Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:1851045 original size:20 final size:20
Alignment explanation
Indices: 1851020--1851114 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 20
1851010 AATGCAATTA
*
1851020 GTGCATCGATGCATC-CTTCT
1 GTGCATCGATGCATCACGT-T
* *
1851040 GTGCATTGATGCATCAAGGTT
1 GTGCATCGATGCATC-ACGTT
* *
1851061 GTACATCGATGCATCAAGGTT
1 GTGCATCGATGCATC-ACGTT
*
1851082 GTGCATCGATGCATC-CTGCT
1 GTGCATCGATGCATCAC-GTT
*
1851102 ATGCATCGATGCA
1 GTGCATCGATGCA
1851115 CGAAGGCTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
20 28 0.44
21 34 0.54
22 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCACGTT
Found at i:1851073 original size:21 final size:21
Alignment explanation
Indices: 1851047--1851096 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1851037 TCTGTGCATT
1851047 GATGCATCAAGGTTGTACATC
1 GATGCATCAAGGTTGTACATC
*
1851068 GATGCATCAAGGTTGTGCATC
1 GATGCATCAAGGTTGTACATC
1851089 GATGCATC
1 GATGCATC
1851097 CTGCTATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (21 bp):
GATGCATCAAGGTTGTACATC
Found at i:1851228 original size:20 final size:20
Alignment explanation
Indices: 1851195--1851254 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1851185 TTTGAGTAGA
*
1851195 AAAATCATCCCCAATGGCTTC
1 AAAA-CATCCCCAATGGCTCC
* *
1851216 AAAACATCGCCAAATAGCTCC
1 AAAACATC-CCCAATGGCTCC
*
1851237 AAAACATCCCCAACGGCT
1 AAAACATCCCCAATGGCT
1851255 ATATACAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (20 bp):
AAAACATCCCCAATGGCTCC
Found at i:1852417 original size:19 final size:20
Alignment explanation
Indices: 1852393--1852440 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1852383 AATGATTTTC
*
1852393 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1852412 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1852432 TTTTGAAAA
1 TTTTGAAAA
1852441 AGGATTTAGA
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:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1853745 original size:31 final size:29
Alignment explanation
Indices: 1853702--1853761 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
1853692 CAATTTAAGG
*
1853702 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTT-GACTT-AATTAAATTTA
*
1853733 CAAAATGTTTTTTGACTTAATTAAATTTA
1 CAAAATGGTTTTTGACTTAATTAAATTTA
1853762 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 5 0.19
31 12 0.44
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (29 bp):
CAAAATGGTTTTTGACTTAATTAAATTTA
Found at i:1853772 original size:29 final size:30
Alignment explanation
Indices: 1853702--1853761 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1853692 CAATTTAAGG
*
1853702 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTAAATTTA
*
1853733 CAAAATGTTTTTTGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
1853762 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:1853994 original size:21 final size:21
Alignment explanation
Indices: 1853939--1854013 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
1853929 AATGCAATTA
*
1853939 GTGCATCGATGCAGCAAGGA-T
1 GTGCATCGATGCATCAA-GACT
1853960 GTGCATCGATGCATCAAGACT
1 GTGCATCGATGCATCAAGACT
**
1853981 GTGCATCGATGCATCCTG-CT
1 GTGCATCGATGCATCAAGACT
*
1854001 GTGCATCCATGCA
1 GTGCATCGATGCA
1854014 CGAAGGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGACT
Found at i:1854773 original size:21 final size:22
Alignment explanation
Indices: 1854741--1854781 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1854731 AATAATACAA
1854741 AACCACATCCCA-TTTACAAAG
1 AACCACATCCCAGTTTACAAAG
1854762 AACC-CATGCCCAGTTTACAA
1 AACCACAT-CCCAGTTTACAA
1854782 GCCCAACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 8 0.44
22 7 0.39
ACGTcount: A:0.39, C:0.34, G:0.07, T:0.20
Consensus pattern (22 bp):
AACCACATCCCAGTTTACAAAG
Found at i:1856045 original size:15 final size:15
Alignment explanation
Indices: 1856021--1856052 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1856011 ATTTAATTAT
1856021 TTATTCATGTTTTTA
1 TTATTCATGTTTTTA
*
1856036 TTATTTATGTTTTTA
1 TTATTCATGTTTTTA
1856051 TT
1 TT
1856053 CACCAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATTCATGTTTTTA
Found at i:1857064 original size:26 final size:26
Alignment explanation
Indices: 1857012--1857080 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
1857002 TTTCAAATTT
*
1857012 TTTATATATACTTATTATTTTCCTAATA
1 TTTATATATA-TTATT-TTTTACTAATA
* *
1857040 TTTATATATATTATTTTTTATTAATG
1 TTTATATATATTATTTTTTACTAATA
*
1857066 TTT-T-TATTTTATTTT
1 TTTATATATATTATTTT
1857081 CAAGTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.27
25 1 0.03
26 11 0.30
27 5 0.14
28 10 0.27
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTATATATATTATTTTTTACTAATA
Found at i:1857072 original size:28 final size:28
Alignment explanation
Indices: 1857010--1857069 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
1857000 CTTTTCAAAT
*
1857010 TTTTTATATATACTTATTATTTTCCTAA
1 TTTTTATATATACTTATTATTTTACTAA
* *
1857038 TATTTATATATA-TTATT-TTTTATTAA
1 TTTTTATATATACTTATTATTTTACTAA
1857064 TGTTTT
1 T-TTTT
1857070 TATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 8 0.30
27 8 0.30
28 11 0.41
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTATATATACTTATTATTTTACTAA
Found at i:1862388 original size:11 final size:11
Alignment explanation
Indices: 1862374--1862415 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
1862364 AAAAAGGAAA
1862374 AAAGGAAAAAG
1 AAAGGAAAAAG
1862385 AAAGGAAAAAG
1 AAAGGAAAAAG
1862396 AAAGGAAAAA-
1 AAAGGAAAAAG
1862406 AAAGGAAAAA
1 AAAGGAAAAA
1862416 TTGAACCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGGAAAAAG
Found at i:1862393 original size:10 final size:9
Alignment explanation
Indices: 1862361--1862415 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 9
1862351 TATACTTGAA
1862361 GAAAAAAAG
1 GAAAAAAAG
1862370 G-AAAAAAG
1 GAAAAAAAG
1862378 GAAAAAGAAAG
1 G-AAAA-AAAG
1862389 GAAAAAGAAAG
1 G-AAAA-AAAG
1862400 GAAAAAAAAG
1 G-AAAAAAAG
1862410 GAAAAA
1 GAAAAA
1862416 TTGAACCAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.19
9 6 0.14
10 8 0.19
11 21 0.49
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:1862402 original size:22 final size:21
Alignment explanation
Indices: 1862362--1862415 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1862352 ATACTTGAAG
1862362 AAAAAAAGG--AAA-AAAGGA
1 AAAAAAAGGAAAAAGAAAGGA
1862380 AAAAGAAAGGAAAAAGAAAGGA
1 AAAA-AAAGGAAAAAGAAAGGA
1862402 AAAAAAAGGAAAAA
1 AAAAAAAGGAAAAA
1862416 TTGAACCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.12
19 5 0.16
21 13 0.41
22 10 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAAAAGGAAAAAGAAAGGA
Found at i:1862904 original size:32 final size:32
Alignment explanation
Indices: 1862868--1862933 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
1862858 AGAGTCTGGA
1862868 AACGAGAAGTATCTCTA-CAAGATAAGCATAAC
1 AACGAGAAGTATCTCTATC-AGATAAGCATAAC
*
1862900 AACGAGAAGTATCTCTATCAGATAAGTATAAC
1 AACGAGAAGTATCTCTATCAGATAAGCATAAC
1862932 AA
1 AA
1862934 TATTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (32 bp):
AACGAGAAGTATCTCTATCAGATAAGCATAAC
Found at i:1869990 original size:95 final size:95
Alignment explanation
Indices: 1869827--1870016 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
1869817 CATATCAATT
1869827 TTTCCAGAACAATTTCCTTCAGCTGGGATCTGATAAAGGGTTGCTGGAAGACTTAAAGGCCGAAG
1 TTTCCAGAACAATTTCCTTCAGCTGGGATCTGATAAAGGGTTGCTGGAAGACTTAAAGGCCGAAG
1869892 AGCCTAATAATTTCTCATCCGAGGAACAAC
66 AGCCTAATAATTTCTCATCCGAGGAACAAC
1869922 TTTCCAGAACAATTTCCTTCAGCTGGGATCTGATAAAGGGTTGCTGGAAGACTTAAAGGCCGAAG
1 TTTCCAGAACAATTTCCTTCAGCTGGGATCTGATAAAGGGTTGCTGGAAGACTTAAAGGCCGAAG
1869987 AGCCTAATAATTTCTCATCCGAGGAACAAC
66 AGCCTAATAATTTCTCATCCGAGGAACAAC
1870017 AAGCTAGCTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (95 bp):
TTTCCAGAACAATTTCCTTCAGCTGGGATCTGATAAAGGGTTGCTGGAAGACTTAAAGGCCGAAG
AGCCTAATAATTTCTCATCCGAGGAACAAC
Found at i:1874567 original size:18 final size:18
Alignment explanation
Indices: 1874545--1874585 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1874535 GCCTGCTAAA
* *
1874545 CCTGAAGAGCCTGCTGAC
1 CCTGAAGAGACTGATGAC
*
1874563 GCTGAAGAGACTGATGAC
1 CCTGAAGAGACTGATGAC
1874581 CCTGA
1 CCTGA
1874586 CCTCGTCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (18 bp):
CCTGAAGAGACTGATGAC
Found at i:1877817 original size:50 final size:51
Alignment explanation
Indices: 1877733--1877847 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 51
1877723 TAACTTAGTC
* *
1877733 ATATTAATCTTATAAATATCTAGATTATTTTATGGATAGTTTTAGACATA-
1 ATATTAATATTATAAATATCTAGAATATTTTATGGATAGTTTTAGACATAT
* *
1877783 ATATTAAATATTATAAATAATCTA-AATA-TTTATGGATATTTTTATACATAT
1 ATATT-AATATTATAAAT-ATCTAGAATATTTTATGGATAGTTTTAGACATAT
1877834 ACTATTAATATTAT
1 A-TATTAATATTAT
1877848 TTTAATAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
50 25 0.44
51 23 0.40
52 9 0.16
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (51 bp):
ATATTAATATTATAAATATCTAGAATATTTTATGGATAGTTTTAGACATAT
Found at i:1877880 original size:29 final size:28
Alignment explanation
Indices: 1877830--1877888 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
1877820 ATTTTTATAC
1877830 ATATACTATTAATATTATTTTAATAATAA
1 ATATACTATTAATATTATTTTAATAA-AA
*
1877859 ATAT-CTATGTAATTATTA-TTTATTAAAA
1 ATATACTAT-TAA-TATTATTTTAATAAAA
1877887 AT
1 AT
1877889 TATATAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (28 bp):
ATATACTATTAATATTATTTTAATAAAA
Found at i:1878919 original size:40 final size:40
Alignment explanation
Indices: 1878864--1878943 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
1878854 TAACAAAACC
*
1878864 GGTAAAAATAATAATGTTTCCGTTAATTTTTTACTGGTTT
1 GGTAAAAATAATAATGTTTCCGTTAAATTTTTACTGGTTT
1878904 GGTAAAAATAATAATGTTTCCGTTAAATTTTTACTGGTTT
1 GGTAAAAATAATAATGTTTCCGTTAAATTTTTACTGGTTT
1878944 TGTTATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (40 bp):
GGTAAAAATAATAATGTTTCCGTTAAATTTTTACTGGTTT
Found at i:1879552 original size:53 final size:53
Alignment explanation
