Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 12 of 38
Found at i:1901864 original size:20 final size:20
Alignment explanation
Indices: 1901839--1901895 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
1901829 ATGTATTGAT
*
1901839 ACAATGCATCGATACAATGA
1 ACAATGTATCGATACAATGA
1901859 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
1901879 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
1901896 ATTGTGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.23
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1903274 original size:27 final size:24
Alignment explanation
Indices: 1903244--1903309 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 24
1903234 TTATCATGTT
*
1903244 TATATTCATATTATTTTTGTATCATAG
1 TATATT-ATATTATTTTT-T-TAATAG
* *
1903271 TATATTTTAATTATTTTTTTAATAT
1 TATATTAT-ATTATTTTTTTAATAG
1903296 TATATTTATATTAT
1 TATA-TTATATTAT
1903310 ATTTCAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 13 0.39
26 5 0.15
27 15 0.45
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
TATATTATATTATTTTTTTAATAG
Found at i:1903312 original size:27 final size:28
Alignment explanation
Indices: 1903243--1903313 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 28
1903233 CTTATCATGT
* *
1903243 TTATATTCATATTAT-TTTTGTATCATA
1 TTATATTTATATTATATTTTGTATAATA
*
1903270 GTATATTT-TAATTAT-TTTT-T-TAATA
1 TTATATTTAT-ATTATATTTTGTATAATA
1903295 TTATATTTATATTATATTT
1 TTATATTTATATTATATTT
1903314 CAATCTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 16 0.43
26 6 0.16
27 15 0.41
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATATTTATATTATATTTTGTATAATA
Found at i:1903398 original size:27 final size:26
Alignment explanation
Indices: 1903364--1903414 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
1903354 ATTTTAATTT
* *
1903364 TAAATTTATTTATTAAATATTTTAAA
1 TAAATTTATTAATTAAAAATTTTAAA
1903390 TAAATTTTATTAATTAAAAATTTTA
1 TAAA-TTTATTAATTAAAAATTTTA
1903415 TAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAATTTATTAATTAAAAATTTTAAA
Found at i:1905427 original size:17 final size:17
Alignment explanation
Indices: 1905402--1905444 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1905392 GTGTTTTAAT
* *
1905402 TATTTTATTTTATTTTA
1 TATTATATTTTATTTCA
1905419 TATTATATTTTATTTCA
1 TATTATATTTTATTTCA
*
1905436 TCTTATATT
1 TATTATATT
1905445 ATATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATATTTTATTTCA
Found at i:1905430 original size:22 final size:22
Alignment explanation
Indices: 1905402--1905448 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1905392 GTGTTTTAAT
* *
1905402 TATTTTATTTTATTTTATATTA
1 TATTTTATTTCATCTTATATTA
1905424 TATTTTATTTCATCTTATATTA
1 TATTTTATTTCATCTTATATTA
1905446 TAT
1 TAT
1905449 AAAATTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTTATTTCATCTTATATTA
Found at i:1905865 original size:2 final size:2
Alignment explanation
Indices: 1905858--1905884 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1905848 AATCCCTTTG
1905858 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1905885 AAAGCAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1906221 original size:48 final size:46
Alignment explanation
Indices: 1906169--1906330 Score: 129
Period size: 46 Copynumber: 3.5 Consensus size: 46
1906159 AATTTAATGA
* *
1906169 TTTATTTATATTGATATTATTTTATTATAATATAATTATATTTAATAT
1 TTTATTTATATTTATATTATATTATTATAATATAATT-TATTT-ATAT
* * *
1906217 TTTA--TATATTTATATAAAATTATATATTAAAATAATTTATTTA-AT
1 TTTATTTATATTTATATTATATTAT-TA-TAATATAATTTATTTATAT
* * * * * *
1906262 TATATTTATA-TTATTTTATATCA-TAT-ATATATTTTAATTATTT
1 TTTATTTATATTTATATTATATTATTATAATATAATTTATTTATAT
*
1906305 TTTATATTATATTTATATTATTTTAT
1 TTTAT-TTATATTTATATTATATTAT
1906331 AAGAGTGGGA
Statistics
Matches: 88, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
42 11 0.12
43 6 0.07
44 7 0.08
45 15 0.17
46 25 0.28
47 11 0.12
48 13 0.15
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (46 bp):
TTTATTTATATTTATATTATATTATTATAATATAATTTATTTATAT
Found at i:1906268 original size:50 final size:50
Alignment explanation
Indices: 1906217--1906332 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
1906207 TATTTAATAT
1906217 TTTATA-TATTTATATAAAAT-TATATATTAAAATAATTTATTTA-ATTATA
1 TTTATATTATTT-TATAAAATATATATATTAAAATAATTT-TTTATATTATA
** ** *
1906266 TTTATATTATTTTATATCATATATATATTTTAATTATTTTTTATATTATA
1 TTTATATTATTTTATAAAATATATATATTAAAATAATTTTTTATATTATA
1906316 TTTATATTATTTTATAA
1 TTTATATTATTTTATAA
1906333 GAGTGGGAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 16 0.28
50 42 0.72
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (50 bp):
TTTATATTATTTTATAAAATATATATATTAAAATAATTTTTTATATTATA
Found at i:1906288 original size:23 final size:24
Alignment explanation
Indices: 1906217--1906331 Score: 101
Period size: 27 Copynumber: 4.7 Consensus size: 24
1906207 TATTTAATAT
*
1906217 TTTATA-TATTTATATAAAATTATA
1 TTTATATTATTT-TATATAATTATA
* * * *
1906241 TATTAAAATAATTTATTTAATTATA
1 T-TTATATTATTTTATATAATTATA
1906266 TTTATATTATTTTATATCATATATATA
1 TTTATATTATTTTATAT-A-AT-TATA
*
1906293 TTT-TAATTATTTTTTAT-ATTATA
1 TTTAT-ATTATTTTATATAATTATA
1906316 TTTATATTATTTTATA
1 TTTATATTATTTTATA
1906332 AGAGTGGGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
23 17 0.23
24 16 0.22
25 16 0.22
26 7 0.09
27 18 0.24
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATATTATTTTATATAATTATA
Found at i:1906307 original size:11 final size:12
Alignment explanation
Indices: 1906266--1906328 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 12
1906256 TTTAATTATA
1906266 TTTATATTATTT
1 TTTATATTATTT
*
1906278 TATATCATATATATAT
1 T-T-T-ATAT-TATTT
1906294 TTTA-ATTATTT
1 TTTATATTATTT
*
1906305 TTTATATTA-TA
1 TTTATATTATTT
1906316 TTTATATTATTT
1 TTTATATTATTT
1906328 T
1 T
1906329 ATAAGAGTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 18 0.44
12 9 0.22
13 2 0.05
14 2 0.05
15 5 0.12
16 5 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:1906503 original size:34 final size:32
Alignment explanation
Indices: 1906465--1906567 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 32
1906455 ATCATCAATT
1906465 TATTTTTAATATTTAATATTATTTTACTTAAATA
1 TATTTTTAATATTTAATATTATTTTA--TAAATA
* * *
1906499 TATTTTATAATTTTTATTATTTATTTTATATATA
1 TATTTT-TAATATTTAATA-TTATTTTATAAATA
*
1906533 TATATTTT-A-ATTTAATATT-TTTAAT-AAT-
1 TAT-TTTTAATATTTAATATTATTTTATAAATA
1906561 TATTTTT
1 TATTTTT
1906568 CACTATAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 2 0.03
30 5 0.08
31 2 0.03
32 6 0.10
33 1 0.02
34 15 0.25
35 13 0.22
36 8 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (32 bp):
TATTTTTAATATTTAATATTATTTTATAAATA
Found at i:1906526 original size:36 final size:35
Alignment explanation
Indices: 1906465--1906541 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
1906455 ATCATCAATT
1906465 TATTTT-TAATATTTAATATTATTTTACT-TAAATA
1 TATTTTATAATATTTAATATTATTTTA-TATAAATA
* * *
1906499 TATTTTATAATTTTTATTATTTATTTTATATATATA
1 TATTTTATAATATTTAATA-TTATTTTATATAAATA
