCCTAGGTGGATGAATAACCTTTCGGC
* *
2050008 ACTAAGTGTGCATTTCACGGAATTCATCCTAGGTGGATGAATCACCATTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTAGGTGGATGAATAACC-TTTCGGC
*
2050062 ACTAAGTGTGCATTCCACGAAATTCATC
1 ACTAAGTGTGCATTTCACGAAATTCATC
2050090 ATGATTTGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 40 0.55
54 33 0.45
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (53 bp):
ACTAAGTGTGCATTTCACGAAATTCATCCTAGGTGGATGAATAACCTTTCGGC
Found at i:2050144 original size:55 final size:55
Alignment explanation
Indices: 2049990--2050838 Score: 1124
Period size: 55 Copynumber: 15.6 Consensus size: 55
2049980 ATCCTATGTG
* * * * * * *
2049990 GATGAATAACCTTTC-GGCACTAAGTGTGC-ATTTCACGGAATTCATCCT-AGGTG
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGA-GTT
* * * * * * *
2050043 GATGAATCACCATTTC-GGCACTAAGTGTGC-ATTCCACGAAATTCATCATGATTT
1 GATGAATAACC-GTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * *
2050097 GATGAATAACTGCACATGCAATATGTGTGCAAATCCACGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
*
2050152 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
2050207 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATC-TGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
*
2050261 GATGAATAATCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
2050316 GATGAATAACCGTACAGGCACTA--TGTGCAAATCCTCGGAATTCATTATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * * *
2050369 GATGAATAATCGTACAAGCAATATGTGTACAAATCCATGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
2050424 GATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * *
2050479 GATGAATAACCGTACAAGCACTATGTGTGCAAATCCACTGAATACATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* ** *
2050534 GATGAATAACCGTACAGGCACTATGTGTGTAAATCCACATAATTCATCGTGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * *
2050589 AATGAATAACCGTACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
2050644 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACAGAATTCATCAGGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
2050699 GATGAATAACCGTACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * * * **
2050754 GATGAATAACTGTACAGGAACGATGTGTG-TAACCCACAAAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * *
2050808 GATGAACT-ACTGTATAGGCACTACGTGTGCA
1 GATGAA-TAACCGTACAGGCACTATGTGTGCA
2050839 TCTTAATAAA
Statistics
Matches: 712, Mismatches: 75, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
53 59 0.08
54 153 0.21
55 500 0.70
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (55 bp):
GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
Found at i:2053148 original size:2 final size:2
Alignment explanation
Indices: 2053141--2053187 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2053131 TGTCAGAAAG
2053141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2053183 AT AT A
1 AT AT A
2053188 ACTTTTATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2055892 original size:54 final size:53
Alignment explanation
Indices: 2055818--2056193 Score: 164
Period size: 55 Copynumber: 6.9 Consensus size: 53
2055808 CCAAATAGGT
* * *
2055818 ACTAAATGTGTATTTTATGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCATGGAATTCATCCTA-GTGGATGAATAACCGTTTCGGC
* * * **
2055872 ACTAAGTGTGCATTTCATGGAATTTATCCTAGGTGGATGAATCACTGTTTCAAC
1 ACTAAGTGTGCATTTCATGGAATTCATCCTA-GTGGATGAATAACCGTTTCGGC
* * *** * * *
2055926 ACTAAGTATGCATTCCACATAATTCATCATGAGTTGATGAATAACCG-TACAGGC
1 ACTAAGTGTGCATTTCATGGAATTCATCCT-AGTGGATGAATAACCGTTTC-GGC
* * * * * ** * *
2055980 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCG-TACATGC
1 ACTAAGTGTGC-ATTTCATGGAATTCATCCT-AGTGGATGAATAACCGTTTC-GGC
* * * * * * * * *
2056035 ACTATGTATGCAAATCCACGGAATTCATCATGAGTTGATAAATAACCG-TACAGGC
1 ACTAAGTGTGC-ATTTCATGGAATTCATCCT-AGTGGATGAATAACCGTTTC-GGC
* * * * * * * *
2056090 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
1 ACTAAGTGTGC-ATTTCATGGAATTCATCCT-AGTGGATGAATAACCGTTTCGGC
* * * ** * *
2056145 ACTATGTGTGCAAATCCAAAGAATTCATCATGAGTTGATGAATAACCGT
1 ACTAAGTGTGC-ATTTCATGGAATTCATCCT-AGTGGATGAATAACCGT
2056194 ACAGACGTTA
Statistics
Matches: 278, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 90 0.32
55 186 0.67
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (53 bp):
ACTAAGTGTGCATTTCATGGAATTCATCCTAGTGGATGAATAACCGTTTCGGC
Found at i:2056007 original size:55 final size:55
Alignment explanation
Indices: 2055946--2056305 Score: 578
Period size: 55 Copynumber: 6.6 Consensus size: 55
2055936 CATTCCACAT
2055946 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
* * *
2056001 AATTCATCATGAGTTAATGAATAACCGTACATGCACTATGTATGCAAATCCACGG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
*
2056056 AATTCATCATGAGTTGATAAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
* **
2056111 AATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAATCCAAAG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
* ** *
2056166 AATTCATCATGAGTTGATGAATAACCGTACAGACGTTATGTGTGCAAATCCACGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
* **
2056221 AATTCATCATAAGTTGATGAATAACCG-ACAGGCACTATGTGTGCAAATCCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
*
2056275 AATTCATCATGAGATGATGAATAACCGTACA
1 AATTCATCATGAGTTGATGAATAACCGTACA
2056306 AGAACGATGT
Statistics
Matches: 279, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
54 48 0.17
55 231 0.83
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGG
Found at i:2056079 original size:110 final size:110
Alignment explanation
Indices: 2055939--2056346 Score: 586
Period size: 110 Copynumber: 3.7 Consensus size: 110
2055929 AAGTATGCAT
*
2055939 TCCACATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
1 TCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
* *
2056004 TCATCATGAGTTAATGAATAACCGTACATGCACTATGTATGCAAA
66 TCATCATGAGTTAATGAATAACCGTACAGGCACTATGTGTGCAAA
* *
2056049 TCCACGGAATTCATCATGAGTTGATAAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
1 TCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
* *
2056114 TCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAA
66 TCATCATGAGTTAATGAATAACCGTACAGGCACTATGTGTGCAAA
* * ** *
2056159 TCCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGACGTTATGTGTGCAAATCCACGAAAT
1 TCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
* *
2056224 TCATCATAAGTTGATGAATAACCG-ACAGGCACTATGTGTGCAAA
66 TCATCATGAGTTAATGAATAACCGTACAGGCACTATGTGTGCAAA
* * * * * * * * **
2056268 TCCACAAAATTCATCATGAGATGATGAATAACCGTACAAGAACGATGTATACAACT-CACATAAT
1 TCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
2056332 TCATCATGAGTTAAT
66 TCATCATGAGTTAAT
2056347 AAACTACTGT
Statistics
Matches: 266, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
108 19 0.07
109 63 0.24
110 184 0.69
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (110 bp):
TCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
TCATCATGAGTTAATGAATAACCGTACAGGCACTATGTGTGCAAA
Found at i:2056132 original size:165 final size:163
Alignment explanation
Indices: 2055939--2056346 Score: 595
Period size: 165 Copynumber: 2.5 Consensus size: 163
2055929 AAGTATGCAT
* *
2055939 TCCACATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAAT
1 TCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACAGAAT
* *
2056004 TCATCATGAGTTAATGAATAACCGTACATGCAC-TATGTATGCAAATCCACGGAATTCATCATGA
66 TCATCATGAGTTAATGAATAACCGTACA-G-ACGTATGTATGCAAATCCACGAAATTCATCATAA
2056068 GTTGATAAATAACCGTACAGGCACTATGTGTGCAAA
129 GTTGATAAATAACCG-ACAGGCACTATGTGTGCAAA
** * *
2056104 TCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAATCCAAAGAAT
1 TCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACAGAAT
* *
2056169 TCATCATGAGTTGATGAATAACCGTACAGACGTTATGTGTGCAAATCCACGAAATTCATCATAAG
66 TCATCATGAGTTAATGAATAACCGTACAGACG-TATGTATGCAAATCCACGAAATTCATCATAAG
*
2056234 TTGATGAATAACCGACAGGCACTATGTGTGCAAA
130 TTGATAAATAACCGACAGGCACTATGTGTGCAAA
* * * * * * * *
2056268 TCCACAAAATTCATCATGAGATGATGAATAACCGTACAAGAACGATGTATACAACT-CACATAAT
1 TCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACAGAAT
2056332 TCATCATGAGTTAAT
66 TCATCATGAGTTAAT
2056347 AAACTACTGT
Statistics
Matches: 218, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
163 22 0.10
164 67 0.31
165 129 0.59
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (163 bp):
TCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACAGAAT
TCATCATGAGTTAATGAATAACCGTACAGACGTATGTATGCAAATCCACGAAATTCATCATAAGT
TGATAAATAACCGACAGGCACTATGTGTGCAAA
Found at i:2056746 original size:68 final size:68
Alignment explanation
Indices: 2056637--2056773 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
2056627 AAAGATTAAT
* * *
2056637 GGCCTAGTTGTGCATTTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAGCTGTGCATTTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTT
2056702 TGA
66 TGA
**
2056705 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTT
1 GGCCTAGCTGTGCATTTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTT
2056770 TGA
66 TGA
2056773 G
1 G
2056774 TAAAAGACTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTT
TGA
Found at i:2062083 original size:99 final size:100
Alignment explanation
Indices: 2061972--2062172 Score: 395
Period size: 99 Copynumber: 2.0 Consensus size: 100
2061962 ACCATAGTTT
2061972 AACCTAAATTTTTTTTAAACATAAATAATATAACTTGACATAATGGTTTTACTAGCAAGGGATGT
1 AACCTAAATTTTTTTTAAACATAAATAATATAACTTGACATAATGGTTTTACTAGCAAGGGATGT
2062037 GATTAGTATATACATATAATTAAGAATG-AATTGA
66 GATTAGTATATACATATAATTAAGAATGAAATTGA
2062071 AACCTAAATTTTTTTTAAACATAAATAATATAACTTGACATAATGGTTTTACTAGCAAGGGATGT
1 AACCTAAATTTTTTTTAAACATAAATAATATAACTTGACATAATGGTTTTACTAGCAAGGGATGT
2062136 GATTAGTATATACATATAATTAAGAATGAAATTGA
66 GATTAGTATATACATATAATTAAGAATGAAATTGA
2062171 AA
1 AA
2062173 TGTTTAGAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 93 0.92
100 8 0.08
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (100 bp):
AACCTAAATTTTTTTTAAACATAAATAATATAACTTGACATAATGGTTTTACTAGCAAGGGATGT
GATTAGTATATACATATAATTAAGAATGAAATTGA
Found at i:2062322 original size:60 final size:60
Alignment explanation
Indices: 2062161--2062325 Score: 165
Period size: 60 Copynumber: 2.7 Consensus size: 60
2062151 ATAATTAAGA
* * * * *
2062161 ATGAAATTGAAATGTTTAGAAAGTTCATGGACCAAATTAGAATGAAGATCATAGTTTGGGG
1 ATGAAATTGAAATATTTA-AAAGTTCAAGGACTAATTTAGAATGAAGATCATAGTTTAGGG
* * * * *
2062222 ATGAAACTAAAATATTTAAAAGATT-GAGTG-CTAATCTAGAATGATA-ATCATAGTTTATGG
1 ATGAAATTGAAATATTTAAAAG-TTCAAG-GACTAATTTAGAATGA-AGATCATAGTTTAGGG
* *
2062282 ATGAAATTGAGATATTTAAAAGTTCAAGGATTAATTTAGAATGA
1 ATGAAATTGAAATATTTAAAAGTTCAAGGACTAATTTAGAATGA
2062326 GGATATTAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
59 3 0.04
60 61 0.73
61 19 0.23
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.32
Consensus pattern (60 bp):
ATGAAATTGAAATATTTAAAAGTTCAAGGACTAATTTAGAATGAAGATCATAGTTTAGGG