Indices: 1879472--1879598 Score: 245
Period size: 53 Copynumber: 2.4 Consensus size: 53
1879462 GTTCATTACT
1879472 TTTTGATATAGTTGTGATACTTCAAAGTGGTATTCCCAATGGTTTTGATATAG
1 TTTTGATATAGTTGTGATACTTCAAAGTGGTATTCCCAATGGTTTTGATATAG
*
1879525 TTTTGTTATAGTTGTGATACTTCAAAGTGGTATTCCCAATGGTTTTGATATAG
1 TTTTGATATAGTTGTGATACTTCAAAGTGGTATTCCCAATGGTTTTGATATAG
1879578 TTTTGATATAGTTGTGATACT
1 TTTTGATATAGTTGTGATACT
1879599 AGTAGAAATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 72 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (53 bp):
TTTTGATATAGTTGTGATACTTCAAAGTGGTATTCCCAATGGTTTTGATATAG
Found at i:1879582 original size:11 final size:11
Alignment explanation
Indices: 1879566--1879601 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1879556 ATTCCCAATG
1879566 GTTTTGATATA
1 GTTTTGATATA
1879577 GTTTTGATATA
1 GTTTTGATATA
*
1879588 GTTGTGATACTA
1 GTTTTGATA-TA
1879600 GT
1 GT
1879602 AGAAATGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.50
Consensus pattern (11 bp):
GTTTTGATATA
Found at i:1879749 original size:11 final size:11
Alignment explanation
Indices: 1879708--1879758 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 11
1879698 ATTTTGGAAA
1879708 AAAATAATTTTT
1 AAAAT-ATTTTT
1879720 AAAATTTTATTTGTT
1 AAAA---TATTT-TT
1879735 AAAATATTTTT
1 AAAATATTTTT
1879746 AAAATATTTTT
1 AAAATATTTTT
1879757 AA
1 AA
1879759 TAAGGTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 15 0.43
12 9 0.26
14 4 0.11
15 7 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:1881059 original size:14 final size:14
Alignment explanation
Indices: 1881040--1881066 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1881030 CAATGTGGAA
1881040 TTTATCAAATTATT
1 TTTATCAAATTATT
1881054 TTTATCAAATTAT
1 TTTATCAAATTAT
1881067 ATAGCTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTATCAAATTATT
Found at i:1882327 original size:6 final size:6
Alignment explanation
Indices: 1882318--1882376 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
1882308 ATTATAAATT
* * *
1882318 ATAATA ATAATC ATAATA ATAATA ATAACA ATAATA ACAATA ATAATTA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAA-TA
1882367 A-AATA A-AATA
1 ATAATA ATAATA
1882377 GAAAAGACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
5 7 0.15
6 36 0.78
7 3 0.07
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (6 bp):
ATAATA
Found at i:1882335 original size:9 final size:10
Alignment explanation
Indices: 1882320--1882364 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
1882310 TATAAATTAT
1882320 AATAATAATC
1 AATAATAATC
1882330 -ATAATAAT-
1 AATAATAATC
1882338 AATAATAA-C
1 AATAATAATC
1882347 AATAATAA-C
1 AATAATAATC
1882356 AATAATAAT
1 AATAATAAT
1882365 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAATAATC
Found at i:1882908 original size:28 final size:27
Alignment explanation
Indices: 1882829--1882936 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 27
1882819 AGGGATTATG
* *
1882829 GTTTCAAGAGAAACTGACTCAAAGATTT
1 GTTTCAA-AAAAACAGACTCAAAGATTT
*
1882857 GTTTCAAAAAAA-TGACTCAAAGATTT
1 GTTTCAAAAAAACAGACTCAAAGATTT
**
1882883 AATTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAA-AAACAGACTCAAAGATTT
* *
1882911 GTTTCAAGAAAAACAAAATCAAAGAT
1 GTTTCAA-AAAAACAGACTCAAAGAT
1882937 GATGTGTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.30
27 7 0.10
28 39 0.57
29 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (27 bp):
GTTTCAAAAAAACAGACTCAAAGATTT
Found at i:1883584 original size:36 final size:38
Alignment explanation
Indices: 1883518--1883605 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 38
1883508 CCACAAATTT
*
1883518 AAATTTGTATCTTAGAGAAAAAATGTCTCAAGCAAGAC-G
1 AAATTTGT-T-TTAGAGAAAAAATGTCTCAAGCAAGACAA
* * **
1883557 AAATTTGTTTT-GAGAGAAATTGTCTCAAGTGAGACAA
1 AAATTTGTTTTAGAGAAAAAATGTCTCAAGCAAGACAA
1883594 AAATTTGTTTTA
1 AAATTTGTTTTA
1883606 AAATTCTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
36 20 0.48
37 13 0.31
38 1 0.02
39 8 0.19
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (38 bp):
AAATTTGTTTTAGAGAAAAAATGTCTCAAGCAAGACAA
Found at i:1887133 original size:70 final size:71
Alignment explanation
Indices: 1887018--1887151 Score: 189
Period size: 70 Copynumber: 1.9 Consensus size: 71
1887008 ACATGCATTC
* * *
1887018 GTTTAGGTGTTGAGTCTGAAGTGGATCACAGTTTCATCTCGGATCTT-GTCCTCGAAAATGATGA
1 GTTTAAGTGTTGAGTATGAAGTGGATCACAGTTTCATCTCAGATCTTCGTCCTCGAAAATGATGA
1887082 AGCCTT
66 AGCCTT
** ** *
1887088 GTTTAAGTGTTGAGTATGAAGTGGATCATTGTTTTGTCTCAGATCTTCGTCCTTGAAAATGATG
1 GTTTAAGTGTTGAGTATGAAGTGGATCACAGTTTCATCTCAGATCTTCGTCCTCGAAAATGATG
1887152 CACCTCAAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
70 40 0.73
71 15 0.27
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.37
Consensus pattern (71 bp):
GTTTAAGTGTTGAGTATGAAGTGGATCACAGTTTCATCTCAGATCTTCGTCCTCGAAAATGATGA
AGCCTT
Found at i:1889384 original size:49 final size:50
Alignment explanation
Indices: 1889317--1889415 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 50
1889307 AAATAGAACC
1889317 TAAAGGACCAAAATTGCAAAAAGCATAAACTTAAGGACTAAAACAAATAA
1 TAAAGGACCAAAATTGCAAAAAGCATAAACTTAAGGACTAAAACAAATAA
1889367 TAAAGGA-CAAAATTGCAAAAAGCATAAACTTAAGGACTAAAACAAATAA
1 TAAAGGACCAAAATTGCAAAAAGCATAAACTTAAGGACTAAAACAAATAA
1889416 AATAGAAACC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 42 0.86
50 7 0.14
ACGTcount: A:0.59, C:0.13, G:0.12, T:0.16
Consensus pattern (50 bp):
TAAAGGACCAAAATTGCAAAAAGCATAAACTTAAGGACTAAAACAAATAA
Found at i:1890909 original size:10 final size:9
Alignment explanation
Indices: 1890896--1890920 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1890886 CTCTTTTTCC
1890896 TTTTTTTAA
1 TTTTTTTAA
1890905 TTTTTTTAA
1 TTTTTTTAA
1890914 TTTTTTT
1 TTTTTTT
1890921 CTCTCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:1891412 original size:6 final size:6
Alignment explanation
Indices: 1891402--1891464 Score: 76
Period size: 6 Copynumber: 10.7 Consensus size: 6
1891392 AATTATAAAA
* * *
1891402 AATAAT TATAAT AATAAT CATAAT AATAAT AATAAT AATAAT AACAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1891450 AATTAA- AATAA- AATA
1 AA-TAAT AATAAT AATA
1891465 TAAAAGACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
5 7 0.14
6 41 0.82
7 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
AATAAT
Found at i:1891416 original size:9 final size:9
Alignment explanation
Indices: 1891402--1891464 Score: 76
Period size: 9 Copynumber: 7.1 Consensus size: 9
1891392 AATTATAAAA
*
1891402 AATAATTAT
1 AATAATAAT
1891411 AATAATAAT
1 AATAATAAT
*
1891420 CATAATAAT
1 AATAATAAT
1891429 AATAATAAT
1 AATAATAAT
*
1891438 AATAATAAC
1 AATAATAAT
1891447 AATAATTAA-
1 AATAA-TAAT
1891456 AATAA-AAT
1 AATAATAAT
1891464 A
1 A
1891465 TAAAAGACCC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 42 0.88
10 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATAAT
Found at i:1891469 original size:12 final size:14
Alignment explanation
Indices: 1891396--1891464 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
1891386 AATGTAAATT
*
1891396 ATAA-AAAATAATT
1 ATAATAAAATAATA
*
1891409 ATAATAATAATCATA
1 ATAATAA-AATAATA
1891424 ATAATAATAATAATA
1 ATAATAA-AATAATA
1891439 ATAATAACAATAATTA
1 ATAATAA-AATAA-TA
1891455 A-AATAAAATA
1 ATAATAAAATA
1891465 TAAAAGACCC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 36 0.73
16 3 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAAAATAATA
Found at i:1897401 original size:2 final size:2
Alignment explanation
Indices: 1897394--1897456 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
1897384 CTAAAGCGTG
1897394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1897436 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1897457 CTAGAGACAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1897663 original size:60 final size:58
Alignment explanation
Indices: 1897523--1897692 Score: 157
Period size: 60 Copynumber: 2.9 Consensus size: 58
1897513 TATGATCCTT
* * * *
1897523 ATTCTAAATTAGTCTCTAAA-TATTTAAGCATTT-AATTTTATCCTTAAATTATAACTTTC
1 ATTCTAAATTAGTCACTAAACT-TTTAA-CATTTCAATTTCATCC-TAAACTACAACTTTC
* * *
1897582 ATTCTAAATTAGT-ATTCAAACTTTTGAATATTTCAATTTCATCTCTAAACTACAATTTTC
1 ATTCTAAATTAGTCACT-AAACTTTT-AACATTTCAATTTCATC-CTAAACTACAACTTTC
* * * *
1897642 ATTCTAAATTAGTCCCTAAACTTGTAAACATTTCAATTCCATCCAAAACTA
1 ATTCTAAATTAGTCACTAAACTT-TTAACATTTCAATTTCATCCTAAACTA
1897693 ATGTATATAC
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
58 1 0.01
59 30 0.33
60 57 0.63
61 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (58 bp):
ATTCTAAATTAGTCACTAAACTTTTAACATTTCAATTTCATCCTAAACTACAACTTTC
Found at i:1897899 original size:60 final size:60
Alignment explanation
Indices: 1897811--1897979 Score: 155
Period size: 60 Copynumber: 2.8 Consensus size: 60
1897801 ATTTGAATGG
* * * * *
1897811 ATTTGGGGATTAAATTAGAAGATACAAAAGTTTAGGGGA-TAATTTAAAATGATGGTCATA
1 ATTTGGGGATAAAATTTGAATATACAAAAGTTTA-AGGATTAATTTAAAATGATAGTCATA
* * * * *
1897871 GTTTGGGGATGAAATTTGAATACT-CAAAATTTTAAGGATTAATTTAGAATGATAGTTATA
1 ATTTGGGGATAAAATTTGAATA-TACAAAAGTTTAAGGATTAATTTAAAATGATAGTCATA
* * * * *
1897931 ATTTGAGGATAAAATTTAAATATTA-AAAAATTTAAAGATCAATTTAAAA
1 ATTTGGGGATAAAATTTGAATA-TACAAAAGTTTAAGGATTAATTTAAAA
1897980 AAGGATCATA
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
59 3 0.03
60 84 0.95
61 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (60 bp):
ATTTGGGGATAAAATTTGAATATACAAAAGTTTAAGGATTAATTTAAAATGATAGTCATA
Found at i:1898278 original size:22 final size:23
Alignment explanation
Indices: 1898243--1898302 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1898233 TGTCATAATC
1898243 ATTT-TTT-AGAAAAATAATTAA
1 ATTTATTTAAGAAAAATAATTAA
1898264 ATATTATTTAA-AAAAATAATTAA
1 AT-TTATTTAAGAAAAATAATTAA
* *
1898287 CTTTATTT-TGAAAAAT
1 ATTTATTTAAGAAAAAT
1898303 TGACGATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 14 0.42
23 16 0.48
24 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
ATTTATTTAAGAAAAATAATTAA
Found at i:1898301 original size:23 final size:23
Alignment explanation