1906535 TATTTTA
1 TATTTTA
1906542 ATTTAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 6 0.16
35 11 0.30
36 20 0.54
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (35 bp):
TATTTTATAATATTTAATATTATTTTATATAAATA
Found at i:1907613 original size:25 final size:29
Alignment explanation
Indices: 1907551--1907611 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
1907541 ATTTATAACT
*
1907551 AAAAAATTTAATATTATTAAAAAATTAAA
1 AAAAAATTTAATATTAATAAAAAATTAAA
*
1907580 AAATAAATTT-AT-TTAATAATAAA-TAAA
1 AAA-AAATTTAATATTAATAAAAAATTAAA
1907607 AAAAA
1 AAAAA
1907612 TTAAGGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 7 0.24
28 9 0.31
29 5 0.17
30 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAAATTTAATATTAATAAAAAATTAAA
Found at i:1907837 original size:19 final size:19
Alignment explanation
Indices: 1907756--1907837 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
1907746 ATTAAATTAA
1907756 AAATAATAAATTTTATAT-T
1 AAAT-ATAAATTTTATATAT
* *
1907775 AATTTGATATAA-TTTATACAT
1 AA-AT-ATA-AATTTTATATAT
1907796 AAA-ATAAATTTTATATAT
1 AAATATAAATTTTATATAT
*
1907814 TAATATAAATTTTAT-TAAT
1 AAATATAAATTTTATAT-AT
1907833 AAATA
1 AAATA
1907838 ATTCATTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
17 2 0.04
18 14 0.28
19 19 0.38
20 10 0.20
21 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
AAATATAAATTTTATATAT
Found at i:1907845 original size:15 final size:15
Alignment explanation
Indices: 1907827--1907862 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1907817 TATAAATTTT
1907827 ATTAATAAATAATTC
1 ATTAATAAATAATTC
*
1907842 ATTAATAAATAATTT
1 ATTAATAAATAATTC
1907857 ATTAAT
1 ATTAAT
1907863 TTTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAATAAATAATTC
Found at i:1910090 original size:27 final size:26
Alignment explanation
Indices: 1910037--1910095 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
1910027 CAAAATTAAT
* * *
1910037 TAATTTATTATTTATAGATTTATTAA
1 TAATATATTATTTATAGATATAATAA
1910063 TGAATATATTATTTATA-ATAATAATAA
1 T-AATATATTATTTATAGAT-ATAATAA
1910090 TAATAT
1 TAATAT
1910096 TATATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
TAATATATTATTTATAGATATAATAA
Found at i:1910098 original size:20 final size:20
Alignment explanation
Indices: 1910075--1910113 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1910065 AATATATTAT
1910075 TTATAAT-AATAATAATAATA
1 TTATAATAAAT-ATAATAATA
*
1910095 TTATATTAAATATAATAAT
1 TTATAATAAATATAATAAT
1910114 TGATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATAATAAATATAATAATA
Found at i:1913014 original size:2 final size:2
Alignment explanation
Indices: 1913007--1913040 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1912997 AAGTATGTTC
1913007 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1913041 TGCATGCGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1915762 original size:15 final size:15
Alignment explanation
Indices: 1915739--1915779 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1915729 TATGATAAGT
*
1915739 TTAATTTTTTAAAAA
1 TTAAATTTTTAAAAA
**
1915754 TTAAATTTTTATCAA
1 TTAAATTTTTAAAAA
1915769 TTAAATTTTTA
1 TTAAATTTTTA
1915780 TATTTGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATTTTTAAAAA
Found at i:1915780 original size:15 final size:15
Alignment explanation
Indices: 1915752--1915780 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1915742 ATTTTTTAAA
1915752 AATTAAATTTTTATC
1 AATTAAATTTTTATC
1915767 AATTAAATTTTTAT
1 AATTAAATTTTTAT
1915781 ATTTGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAAATTTTTATC
Found at i:1921884 original size:156 final size:155
Alignment explanation
Indices: 1921570--1922159 Score: 555
Period size: 156 Copynumber: 3.8 Consensus size: 155
1921560 TAAGTTCAAG
* * *
1921570 AAAAATTACGAAAATACCCTTAAGGGATACCTTCGATGTAAAAGTA-CCCGAT-ACCTTTAAAGG
1 AAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCCCGATAACC-CTAAAGG
* * * *
1921633 ACTTAAAAAGGAATATAAAAGGGATGAACTTATCTTAAATACCCACCTTCGGCATAAAAGCGGAC
65 ACTT-AAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
** * *
1921698 TTGGTGACAACCTA-AGACTCAGTTTTA
129 ACGGTGATAACCTAGA-ACTCGGTTTTA
* * * * * * *
1921725 AAAAATTACCAAAATGCCCCTATAGGTATATCTTCGACGTGAAATTATCCCGATAACTCTAAAGG
1 AAAAATTACGAAAATACCCCTA-AGGGATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGG
1921790 ACTTAAAAGGACTATAAAAAGGG-TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
65 ACTTAAAAGGACTAT-AAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
* * * *
1921854 ACGGTGATGACCTAGAAGTTGGTTCT-
129 ACGGTGATAACCTAGAACTCGGTTTTA
* * * * * * ** *
1921880 AAAAATTACAAAAATACCCTTATGGGTATACCTTCGATGTAAAAATATCTCGGCATCCCTAAAGG
1 AAAAATTACGAAAATACCCCTAAGGG-ATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGG
* * * * *
1921945 ACTTAAAAAGACTCATAAAAGGGATGAACTTATCCTAAATGCCCACCTTCGGCATAAAGGCAAAC
65 ACTTAAAAGGACT-ATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
* * * * * * * *
1922010 CCGATGGTTATCTAGGACACGATTTTA
129 ACGGTGATAACCTAGAACTCGGTTTTA
* * * * * *
1922037 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTAT-CCTAGT-ACCCTTAATG
1 AAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCCCGA-TAACCC-TAAAG
* * * *
1922100 GACATAAAAAGAACTATAAAAGGAATGAACCTATCCTAAATACCCACATTCGGCATAAAA
64 GAC-TTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAA
1922160 ACGGACCTGG
Statistics
Matches: 349, Mismatches: 74, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
154 2 0.01
155 90 0.26
156 202 0.58
157 53 0.15
158 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (155 bp):
AAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGA
CTTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAACAC
GGTGATAACCTAGAACTCGGTTTTA
Found at i:1923312 original size:165 final size:163
Alignment explanation
Indices: 1922987--1923432 Score: 693
Period size: 165 Copynumber: 2.7 Consensus size: 163
1922977 TGAAAAAAAA
* * *
1922987 GAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATAGAAAAAGTTTTT-AAAATCTTTT
1 GAAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGATAG-AAAAGTTTTTGAAAATCTTTT
* *
1923051 ATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAAATGATTAATGA-TTATTGTAATT
65 ATACCCCTACGGATACCCATAGGAATATAAAAGATT-TAAAAATGATTAAT-ATTTATTGTAATT
1923115 AACAATGGGTGAATTTAATATTATTTATTTATTTTT
128 AACAATGGGTGAATTTAATATTATTTATTTATTTTT
**
1923151 GAAAAAAATCATTTCCCACCTTAATAGATACCCAAAAAGATACGAAAAGTTTTTGAAAAATCTTT
1 GAAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGATA-GAAAAGTTTTTG-AAAATCTTT
* * *
1923216 TAAACCTCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATTTATTTTAATTA
64 TATACCCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATTTATTGTAATTA
1923281 ACAA-GGAGTGAATTTAATATTATTTATTTATTTTT
129 ACAATGG-GTGAATTTAATATTATTTATTTATTTTT
* *
1923316 GAAAAAAATCATTTCATACCTTAATAGATACTCTAAAAGATATGAAAAGTTTTTG-AAATCTTTT
1 GAAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGATA-GAAAAGTTTTTGAAAATCTTTT
1923380 ATACCCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATT
65 ATACCCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATT
1923433 AAAATATATA
Statistics
Matches: 261, Mismatches: 16, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
163 60 0.23
164 51 0.20
165 107 0.41
166 43 0.16
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (163 bp):
GAAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGATAGAAAAGTTTTTGAAAATCTTTTA
TACCCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATTTATTGTAATTAAC
AATGGGTGAATTTAATATTATTTATTTATTTTT
Found at i:1924262 original size:25 final size:25
Alignment explanation
Indices: 1924234--1924283 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1924224 TTCTACCTAT
*
1924234 TTTC-TCTATTTTTCTTTCTCTTTTC
1 TTTCTTCTATTTTTC-CTCTCTTTTC
*
1924259 TTTCTTCTTTTTTTCCTCTCTTTTC
1 TTTCTTCTATTTTTCCTCTCTTTTC
1924284 AGTTGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTCTTCTATTTTTCCTCTCTTTTC
Found at i:1924267 original size:12 final size:12
Alignment explanation
Indices: 1924243--1924283 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
1924233 TTTTCTCTAT
1924243 TTTTCTTTC-TC
1 TTTTCTTTCTTC
1924254 TTTTCTTTCTTC
1 TTTTCTTTCTTC
1924266 TTTT-TTTCCTCTC
1 TTTTCTTT-CT-TC
1924279 TTTTC
1 TTTTC
1924284 AGTTGAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 12 0.46
12 8 0.31
13 6 0.23
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTCTTC
Found at i:1925145 original size:12 final size:13
Alignment explanation
Indices: 1925123--1925157 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
1925113 CTTTTCATCA
1925123 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
1925136 TTTTTT-TTTTTC
1 TTTTTTCTTTTTC
1925148 TTTCTTTCTT
1 TTT-TTTCTT
1925158 CTTGGTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.45
13 9 0.45
14 2 0.10
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:1925597 original size:14 final size:12
Alignment explanation
Indices: 1925577--1925615 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1925567 TTATCACACT
1925577 TAAAAAAAATAA
1 TAAAAAAAATAA
*
1925589 TGAAAAAAATAA
1 TAAAAAAAATAA
*
1925601 TAAATAAAA-AA
1 TAAAAAAAATAA
1925612 TAAA
1 TAAA
1925616 TTAAATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
TAAAAAAAATAA
Found at i:1929661 original size:13 final size:13
Alignment explanation
Indices: 1929645--1929672 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1929635 TACAAAAGAT
1929645 CAATGTATCGATA
1 CAATGTATCGATA
1929658 CAATGTATCGATA
1 CAATGTATCGATA
1929671 CA
1 CA
1929673 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1929735 original size:13 final size:13
Alignment explanation
Indices: 1929717--1929800 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
1929707 AGCTTCGTAG
1929717 CGATACATTGTAT
1 CGATACATTGTAT
1929730 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1929749 CGATACATTGTAT
1 CGATACATTGTAT
1929762 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
1929781 CGATACATTGTAT
1 CGATACATTGTAT
1929794 CGATACA
1 CGATACA
1929801 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1929749 original size:19 final size:18
Alignment explanation
Indices: 1929725--1929820 Score: 95
Period size: 19 Copynumber: 5.7 Consensus size: 18
1929715 AGCGATACAT
1929725 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1929744 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1929757 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1929776 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1929789 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1929808 TGTATCGATACAA
1 TGTATCGATACAA
1929821 TTATTGTTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 35 0.54
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1929758 original size:32 final size:32
Alignment explanation
Indices: 1929717--1929819 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
1929707 AGCTTCGTAG
1929717 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1929749 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1929781 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1929813 CGATACA
1 CGATACA
1929820 ATTATTGTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1929847 original size:19 final size:20
Alignment explanation
Indices: 1929788--1929847 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
1929778 TATCGATACA
* *
1929788 TTGTATCGATACAACACT-T
1 TTGTATCGATACAATATTGT
*
1929807 ATGTATCGATACAATTATTGT
1 TTGTATCGATACAA-TATTGT
1929828 TTGTATCGATACAA-ATTGT
1 TTGTATCGATACAATATTGT
1929847 T
1 T
1929848 GAAATTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 14 0.40
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACAATATTGT
Found at i:1933160 original size:52 final size:52
Alignment explanation
Indices: 1933082--1933281 Score: 343
Period size: 52 Copynumber: 3.9 Consensus size: 52
1933072 CGAAATATGA
*
1933082 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
*
1933134 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1933186 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1933238 AAA-TTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACA
1933282 ATGTATCGAT
Statistics
Matches: 146, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
51 41 0.28
52 100 0.68
53 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1933286 original size:13 final size:13
Alignment explanation
Indices: 1933268--1933294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1933258 TACATTTTAA
1933268 AATGTATCGATAC
1 AATGTATCGATAC
1933281 AATGTATCGATAC
1 AATGTATCGATAC
1933294 A
1 A
1933295 TGTGAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1933377 original size:13 final size:13
Alignment explanation
Indices: 1933359--1933383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1933349 CAAAAAAATA
1933359 TGTATCGATACAT
1 TGTATCGATACAT
1933372 TGTATCGATACA
1 TGTATCGATACA
1933384 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1933379 original size:33 final size:33
Alignment explanation
Indices: 1933337--1933403 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1933327 AGTAGCTTAA
1933337 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1933370 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1933403 A
1 A
1933404 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1934370 original size:22 final size:22
Alignment explanation
Indices: 1934345--1934413 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
1934335 ATGCTGATTC
1934345 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
1934367 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
1934388 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1934410 AAGG
1 AAGG
1934414 TGAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1934439 original size:49 final size:49
Alignment explanation
Indices: 1934279--1935461 Score: 1181
Period size: 49 Copynumber: 23.9 Consensus size: 49
1934269 AAAAGGATGT
*