Found at i:2079408 original size:27 final size:27
Alignment explanation
Indices: 2079362--2079425 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
2079352 CTACGATATG
2079362 ATGCATAG--TTCCACCTTTCAAGGTA
1 ATGCATAGTATTCCACCTTTCAAGGTA
* *
2079387 ATGCATAGTATTCCATCC-TTCATGGTG
1 ATGCATAGTATTCCA-CCTTTCAAGGTA
2079414 ATGCATAGTATT
1 ATGCATAGTATT
2079426 ATGCTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 8 0.24
27 24 0.71
28 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
ATGCATAGTATTCCACCTTTCAAGGTA
Found at i:2081123 original size:54 final size:54
Alignment explanation
Indices: 2081041--2081641 Score: 821
Period size: 54 Copynumber: 11.1 Consensus size: 54
2081031 TGTGTACTAA
*
2081041 CGACACTAAGTGTGCAACCCAC-AGAATTCATAATAAGTTTATGAATGACCGTAT
1 CGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTAT
* *
2081095 CGACACTAAGTGTGCAACCCACGAAATTCATAATAGGTTTATGAACGAACGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* *
2081149 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* * * * * * *
2081203 CAACACAAATTGTACAACCCAAGTAACTCATAATAAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* * *
2081257 CGACACTAAGTGTGCAACTCACGGAATCCATAATAAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
** * *
2081311 CGACACTAAGTGTGCAACCCAAAAAATTCATAATAAGTTTATGAATGACCGCAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
*
2081365 C-AGCACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAACGACCGTAT
1 CGA-CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* * * * * * *
2081419 CAATACTAAGGGTGCAACCCACGAAATTAATAATATGTTTATGAACTACCATAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* *
2081473 CGACACTAAGTGTGTAACCCACGAAATTCATAATGAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* * * *
2081527 TGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAAAGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
* * * * *
2081581 CGACACT-AGTGTGCAACCCACGAAATTCACAATGACTTTATGAATGACTGTAT
1 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
2081634 CGACACTA
1 CGACACTA
2081642 TATGTCCACC
Statistics
Matches: 477, Mismatches: 66, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
53 48 0.10
54 427 0.90
55 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (54 bp):
CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAT
Found at i:2081320 original size:27 final size:27
Alignment explanation
Indices: 2081236--2081321 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
2081226 TAACTCATAA
2081236 TAAGTTTATGAACGACCGTATCGACAC
1 TAAGTTTATGAACGACCGTATCGACAC
* * * * * * *
2081263 TAAG--TGTGCAACTCACGGAATCCATAA
1 TAAGTTTATG-AAC-GACCGTATCGACAC
2081290 TAAGTTTATGAACGACCGTATCGACAC
1 TAAGTTTATGAACGACCGTATCGACAC
2081317 TAAGT
1 TAAGT
2081322 GTGCAACCCA
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 29 0.71
28 3 0.07
29 3 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
TAAGTTTATGAACGACCGTATCGACAC
Found at i:2086525 original size:54 final size:54
Alignment explanation
Indices: 2086461--2086616 Score: 188
Period size: 54 Copynumber: 2.9 Consensus size: 54
2086451 TAATGTATAC
* * *
2086461 TATCGACACTAAGTGTGCAACCCACGAAATTGATAATGAGTTTTTGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAACGACCG
* * * *
2086515 TATCGGCACTAAGTGTGCAACCCAC-AGACTTCATAATAAGTTTATCAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATGAGTTTATGAACGACCG
* * * * *
2086569 TATCGGTACTAAGTGTGTAACCCATGAAATTCACAATGAGTTTGTGAA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAA
2086617 TGATCATATC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.98
55 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAACGACCG
Found at i:2086665 original size:108 final size:108
Alignment explanation
Indices: 2086468--2086665 Score: 229
Period size: 108 Copynumber: 1.8 Consensus size: 108
2086458 TACTATCGAC
* * * * **
2086468 ACTAAGTGTGCAACCCACGAAATTGATAATGAGTTTTTGAACGACCGTATCGGCACTAAGTGTGC
1 ACTAAGTGTGCAACCCACGAAATTCACAATGAGTTTGTGAACGACCATATCAACACTAAGTGTGC
*
2086533 AACCCACAGACTTCATAATAAGTTTATCAACGATCGTATCGGT
66 AACCCACAGACTTCAAAATAAGTTTATCAACGATCGTATCGGT
* * * * *
2086576 ACTAAGTGTGTAACCCATGAAATTCACAATGAGTTTGTGAATGATCATATCAACATTATA-TGTG
1 ACTAAGTGTGCAACCCACGAAATTCACAATGAGTTTGTGAACGACCATATCAACACTA-AGTGTG
* * *
2086640 CACCCCA-AGGATTTCAAAATGAGTTT
65 CAACCCACA-GACTTCAAAATAAGTTT
2086666 GAAAATAACC
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
107 1 0.01
108 71 0.97
109 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (108 bp):
ACTAAGTGTGCAACCCACGAAATTCACAATGAGTTTGTGAACGACCATATCAACACTAAGTGTGC
AACCCACAGACTTCAAAATAAGTTTATCAACGATCGTATCGGT
Found at i:2086733 original size:54 final size:54
Alignment explanation
Indices: 2086495--2086735 Score: 175
Period size: 54 Copynumber: 4.5 Consensus size: 54
2086485 CGAAATTGAT
* * * * * * *
2086495 AATGAGTTTTTGAACGACCGTATCGGCACTA-AGTGTGCAACCCACA-GACTTCAT
1 AATGAGTTTATGAATGATCGTATCGACACTATA-TGTGCACCCCA-AGGATTTCAA
* * * ** * * * * * *
2086549 AATAAGTTTATCAACGATCGTATCGGTACTA-AGTGTGTAACCCATGAAATTCAC
1 AATGAGTTTATGAATGATCGTATCGACACTATA-TGTGCACCCCAAGGATTTCAA
* * * *
2086603 AATGAGTTTGTGAATGATCATATCAACATTATATGTGCACCCCAAGGATTTCAA
1 AATGAGTTTATGAATGATCGTATCGACACTATATGTGCACCCCAAGGATTTCAA
* * * * *
2086657 AATGAGTTTGA-AAATAACCGTATCGACACTATATGTGCACTCCAAGGATTTTAA
1 AATGAGTTT-ATGAATGATCGTATCGACACTATATGTGCACCCCAAGGATTTCAA
2086711 AATGAGTTTATGAATGATCGTATCG
1 AATGAGTTTATGAATGATCGTATCG
2086736 GTACTTAGGT
Statistics