Indices: 1898247--1898294 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1898237 ATAATCATTT
*
1898247 TTTAGAAAAATAATTAAATATTA
1 TTTAAAAAAATAATTAAATATTA
*
1898270 TTTAAAAAAATAATTAACT-TTA
1 TTTAAAAAAATAATTAAATATTA
1898292 TTT
1 TTT
1898295 TGAAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAAAAAAATAATTAAATATTA
Found at i:1899646 original size:29 final size:29
Alignment explanation
Indices: 1899612--1899684 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
1899602 AATAATAAAC
*
1899612 AAATAAATA-ATAGTGGTT-ATAGTGCAATA
1 AAATAAA-AGATAGTAGTTAATA-TGCAATA
*
1899641 AAATAAAAGTTAGTAGTTAATATGCAATA
1 AAATAAAAGATAGTAGTTAATATGCAATA
*
1899670 AAATAAAAGTTAGTA
1 AAATAAAAGATAGTA
1899685 AAATCTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 1 0.03
29 36 0.90
30 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (29 bp):
AAATAAAAGATAGTAGTTAATATGCAATA
Found at i:1901730 original size:24 final size:22
Alignment explanation
Indices: 1901677--1901732 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
1901667 ATGTGAAATA
*
1901677 TGTCCCGAAGGACCTATACATT
1 TGTCCCGAAGGACCTATACATG
*
1901699 TGTCCCGAAGGACCACTATCCATG
1 TGTCCCGAAGGA-C-CTATACATG
*
1901723 TGTTCCGAAG
1 TGTCCCGAAG
1901733 AACATAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.41
23 1 0.03
24 16 0.55
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATACATG
Found at i:1901794 original size:32 final size:32
Alignment explanation
Indices: 1901736--1901835 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
1901726 TCCGAAGAAC
1901736 ATAGGTAA--CTGTCCATA--TCTCGAAGGAG
1 ATAGGTAATCCTGTCCATATGTCTCGAAGGAG
1901764 ATAGGTAATCCTGTCCATATGTCTCGAAGGAG
1 ATAGGTAATCCTGTCCATATGTCTCGAAGGAG
*
1901796 ATAGGTAATCCTGTCCATATGTCCCGAAGGACG
1 ATAGGTAATCCTGTCCATATGTCTCGAAGGA-G
1901829 -TAGGTAA
1 ATAGGTAA
1901836 CCCTCGACTC
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
28 8 0.12
30 9 0.14
32 48 0.73
33 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (32 bp):
ATAGGTAATCCTGTCCATATGTCTCGAAGGAG
Found at i:1902275 original size:16 final size:17
Alignment explanation
Indices: 1902254--1902288 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1902244 TCATAATCAC
1902254 TTATCTC-ATGTTCATA
1 TTATCTCTATGTTCATA
1902270 TTATCTCTTATGTTCATA
1 TTATCTC-TATGTTCATA
1902288 T
1 T
1902289 CATAGATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATCTCTATGTTCATA
Found at i:1902710 original size:20 final size:20
Alignment explanation
Indices: 1902685--1902729 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1902675 CTTTATATGT
*
1902685 GTATCGATACACACTATTGG
1 GTATCGATACACACTATAGG
*
1902705 GTATCGGTACACACTATAGG
1 GTATCGATACACACTATAGG
1902725 GTATC
1 GTATC
1902730 AGTACATCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (20 bp):
GTATCGATACACACTATAGG
Found at i:1902734 original size:20 final size:20
Alignment explanation
Indices: 1902692--1902735 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1902682 TGTGTATCGA
* *
1902692 TACACACTATTGGGTATCGG
1 TACACACTATAGGGTATCAG
1902712 TACACACTATAGGGTATCAG
1 TACACACTATAGGGTATCAG
1902732 TACA
1 TACA
1902736 TCCCTTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TACACACTATAGGGTATCAG
Found at i:1906913 original size:16 final size:17
Alignment explanation
Indices: 1906892--1906926 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1906882 TCATAATCAC
1906892 TTATCTC-ATGTTCATA
1 TTATCTCTATGTTCATA
1906908 TTATCTCTTATGTTCATA
1 TTATCTC-TATGTTCATA
1906926 T
1 T
1906927 CATAGATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATCTCTATGTTCATA
Found at i:1910299 original size:24 final size:24
Alignment explanation
Indices: 1910246--1910305 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
1910236 ATGTGAAATA
* *
1910246 TGTCCCGAAGG-AC-CTATGCATT
1 TGTCCCGAAGGAACACTATCCATG
1910268 TGTCCCGAAGGAACACTATCCATG
1 TGTCCCGAAGGAACACTATCCATG
*
1910292 TGTTCCGAA-GAACA
1 TGTCCCGAAGGAACA
1910306 TAGGTAACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.33
23 7 0.21
24 15 0.45
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (24 bp):
TGTCCCGAAGGAACACTATCCATG
Found at i:1910354 original size:32 final size:30
Alignment explanation
Indices: 1910286--1910375 Score: 117
Period size: 32 Copynumber: 2.9 Consensus size: 30
1910276 AGGAACACTA
* *
1910286 TCCATGTGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGAACATAGGTAACTG
*
1910316 TCCATATGTCCCGAAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGAACATAGGTAA--CTG
* *
1910348 TCCATATGTCCTGAAGAACGTAGGTAAC
1 TCCATATGTCCCGAAGAACATAGGTAAC
1910376 CCTCGACTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.48
32 27 0.52
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAGAACATAGGTAACTG
Found at i:1912434 original size:139 final size:139
Alignment explanation
Indices: 1912024--1912471 Score: 488
Period size: 139 Copynumber: 3.2 Consensus size: 139
1912014 GGATGTTACA
* * * * *
1912024 CTACTCCTACCCGTTGAGGAGATCTGGTCGGTGAACAACATTATTTTTACGTGATGAGGATGTCT
1 CTACTCCTACACGTTGAGGAGATCTGGTCGGTGGACGACATTATTTCTACGTGATGAGGACGTCT
* * * * * *
1912089 AGTCATCTTTAGGGATACTTTGGAGATAACACGGTTCCTACGTGACGAGGAAGTCTGATTACCTG
66 AGCCATCTTTAGGGATATTTTGGAGACAACACGGTTCCTAAGTGATGAGGAAGTCTGATTGCCTG
*
1912154 AGGATGATG
131 AGGACGATG
** * * * * * * *
1912163 CTACTCCTACGTGTTGAGGATATATGGTCGTTGGACGATATTGTTTCTAAGTGATAAGGACGTCT
1 CTACTCCTACACGTTGAGGAGATCTGGTCGGTGGACGACATTATTTCTACGTGATGAGGACGTCT
* * *
1912228 AGCAATCTTTA-GGATATTTTGGAGACAATACGGTTCCTACA-TGATGAAGAAGTCTGATTGCCT
66 AGCCATCTTTAGGGATATTTTGGAGACAACACGGTTCCTA-AGTGATGAGGAAGTCTGATTGCCT
1912291 GAGGACGACT-
130 GAGGACGA-TG
* ** * * *
1912301 TTACTTTTATACGTTGAGGAGATCTGGTCGGTGGACGACATTATTCCTACGTGATGAGGACATCT
1 CTACTCCTACACGTTGAGGAGATCTGGTCGGTGGACGACATTATTTCTACGTGATGAGGACGTCT
* * * * * *
1912366 AGCCGTATTTAGGGATATTTTAGAGACAACACAGTTCCTAAGTGATGAGGAAGTCTTATTGTCTG
66 AGCCATCTTTAGGGATATTTTGGAGACAACACGGTTCCTAAGTGATGAGGAAGTCTGATTGCCTG
* *
1912431 AGGATGACG
131 AGGACGATG
* * *
1912440 CTGCTCCTACGCATTGAGGAGATCTGGTCGGT
1 CTACTCCTACACGTTGAGGAGATCTGGTCGGT
1912472 TGCCAATGAT
Statistics
Matches: 248, Mismatches: 56, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
138 110 0.44
139 138 0.56
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (139 bp):
CTACTCCTACACGTTGAGGAGATCTGGTCGGTGGACGACATTATTTCTACGTGATGAGGACGTCT
AGCCATCTTTAGGGATATTTTGGAGACAACACGGTTCCTAAGTGATGAGGAAGTCTGATTGCCTG
AGGACGATG
Found at i:1912748 original size:67 final size:67
Alignment explanation
Indices: 1912591--1913025 Score: 488
Period size: 67 Copynumber: 6.5 Consensus size: 67
1912581 GAAGGAAATT
* * * * * * * *
1912591 TGTTTCAAGAGAAGCTATCTCATGTGAGATAAAAT-TTTGTTTCGAGTGAAAC-ATTTCAAA-AT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGA-CAAATCTTTGTTTCGAGAGAAACAATCTCAAAGGT
*
1912653 TTG
65 TTA
** * * *
1912656 CATTTCAAGGAAAAAACTGTCTCAAGCGAGACAAATTTTTGTTTCGAGATAAACAATCTCAAAGG
1 TGTTTCAA-G-AGAAACTGTCTCAAGCGAGACAAATCTTTGTTTCGAGAGAAACAATCTCAAAGG
1912721 TTTA
64 TTTA
* * * *
1912725 TGTTTCAAGA-AAAGTTGTTTCAAGAGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGT
1 TGTTTCAAGAGAAA-CTGTCTCAAGCGAGACAAATCTTTGTTTCGAGAGAAACAATCTCAAAGGT
1912789 TTA
65 TTA
* * * *
1912792 TGTTTCAAGATAAACTATCTCAAGAGA-AGCGAAA-CTTTGTTTTGAGAGAAACAATCTCAAAGG
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGA-C-AAATCTTTGTTTCGAGAGAAACAATCTCAAAGG
1912855 TTTA
64 TTTA
* * **
1912859 TGTTTCAAGAGAAACTGTATAAAGCGAGATGAATCTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAATCTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1912924 TA
66 TA
* * * *
1912926 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTTTTGAGAAAAACAATCTCAAATGTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAATCTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1912991 TA
66 TA
*
1912993 TGTTTCAAGAG-AACTGTCTCAAGCGAGAAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAT
1913026 TTGCTTTTTG
Statistics
Matches: 316, Mismatches: 43, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
65 6 0.02
66 31 0.10
67 255 0.81
68 15 0.05
69 9 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAATCTTTGTTTCGAGAGAAACAATCTCAAAGGTT
TA
Found at i:1912796 original size:30 final size:30
Alignment explanation
Indices: 1912762--1912940 Score: 101
Period size: 30 Copynumber: 5.5 Consensus size: 30
1912752 GACAAAACTT
*
1912762 TGTTTCGAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* * *
1912792 TGTTTCAAGATAAACTATCTCAAGAGAAGCGAAACTT-
1 TGTTTCAAGAGAAACAATCTC---A-AAG-G---TTTA
**
1912829 TGTTTTGAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
** * *
1912859 TGTTTCAAGAGAAACTGTAT-AAAGCGAGATGAATCTT
1 TGTTTCAAGAGAAACAATCTCAAA--G-G-T---T-TA
*
1912896 TGTTTCGAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1912926 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1912941 TGTCTCAAGC
Statistics
Matches: 110, Mismatches: 21, Indels: 36
0.66 0.13 0.22
Matches are distributed among these distances:
29 5 0.05
30 48 0.44
31 2 0.02
32 2 0.02
33 5 0.05
34 5 0.05
35 2 0.02
36 2 0.02
37 34 0.31
38 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:1913200 original size:36 final size:36
Alignment explanation
Indices: 1913153--1913237 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
1913143 AGGATTTGTG
1913153 TTTCAAGAGAAAATGTCT-TAAGCGAGACAAAATTTA
1 TTTCAAGAGAAAATGTCTCT-AGCGAGACAAAATTTA
* *
1913189 TTTCAAGAGAAATTTTCTCTAGCGAGACAAAATTTA
1 TTTCAAGAGAAAATGTCTCTAGCGAGACAAAATTTA
**
1913225 TTTTTAGAGAAAA
1 TTTCAAGAGAAAA
1913238 CAAACTTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TTTCAAGAGAAAATGTCTCTAGCGAGACAAAATTTA
Found at i:1913366 original size:66 final size:66
Alignment explanation
Indices: 1913252--1913397 Score: 170
Period size: 66 Copynumber: 2.2 Consensus size: 66
1913242 CTTAAGTGAG
* * * * *
1913252 AACAATTTCAAAATGTTGTGCTTCGAAGGAGAATTATCTCAAGAGAGAC-GAATTTTGTTTTGAG
1 AACAATCTC-AAATGTTGTGCTTC-AAGGAAAACTATCTCAAGAGAGACAAAATTTTGTTTAGAG
1913316 AAAA
64 -AAA
* *
1913320 AACAATCTCAAATGTTGTGCCTT-AAGGAAAACTATCTTAAGTGAGACAAAATTTTGTTTAGAGA