1934279 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1934331 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1934374 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1934423 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1934472 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1934521 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1934570 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1934619 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1934670 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1934719 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGTG-GGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1934767 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1934816 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1934865 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1934914 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACCT-AAGATGGAAAAGGTG-
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* ** * * * * * * * ** * *
1934964 CGATG-GAAAAGGTGCCAATATG-CTGATTCA-AGGCCAGCTATATTGGACTTAAAGATG-
1 CAATGTG--CTGAT-TC-A-AGGCCAGCTACATTGG--A-CT-TA-AAGA--TGAAGGTGC
** * * * * * **
1935021 -AA-GATGCCAATGTGCTGAGTCAAGGC--CA--GCTACATTGGACTTA-ATGGTGGGGTGC
1 CAATG-TGCTGAT-T-C-AAGGCCA-GCTACATTG-GAC-TT--A--AAGAT-GAA-GGTGC
*
1935076 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1935125 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1935174 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1935223 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACCT-AAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1935274 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1935323 CAATGTGCTGATTCAAGGCCAGCTTA-ATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGC-TACATTGGACTTAAAGATGAAGGTGC
* * *
1935372 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1935421 CAATGTGCTGAGTCAAGCCCAGCTACATTGGACTT-AAGATG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1935462 GAAAAGCATC
Statistics
Matches: 937, Mismatches: 141, Indels: 110
0.79 0.12 0.09
Matches are distributed among these distances:
43 38 0.04
48 65 0.07
49 629 0.67
50 7 0.01
51 88 0.09
52 50 0.05
53 12 0.01
54 14 0.01
55 12 0.01
56 11 0.01
57 8 0.01
58 2 0.00
60 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1934970 original size:14 final size:14
Alignment explanation
Indices: 1934951--1934978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1934941 TTGGACCTAA
1934951 GATGGAAAAGGTGC
1 GATGGAAAAGGTGC
1934965 GATGGAAAAGGTGC
1 GATGGAAAAGGTGC
1934979 CAATATGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.43, T:0.14
Consensus pattern (14 bp):
GATGGAAAAGGTGC
Found at i:1935215 original size:309 final size:295
Alignment explanation
Indices: 1934274--1935461 Score: 1793
Period size: 309 Copynumber: 4.0 Consensus size: 295
1934264 GATGAAAAAG
* * * * * * *
1934274 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGC
* * * *
1934339 TGATTCAAGGCCAGCTATATTGGA-CT----T---AAAGGTGCCAATGTGTTGATTCAAGGCCAG
63 TGAGTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
* * *
1934396 CTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
128 CTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAT
* * * * * * * * *
1934461 GATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGCCAATG
193 GGTG-GGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
*
1934526 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAT
257 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
1934565 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
*
1934630 GTCAAGGCCAGCTACATTGGACTTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
1934695 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGT
131 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGT
1934760 GGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCT
196 GGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCT
1934825 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
261 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1934860 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1934925 GTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCGATGGAAAAGGTGCCAATATGCTGA
66 GTCAAGGCCAGCTACATTGGACC-----T----AA-----GATGGAAAAGGTGCCAATATGCTGA
*
1934990 TTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACA
117 TTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACA
1935055 TTGGACTTAATGGTGGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAA
182 TTGGACTTAATGGTGGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAA
1935120 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
247 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1935169 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1935234 GTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
* * *
1935299 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTTA-ATTGGACTTAAAGA
131 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC-TACATTGGACTTAATGG
* * * * * *
1935363 TGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
195 TG-GGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTG
*
1935428 CTGAGTCAAGCCCAGCTACATTGGACTT-AAGATG
259 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1935462 GAAAAGCATC
Statistics
Matches: 833, Mismatches: 40, Indels: 44
0.91 0.04 0.05
Matches are distributed among these distances:
288 35 0.04
289 1 0.00
290 1 0.00
291 40 0.05
293 1 0.00
295 280 0.34
296 178 0.21
300 3 0.00
304 3 0.00
309 291 0.35
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (295 bp):
GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACCTAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGT
GGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:1936830 original size:19 final size:17
Alignment explanation
Indices: 1936806--1936899 Score: 87
Period size: 13 Copynumber: 5.7 Consensus size: 17
1936796 AGCGATACAT
1936806 TGTATCGATACAAAACTTA
1 TGTATCGATAC--AACTTA
1936825 TGTATCGATAC-A--T-
1 TGTATCGATACAACTTA
1936838 TGTATCGATACAAAACTTA
1 TGTATCGATAC--AACTTA
1936857 TGTATCGATAC-A--T-
1 TGTATCGATACAACTTA
1936870 TGTATCGATACACACTTA
1 TGTATCGATACA-ACTTA
1936888 TGTATCGATACA
1 TGTATCGATACA
1936900 TTATTGTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 23
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
15 1 0.02
16 3 0.05
17 1 0.02
18 13 0.20
19 22 0.34
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (17 bp):
TGTATCGATACAACTTA
Found at i:1936839 original size:32 final size:32
Alignment explanation
Indices: 1936798--1936901 Score: 192
Period size: 32 Copynumber: 3.3 Consensus size: 32
1936788 AGCTTCGTAG
1936798 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1936830 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1936862 CGATACATTGTATCGATAC-ACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1936893 CGATACATT
1 CGATACATT
1936902 ATTGTTTGTA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 20 0.28
32 51 0.72
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1943803 original size:13 final size:13