Matches: 146, Mismatches: 37, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
53 1 0.01
54 144 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (54 bp):
AATGAGTTTATGAATGATCGTATCGACACTATATGTGCACCCCAAGGATTTCAA
Found at i:2090953 original size:29 final size:30
Alignment explanation
Indices: 2090891--2090978 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
2090881 AATGGATTTA
* *
2090891 TTTAGTGACCAAATTATAATTTGGTAAAGT
1 TTTAGTGACCAAAGTATAATTTGGAAAAGT
2090921 TTTA-TGACCAAAGTATAAACTTT-GAAAAG-
1 TTTAGTGACCAAAGTAT-AA-TTTGGAAAAGT
* * *
2090950 TTTAGGGACCAAAATGTAATTTTGGAAAA
1 TTTAGTGACCAAAGTATAA-TTTGGAAAA
2090979 ATTACAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 20 0.42
30 25 0.52
31 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (30 bp):
TTTAGTGACCAAAGTATAATTTGGAAAAGT
Found at i:2094556 original size:162 final size:162
Alignment explanation
Indices: 2094137--2094698 Score: 765
Period size: 162 Copynumber: 3.5 Consensus size: 162
2094127 CTATGTGTAC
* * *
2094137 TATCGACACTAAGTGTGCAACCCAC-GAAATTCA-AATAAGTTTATGAACGACTGTATCTGTACT
1 TATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCGTATCAGCACT
* * * * *
2094200 AAGTGTGCAACCC-ATGAAATTCATAATAAGTTTATGAATGACCGTGTCGACAATAAGTGTACAC
65 AAGTGTGCAACCCAAAG-AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTACAA
* *
2094264 CCCACATAATTCATATTAAGTTTATGAATGACCG
129 CCCACAAAATTCATAATAAGTTTATGAATGACCG
* * * *
2094298 TATC-AGTACTAAGTTTGCAACCCA-AAAATTCATAATAAGTTTATGAACGACCGTATCACCACT
1 TATCGA-CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAGCACT
* * * * * * *
2094361 AAGTGTTCAACCCACAGAATTCATAATAAGTTTATTAACGATCATATCAACACTAAGTGTCCAAC
65 AAGTGTGCAACCCAAAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTACAAC
*
2094426 CCACAAAATTCATAATAAGTTTACGAATGACCG
130 CCACAAAATTCATAATAAGTTTATGAATGACCG
*
2094459 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGATCGTATCAGCACTA
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTA
* **
2094524 AGTGTGCAACCCAAAGAATTCATAAAAAGTTTATGAACGACCGTATCGACACTAAGTGTGTAACC
66 AGTGTGCAACCCAAAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTACAACC
* ** *
2094589 CACGAAATTCATAACGAGTTTATGAAAGACCG
131 CACAAAATTCATAATAAGTTTATGAATGACCG
* * *
2094621 TATCGACACTAAGTGTGCAACCCACGGACTTCATAATAAGTTTATGAACGACCGTATCGGCACTA
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTA
2094686 AGTGTGCAACCCA
66 AGTGTGCAACCCA
2094699 TGAAATTCGT
Statistics
Matches: 350, Mismatches: 45, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
160 7 0.02
161 147 0.42
162 196 0.56
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (162 bp):
TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTA
AGTGTGCAACCCAAAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTACAACC
CACAAAATTCATAATAAGTTTATGAATGACCG
Found at i:2094736 original size:54 final size:53
Alignment explanation
Indices: 2094137--2094722 Score: 678
Period size: 54 Copynumber: 10.9 Consensus size: 53
2094127 CTATGTGTAC
*
2094137 TATCGACACTAAGTGTGCAACCCACGAAATTCA-AATAAGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAACGACCG
* *
2094190 TATCTG-TACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAATGACCG
1 TATC-GACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAACGACCG
* * * * * * *
2094244 TGTCGACAATAAGTGTACACCCCACATAATTCATATTAAGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCAGA-AATTCATAATAAGTTTATGAACGACCG
* * *
2094298 TATC-AGTACTAAGTTTGCAACCCAAAAATTCATAATAAGTTTATGAACGACCG
1 TATCGA-CACTAAGTGTGCAACCCAGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
2094351 TATC-ACCACTAAGTGTTCAACCCACAGAATTCATAATAAGTTTATTAACGATCA
1 TATCGA-CACTAAGTGTGCAACCCAGA-AATTCATAATAAGTTTATGAACGACCG
* * * * *
2094405 TATCAACACTAAGTGTCCAACCCACAAAATTCATAATAAGTTTACGAATGACCG
1 TATCGACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAACGACCG
* *
2094459 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGATCG
1 TATCGACACTAAGTGTGCAACCCAGA-AATTCATAATAAGTTTATGAACGACCG
* *
2094513 TATC-AGCACTAAGTGTGCAACCCAAAGAATTCATAAAAAGTTTATGAACGACCG
1 TATCGA-CACTAAGTGTGCAACCCAGA-AATTCATAATAAGTTTATGAACGACCG
* ** *
2094567 TATCGACACTAAGTGTGTAACCCACGAAATTCATAACGAGTTTATGAAAGACCG
1 TATCGACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAACGACCG
* *
2094621 TATCGACACTAAGTGTGCAACCCACGGACTTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAACGACCG
* * * *
2094675 TATCGGCACTAAGTGTGCAACCCATGAAATTCGTAATGAGTTTGTGAA
1 TATCGACACTAAGTGTGCAACCCA-GAAATTCATAATAAGTTTATGAA
2094723 TGGTCGTATC
Statistics
Matches: 459, Mismatches: 62, Indels: 23
0.84 0.11 0.04
Matches are distributed among these distances:
53 80 0.17
54 375 0.82
55 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (53 bp):
TATCGACACTAAGTGTGCAACCCAGAAATTCATAATAAGTTTATGAACGACCG
Found at i:2098302 original size:125 final size:127
Alignment explanation
Indices: 2098080--2098332 Score: 492
Period size: 125 Copynumber: 2.0 Consensus size: 127
2098070 GATCATGGGA
2098080 AAATATTTGCCTTTAGCGGAAATTGTCTACAACAACAGTTATCAATTGAACATCAAGATGATTCT
1 AAATATTTGCCTTTAGCGGAAATTGTCTACAACAACAGTTATCAATTGAACATCAAGATGATTCT
2098145 TCTAGTTAAAGGCTTTGGTAAGCATAAAGTCTTAAAA-T-TAGGACGAATTTTCTTAAGGGG
66 TCTAGTTAAAGGCTTTGGTAAGCATAAAGTCTTAAAATTCTAGGACGAATTTTCTTAAGGGG
2098205 AAATATTTGCCTTTAGCGGAAATTGTCTACAACAACAGTTATCAATTGAACATCAAGATGATTCT
1 AAATATTTGCCTTTAGCGGAAATTGTCTACAACAACAGTTATCAATTGAACATCAAGATGATTCT
2098270 TCTAGTTAAAGGCTTTGGTAAGCATAAAGTCTTAAAATTCTAGGACGAATTTTCTTAAGGGG