1 AACAATCTCAAATGTTGTG-CTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTTGTTTAGAGA
*
1913384 GA
65 AA
1913386 AACAATCTCAAA
1 AACAATCTCAAA
1913398 GGCGACAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
66 34 0.50
67 23 0.34
68 11 0.16
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (66 bp):
AACAATCTCAAATGTTGTGCTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTTGTTTAGAGAA
A
Found at i:1914944 original size:31 final size:31
Alignment explanation
Indices: 1914906--1915028 Score: 183
Period size: 31 Copynumber: 4.0 Consensus size: 31
1914896 CCCAAAGGAC
* * * *
1914906 CAGTCCATATATTCCGAATAACATAGTTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
1914937 CAGTCCATATGTTTCGAAGAACATCGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1914968 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1914999 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
1915029 CCCTCGACTC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1918059 original size:22 final size:22
Alignment explanation
Indices: 1918018--1918060 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1918008 TTATTTTTAA
*
1918018 AATTTTGAAAAATATCAAAAAG
1 AATTTTGAAAAATATAAAAAAG
1918040 AATTTTGAAAAATGA-AAAAAA
1 AATTTTGAAAAAT-ATAAAAAA
1918061 TATTACCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (22 bp):
AATTTTGAAAAATATAAAAAAG
Found at i:1927734 original size:18 final size:18
Alignment explanation
Indices: 1927713--1927771 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
1927703 AGATCCAATC
1927713 AAAAACAAAGAAAAAAG-
1 AAAAACAAAGAAAAAAGA
1927730 AAAAACAAAAGAAAAAAGA
1 AAAAAC-AAAGAAAAAAGA
*
1927749 AAGAACAAA-ATCAAAAAGA
1 AAAAACAAAGA--AAAAAGA
1927768 AAAA
1 AAAA
1927772 GGGAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 7 0.19
18 14 0.39
19 15 0.42
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAACAAAGAAAAAAGA
Found at i:1927747 original size:25 final size:26
Alignment explanation
Indices: 1927719--1927780 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
1927709 AATCAAAAAC
*
1927719 AAAGAAAAAAGAAAAAC-AAAAGAAA
1 AAAGAAAAAACAAAAACAAAAAGAAA
* *
1927744 AAAGAAAGAACAAAATCAAAAAGAAA
1 AAAGAAAAAACAAAAACAAAAAGAAA
*
1927770 AAGGGAAAAAA
1 AA-AGAAAAAA
1927781 AGCACATGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.47
26 10 0.33
27 6 0.20
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAGAAAAAACAAAAACAAAAAGAAA
Found at i:1927755 original size:19 final size:18
Alignment explanation
Indices: 1927713--1927771 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
1927703 AGATCCAATC
1927713 AAAAAC-AAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
1927730 AAAAACAAAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
**
1927748 AAAGAACAAAATCAAAAAG
1 AAA-AACAAAAGAAAAAAG
1927767 AAAAA
1 AAAAA
1927772 GGGAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 6 0.16
18 16 0.42
19 16 0.42
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAACAAAAGAAAAAAG
Found at i:1928401 original size:22 final size:22
Alignment explanation
Indices: 1928373--1928449 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
1928363 GCTACCCCAT
*
1928373 CAAACCTTTGAGCATAAAATGA
1 CAAACCTTTGAGCATCAAATGA
*
1928395 CAAACCTTTGAACATCAAAT-A
1 CAAACCTTTGAGCATCAAATGA
* *
1928416 CCAAACATTTGAGCATCAAATGC
1 -CAAACCTTTGAGCATCAAATGA
1928439 CAAACCTTTGA
1 CAAACCTTTGA
1928450 CCAAACACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:1929306 original size:36 final size:36
Alignment explanation
Indices: 1929197--1929334 Score: 145
Period size: 37 Copynumber: 3.8 Consensus size: 36
1929187 TTTCCAATAT
* ** *
1929197 AAATTTTGTCTCGCTTGAGACAGTCTAATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
* * * *
1929233 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG-TCTTCTTTGAAAC
* *
1929271 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
1929307 AAATTTTGTCTCCCTT-ATGACAGT-TTCT
1 AAATTTTGTCTCCCTTGA-GACAGTCTTCT
1929335 CTCCAGACAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
35 4 0.05
36 34 0.40
37 36 0.42
38 11 0.13
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
Found at i:1930715 original size:106 final size:106
Alignment explanation
Indices: 1929335--1930714 Score: 2122
Period size: 106 Copynumber: 13.0 Consensus size: 106
1929325 GACAGTTTCT
* * * * *
1929335 CTCCAGACAACACAAGTTCAACTTCACGATGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1929400 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *** * * ** *
1929441 CTCAAGACAGTACAAGCTT-AACTTCAC-AGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCT
1 CTCCAGACAACGCAAG-TTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
*
1929504 CAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
1929547 CTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCTA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
1929612 ATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
1929653 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGTTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
1929718 ATTTCGGAGCCAATTTCAATTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
1929759 CTCCAGACAACACAAGTTCAACTTCACGACAAAGGGACCACTGGTTGTCAACAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1929824 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
1929865 CTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
1929930 ATTTCAGAGCCAATTTCAACTTCACAGCAAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
1929971 CTCCAGACAACTCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
** *
1930035 ATTTTGGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
1930076 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
** *
1930141 ATTTCAGAGCCAATTTCAACTTCACAATGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
1930182 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
1930247 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * *
1930288 CTCCAGACAACGCAAGTTTAACTTCACGATGAAGGGACCGCTGGTTATCAATAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
1930353 ATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
1930394 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
1930459 ATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * ** *
1930500 CTCGAGACGACGCAAGTTCAACTTCAAAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
**
1930565 ATTTTGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
1930606 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCC
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCC
* * *
1930670 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGA
65 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGA
1930712 CTC
1 CTC
1930715 GGAATAATCC
Statistics
Matches: 1165, Mismatches: 102, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
105 104 0.09
106 1058 0.91
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
Found at i:1944507 original size:23 final size:23
Alignment explanation
Indices: 1944477--1944525 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1944467 GCAAAGAGAG
*
1944477 AATCGTGATGAAGAAATGGTTGA
1 AATCGTGATGAAAAAATGGTTGA
1944500 AATCGTGATGAAAAAATGGTTGA
1 AATCGTGATGAAAAAATGGTTGA
1944523 AAT
1 AAT
1944526 TGGAGAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.27
Consensus pattern (23 bp):
AATCGTGATGAAAAAATGGTTGA
Found at i:1954285 original size:2 final size:2
Alignment explanation
Indices: 1954278--1954313 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1954268 GCATAAGTGC
1954278 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
1954314 CATCATCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1954430 original size:15 final size:15
Alignment explanation
Indices: 1954410--1954444 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1954400 TTTGTAAAAC
*
1954410 ATCATATCATATATT
1 ATCATATCATACATT
1954425 ATCATATCATACATT
1 ATCATATCATACATT
1954440 -TCATA
1 ATCATA
1954445 AAGCAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATCATATCATACATT
Found at i:1954638 original size:23 final size:23
Alignment explanation
Indices: 1954603--1954738 Score: 182
Period size: 23 Copynumber: 5.9 Consensus size: 23
1954593 CACATAGAAC
* * **
1954603 GTCCTGAAGGACCACATAGATTT
1 GTCCCGAAGGACCACGTAGAAAT
*
1954626 GTCTCGAAGGACCACGTAGAAAT
1 GTCCCGAAGGACCACGTAGAAAT
1954649 GTCCCGAAGGACCACGTAGAAAT
1 GTCCCGAAGGACCACGTAGAAAT
1954672 GTCCCGAAGGACCACGTAGAAAT
1 GTCCCGAAGGACCACGTAGAAAT
* * * *
1954695 GTCCCGAAGAACAACGTAGTATT
1 GTCCCGAAGGACCACGTAGAAAT
*
1954718 GTCCCGAAGGACCGCGTAGAA
1 GTCCCGAAGGACCACGTAGAA
1954739 CCCTCGACTC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 99 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (23 bp):
GTCCCGAAGGACCACGTAGAAAT
Found at i:1954862 original size:14 final size:14
Alignment explanation
Indices: 1954843--1954908 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
1954833 TATAGTTCAG
1954843 TATCACATAGATTA
1 TATCACATAGATTA
1954857 TATCACAT-G-TTAACA
1 TATCACATAGATT---A
* *
1954872 TAGTCATATAGACTA
1 TA-TCACATAGATTA
*
1954887 TATCACATAGCTTA
1 TATCACATAGATTA
1954901 TATCACAT
1 TATCACAT
1954909 TATCATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
12 2 0.05
13 1 0.02
14 25 0.61
15 6 0.15
16 5 0.12
17 1 0.02
18 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (14 bp):
TATCACATAGATTA
Found at i:1961563 original size:22 final size:23
Alignment explanation
Indices: 1961516--1961579 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1961506 GATTCCCCTA
1961516 GGGAATCGGTTCCCCTGCAAAGG
1 GGGAATCGGTTCCCCTGCAAAGG
*
1961539 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGGTTCCCCTGCAAAGG
* *
1961561 GGGTATCGATTCCCTCTGC
1 GGGAATCGGTTCCC-CTGC
1961580 CCTATAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.23
Consensus pattern (23 bp):
GGGAATCGGTTCCCCTGCAAAGG
Found at i:1964271 original size:21 final size:21
Alignment explanation
Indices: 1964247--1964298 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1964237 ATGTGAGTTA
1964247 GACAAAAAGAGAAGCAACTTG
1 GACAAAAAGAGAAGCAACTTG
*
1964268 GACAAAAAGAGAAGTAACTTG