Alignment explanation
Indices: 1943787--1943814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1943777 TACAAAAGAT
1943787 CAATGTATCGATA
1 CAATGTATCGATA
1943800 CAATGTATCGATA
1 CAATGTATCGATA
1943813 CA
1 CA
1943815 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1943877 original size:13 final size:13
Alignment explanation
Indices: 1943859--1943942 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
1943849 AGCTTCGTAG
1943859 CGATACATTGTAT
1 CGATACATTGTAT
1943872 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1943891 CGATACATTGTAT
1 CGATACATTGTAT
1943904 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
1943923 CGATACATTGTAT
1 CGATACATTGTAT
1943936 CGATACA
1 CGATACA
1943943 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1943891 original size:19 final size:18
Alignment explanation
Indices: 1943867--1943962 Score: 95
Period size: 19 Copynumber: 5.7 Consensus size: 18
1943857 AGCGATACAT
1943867 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1943886 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1943899 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1943918 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1943931 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1943950 TGTATCGATACAA
1 TGTATCGATACAA
1943963 TTATTGTTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 35 0.54
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1943900 original size:32 final size:32
Alignment explanation
Indices: 1943859--1943961 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
1943849 AGCTTCGTAG
1943859 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1943891 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1943923 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1943955 CGATACA
1 CGATACA
1943962 ATTATTGTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1943989 original size:19 final size:20
Alignment explanation
Indices: 1943930--1943989 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
1943920 TATCGATACA
* *
1943930 TTGTATCGATACAACACT-T
1 TTGTATCGATACAATATTGT
*
1943949 ATGTATCGATACAATTATTGT
1 TTGTATCGATACAA-TATTGT
1943970 TTGTATCGATACAA-ATTGT
1 TTGTATCGATACAATATTGT
1943989 T
1 T
1943990 GAAATTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 14 0.40
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACAATATTGT
Found at i:1944917 original size:34 final size:35
Alignment explanation
Indices: 1944879--1944945 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1944869 CCTTACAACA
1944879 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1944913 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1944946 AATCACTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1945454 original size:19 final size:18
Alignment explanation
Indices: 1945396--1945454 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
1945386 TACAAGCCAA
*
1945396 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA---TTTGG
*
1945417 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1945436 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1945455 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 12 0.36
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1945513 original size:20 final size:20
Alignment explanation
Indices: 1945488--1945540 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1945478 ACATCTTTTT
1945488 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1945508 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1945528 CATGTATCGATAC
1 CATGTATCGATAC
1945541 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1946053 original size:49 final size:49
Alignment explanation
Indices: 1945922--1946946 Score: 1120
Period size: 49 Copynumber: 21.2 Consensus size: 49
1945912 GCGACATTTA
* * * *
1945922 GACTTAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 GACTTAAAGAT--GAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G
** * *
1945975 GTTTTAAAGATGACGAAGGTGCCAATATGCTGATTCAGGGCCAGCGATACTG
1 GACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1946027 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
** *
1946076 GACTTAAAGATGAAGGTGCCAATGCGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946125 GACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGACCAGCGATATTG
1 GACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946177 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * *
1946226 GACCTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946275 GACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * *
1946327 GACTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946376 GACTTAAAGATGAAGGTGTCAATATGCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946425 GACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* **
1946468 GTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * * *
1946517 GACTTAACGATGACAAAAGCGCTAATATGCTGATTCAAGGCTAGCGATATTG
1 GACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946569 GACTT-AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* ** * *
1946612 GTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * *
1946661 GACTT----A--AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* **
1946704 GTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * *
1946753 GA-TT-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * ** *
1946796 GTCCTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1946845 GACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* ** *
1946888 GTCTTAAAGACAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
*
1946937 GACTAAAAGA
1 GACTTAAAGA
1946947 AGATGCCACC
Statistics
Matches: 832, Mismatches: 100, Indels: 84
0.82 0.10 0.08
Matches are distributed among these distances:
43 180 0.22
44 3 0.00
45 5 0.01
47 4 0.00
48 2 0.00
49 459 0.55
50 1 0.00
51 1 0.00
52 137 0.16
53 36 0.04
54 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
Found at i:1946172 original size:150 final size:150
Alignment explanation
Indices: 1945922--1946946 Score: 1153
Period size: 150 Copynumber: 7.1 Consensus size: 150
1945912 GCGACATTTA
* * **
1945922 GACTTAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATG
1 GACTTAAAGAT--GAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG
* * * *
1945987 ACGAAGGTGCCAATATGCTGATTCAGGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATAT
62 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATAT
1946052 GCTGATTCAAGGCCAGCGATATTG
127 GCTGATTCAAGGCCAGCGATATTG
*
1946076 GACTTAAAGATGAAGGTGCCAATGCGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * * *
1946141 AGGCGCCAATATGCTGATTCAAGACCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTG
66 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
1946206 ATTCAAGGCCAGCGACATTG
131 ATTCAAGGCCAGCGATATTG
* *
1946226 GACCTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * * * *
1946291 AGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGCGCCAATGTGCTG
66 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
1946356 ATTCAAGGCCAGCGACATTG
131 ATTCAAGGCCAGCGATATTG
* * * *
1946376 GACTTAAAGATGAAGGTGTCAATATGCTGATTCAAGGCCAACGATATTGGAC-T-----T---AA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * * *
1946432 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTG
66 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1946497 ATTCAAGGCCAGCGATATTG
131 ATTCAAGGCCAGCGATATTG
* * * * * * *
1946517 GACTTAACGATGACAAAAGCGCTAATATGCTGATTCAAGGCTAGCGATATTGGACTT-AA-A-G-
1 GACTTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * * *
1946578 ---A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATG
63 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATG
* *
1946638 CTGATTCAAGGCTAGTGATATTG
128 CTGATTCAAGGCCAGCGATATTG
* *
1946661 GACTT----A--AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
*
1946717 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-TT-----TAAAGGTGCCAATGTGCTG
66 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
1946776 ATTCAAGGCCAGCGACATTG
131 ATTCAAGGCCAGCGATATTG
* * ** * * *
1946796 GTCCTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T---AA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * * * *
1946852 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGTCAATATGCTG
66 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1946917 ATTCAAGGCCAGCGATATTG
131 ATTCAAGGCCAGCGATATTG
*
1946937 GACTAAAAGA
1 GACTTAAAGA
1946947 AGATGCCACC
Statistics
Matches: 768, Mismatches: 76, Indels: 67
0.84 0.08 0.07
Matches are distributed among these distances:
135 112 0.15
136 2 0.00
139 2 0.00
140 4 0.01
141 197 0.26
144 120 0.16
145 1 0.00
146 1 0.00
149 1 0.00
150 283 0.37
151 30 0.04
152 4 0.01
154 11 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (150 bp):
GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTG
Found at i:1946663 original size:92 final size:92
Alignment explanation
Indices: 1946295--1946946 Score: 812
Period size: 92 Copynumber: 7.0 Consensus size: 92
1946285 TGACAAAGGC
* * * * ** * *
1946295 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGCGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
*
1946360 AAGGCCAGCGACATTGGACTTAAAGATGAAGGT
66 AAGGCCAGCGATATTGGACTT-AA-A-G-A--T
* * * * * *
1946393 GTCAATATGCTGATTCAAGGCCAACGATATTGGACTT------AAAGGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
* *
1946452 AAGGCCAGCGACATTGGTCTTAAAGACAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAG----A--T
* * * * * *
1946485 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAACGATGACAAAAGCGCTAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA--A-GACAAAGGTGCCAATATGCTGA
*
1946550 TTCAAGGCTAGCGATATTGGACTTAAAGAT
63 TTCAAGGCCAGCGATATTGGACTTAAAGAT
1946580 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
* * *
1946645 AAGGCTAGTGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGAT
*
1946672 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
* *
1946737 AAGGCCAGCGATATTGGATTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGAT
*
1946764 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCCTAAAGACAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
* *
1946829 AAGGCTAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGAT
*
1946856 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGTCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
*
1946921 AAGGCCAGCGATATTGGACTAAAAGA
66 AAGGCCAGCGATATTGGACTTAAAGA
1946947 AGATGCCACC
Statistics
Matches: 508, Mismatches: 34, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 2 0.00
92 389 0.77
93 1 0.00
95 37 0.07
97 1 0.00
98 36 0.07
101 40 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGAT
Found at i:1946875 original size:21 final size:20
Alignment explanation
Indices: 1946808--1946875 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1946798 CCTAAAGACA
1946808 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
1946829 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
1946851 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
1946872 AAGG
1 AAGG
1946876 CCAGCGACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:1947286 original size:93 final size:96
Alignment explanation
Indices: 1947104--1947383 Score: 328
Period size: 93 Copynumber: 3.0 Consensus size: 96
1947094 ACTTTAAAAA
* *
1947104 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAAGATGCCACGGAGTTGTGGAC-TTA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGACTTTG
* * * *
1947167 AAGATGAAGGTGCCACGGAGTTGTGGACTTT
66 AAGATAAAGATGCCACTGAGTCGTGGACTTT
* * *
1947198 -AAGAAGA-TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGACTTTG
1947261 AAGA-AAAGATGCCACTGAGTCGTGGACTTT
66 AAGATAAAGATGCCACTGAGTCGTGGACTTT
* * * * * *
1947291 GAAAAGAGATTGCCACTGAGTTGTGGACTTTG--GAGAAAAA-ATGCCACTGAGTCGTGGACTTT
1 GAAAA-AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGACTTT
* *
1947353 G-GGATAAA-ATGCCACTGAGTCGTGGGCTTT
65 GAAGATAAAGATGCCACTGAGTCGTGGACTTT
1947383 G
1 G
1947384 GGACAAAATG
Statistics
Matches: 161, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
92 45 0.28
93 77 0.48
94 16 0.10
95 3 0.02
96 20 0.12
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.24
Consensus pattern (96 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGACTTTG
AAGATAAAGATGCCACTGAGTCGTGGACTTT
Found at i:1947291 original size:31 final size:31
Alignment explanation
Indices: 1947011--1947417 Score: 293
Period size: 31 Copynumber: 13.0 Consensus size: 31
1947001 TGAAAAGGAG
1947011 AAAGATGCCACGGAGTTGTGGAC-TT--A-A
1 AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* * * * **
1947038 AATGGTGCCACAGAGTTGCGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGACTTTGAA--G-A
*
1947072 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGACTTT--GAAG-A
* *
1947107 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGACTTTGAA-G-A
*
1947141 AAAGATGCCACGGAGTTGTGGAC-TTAAAGA
1 AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* *
1947171 TGAAGGTGCCACGGAGTTGTGGACTTT-AAG-
1 -AAAGATGCCACGGAGTTGTGGACTTTGAAGA
*
1947201 -AAGATGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGACTTTG--AAG-A
* *
1947234 AAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* *
1947265 AAAGATGCCACTGAGTCGTGGACTTTGAA-A
1 AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* * *
1947295 AGAGATTGCCACTGAGTTGTGGACTTTGGAGA
1 AAAGA-TGCCACGGAGTTGTGGACTTTGAAGA
* * * *
1947327 AAAAATGCCACTGAGTCGTGGACTTTG-GGA
1 AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* * * *
1947357 TAAA-ATGCCACTGAGTCGTGGGCTTTG-GGA
1 -AAAGATGCCACGGAGTTGTGGACTTTGAAGA
* *
1947387 CAAA-ATGCCACTGAGTCGTGGACTTT-AAGA
1 -AAAGATGCCACGGAGTTGTGGACTTTGAAGA
1947417 A
1 A
1947418 GGTATTTGAA
Statistics
Matches: 325, Mismatches: 32, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
27 19 0.06
28 24 0.07
29 1 0.00
30 60 0.18
31 100 0.31
32 14 0.04
33 20 0.06
34 37 0.11
35 47 0.14
37 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (31 bp):