66 TCTAGTTAAAGGCTTTGGTAAGCATAAAGTCTTAAAATTCTAGGACGAATTTTCTTAAGGGG
2098332 A
1 A
2098333 GAATTGTAAC
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
125 102 0.81
126 1 0.01
127 23 0.18
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (127 bp):
AAATATTTGCCTTTAGCGGAAATTGTCTACAACAACAGTTATCAATTGAACATCAAGATGATTCT
TCTAGTTAAAGGCTTTGGTAAGCATAAAGTCTTAAAATTCTAGGACGAATTTTCTTAAGGGG
Found at i:2099667 original size:54 final size:54
Alignment explanation
Indices: 2099582--2100078 Score: 608
Period size: 54 Copynumber: 9.2 Consensus size: 54
2099572 GTATGTGTAC
* * * *
2099582 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
*
2099636 TATCGGCACTAAGTGTGTAACCCACGAAATTCATAA-AATGTTTATGAACGA-TCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAA-GTTTATGAACGACT-G
* * * * *
2099690 TATCGACACTTAGTGTACAACCCATGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
2099744 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
* * * *
2099798 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
* ** *
2099852 TATCGGCACTAAGTGTGCTACCCACTTAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
* * * * * *
2099906 TATCGCCACTAAGTTTGCAACCCACAAAATTCATAATGAGTTTGTGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
** *
2099960 TATCAACATTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGA-TCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACT-G
* * * * * *
2100014 TATGGGCACTAAGTGTGCAACCCATGAAATTCACAATGAGTTTGTGAATGACCT-
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGA-CTG
*
2100068 TAGCGGCACTA
1 TATCGGCACTA
2100079 TATATGCACC
Statistics
Matches: 383, Mismatches: 51, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.01
54 375 0.98
55 3 0.01
56 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
Found at i:2099771 original size:108 final size:108
Alignment explanation
Indices: 2099582--2100169 Score: 691
Period size: 108 Copynumber: 5.4 Consensus size: 108
2099572 GTATGTGTAC
* * **
2099582 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACTATATCGGCACTA
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
*
2099647 AGTGTGTAACCCACGAAATTCATAA-AATGTTTATGAACGATCG
66 AGTGTGCAACCCACGAAATTCATAATAA-GTTTATGAACGATCG
* * *
2099690 TATCGACACTTAGTGTACAACCCATGAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
2099755 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGA-CTG
66 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATC-G
* *
2099798 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCGTATCGGCACTA
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
* ** *
2099863 AGTGTGCTACCCACTTAATTCATAATAAGTTTATGAACGACCG
66 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCG
* * ** * ** *
2099906 TATCGCCACTAAGTTTGCAACCCACAAAATTCATAATGAGTTTGTGAACGACCGTATCAACATTA
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
2099971 AGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGATCG
66 AGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGATCG
* * * * * * *
2100014 TATGGGCACTAAGTGTGCAACCCATGAAATTCACAATGAGTTTGTGAATGACCTTAGCGGCACTA
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
* * * * * * * * * *
2100079 TA-TATGCACCCCAAGGATTTCAAAATGAGTTTTTGAATGACCG
66 -AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCG
* * * * * *
2100122 TATCGACACTATA-TGTGCACCCCAAGGATTTCAAAATGAGTTTGTGAA
1 TATCGACACTA-AGTGTGCAACCCATGAAATTCATAATGAGTTTATGAA
2100170 TTTCCATATT
Statistics
Matches: 419, Mismatches: 54, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.00
108 413 0.99
109 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (108 bp):
TATCGACACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAACGACCGTATCGGCACTA
AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCG
Found at i:2099856 original size:162 final size:162
Alignment explanation
Indices: 2099582--2100145 Score: 688
Period size: 162 Copynumber: 3.5 Consensus size: 162
2099572 GTATGTGTAC
* * * ** *
2099582 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACTATATCGGCACTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
* * * *
2099647 AGTGTGTAACCCACGAAATTCATAA-AATGTTTATGAACGATCGTATCGACACTTAGTGTACAAC
66 AGTGTGCAACCCACGAAATTCATAATAA-GTTTATGAACGATCGTATCGGCACTAAGTGTGCAAC
2099711 CCATGAAATTCATAATAAGTTTATGAACGACCG
130 CCATGAAATTCATAATAAGTTTATGAACGACCG
*
2099744 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTGTATCGACACTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
* * * *
2099809 AGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCTACC
66 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGGCACTAAGTGTGCAACC
*
2099874 CACT-TAATTCATAATAAGTTTATGAACGACCG
131 CA-TGAAATTCATAATAAGTTTATGAACGACCG
* * * * * * *
2099906 TATCGCCACTAAGTTTGCAACCCACAAAATTCATAATGAGTTTGTGAACGACCGTATCAACATTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
*
2099971 AGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGATCGTATGGGCACTAAGTGTGCAAC
66 AGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGATCGTATCGGCACTAAGTGTGCAAC
* * * * *
2100035 CCATGAAATTCACAATGAGTTTGTGAATGACCT
130 CCATGAAATTCATAATAAGTTTATGAACGACCG
* * * * * * * * * *
2100068 TAGCGGCACTATA-TATGCACCCCAAGGATTTCAAAATGAGTTTTTGAATGACCGTATCGACACT
1 TATCGGCACTA-AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACT
*
2100132 ATA-TGTGCACCCCA
65 A-AGTGTGCAACCCA
2100146 AGGATTTCAA
Statistics
Matches: 349, Mismatches: 47, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