1 GACAAAAAGAGAAGCAACTTG
1964289 GACAAAAAGA
1 GACAAAAAGA
1964299 AATGAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.56, C:0.12, G:0.23, T:0.10
Consensus pattern (21 bp):
GACAAAAAGAGAAGCAACTTG
Found at i:1969080 original size:33 final size:32
Alignment explanation
Indices: 1969016--1969104 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
1969006 AGGTATGACG
* ** **
1969016 ATGGTGTTAAGTGGTATTTGAGTAGGTGTTTCC
1 ATGGTGTCAAGTGGTGGTTGAGTAGACGTTT-C
1969049 ATGGTGTCAAGTGGTGGTTGAGTAGACGTTTC
1 ATGGTGTCAAGTGGTGGTTGAGTAGACGTTTC
*
1969081 AGTGGTGTCAAGTAGTGGTTGAGT
1 A-TGGTGTCAAGTGGTGGTTGAGT
1969105 TTTGGTAGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
32 2 0.04
33 47 0.96
ACGTcount: A:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (32 bp):
ATGGTGTCAAGTGGTGGTTGAGTAGACGTTTC
Found at i:1971684 original size:22 final size:22
Alignment explanation
Indices: 1971630--1971684 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1971620 ACTTTTAAAA
*
1971630 ATTTAGTCTTTTACCCAAAGGC
1 ATTTAGTCTTTAACCCAAAGGC
* *
1971652 ATTTAATCTTTAACTCAAAGGC
1 ATTTAGTCTTTAACCCAAAGGC
*
1971674 ATTTAGCCTTT
1 ATTTAGTCTTT
1971685 TATCTAACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (22 bp):
ATTTAGTCTTTAACCCAAAGGC
Found at i:1971749 original size:81 final size:81
Alignment explanation
Indices: 1971648--1972230 Score: 744
Period size: 81 Copynumber: 7.2 Consensus size: 81
1971638 TTTTACCCAA
* * * * * *
1971648 AGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTGACATGATTGACACCTTTA
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
* *
1971713 TGCCAAATACACAGCT
66 TGTCAAATGCACAGCT
* * *
1971729 AGGCAATTAATCTTTTACTCAAAGGCAGTTAA-TTGTTCATCTAACTGGCATAATTGACACCTTT
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCT-TTCATCTAACTGACATAATTGACACCTTT
*
1971793 CTATCAAATGCAC-GACT
65 CTGTCAAATGCACAG-CT
* * * * *
1971810 AGGTAATTAATCTTTTACTCAAAGGCATTTAACATTTCATCTAGCTGGCATAATTTACACCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
*
1971875 TTTCAAATGCACAGCT
66 TGTCAAATGCACAGCT
* * * **
1971891 AGGCAATTAATCTTTTACTTAAAGGCATTTAGCCTTTCATCTATCTGTTATAATTGACACCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
* * * *
1971956 TATCAAATACACAACA
66 TGTCAAATGCACAGCT
** *
1971972 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGTATAATTGACACATTT-
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
* *
1972036 TCATCAAATGCACAACT
66 T-GTCAAATGCACAGCT
*
1972053 AGGCAATTAATTTTTTACTCAAAGGCATTTAACCTTTCATCTAACT-AGCATAATTGACACCTTT
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGA-CATAATTGACACCTTT
*
1972117 ATGTCAAATGCACAGCT
65 CTGTCAAATGCACAGCT
* *
1972134 AGGCAACTAATCTTTTACTCAAAGGCATTTAACTTTTCATCTAA-TGACATAATTGACACCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
*
1972198 TGTCAAATGCACAACT
66 TGTCAAATGCACAGCT
* *
1972214 AGACAATTAATATTTTA
1 AGGCAATTAATCTTTTA
1972231 TTTAAAACAT
Statistics
Matches: 443, Mismatches: 51, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
80 49 0.11
81 391 0.88
82 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (81 bp):
AGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACCTTTC
TGTCAAATGCACAGCT
Found at i:1972082 original size:243 final size:242
Alignment explanation
Indices: 1971648--1972230 Score: 828
Period size: 243 Copynumber: 2.4 Consensus size: 242
1971638 TTTTACCCAA
* * * * *
1971648 AGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTGACATGATTGACACCTTTA
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCT-ACTGACATAATTGACACCTTTC
* * *
1971713 TGCCAAATACACAGCTAGGCAATTAATCTTTTACTCAAAGGCAGTTAATTGTTCATCTAACTGGC
65 TGTCAAATACACAACTAGGCAATTAATCTTTTACTCAAAGGCAGTTAACTGTTCATCTAACTGGC
* *
1971778 ATAATTGACACCTTTCTATCAAATGCACGACTAGGTAATTAATCTTTTACTCAAAGGCATTTAAC
130 ATAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAAC
* * * * *
1971843 ATTTCATCTAGCTGGCATAATTTACACCTTTCTTTCAAATGCACAGCT
195 ATTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGCT
* **
1971891 AGGCAATTAATCTTTTACTTAAAGGCATTTAGCCTTTCATCTATCTGTTATAATTGACACCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTA-CTGACATAATTGACACCTTTC
* * *
1971956 TATCAAATACACAACAAGGCAATTAATCTTTTACTCAAAGGCATTTAACCT-TTCATCTAACTGG
65 TGTCAAATACACAACTAGGCAATTAATCTTTTACTCAAAGGCAGTTAA-CTGTTCATCTAACTGG
* * *
1972020 TATAATTGACACATTT-TCATCAAATGCACAACTAGGCAATTAATTTTTTACTCAAAGGCATTTA
129 CATAATTGACACCTTTCT-ATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA
*
1972084 ACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGCT
193 ACATTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGCT
* * * *
1972134 AGGCAACTAATCTTTTACTCAAAGGCATTTAACTTTTCATCTAATGACATAATTGACACCTTTCT
1 AGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTACTGACATAATTGACACCTTTCT
* * *
1972199 GTCAAATGCACAACTAGACAATTAATATTTTA
66 GTCAAATACACAACTAGGCAATTAATCTTTTA
1972231 TTTAAAACAT
Statistics
Matches: 300, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
242 48 0.16
243 251 0.84
244 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (242 bp):
AGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTACTGACATAATTGACACCTTTCT
GTCAAATACACAACTAGGCAATTAATCTTTTACTCAAAGGCAGTTAACTGTTCATCTAACTGGCA
TAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAACA
TTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGCT
Found at i:1979827 original size:35 final size:36
Alignment explanation
Indices: 1979776--1979876 Score: 150
Period size: 35 Copynumber: 2.8 Consensus size: 36
1979766 TAGAAAAAAG
*
1979776 TGCTCAAATTAGGTTATCCCACTAGTATTATAAATA
1 TGCTCAAATTAGGTTATCCCACTAGTATTACAAATA
* *
1979812 TGCT-AAATTAGGTTATCCCACTAGTATTGCAAATT
1 TGCTCAAATTAGGTTATCCCACTAGTATTACAAATA
*
1979847 TACTCAAAATTAGGTTATCCCACTAGTATT
1 TGCTC-AAATTAGGTTATCCCACTAGTATT
1979877 GGAAATGACG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
35 31 0.53
36 4 0.07
37 24 0.41
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (36 bp):
TGCTCAAATTAGGTTATCCCACTAGTATTACAAATA
Found at i:1980777 original size:20 final size:20
Alignment explanation
Indices: 1980752--1980791 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1980742 TTCAGTTCTG
1980752 AATAGTAAGTTGAAAATAAA
1 AATAGTAAGTTGAAAATAAA
1980772 AATAGTAAGTTGAAAATAAA
1 AATAGTAAGTTGAAAATAAA
1980792 TGTCAACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (20 bp):
AATAGTAAGTTGAAAATAAA
Found at i:1983977 original size:31 final size:31
Alignment explanation
Indices: 1983939--1983998 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1983929 AAGAGTTTGG
1983939 GAGTTCCTAGTGAAAAGGACATATTGAATGT
1 GAGTTCCTAGTGAAAAGGACATATTGAATGT
*
1983970 GAGTTCCTAGTGAGAAGGACATATTGAAT
1 GAGTTCCTAGTGAAAAGGACATATTGAAT
1983999 TCACCGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (31 bp):
GAGTTCCTAGTGAAAAGGACATATTGAATGT
Found at i:1984645 original size:37 final size:35
Alignment explanation
Indices: 1984554--1984661 Score: 173
Period size: 35 Copynumber: 3.0 Consensus size: 35
1984544 AATGTTGATA
1984554 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATT-GAAAT
1984590 ATGCT-AAATTAGGTTATCCCACTAGTATTGCAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTG-AAAT
1984625 ATGCTCAAAATTAGGTTATCCCACTAGTATTGGAAAT
1 ATGCTC-AAATTAGGTTATCCCACTAGTATT-GAAAT
1984662 GACGATTTTG
Statistics
Matches: 68, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
34 1 0.01
35 33 0.49
36 5 0.07
37 28 0.41
38 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (35 bp):
ATGCTCAAATTAGGTTATCCCACTAGTATTGAAAT
Found at i:1985061 original size:35 final size:36
Alignment explanation
Indices: 1985017--1985096 Score: 137
Period size: 35 Copynumber: 2.2 Consensus size: 36
1985007 CAACAATAAT
1985017 TTTGAGCATATTTGC-AATACTAGTGGGATAACCTAA
1 TTTGAGCATATTT-CTAATACTAGTGGGATAACCTAA
1985053 TTT-AGCATATTTCTAATACTAGTGGGATAACCTAA
1 TTTGAGCATATTTCTAATACTAGTGGGATAACCTAA
1985088 TTTGAGCAT
1 TTTGAGCAT
1985097 TATCAACATT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
34 1 0.02
35 33 0.79
36 8 0.19
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (36 bp):
TTTGAGCATATTTCTAATACTAGTGGGATAACCTAA
Found at i:1987554 original size:26 final size:26
Alignment explanation
Indices: 1987496--1987574 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
1987486 TTGAAAACAT
1987496 ATATATATATATAATATAGTTTTT-AAA
1 ATATATATA-AT-ATATAGTTTTTGAAA
*
1987523 AAATATATAATATATAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
*
1987549 ATATATATAACATATAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
1987575 TGTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 11 0.23
26 29 0.60
27 8 0.17
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (26 bp):
ATATATATAATATATAGTTTTTGAAA
Found at i:1987575 original size:25 final size:24
Alignment explanation
Indices: 1987498--1987575 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 24
1987488 GAAAACATAT
*
1987498 ATATATATATAATATAGTTTTTAAA
1 ATATATATA-AATATAGTTTTTGAA
*
1987523 AAATATATAATATATAGTTTTTGAAA
1 ATATATATAA-ATATAGTTTTTG-AA
1987549 ATATATATAACATATAGTTTTTGAA
1 ATATATATAA-ATATAGTTTTTGAA
1987574 AT
1 AT
1987576 GTTTTGAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 23 0.49
26 23 0.49
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.45
Consensus pattern (24 bp):
ATATATATAAATATAGTTTTTGAA
Found at i:1987590 original size:2 final size:2
Alignment explanation
Indices: 1987583--1987617 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1987573 AATGTTTTGA
1987583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1987618 GTTTTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1987685 original size:39 final size:39
Alignment explanation
Indices: 1987599--1987768 Score: 220
Period size: 37 Copynumber: 4.3 Consensus size: 39
1987589 ATATATATAT
1987599 ATATATATATATATATATAGTTTTTGAAAACATTTTGCAAA
1 ATATATATATA-ATATATAGTTTTTGAAAACATTTTG-AAA
* * *
1987640 ACATATATATAATATATAATTTTTGAAAATATTTTG-AA
1 ATATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
1987678 A-ATATATATAATATATAGTTTTTGAAAATATTTT-AAA
1 ATATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