AAAGATGCCACGGAGTTGTGGACTTTGAAGA
Found at i:1948377 original size:19 final size:19
Alignment explanation
Indices: 1948353--1948392 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1948343 GAAAAAGGGG
1948353 TTTTTTTTCCCTTTTTTTC
1 TTTTTTTTCCCTTTTTTTC
**
1948372 TTTTTTTTCTTTTTTTTTC
1 TTTTTTTTCCCTTTTTTTC
1948391 TT
1 TT
1948393 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTCCCTTTTTTTC
Found at i:1948391 original size:10 final size:10
Alignment explanation
Indices: 1948353--1948411 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
1948343 GAAAAAGGGG
*
1948353 TTTTTTTTCC
1 TTTTTTTTCT
*
1948363 CTTTTTTTC-
1 TTTTTTTTCT
1948372 TTTTTTTTCT
1 TTTTTTTTCT
1948382 TTTTTTTTCT
1 TTTTTTTTCT
1948392 TCTTCTTTTT-T
1 T-TT-TTTTTCT
1948403 TTGTTTTTT
1 TT-TTTTTT
1948412 TGTGTTGGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 8 0.19
10 25 0.58
11 5 0.12
12 5 0.12
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:1948688 original size:14 final size:13
Alignment explanation
Indices: 1948657--1948700 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1948647 GCCCTTGCAC
* *
1948657 TTTTTTTGTATGT
1 TTTTTTTGTTTTT
*
1948670 ATTTTTTGTTTTT
1 TTTTTTTGTTTTT
1948683 GTTTTTTTGTTTTT
1 -TTTTTTTGTTTTT
1948697 TTTT
1 TTTT
1948701 CATCATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:1955724 original size:13 final size:13
Alignment explanation
Indices: 1955706--1955733 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1955696 TACAAAAGAT
1955706 CAATGTATCGATA
1 CAATGTATCGATA
1955719 CAATGTATCGATA
1 CAATGTATCGATA
1955732 CA
1 CA
1955734 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1955844 original size:19 final size:20
Alignment explanation
Indices: 1955805--1955844 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1955795 ACAACACTTA
*
1955805 TGTATCGATACAATTATTGTT
1 TGTATCAATACAA-TATTGTT
1955826 TGTATCAATACAA-ATTGTT
1 TGTATCAATACAATATTGTT
1955845 GAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TGTATCAATACAATATTGTT
Found at i:1956910 original size:20 final size:21
Alignment explanation
Indices: 1956871--1956914 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
1956861 TTAAGTATAG
1956871 ATATTTTTCAAGCATAAAAATA
1 ATATTTTTCAAG-ATAAAAATA
1956893 ATATTTTTCAAG-TAAAAATA
1 ATATTTTTCAAGATAAAAATA
1956913 AT
1 AT
1956915 TCAAAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATATTTTTCAAGATAAAAATA
Found at i:1957165 original size:20 final size:20
Alignment explanation
Indices: 1957142--1957187 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1957132 CAATGTATTG
*
1957142 ATACATGAGGAATTGTATCA
1 ATACATGAGGAAATGTATCA
* *
1957162 ATACATGATGAAATGTATCG
1 ATACATGAGGAAATGTATCA
1957182 ATACAT
1 ATACAT
1957188 TGAGCCCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
ATACATGAGGAAATGTATCA
Found at i:1957668 original size:36 final size:33
Alignment explanation
Indices: 1957620--1957711 Score: 98
Period size: 36 Copynumber: 2.7 Consensus size: 33
1957610 TAAGTGATTA
*
1957620 AGAGGTTTTATCTTAGCCTTTGAAAAAGATAGGAAG
1 AGAGGTTCTATCTTAGCC-TTGAAAAAGATAGG--G
* *
1957656 AGAGGTTCTATCTTAGCC-CGCGAAAAGATAGGG
1 AGAGGTTCTATCTTAGCCTTG-AAAAAGATAGGG
*
1957689 AG-GTTTCTATCTTAGCCTTGAAA
1 AGAGGTTCTATCTTAGCCTTGAAA
1957712 GATAGTGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 16 0.33
33 4 0.08
34 1 0.02
35 10 0.21
36 17 0.35
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTTGAAAAAGATAGGG
Found at i:1957702 original size:32 final size:34
Alignment explanation
Indices: 1957620--1957705 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 34
1957610 TAAGTGATTA
***
1957620 AGAGGTTT-TATCTTAGCCTTTGAAAAAGATAGG
1 AGAGGTTTCTATCTTAGCCCGCGAAAAAGATAGG
*
1957653 AAGAGAGGTTCTATCTTAGCCCGCG-AAAAGATAGG
1 -AGAG-GTTTCTATCTTAGCCCGCGAAAAAGATAGG
1957688 -GAGGTTTCTATCTTAGCC
1 AGAGGTTTCTATCTTAGCC
1957706 TTGAAAGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 14 0.31
33 3 0.07
34 4 0.09
35 13 0.29
36 11 0.24
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (34 bp):
AGAGGTTTCTATCTTAGCCCGCGAAAAAGATAGG
Found at i:1959286 original size:21 final size:21
Alignment explanation
Indices: 1959260--1959300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1959250 TATTCTTGAT
* *
1959260 AAGAAATTAAGTAAATTAGAA
1 AAGAAAATAAATAAATTAGAA
*
1959281 AAGAAAATAAATGAATTAGA
1 AAGAAAATAAATAAATTAGA
1959301 GGAGAAAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (21 bp):
AAGAAAATAAATAAATTAGAA
Found at i:1959306 original size:21 final size:21
Alignment explanation
Indices: 1959273--1959315 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1959263 AAATTAAGTA
*
1959273 AATTAGAAAAGAAAATAAATG
1 AATTAGAAAAGAAAAGAAATG
**
1959294 AATTAGAGGAGAAAAGAAATG
1 AATTAGAAAAGAAAAGAAATG
1959315 A
1 A
1959316 GTTGCAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (21 bp):
AATTAGAAAAGAAAAGAAATG
Found at i:1960971 original size:229 final size:229
Alignment explanation
Indices: 1960602--1961057 Score: 894
Period size: 229 Copynumber: 2.0 Consensus size: 229
1960592 TTGATGTTTT
1960602 GTGCTTAATTATTCTTGAATTTGAGGTTTATGGTTGTTGATTAATGTTTTGGTTGAATATTGATT
1 GTGCTTAATTATTCTTGAATTTGAGGTTTATGGTTGTTGATTAATGTTTTGGTTGAATATTGATT
*
1960667 GATTTGTTAAGTGATAGGACTGATTTTTGAGTGTTTTTGGGTATGTTAAATTCCAATAAGGTATC
66 GATTTGTTAAGTGATAGGACTGATTTTTGAGTGTTTTTGGGTATGTTAAATTCCAATAAAGTATC
1960732 GATACTTTGGATTTTTCCAGATTGTATCGATACAAAGAAAGTTATATCGATACATTGTATCGATC
131 GATACTTTGGATTTTTCCAGATTGTATCGATACAAAGAAAGTTATATCGATACATTGTATCGATC
1960797 AATTTGAATATATCGATACATTGCTTCAGTATTC
196 AATTTGAATATATCGATACATTGCTTCAGTATTC
1960831 GTGCTTAATTATTCTTGAATTTGAGGTTTATGGTTGTTGATTAATGTTTTGGTTGAATATTGATT
1 GTGCTTAATTATTCTTGAATTTGAGGTTTATGGTTGTTGATTAATGTTTTGGTTGAATATTGATT
1960896 GATTTGTTAAGTGATAGGACTGATTTTTGAGTGTTTTTGGGTATGTTAAATTCCAATAAAGTATC
66 GATTTGTTAAGTGATAGGACTGATTTTTGAGTGTTTTTGGGTATGTTAAATTCCAATAAAGTATC
*
1960961 GATACTTTGGATTTTTTCAGATTGTATCGATACAAAGAAAGTTATATCGATACATTGTATCGATC
131 GATACTTTGGATTTTTCCAGATTGTATCGATACAAAGAAAGTTATATCGATACATTGTATCGATC
1961026 AATTTGAATATATCGATACATTGCTTCAGTAT
196 AATTTGAATATATCGATACATTGCTTCAGTAT
1961058 GGACTGTTTT
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
229 225 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (229 bp):
GTGCTTAATTATTCTTGAATTTGAGGTTTATGGTTGTTGATTAATGTTTTGGTTGAATATTGATT
GATTTGTTAAGTGATAGGACTGATTTTTGAGTGTTTTTGGGTATGTTAAATTCCAATAAAGTATC
GATACTTTGGATTTTTCCAGATTGTATCGATACAAAGAAAGTTATATCGATACATTGTATCGATC
AATTTGAATATATCGATACATTGCTTCAGTATTC
Found at i:1961758 original size:25 final size:25
Alignment explanation
Indices: 1961729--1961779 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1961719 AAAATTTTAC
1961729 TCCTTGATGCTCTATTGTTTATTCA
1 TCCTTGATGCTCTATTGTTTATTCA
*
1961754 TCCTTGATGCTTTATTGTTTATTCA
1 TCCTTGATGCTCTATTGTTTATTCA
1961779 T
1 T
1961780 GAATGCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.55
Consensus pattern (25 bp):
TCCTTGATGCTCTATTGTTTATTCA
Found at i:1962877 original size:13 final size:13
Alignment explanation