161 2 0.01
162 343 0.98
163 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (162 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGGCACTAAGTGTGCAACC
CATGAAATTCATAATAAGTTTATGAACGACCG
Found at i:2100106 original size:54 final size:54
Alignment explanation
Indices: 2100043--2100170 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
2100033 ACCCATGAAA
* * *
2100043 TTCACAATGAGTTTGTGAATGACCTTAGCGGCACTATATATGCACCCCAAGGAT
1 TTCAAAATGAGTTTGTGAATGACCGTAGCGACACTATATATGCACCCCAAGGAT
* * *
2100097 TTCAAAATGAGTTTTTGAATGACCGTATCGACACTATATGTGCACCCCAAGGAT
1 TTCAAAATGAGTTTGTGAATGACCGTAGCGACACTATATATGCACCCCAAGGAT
2100151 TTCAAAATGAGTTTGTGAAT
1 TTCAAAATGAGTTTGTGAAT
2100171 TTCCATATTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (54 bp):
TTCAAAATGAGTTTGTGAATGACCGTAGCGACACTATATATGCACCCCAAGGAT
Found at i:2102275 original size:54 final size:55
Alignment explanation
Indices: 2102152--2102278 Score: 143
Period size: 54 Copynumber: 2.3 Consensus size: 55
2102142 TCTGGTGGCT
* * *
2102152 TTGGTAAGCCCGATA-TCTATCTTGAGATTCCCTTTCGGACACTTGCACCAATGTA
1 TTGGTAAGCCCGATACTCTATCTT-AGACTCCCTTTCGGAAACTTGCACCAATATA
* * * *
2102207 TTAGTAAGCTCGATACTCTATCTT-GACT-CCTTGTCGGAAACTTGTACCAATATC
1 TTGGTAAGCCCGATACTCTATCTTAGACTCCCTT-TCGGAAACTTGCACCAATATA
*
2102261 TTGGCAAGCCCGATACTC
1 TTGGTAAGCCCGATACTC
2102279 ATTATTTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 35 0.58
55 13 0.22
56 8 0.13
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (55 bp):
TTGGTAAGCCCGATACTCTATCTTAGACTCCCTTTCGGAAACTTGCACCAATATA
Found at i:2118061 original size:55 final size:55
Alignment explanation
Indices: 2117899--2118857 Score: 1514
Period size: 55 Copynumber: 17.5 Consensus size: 55
2117889 TAGAGTTATC
* *
2117899 AATAAGTTTATGAATTTCCGAATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
*
2117954 AATAAGTTTATGAATTTTCGTAT-GGCACTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
** *
2118008 AATAAGTTTATGAATTTTTGTATGGGCACTATGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118063 AATAAGTTTATGAATTTCCGTATGGGAACTGTGTGTGAAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118118 AATAAGTTTATGAATTTCCGTATGGGCATTGTGTGTGCAAAACTAAGAGATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118173 AATAAGTTTATGAATTTCTGTATGGGCACTGTGTGTGCAAAACTAAGAGATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118228 AATAAGTTTATGAATTTTCGTATGGGCATTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
** ** ** *
2118283 AATAAGTTTACAAATTTAAGCCTGGGCATTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
2118338 AATAAGTTTATGAATTTCCG--TGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118391 AATAAGTTTATGAATTTCCGTATGGGCACTATGTGTGCAAAACTAAGAGATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* * *
2118446 AATAAGTTTATGAATTTCTGTATGGGCACTATGTGTGCAAAACTAAGAGATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118501 AATAAGTTTATGAATTTTCGTATGGGCATTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* *
2118556 AATAAGTTTATGAATTTTCGAATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
** **
2118611 AATAAGTTTATGAATTTATGCCTGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
2118666 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
*
2118721 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACCTACGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAA-CTAAGAAATTCAT
* *
2118777 AATAAGTTTATGAATTTCTGTATTGGCACTGTGTGTGC--AACTAAGAAATTCAT
1 AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
* * *
2118830 AATGAGTTTATGAATTTCTGTATTGGCA
1 AATAAGTTTATGAATTTCCGTATGGGCA
2118858 TTAGGTGTGC
Statistics
Matches: 846, Mismatches: 54, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
53 91 0.11
54 54 0.06
55 653 0.77
56 48 0.06
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (55 bp):
AATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCAT
Found at i:2119141 original size:45 final size:45
Alignment explanation
Indices: 2119085--2119171 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
2119075 AGTTAGATGA
* **
2119085 ATAATGGTGCATTACCAGCATGAAAGGATGTTATAAATGAAATGC
1 ATAACGGTGCATTACCAGCATGAAAGGATGCCATAAATGAAATGC
* * *
2119130 ATAACGGTGCATTATCGGCATGAAATGATGCCATAAATGAAA
1 ATAACGGTGCATTACCAGCATGAAAGGATGCCATAAATGAAA
2119172 AGAACGAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (45 bp):
ATAACGGTGCATTACCAGCATGAAAGGATGCCATAAATGAAATGC
Found at i:2123121 original size:117 final size:117
Alignment explanation
Indices: 2122801--2123123 Score: 375
Period size: 117 Copynumber: 2.8 Consensus size: 117
2122791 AAAATAAGTT
** * *
2122801 CTTCTCATTATGTCCTTCTTCTCCCT-TCTTGGATGGGTTCTTCTTATTATGAACTCTTACT--A
1 CTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTTATTATGAACTCTCACTGAA
** * * * * * * *
2122863 TGTGTTGATCCACCTCCATCTATGATGGATTTGAACAAAAGGTCGAACAAGCT
65 AATGTTGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTCAAACAAACG
* * * *
2122916 CTTCTAATTATGAACTTCTTC-CTCATCTTTAGATGAGTTTTTCTTATTATGAACTCTCACTGAA
1 CTTCTCATTATGAACTTCTTCTC-CCTCTTTGGATGAGTTCTTCTTATTATGAACTCTCACTGAA
* * * * *
2122980 AATGTTGATTCTCATTCTTTTGTGATGGAATCGAACAAAAGGTCAAACAAACG
65 AATGTTGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTCAAACAAACG
* * *
2123033 CTTCTCGTTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTCTCATTGAAA
1 CTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTTATTATGAACTCTCACTGAAA
2123098 ATGTTGATCCACCTCCTTCTGTGATG