1987715 TATATATATATAATATATAGTTTTTTTAAAAACATTTTGAAA
1 -ATATATATATAATATATAG--TTTTTGAAAACATTTTGAAA
1987757 ATATATCATATA
1 ATATAT-ATATA
1987769 GTTTTAAAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
37 34 0.29
38 4 0.03
39 17 0.15
40 23 0.20
41 30 0.26
42 8 0.07
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (39 bp):
ATATATATATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:1987851 original size:19 final size:19
Alignment explanation
Indices: 1987810--1987864 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
1987800 TATATTATAA
*
1987810 TATTATATTATA-TATTATT
1 TATTATATTTTATTATT-TT
1987829 TATTATATTTTATTATTTT
1 TATTATATTTTATTATTTT
1987848 TATT-TCATTTT-TTATTT
1 TATTAT-ATTTTATTATTT
1987865 ACTTATTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 7 0.21
19 22 0.67
20 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATATTTTATTATTTT
Found at i:1989000 original size:6 final size:6
Alignment explanation
Indices: 1988989--1989038 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
1988979 TTTTATTTTC
* * *
1988989 TTTTAT TTTTAT TATTAT TATTAT TTTTAT TCATT-T TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT
1989037 TT
1 TT
1989039 AATTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 2 0.05
6 34 0.89
7 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:1989003 original size:9 final size:9
Alignment explanation
Indices: 1988965--1989037 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
1988955 GATCCAATAT
1988965 TTTTTATTTA
1 TTTTTA-TTA
1988975 TTTCTT-TTA
1 TTT-TTATTA
*
1988984 TTTTCTTTTA
1 TTTT-TATTA
1988994 TTTTTATTA
1 TTTTTATTA
*
1989003 TTATTATTA
1 TTTTTATTA
1989012 TTTTTATTCA
1 TTTTTATT-A
1989022 TTTTT-TTA
1 TTTTTATTA
1989030 TTTTTATT
1 TTTTTATT
1989038 TAATTAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.13
9 30 0.55
10 16 0.29
11 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTATTA
Found at i:1996099 original size:17 final size:17
Alignment explanation
Indices: 1996079--1996137 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
1996069 TCTTATTTCA
1996079 TTTCTTTTGATTTCAAT
1 TTTCTTTTGATTTCAAT
*
1996096 TTTC-TTT-CTTTCAGTACT
1 TTTCTTTTGATTTCA--A-T
*
1996114 TTTCTTTTGAATTCAAT
1 TTTCTTTTGATTTCAAT
1996131 TTTCTTT
1 TTTCTTT
1996138 CATTCATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 5 0.15
16 3 0.09
17 13 0.38
18 6 0.18
19 3 0.09
20 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTCTTTTGATTTCAAT
Found at i:1996108 original size:30 final size:30
Alignment explanation
Indices: 1996066--1996145 Score: 81
Period size: 35 Copynumber: 2.5 Consensus size: 30
1996056 TGGCAAACAT
* *
1996066 TTTTC-TTATTTCATTTCTTTTGATTTCAA
1 TTTTCTTTCTTTCATTTCTTTTGAATTCAA
1996095 TTTTCTTTCTTTCAGTACTTTTCTTTTGAATTCAA
1 TTTTCTTTCTTTC---A--TTTCTTTTGAATTCAA
*
1996130 TTTTCTTTCATTCATT
1 TTTTCTTTCTTTCATT
1996146 ACTTCGTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
29 5 0.12
30 8 0.19
32 1 0.02
33 1 0.02
35 27 0.64
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (30 bp):
TTTTCTTTCTTTCATTTCTTTTGAATTCAA
Found at i:1996119 original size:35 final size:35
Alignment explanation
Indices: 1996079--1996149 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
1996069 TCTTATTTCA
* *
1996079 TTTCTTTTGATTTCAATTTTCTTTCTTTCAGTACT
1 TTTCTTTTGAATTCAATTTTCTTTCATTCAGTACT
*
1996114 TTTCTTTTGAATTCAATTTTCTTTCATTCATTACT
1 TTTCTTTTGAATTCAATTTTCTTTCATTCAGTACT
1996149 T
1 T
1996150 CGTTCTATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.62
Consensus pattern (35 bp):
TTTCTTTTGAATTCAATTTTCTTTCATTCAGTACT
Found at i:2001327 original size:39 final size:38
Alignment explanation
Indices: 2001264--2001653 Score: 522
Period size: 39 Copynumber: 10.1 Consensus size: 38
2001254 TATATAAAAG
**
2001264 ATATAATATATAGTTTTAAAAAAAACATTTTGAAAACATAT
1 ATATAATATATAGTTTT--TGAAAACATTTTGAAAA-ATAT
* *
2001305 ATATAATATATAGTTTTTAAAAATATTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAAATAT
*
2001342 ATATAATATATAGTTTTTGAAAACATTTTAAAAACATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAA-ATAT
*
2001381 ATATAATATATAGTTTTTGAAAATATTTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAACA-TTTTGAAAAATAT
* **
2001419 ATATAACATATAGTTTTTGAAAATGTTTTG---AATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAAATAT
2001454 ATAT-ATATATAGTTTTTGAAAACATTTTGAAAACATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAA-ATAT
2001492 ATATAATATATAGTTTTTGAAAACATTTTGAAAACATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAA-ATAT
2001531 ATATAATATATAGTTTTTGAAAACATTTTGAAAATATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAA-ATAT
* *
2001570 ATATAATATATAGTTTTTGATAACATTTTAAAAATATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAA-ATAT
**
2001609 ATATAATATATAGTTTTTTTTAAACATTTTGAAAAATAT
1 ATATAATATATAG-TTTTTGAAAACATTTTGAAAAATAT
2001648 CATATA
1 -ATATA
2001654 GTTTTAAAAA
Statistics
Matches: 320, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
34 22 0.07
35 9 0.03
37 37 0.12
38 41 0.13
39 168 0.52
40 26 0.08
41 17 0.05
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (38 bp):
ATATAATATATAGTTTTTGAAAACATTTTGAAAAATAT
Found at i:2001411 original size:12 final size:12
Alignment explanation
Indices: 2001394--2001418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2001384 TAATATATAG
2001394 TTTTTGAAAATA
1 TTTTTGAAAATA
2001406 TTTTTGAAAATA
1 TTTTTGAAAATA
2001418 T
1 T
2001419 ATATAACATA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTGAAAATA
Found at i:2001566 original size:28 final size:28
Alignment explanation
Indices: 2001517--2001570 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2001507 TTTGAAAACA
*
2001517 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATATAGT
*
2001545 TTTTGAAAACAT-TTTGAAAATATATA
1 TTTTGAAAACATATAT-AAAATATATA
2001571 TATAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTGAAAACATATATAAAATATATAGT
Found at i:2002839 original size:12 final size:12
Alignment explanation
Indices: 2002815--2002878 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
2002805 TTTGATCCAA
*
2002815 TATTTTT-TATT
1 TATTTTTATTTT
2002826 TATTTTTATTTT
1 TATTTTTATTTT
*
2002838 TATTATTATTTT
1 TATTTTTATTTT
*
2002850 T-TTATTCA-TTT
1 TATT-TTTATTTT
2002861 TATTTTTTATTTT
1 TA-TTTTTATTTT
*
2002874 AATTT
1 TATTT
2002879 AATTAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
11 13 0.31
12 23 0.55
13 6 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:2003574 original size:2 final size:2
Alignment explanation
Indices: 2003567--2003640 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
2003557 AAGTTTTTGA
2003567 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
2003609 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
2003641 TAAAGTTTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2004895 original size:64 final size:65
Alignment explanation
Indices: 2004826--2004994 Score: 157
Period size: 65 Copynumber: 2.6 Consensus size: 65
2004816 TGCACTATGG
* * *
2004826 GTGCATCAATGCATGAAATGC-ATTTGATGTTTCAA-ACAAACCT-AAGTGCATCGATGCATGGT
1 GTGCATCAATGCATAAAAT-CAATTCGATGTTTCAATA-AAACATGAAGTGCATCGATGCATGGT
*
2004888 CT
64 AT
* * * * *
2004890 TTGCATCGATGCATAAAATCAATTCGATGTTTTAATAATACATGGAGTGCATCGATGCATGGTAT
1 GTGCATCAATGCATAAAATCAATTCGATGTTTCAATAAAACATGAAGTGCATCGATGCATGGTAT
** * * *
2004955 GTGCATCGGTACACAAAATCTATTCGATG-TTCAATTAAAA
1 GTGCATCAATGCATAAAATCAATTCGATGTTTCAA-TAAAA
2004995 TAAGGGTGCA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
63 1 0.01
64 36 0.42
65 48 0.56
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (65 bp):
GTGCATCAATGCATAAAATCAATTCGATGTTTCAATAAAACATGAAGTGCATCGATGCATGGTAT
Found at i:2007305 original size:21 final size:21
Alignment explanation
Indices: 2007271--2007327 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
2007261 ACATTCAAGG
* *
2007271 AGTGCATCGGTGCATCTTCAT
1 AGTGTATCGATGCATCTTCAT
*
2007292 -GATGTATCGATGCACCTTCAT
1 AG-TGTATCGATGCATCTTCAT
2007313 AGTGTATCGATGCAT
1 AGTGTATCGATGCAT
2007328 TATGCACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (21 bp):
AGTGTATCGATGCATCTTCAT
Found at i:2015213 original size:29 final size:30
Alignment explanation
Indices: 2015163--2015220 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
2015153 ATACTCTCTC
*
2015163 TTCTATTTTACTCACCATACTTTT-AATTT
1 TTCTAATTTACTCACCATACTTTTGAATTT
*
2015192 TTCTAATTTACTCACTGA-ACTTTTGAATT
1 TTCTAATTTACTCAC-CATACTTTTGAATT
2015221 GATCTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (30 bp):
TTCTAATTTACTCACCATACTTTTGAATTT
Found at i:2022559 original size:224 final size:222
Alignment explanation
Indices: 2022169--2022639 Score: 797
Period size: 224 Copynumber: 2.1 Consensus size: 222
2022159 AATTATCTCC
* *
2022169 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATA
1 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATA
*
2022234 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAATAATTTTTTGTGTA
66 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAATAATATTTTGTGTA
2022299 AATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAA
131 AATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAACACTATT-AAAAAATTGAAACATAA
2022364 ATTACATAACTTTCAAA-AAGTATATATCA
195 ATTACATAACTTTCAAAGAAG--TATATCA
*
2022393 TTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATA-TTATTATTATATTTGGTT-AT
1 TTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAGTTAAT
*
2022456 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTG
65 ATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATC-AATAATATTTTGTG
* *
2022521 TAAATTAAATTATTAAATTAATATTGTAGGT-GAAAACATGAACACTATTAAATAATTGAAACAT
129 TAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAACACTATTAAAAAATTGAAACAT
2022585 AAATTACATAACTTTCAAAGAAGTATATCA
193 AAATTACATAACTTTCAAAGAAGTATATCA
2022615 TTTTTATAAAAGTGTCCATACTTAT
1 TTTTTATAAAAGTGTCCATACTTAT
2022640 AAAAGTAGGT
Statistics
Matches: 236, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
222 32 0.14
223 84 0.36
224 95 0.40
225 25 0.11
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (222 bp):
TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATA
TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAATAATATTTTGTGTA
AATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAACACTATTAAAAAATTGAAACATAAA
TTACATAACTTTCAAAGAAGTATATCA
Found at i:2022941 original size:20 final size:19
Alignment explanation
Indices: 2022918--2022964 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2022908 CGATATACCA
2022918 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2022938 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2022958 GGTAAAA
1 GGTAAAA
2022965 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2023052 original size:181 final size:182
Alignment explanation
Indices: 2022706--2023178 Score: 698
Period size: 181 Copynumber: 2.6 Consensus size: 182
2022696 GATCCAAATT
* * * *
2022706 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * * *
2022770 AAAACCGGTCAAGCGCTATCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
2022835 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
*
2022888 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
2022953 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
2023017 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * *
2023069 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
2023134 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
2023179 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 168 0.64
182 96 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:2023122 original size:20 final size:19
Alignment explanation
Indices: 2023099--2023145 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2023089 CGATATAACA
2023099 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
2023119 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
2023139 GGTAAAA
1 GGTAAAA
2023146 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2023147 original size:17 final size:19
Alignment explanation
Indices: 2023108--2023150 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2023098 AGGTAAAAAT
2023108 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
2023128 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
2023145 ATGATA
1 ATGATA
2023151 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:2024280 original size:23 final size:23
Alignment explanation
Indices: 2024249--2024321 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2024239 ATAGGTAAAC
*
2024249 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2024272 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2024295 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2024318 ATAT
1 ATAT
2024322 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2025110 original size:31 final size:31
Alignment explanation
Indices: 2025075--2025163 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
2025065 ATCACATGTG
*
2025075 AAATTAATATTTTATCTAAAATTTAAGAGTT
1 AAATTAATATTTTATCTTAAATTTAAGAGTT
* * *
2025106 AAATTGATATTTTATTTGTAATTTTAA-AGTT
1 AAATTAATATTTTATCT-TAAATTTAAGAGTT
* *
2025137 AAAATAGTATTTTATCTTAAATTTAAG
1 AAATTAATATTTTATCTTAAATTTAAG
2025164 GATCAAATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 8 0.17
31 32 0.68
32 7 0.15
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (31 bp):
AAATTAATATTTTATCTTAAATTTAAGAGTT
Found at i:2029795 original size:60 final size:60
Alignment explanation
Indices: 2029656--2029792 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
2029646 GTCTCTAAAC
* * *
2029656 TTGAATATTCAAATTTCATCCCTAAATAATGTCTCTCATTCTAAATTAGTCCTTAAACTT
1 TTGAATATTCTAATTTCATCCCTAAATAATGACTCTCATTCTAAATTAGTCCTCAAACTT
* *
2029716 TTGAATATTCTAATTTCATCCCTAAATTATGACTCTCTTTCTAAATT-GATCC-CAAAC-T
1 TTGAATATTCTAATTTCATCCCTAAATAATGACTCTCATTCTAAATTAG-TCCTCAAACTT
* *
2029774 TTGGATATTC-AATTCCATC
1 TTGAATATTCTAATTTCATC
2029793 ATCAGATTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 8 0.12
58 10 0.14
59 5 0.07
60 46 0.67
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (60 bp):
TTGAATATTCTAATTTCATCCCTAAATAATGACTCTCATTCTAAATTAGTCCTCAAACTT
Found at i:2030033 original size:60 final size:60
Alignment explanation
Indices: 2029936--2030092 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 60
2029926 TAGTTTGAGT
* * * * * * **
2029936 TGAAATTGGAATGTTCAAAATGTGTGAGGACCAATTTAGAAT-GAATGTCATAGTTTGGGGA
1 TGAAATTGAAATGATCAAAA-GTTTGAAGACTAATTTAGAATAGAAT-TCATAGTTTAGAAA
*
2029997 TGAAATTGAAATGATCAAAAGTTTGAAGACTAATTTAGAATAGTATTCATAGTTTAGAAA
1 TGAAATTGAAATGATCAAAAGTTTGAAGACTAATTTAGAATAGAATTCATAGTTTAGAAA
*
2030057 TGAAATTGAAAT-ATTTAAAAGTTT-AAGGACTAATTT
1 TGAAATTGAAATGA-TCAAAAGTTTGAA-GACTAATTT
2030093 GAAATGAGAG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
59 3 0.04
60 59 0.71
61 21 0.25
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (60 bp):
TGAAATTGAAATGATCAAAAGTTTGAAGACTAATTTAGAATAGAATTCATAGTTTAGAAA
Found at i:2036491 original size:23 final size:24
Alignment explanation
Indices: 2036460--2036514 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
2036450 CTATTCTTTC
*
2036460 GCTTTAATTGAGCTCAAATTTTA-
1 GCTTCAATTGAGCTCAAATTTTAG
2036483 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
2036507 GCTTCAAT
1 GCTTCAAT
2036515 CGAAACTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:2038310 original size:19 final size:20
Alignment explanation
Indices: 2038271--2038310 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2038261 TGGTTCACGG
*
2038271 AATATAAGATTACCAGTGGA
1 AATAAAAGATTACCAGTGGA
2038291 AATAAAAGATTACCAG-GGA
1 AATAAAAGATTACCAGTGGA
2038310 A
1 A
2038311 TAGGATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (20 bp):
AATAAAAGATTACCAGTGGA
Found at i:2042142 original size:3 final size:3
Alignment explanation
Indices: 2042134--2042231 Score: 83
Period size: 3 Copynumber: 33.3 Consensus size: 3
2042124 TTCGTCCTAC
* * * * * * * *
2042134 TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAC TAC TAC AAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2042182 TAT TAT TAC TAT TAC TAT TAC TAT TAT TAT TAT TAT TAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2042228 TAT T
1 TAT T
2042232 TTTTGGCAGA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
2 4 0.05
3 79 0.95
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:2048203 original size:21 final size:21
Alignment explanation
Indices: 2048179--2048218 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2048169 TGCTACATAA
*
2048179 CTACAGTGCATCGATGCATTG
1 CTACAGTGCACCGATGCATTG
2048200 CTACAGTGCACCGATGCAT
1 CTACAGTGCACCGATGCAT
2048219 AAAACTTCGA
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:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
CTACAGTGCACCGATGCATTG
Found at i:2048936 original size:31 final size:31
Alignment explanation
Indices: 2048897--2049021 Score: 175
Period size: 31 Copynumber: 4.0 Consensus size: 31
2048887 CCCGAAGGAC
*
2048897 CAGTCCATA-GATTCCGAAGAACCTAGGTAATA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAA-A
*
2048929 -AGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
2048959 TAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2048990 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
2049021 C
1 C
2049022 CCTCGAACCT
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
30 4 0.05
31 81 0.94
32 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2048995 original size:62 final size:62
Alignment explanation
Indices: 2048898--2049020 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
2048888 CCGAAGGACC
*
2048898 AGTCCATAGATTCCGAAGAACCTAGGTAATAAGTCCATATGTCCCGAAGAACATAGGTAAAT
1 AGTCCATAGATTCCGAAGAACATAGGTAATAAGTCCATATGTCCCGAAGAACATAGGTAAAT
*
2048960 AGTCCATATG-TTCCGAAGAACATAGGTAA-ACAGTCCATATGTCCTGAAGAACATAGGTAAA
1 AGTCCATA-GATTCCGAAGAACATAGGTAATA-AGTCCATATGTCCCGAAGAACATAGGTAAA
2049021 CCCTCGAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
61 1 0.02
62 55 0.96
63 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (62 bp):
AGTCCATAGATTCCGAAGAACATAGGTAATAAGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:2053022 original size:21 final size:21
Alignment explanation
Indices: 2052996--2053037 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2052986 TACAGTAACC
* *
2052996 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTACACCGATGCAT
2053017 TGCTACAGTACACCGATGCAT
1 TGCTACAGTACACCGATGCAT
2053038 AAAACTTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
TGCTACAGTACACCGATGCAT
Found at i:2053769 original size:31 final size:30
Alignment explanation
Indices: 2053731--2053853 Score: 126
Period size: 31 Copynumber: 4.0 Consensus size: 30
2053721 CCCGAAGGAC
*
2053731 CAGTCCATAGATTCTGAAGAACCTAGGTAAT
1 CAGTCCATA-ATTCTGAAGAACATAGGTAAT
*
2053762 CAGTCCAT-ATGTCTCGAAGAACATAGGTAAA
1 CAGTCCATAAT-TCT-GAAGAACATAGGTAAT
*
2053793 CAGTCCATATATCCTGAAGAACATAGGTAAAT
1 CAGTCCATA-ATTCTGAAGAACATAGGT-AAT
*
2053825 -AGTCCAT-ATGTCCCGAAGAACATAGGTAA
1 CAGTCCATAAT-T-CTGAAGAACATAGGTAA
2053854 ACCCTCGACC
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
29 4 0.05
30 5 0.06
31 64 0.81
32 4 0.05
33 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (30 bp):
CAGTCCATAATTCTGAAGAACATAGGTAAT
Found at i:2053829 original size:62 final size:62
Alignment explanation
Indices: 2053731--2053855 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
2053721 CCCGAAGGAC
* * *
2053731 CAGTCCATAGATTCTGAAGAACCTAGGTAATCAGTCCATATGTCTCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCTGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2053793 CAGTCCATATATCCTGAAGAACATAGGTAAAT-AGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCTGAAGAACATAGGT-AATCAGTCCATATGTCCCGAAGAACATAGGTAAA
2053855 C
1 C
2053856 CCTCGACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 55 0.95
63 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (62 bp):
CAGTCCATAGATCCTGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2053854 original size:31 final size:31
Alignment explanation
Indices: 2053746--2053854 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