66 ATGTTGATCCACCTCCTTCTGTGATG
2123124 AATTTAAAAA
Statistics
Matches: 169, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
114 1 0.01
115 49 0.29
116 1 0.01
117 117 0.69
118 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (117 bp):
CTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTTATTATGAACTCTCACTGAAA
ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTCAAACAAACG
Found at i:2125368 original size:19 final size:19
Alignment explanation
Indices: 2125344--2125453 Score: 54
Period size: 19 Copynumber: 5.8 Consensus size: 19
2125334 TTGAACCCTC
2125344 CTTTTTATTTTTCTTCTCT
1 CTTTTTATTTTTCTTCTCT
*
2125363 CTTTTT-TCTTTCTT-TCT
1 CTTTTTATTTTTCTTCTCT
* *
2125380 ATACTTTT-TTTTTCTT-TTT
1 CT--TTTTATTTTTCTTCTCT
*
2125399 CTTTCTA-TTTT-TTCTCT
1 CTTTTTATTTTTCTTCTCT
* *
2125416 CATTTTCTTTCTTTTTTTCTCGT
1 C-TTTT-TAT-TTTTCTTCTC-T
2125439 -TTTTTCATTTTTCTT
1 CTTTTT-ATTTTTCTT
2125454 TATTTTTTCT
Statistics
Matches: 69, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.03
17 14 0.20
18 10 0.14
19 21 0.30
20 7 0.10
21 9 0.13
22 5 0.07
23 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (19 bp):
CTTTTTATTTTTCTTCTCT
Found at i:2125398 original size:10 final size:10
Alignment explanation
Indices: 2125364--2125477 Score: 57
Period size: 10 Copynumber: 10.2 Consensus size: 10
2125354 TTCTTCTCTC
2125364 TTTTTTCTTT
1 TTTTTTCTTT
*
2125374 CTTTCTATACTTT
1 -TTT-T-TTCTTT
2125387 TTTTTTCTTT
1 TTTTTTCTTT
*
2125397 TTCTTTCTATT
1 TTTTTTCT-TT
*
2125408 TTTTCTCTCATT
1 TTTT-T-TCTTT
*
2125420 TTCTTTCTTT
1 TTTTTTCTTT
*
2125430 TTTTCTCGTTTTT
1 TTTT-T--TCTTT
2125443 TCATTTTTCTTT
1 T--TTTTTCTTT
*
2125455 ATTTTTTCTCT
1 -TTTTTTCTTT
*
2125466 CTTTTTCTTT
1 TTTTTTCTTT
2125476 TT
1 TT
2125478 CTTCAAGTGT
Statistics
Matches: 78, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
10 28 0.36
11 19 0.24
12 14 0.18
13 13 0.17
14 1 0.01
15 3 0.04
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2125404 original size:33 final size:33
Alignment explanation
Indices: 2125352--2125431 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
2125342 TCCTTTTTAT
* *
2125352 TTTTCTTCTCTCTTT-TTTCT-TTCTTTCTATACT
1 TTTTCTT-TCTTTTTCTTTCTATTCTTTCTAT-CA
* * *
2125385 TTTTTTTTCTTTTTCTTTCTATTTTTTCTCTCA
1 TTTTCTTTCTTTTTCTTTCTATTCTTTCTATCA
2125418 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
2125432 TTCTCGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 6 0.15
33 25 0.64
34 8 0.21
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTTCTTTCTTTTTCTTTCTATTCTTTCTATCA
Found at i:2125410 original size:23 final size:22
Alignment explanation
Indices: 2125364--2125433 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
2125354 TTCTTCTCTC
2125364 TTTTTTC-TTTCTTTCTATACTTT
1 TTTTTTCTTTTCTTTCTAT--TTT
2125387 TTTTTTCTTTTTCTTTCTATTTT
1 TTTTTTC-TTTTCTTTCTATTTT
* *
2125410 TTCTCTCATTTTCTTTCT-TTTT
1 TTTTTTC-TTTTCTTTCTATTTT
2125432 TT
1 TT
2125434 CTCGTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.14
23 25 0.60
25 11 0.26
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTCTATTTT
Found at i:2125425 original size:52 final size:50
Alignment explanation
Indices: 2125347--2125475 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 50
2125337 AACCCTCCTT
**
2125347 TTTATTTTTCTTCTCTCTTTTTTCTTTCTTTCTATACTTTTTTTTTC-TTTTTC
1 TTTA-TTTT-TTCTCTC-TTTTTCTTTCTTT-TATACTCGTTTTTTCATTTTTC
* * *
2125400 TTTCTATTTTTTCTCTCATTTTCTTTCTTTTTTTCTCGTTTTTTCATTTTTC
1 -TT-TATTTTTTCTCTCTTTTTCTTTCTTTTATACTCGTTTTTTCATTTTTC
2125452 TTTATTTTTTCTCTCTTTTTCTTT
1 TTTATTTTTTCTCTCTTTTTCTTT
2125476 TTCTTCAAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
50 21 0.31
51 13 0.19
52 18 0.27
53 7 0.10
54 6 0.09
55 2 0.03
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (50 bp):
TTTATTTTTTCTCTCTTTTTCTTTCTTTTATACTCGTTTTTTCATTTTTC
Found at i:2125434 original size:22 final size:22
Alignment explanation
Indices: 2125352--2125475 Score: 85
Period size: 21 Copynumber: 5.4 Consensus size: 22
2125342 TCCTTTTTAT
* *
2125352 TTTTCTTCTCTCTTTTTTCTTTC
1 TTTTCTT-TCTATTTTTTCTCTC
* *
2125375 -TTTCTATACT-TTTTTTTTCT-
1 TTTTCT-TTCTATTTTTTCTCTC
2125395 TTTTCTTTCTATTTTTTCTCTC
1 TTTTCTTTCTATTTTTTCTCTC
*
2125417 ATTTTCTTTCT-TTTTTTCTCGTT
1 -TTTTCTTTCTATTTTTTCTC-TC
2125440 TTTTCATTTTTCTTTATTTTTTCTCTC
1 TTTTC---TTTC--TATTTTTTCTCTC
2125467 TTTTTCTTT
1 -TTTTCTTT
2125476 TTCTTCAAGT
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
20 3 0.04
21 22 0.27
22 21 0.26
23 12 0.15
25 7 0.09
27 2 0.02
28 14 0.17
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (22 bp):
TTTTCTTTCTATTTTTTCTCTC
Found at i:2125450 original size:29 final size:27
Alignment explanation
Indices: 2125388--2125480 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 27
2125378 CTATACTTTT
2125388 TTTTTCTTTTTCTTTCTATTTTTTCTCTC
1 TTTTTCTTTTTC-TT-TATTTTTTCTCTC
*
2125417 ATTTTC--TTTC--T-TTTTTTCTCGT-
1 TTTTTCTTTTTCTTTATTTTTTCTC-TC
2125439 TTTTTCATTTTTCTTTATTTTTTCTCTC
1 TTTTTC-TTTTTCTTTATTTTTTCTCTC
2125467 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
2125481 CAAGTGTAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
22 14 0.26
23 2 0.04
25 4 0.07
27 14 0.26
28 15 0.28
29 5 0.09
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTTTCTTTTTCTTTATTTTTTCTCTC
Found at i:2127333 original size:18 final size:18
Alignment explanation
Indices: 2127306--2127349 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
2127296 GCTAGAATCA
*
2127306 TCACATTCTACCTCATTT
1 TCACACTCTACCTCATTT
2127324 TCACACTCTACCTCATTT
1 TCACACTCTACCTCATTT
2127342 TCACACTC
1 TCACACTC
2127350 ATTGACTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.39
Consensus pattern (18 bp):
TCACACTCTACCTCATTT
Found at i:2129289 original size:30 final size:30
Alignment explanation
Indices: 2129253--2129310 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
2129243 TGTTAATTCC
*
2129253 AAAAGTGACCACTAGATAATAATCTTCATT
1 AAAAGTGACCACTAGAGAATAATCTTCATT
2129283 AAAAGTGACCACTAGAGAATAATCTTCA
1 AAAAGTGACCACTAGAGAATAATCTTCA
2129311 ATAGAAAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (30 bp):
AAAAGTGACCACTAGAGAATAATCTTCATT
Found at i:2131362 original size:28 final size:28
Alignment explanation
Indices: 2131330--2131385 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2131320 GAGACCAAGT
*
2131330 CCTTAATATGAATTAAATGTATTGTCTC
1 CCTTAATATGAATTAAATGAATTGTCTC
*
2131358 CCTTAATATGAATTAATTGAATTGTCTC
1 CCTTAATATGAATTAAATGAATTGTCTC
2131386 GATAAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (28 bp):
CCTTAATATGAATTAAATGAATTGTCTC
Found at i:2132955 original size:31 final size:31
Alignment explanation
Indices: 2132917--2132981 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
2132907 GATCTCAAAG
*
2132917 GTGGAAGGTTACCTTCTTTGACTCCGGTGAA
1 GTGGAAGGTTACCTTCTTCGACTCCGGTGAA
2132948 GTGGAAGGTTACCTTCTTCGACTCCGGTGAA
1 GTGGAAGGTTACCTTCTTCGACTCCGGTGAA
2132979 GTG
1 GTG
2132982 AACGGATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (31 bp):
GTGGAAGGTTACCTTCTTCGACTCCGGTGAA
Found at i:2134707 original size:13 final size:14
Alignment explanation
Indices: 2134689--2134723 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
2134679 TAAGATTTTC
2134689 TTTGAAAATC-ATT
1 TTTGAAAATCAATT
2134702 TTTG-AAATCAATT
1 TTTGAAAATCAATT
2134715 TTTGAAAAT
1 TTTGAAAAT
2134724 TAACCCCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (14 bp):
TTTGAAAATCAATT
Found at i:2136594 original size:21 final size:19
Alignment explanation
Indices: 2136547--2136596 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2136537 TATGTAGTTT
*
2136547 TCAAAACAACATAATTAAA
1 TCAAAACAACAAAATTAAA
*
2136566 TCAAAAACATCAAATATTAAAA
1 TC-AAAACAACAAA-ATT-AAA
2136588 TCAAAACAA
1 TCAAAACAA
2136597 TTTTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 9 0.36
21 9 0.36
22 5 0.20
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (19 bp):
TCAAAACAACAAAATTAAA
Found at i:2142972 original size:18 final size:18
Alignment explanation
Indices: 2142949--2142989 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2142939 ATTAGGAGTT
2142949 CATCGATGCATGGTTGTG
1 CATCGATGCATGGTTGTG
2142967 CATCGATGCATGGTTGTG
1 CATCGATGCATGGTTGTG
2142985 CATCG
1 CATCG
2142990 GTACACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.20, G:0.32, T:0.32
Consensus pattern (18 bp):
CATCGATGCATGGTTGTG
Found at i:2148480 original size:83 final size:83
Alignment explanation
Indices: 2148268--2148590 Score: 321
Period size: 83 Copynumber: 3.9 Consensus size: 83
2148258 AATAAACTCC
* * ** * *
2148268 ACGATAGAGTAGTACTTTAGCAACGTTTTTATACAAATGTTGTAATAAGGTTCGTTTATAGTGCC
1 ACGATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGTAATAGGGTTCGTTTATAGTGGC
* *
2148333 GTTTTTCCAA-TAA-ATGT
66 ATTTTTCCAACAAACAT-T
* * * *
2148350 -CGTAATAAAG-AGTACTTTAGCGGCATTTTTATACAAATGCCATAATAGGGTTCATTTATAGTG
1 ACG--ATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGTAATAGGGTTCGTTTATAGTG
*
2148413 GCGTTTTTCCAACAAACATT
64 GCATTTTTCCAACAAACATT
* * * * * * *
2148433 ACGACAAAGTAGTACTTTAGCAGCGTTTATATACAAACGCTGTAATAGGATTCGTTAATAGTGTC
1 ACGATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGTAATAGGGTTCGTTTATAGTGGC
**
2148498 ATTTTTCCAACAAACGCT
66 ATTTTTCCAACAAACATT
** * * * * * *
2148516 ATAATAAAGTAGTAATTTAGCGGCGTTTGTATAAAAATGCCGTAATAGGGTTTGTTCATAGTGGC
1 ACGATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGTAATAGGGTTCGTTTATAGTGGC
2148581 ATTTTTCCAA
66 ATTTTTCCAA
2148591 AAAAACACAA
Statistics
Matches: 197, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
81 2 0.01
82 61 0.31
83 130 0.66
84 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (83 bp):
ACGATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGTAATAGGGTTCGTTTATAGTGGC
ATTTTTCCAACAAACATT
Found at i:2148756 original size:16 final size:17
Alignment explanation
Indices: 2148725--2148757 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2148715 CCCTTTATCC
*
2148725 CTTTTCCATCGTTTCTT
1 CTTTTACATCGTTTCTT
2148742 CTTTTACAT-GTTTCTT
1 CTTTTACATCGTTTCTT
2148758 TTCGCCGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.24, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTTACATCGTTTCTT
Found at i:2153109 original size:90 final size:89
Alignment explanation
Indices: 2152954--2153119 Score: 278
Period size: 90 Copynumber: 1.9 Consensus size: 89
2152944 CCTAACACAC
* *
2152954 CCTTTTATAGCCAAGTTACCCTAGTAATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATAATATCAGGGTTTTATTATTTCAAATTAATTAAATCTATA
2153019 TTTAATTAATTAGAATTTTATAAT
66 TTTAATTAATTAGAATTTTATAAT
* * *
2153043 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATCAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
2153108 ATTTAATTAATT
65 ATTTAATTAATT
2153120 GAAATTAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATAATATCAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAGAATTTTATAAT
Done.