2053736 CATAGATTCT
* *
2053746 GAAGAACCTAGGT-AATCAGTCCATATGTCTC
1 GAAGAACATAGGTAAAT-AGTCCATATGTCCC
* * *
2053777 GAAGAACATAGGTAAACAGTCCATATATCCT
1 GAAGAACATAGGTAAATAGTCCATATGTCCC
2053808 GAAGAACATAGGTAAATAGTCCATATGTCCC
1 GAAGAACATAGGTAAATAGTCCATATGTCCC
2053839 GAAGAACATAGGTAAA
1 GAAGAACATAGGTAAA
2053855 CCCTCGACCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 67 0.97
32 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (31 bp):
GAAGAACATAGGTAAATAGTCCATATGTCCC
Found at i:2064240 original size:40 final size:36
Alignment explanation
Indices: 2064189--2064268 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 36
2064179 AAAAGAGAGA
*
2064189 AAAAAAGAAAGAATAGATAAGAAAAGAATAAGGAAGATTG
1 AAAAAAGAAAGAATAGAT-AG--AA-AATAAGGAAAATTG
* *
2064229 AAAAAATAAAGAATATATAGAAAATAAGGAAAATTG
1 AAAAAAGAAAGAATAGATAGAAAATAAGGAAAATTG
2064265 AAAA
1 AAAA
2064269 GGGGCTCAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 17 0.46
37 2 0.05
39 2 0.05
40 16 0.43
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (36 bp):
AAAAAAGAAAGAATAGATAGAAAATAAGGAAAATTG
Found at i:2066238 original size:130 final size:129
Alignment explanation
Indices: 2065823--2066461 Score: 561
Period size: 128 Copynumber: 5.0 Consensus size: 129
2065813 AATTTGCCAG
* * *
2065823 ATCTGATATTCCTTCAGAAGAAGCGGAACATGTCCCTATTTTCTAAGATTGATATTCCTAAGTGA
1 ATCTAATATTCCTTCAGAAGAAGCGGAACATGTCCCTCTTTTC-AAGATTGATATTCCTGAGTGA
* * * * ** *
2065888 CA--A-CACAAGGTCTTCCCCGATTCAATCTTCCCTAAGTGACAG-GGAATAAATCAACTCCTCC
65 CAGCAGAACAA-GTCTGCCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAATCC-CC
*
2065949 AG
128 AC
* *
2065951 ATCTAATATTCCTTCAGAAGAAG-TGAACATGT-CCTCTTTTCCAAGACTTG--ATTCCTAAG-G
1 ATCTAATATTCCTTCAGAAGAAGCGGAACATGTCCCTCTTTT-CAAGA-TTGATATTCCTGAGTG
* *
2066011 ACAGC-GAACAAGT-TG-CCCGATTCAATCTTCCCTGAGTGACATC-AGAATAGAT-AAACTCCT
64 ACAGCAGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACAGCGA-AATGGATCAAA-TCC-
*
2066071 CCAA
126 CCAC
* * *
2066075 ATCTGATATTCCCTTCA-AATAAGC-GAACATGTCCCTCTTTTCAATATTTGATATTCCCTGAGT
1 ATCTAATATT-CCTTCAGAAGAAGCGGAACATGTCCCTCTTTTCAAGA-TTGATATT-CCTGAGT
*
2066138 GAGAGCAGAACAAGTCTGCCCCGATTCAATCTT-CCTGAGTGACAGCGAAATGGATCAAATCCCC
63 GACAGCAGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAATCCCC
2066202 -C
128 AC
* * *
2066203 ATATAATATTCCCTTCAGAA-AACGCGGAACTTGTCCCTCTTTTCCAAGATTGATA-TACTGGAG
1 ATCTAATATT-CCTTCAGAAGAA-GCGGAACATGTCCCTCTTTT-CAAGATTGATATTCCT-GAG
* * * ** * *
2066266 TGATAGCAGAACAAGT-TGCCCCGATTCAATCTTCCATGAGTGATAAATGGAATGGGATCAACTC
62 TGACAGCAGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGA-CAGCGAAAT-GGATCAAAT-
*
2066330 CCCCAG
124 CCCCAC
* * * *
2066336 ATGTGATATTCCTTCAGAAGAAGCGGAACAAGTCCCT-TTTCCAAGATTTGATATTCCATGAGTG
1 ATCTAATATTCCTTCAGAAGAAGCGGAACATGTCCCTCTTTTCAAGA-TTGATATTCC-TGAGTG
* * * * *
2066400 ACAGCGGAACAAGTCTACACCGATTCAATATTCCCTGAGTGATAGC-AGAATGGATC-AATCCC
64 ACAGCAGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACAGCGA-AATGGATCAAATCCC
2066462 TATATATGAT
Statistics
Matches: 425, Mismatches: 50, Indels: 71
0.78 0.09 0.13
Matches are distributed among these distances:
123 27 0.06
124 47 0.11
125 25 0.06
126 18 0.04
127 17 0.04
128 63 0.15
129 44 0.10
130 57 0.13
131 44 0.10
132 49 0.12
133 34 0.08
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (129 bp):
ATCTAATATTCCTTCAGAAGAAGCGGAACATGTCCCTCTTTTCAAGATTGATATTCCTGAGTGAC
AGCAGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAATCCCCAC
Found at i:2066400 original size:261 final size:253
Alignment explanation
Indices: 2065819--2066477 Score: 691
Period size: 261 Copynumber: 2.6 Consensus size: 253
2065809 GTTTAATTTG
* *
2065819 CCAGATCTGATATTCCTTCAGAAGAAGCGGAACATGTCCCTATTTTCTAAGA-TTGATATTCCTA
1 CCAGATCTGATATTCCTTCAGAAGAAGCGGAACATGTCCC--TTTTCCAAGATTTGATATTCCTG
* * * ** *
2065883 AGT--GA-CA-ACACAAGGTCTTCCCCGATTCAATCTTCCCTAAGTGACAG-GGAATAAATCAAC
64 AGTGAGAGCAGA-ACAA-GTCTACCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAA
* * * *
2065943 TCCTCCAGATCTAATATTCCTTCAGAAGAAGTGAACATGTCCTCTTTTCCAAGACTTGATTCCTA
127 TCC-CCACATATAATATTCCTTCAGAAGAAGGGAACATGTCCTCTTTTCCAAGACTTGATTACTA
* * *
2066008 AGGACAGCGAACAAGTTGCCCGATTCAATCTTCCCTGAGTGACATCAGAATAGATAAACTCCT
191 AGGACAGCGAACAAGTTGCCCGATTCAATCTTCCATGAGTGAAATCAGAATAGATAAACTCCC
* * * *
2066071 CCAAATCTGATATTCCCTTCA-AATAAGC-GAACATGTCCCTCTTTTCAATATTTGATATTCCCT
1 CCAGATCTGATATT-CCTTCAGAAGAAGCGGAACATGTCCCT-TTTCCAAGATTTGATATT-CCT
*
2066134 GAGTGAGAGCAGAACAAGTCTGCCCCGATTCAATCTT-CCTGAGTGACAGCGAAATGGATCAAAT
63 GAGTGAGAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAAT
*
2066198 CCCC-CATATAATATTCCCTTCAGAA-AACGCGGAACTTGTCCCTCTTTTCCAAGA-TTGATATA
128 CCCCACATATAATATT-CCTTCAGAAGAA-G-GGAACATGT-CCTCTTTTCCAAGACTTGAT-TA
* * * *
2066260 CTGGAGTGATAGCAGAACAAGTTGCCCCGATTCAATCTTCCATGAGTGATAAAT-GGAATGGGAT
188 CT-AAG-GACAGC-GAACAAGTTG-CCCGATTCAATCTTCCATGAGTG--AAATCAGAAT-AGAT
*
2066324 CAACTCCC
246 AAACTCCC
* *
2066332 CCAGATGTGATATTCCTTCAGAAGAAGCGGAACAAGTCCCTTTTCCAAGATTTGATATTCCATGA
1 CCAGATCTGATATTCCTTCAGAAGAAGCGGAACATGTCCCTTTTCCAAGATTTGATATTCC-TGA
* * * * *
2066397 GTGACAGCGGAACAAGTCTACACCGATTCAATATTCCCTGAGTGATAGC-AGAATGGATC-AATC
65 GTGAGAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGCGA-AATGGATCAAATC
* * *
2066460 CCTATATATGATATTCCT
129 CCCACATATAATATTCCT
2066478 GAGTTGACAG
Statistics
Matches: 340, Mismatches: 40, Indels: 45
0.80 0.09 0.11
Matches are distributed among these distances:
249 1 0.00
250 6 0.02
251 19 0.06
252 36 0.11
253 29 0.09
254 45 0.13
255 23 0.07
256 3 0.01
257 5 0.01
258 10 0.03
259 22 0.06
260 12 0.04
261 89 0.26
262 40 0.12
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (253 bp):
CCAGATCTGATATTCCTTCAGAAGAAGCGGAACATGTCCCTTTTCCAAGATTTGATATTCCTGAG
TGAGAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGCGAAATGGATCAAATCCC
CACATATAATATTCCTTCAGAAGAAGGGAACATGTCCTCTTTTCCAAGACTTGATTACTAAGGAC
AGCGAACAAGTTGCCCGATTCAATCTTCCATGAGTGAAATCAGAATAGATAAACTCCC
Found at i:2066643 original size:3 final size:3
Alignment explanation
Indices: 2066631--2066795 Score: 169
Period size: 3 Copynumber: 54.7 Consensus size: 3
2066621 CTACTATCTT
2066631 TTA TTA -TA TTA TTA TTA -TA TTA -TA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
2066674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA CTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
2066722 TATA TTA TTTA TTA TATA TTA CTA CTA CTA CTA CTA TTAA TTA TTA TTA
1 T-TA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
2066771 TTTA TTA TTA -TA TTA TTA TT- TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TT
2066796 TTTTGGCATG
Statistics
Matches: 145, Mismatches: 6, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
2 10 0.07
3 117 0.81
4 18 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2070348 original size:354 final size:355
Alignment explanation
Indices: 2069698--2070395 Score: 1298
Period size: 354 Copynumber: 2.0 Consensus size: 355
2069688 TTATTTACTT
2069698 CAGTCTGAACACCAAAAGCGAGCACCGAAGAGAAATATTGGACATTGTAGGCATCCAGGAGCAGG
1 CAGTCTGAACACCAAAAGCGAGCACCGAAGAGAAATATTGGACATTGTAGGCATCCAGGAGCAGG
2069763 TTGAACCGAGAAACTATCTTGGACTTCCTCTCGTTGTCGGTCAAATAAAACAGGGGATTTCAGAT
66 TTGAACCGAGAAACTATCTTGGACTTCCTCTCGTTGTCGGTCAAATAAAACAGGGGATTTCAGAT
*
2069828 TTGGCAAAGATAAGATGACCAAGAGGTTGCATGGGTGGACAAAAATTCTTCTTTCCTATGTTGGT
131 TTGGCAAAGATAAGATGACCAAGAGGTTGCATGGGTGGACAAAAATTCTTCTTTCCTATGGTGGT
*
2069893 AAAGAGGCTTCCTCAAATCCATGATTCAAGCTCTACCAACCTATGTTATGTCATGCTATATAGGT
196 AAAGAGGCTTCCTCAAATCCATGATTCAAGCTCTACCAACCTATGTCATGTCATGCTATATAGGT
2069958 TGGTAGAGCTCTATTGATGGTGTTTTGGAGGAGATCACTTCAAGTATGTGTTCTTATTGGTGGTC
261 TGGTAGAGCTCTATTGATGGTGTTTTGGAGGAGATCACTTCAAGTATGTGTTCTTATTGGTGGTC
2070023 AGGAAAACATAATGCAAAATGACCTCTCTA
326 AGGAAAACATAATGCAAAATGACCTCTCTA
2070053 CAGTCTGAACACCAAAAGCGAGCACCGAAGAG-AATATTGGACATTGTAGGCATCCAGGAGCAGG
1 CAGTCTGAACACCAAAAGCGAGCACCGAAGAGAAATATTGGACATTGTAGGCATCCAGGAGCAGG
*
2070117 TTGAACCGAGAAACTATCTTGGACTTCCTCTCGTTGTCGGTCAAAATAAAACAGGGGCTTTCAGA
66 TTGAACCGAGAAACTATCTTGGACTTCCTCTCGTTGTCGGTC-AAATAAAACAGGGGATTTCAGA
2070182 -TTGGCAAAGATAAGATGACCAAGAGGTTGCATGGGTGGACAAAAATTCTTCTTTCCTATGGTGG
130 TTTGGCAAAGATAAGATGACCAAGAGGTTGCATGGGTGGACAAAAATTCTTCTTTCCTATGGTGG
2070246 TAAAGAGGCTTTCCTCAAATCCATGATTCAAGCTCTACCAACCTATGTCATG-CTAT-CT-TATA
195 TAAAGAGGC-TTCCTCAAATCCATGATTCAAGCTCTACCAACCTATGTCATGTC-ATGCTATATA
2070308 GGTTGGTAGAGCTCTATCTGATGGTGTTTTGGAGGAGATCACTTCAAGTATGTGTTCTTATTGGT
258 GGTTGGTAGAGCTCTAT-TGATGGTGTTTTGGAGGAGATCACTTCAAGTATGTGTTCTTATTGGT
2070373 GGTCAGGAAAACATAATGCAAAA
322 GGTCAGGAAAACATAATGCAAAA
2070396 GAATGACCTC
Statistics
Matches: 336, Mismatches: 3, Indels: 9
0.97 0.01 0.03
Matches are distributed among these distances:
353 21 0.06
354 219 0.65
355 96 0.29
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (355 bp):
CAGTCTGAACACCAAAAGCGAGCACCGAAGAGAAATATTGGACATTGTAGGCATCCAGGAGCAGG
TTGAACCGAGAAACTATCTTGGACTTCCTCTCGTTGTCGGTCAAATAAAACAGGGGATTTCAGAT
TTGGCAAAGATAAGATGACCAAGAGGTTGCATGGGTGGACAAAAATTCTTCTTTCCTATGGTGGT
AAAGAGGCTTCCTCAAATCCATGATTCAAGCTCTACCAACCTATGTCATGTCATGCTATATAGGT
TGGTAGAGCTCTATTGATGGTGTTTTGGAGGAGATCACTTCAAGTATGTGTTCTTATTGGTGGTC
AGGAAAACATAATGCAAAATGACCTCTCTA
Found at i:2076119 original size:64 final size:64
Alignment explanation
Indices: 2076051--2076228 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
2076041 GAACACTTGA
* ** *
2076051 TGCATCGGTGCACCAAGTGTGCATCGGTGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATGAAGTGTGCATCGGTGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
*** * * **
2076115 TGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATGAAGTGTGCATCGGTGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * * *
2076180 TGCATCGATGTATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATGAAGTGTGCATCGGTGCATGAAATGCATTCGATGTT
2076229 CAATTAATTC
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
64 49 0.53
65 44 0.47
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAGTGTGCATCGGTGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Done.