Indices: 1962859--1962883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1962849 ATATTGCTAA
1962859 GTATCGATACATT
1 GTATCGATACATT
1962872 GTATCGATACAT
1 GTATCGATACAT
1962884 GTTCTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1962899 original size:32 final size:33
Alignment explanation
Indices: 1962838--1962901 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1962828 TACGCCTAGA
*
1962838 TGTATCTATACATATTGCTAAGTATCGATACAT
1 TGTATCGATACATATTGCTAAGTATCGATACAT
* *
1962871 TGTATCGATACATGTT-CTTAGTATCGATACA
1 TGTATCGATACATATTGCTAAGTATCGATACA
1962902 CCTTGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTAAGTATCGATACAT
Found at i:1962986 original size:20 final size:20
Alignment explanation
Indices: 1962961--1963015 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1962951 GTATCGATAC
*
1962961 ATTGTATCAATACAT-GATGA
1 ATTGTATCGATACATAG-TGA
*
1962981 ATTGTATTGATACATAGTGA
1 ATTGTATCGATACATAGTGA
*
1963001 AATGTATCGATACAT
1 ATTGTATCGATACAT
1963016 TGAGCCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATAGTGA
Found at i:1963492 original size:36 final size:35
Alignment explanation
Indices: 1963445--1963515 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
1963435 TAAGTGATTA
*
1963445 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAG
1 AGAGGTTCTATCTTAGCCTGTG-AAAAGATAGGGAG
*
1963481 AGAGGTTCTATCTTAGCCTGTGAAAAGATATGGAG
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAG
1963516 GTTTTTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 12 0.36
36 21 0.64
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAG
Found at i:1963530 original size:32 final size:34
Alignment explanation
Indices: 1963445--1963541 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 34
1963435 TAAGTGATTA
1963445 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAG
1 AGAGGTTCTATCTTAGCC-TTG-AAAAGATAGGGAG
*
1963481 AGAGGTTCTATCTTAGCCTGTGAAAAGATA-TG-G
1 AGAGGTTCTATCTTAGCCT-TGAAAAGATAGGGAG
* *
1963514 AG-GTTTTTATCTTAGCCTTG-AAAGATAG
1 AGAGGTTCTATCTTAGCCTTGAAAAGATAG
1963542 TGTTGTGAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
30 7 0.12
31 2 0.04
32 14 0.25
33 3 0.05
34 1 0.02
35 9 0.16
36 20 0.36
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTGAAAAGATAGGGAG
Found at i:1964505 original size:25 final size:27
Alignment explanation
Indices: 1964477--1964528 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
1964467 TAACAAGTAC
* *
1964477 ATTTAAATT-TTTATTTTTAAA-AATT
1 ATTTAAATTATTAATTTTGAAATAATT
*
1964502 ATTTTAATTATTAATTTTGAAATAATT
1 ATTTAAATTATTAATTTTGAAATAATT
1964529 TTGTTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 10 0.45
27 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTAAATTATTAATTTTGAAATAATT
Found at i:1976284 original size:75 final size:75
Alignment explanation
Indices: 1976191--1976584 Score: 635
Period size: 75 Copynumber: 5.3 Consensus size: 75
1976181 GATGAAATGA
* * * * *
1976191 TAATCCGAGATAATCTGCACGATAATTACAATTAACAAATGTTTCAGCATATTTCACAGTACTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
*
1976256 TATTAACAAC
66 TATCAACAAC
* * *
1976266 TAATCCGAGATAATCTGCACGATAACTACAATGAACAAATGTTTCTGCATGTTTCATATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
1976331 TATCAACAAC
66 TATCAACAAC
* *
1976341 TAATCCGAGATAATCTGCACGGTAACTACAATCAACAAATGTTTCTACATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
1976406 TATCAACAAC
66 TATCAACAAC
* *
1976416 TAATCCGAGATAATCTGCACGATAACTATAATCAACAAATGTTTCTGCATATTTCACATTGCTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
1976481 TATCAACAAC
66 TATCAACAAC
* * *
1976491 TAATCTGAGATAATCTGCACGATAACTACAATCAATAAATGTTTTTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
1976556 TATCAACAAC
66 TATCAACAAC
*
1976566 TAATCCAAGATAATCTGCA
1 TAATCCGAGATAATCTGCA
1976585 TATTTCACAT
Statistics
Matches: 295, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 295 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (75 bp):
TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
TATCAACAAC
Found at i:1976369 original size:39 final size:39
Alignment explanation
Indices: 1976326--1976525 Score: 146
Period size: 39 Copynumber: 5.3 Consensus size: 39
1976316 GTTTCATATT
*
1976326 ACTACTATCAACAACTAATCCGAGATAATCTGCACGGTA
1 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
* * ** * * * * *
1976365 ACTACAATCAACAAATGTTTCTACAT-AT-TTCAC-ATT
1 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
1976401 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
1 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
* ** * * * *
1976440 ACTA-TAATCAACAAATGTTTCTG-CAT-AT-TTCAC-ATT
1 ACTACT-ATCAACAACT-AATCCGAGATAATCTGCACGATA
* *
1976476 GCTACTATCAACAACTAATCTGAGATAATCTGCACGATA
1 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
*
1976515 ACTACAATCAA
1 ACTACTATCAA
1976526 TAAATGTTTT
Statistics
Matches: 116, Mismatches: 35, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
35 4 0.03
36 36 0.31
37 13 0.11
38 13 0.11
39 47 0.41
40 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (39 bp):
ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
Found at i:1976411 original size:36 final size:36
Alignment explanation
Indices: 1976365--1976564 Score: 125
Period size: 36 Copynumber: 5.4 Consensus size: 36
1976355 CTGCACGGTA
*
1976365 ACTACAATCAACAAATGTTTCTACATATTTCACATT
1 ACTACTATCAACAAATGTTTCTACATATTTCACATT
* ** * * * * *
1976401 ACTACTATCAACAACTAATCCGAGATAATCTGCACGATA
1 ACTACTATCAACAAATGTTTCTACAT-AT-TTCAC-ATT
*
1976440 ACTA-TAATCAACAAATGTTTCTGCATATTTCACATT
1 ACTACT-ATCAACAAATGTTTCTACATATTTCACATT
* * ** * * *
1976476 GCTACTATCAACAACT-AATCTGAGATAATCTGCACGATA
1 ACTACTATCAACAAATGTTTCT-ACAT-AT-TTCAC-ATT
* * * *
1976515 ACTACAATCAATAAATGTTTTTGCATATTTCACATT
1 ACTACTATCAACAAATGTTTCTACATATTTCACATT
1976551 ACTACTATCAACAA
1 ACTACTATCAACAA
1976565 CTAATCCAAG
Statistics
Matches: 115, Mismatches: 39, Indels: 20
0.66 0.22 0.11
Matches are distributed among these distances:
35 3 0.03
36 49 0.43
37 13 0.11
38 13 0.11
39 35 0.30
40 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (36 bp):
ACTACTATCAACAAATGTTTCTACATATTTCACATT
Found at i:1976925 original size:27 final size:27
Alignment explanation
Indices: 1976885--1976939 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1976875 GGGTCATGGC
** *
1976885 AAGATATGTTGGGTATGGAGGTTGAGT
1 AAGATATGACGGGTATGGAGATTGAGT
1976912 AAGATATGACGGGTATGGAGATTGAGT
1 AAGATATGACGGGTATGGAGATTGAGT
1976939 A
1 A
1976940 GGGAAATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.38, T:0.29
Consensus pattern (27 bp):
AAGATATGACGGGTATGGAGATTGAGT
Found at i:1981059 original size:33 final size:33
Alignment explanation
Indices: 1981022--1981086 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1981012 TAGCTTAAAA
1981022 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
1981055 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
1981087 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:1981060 original size:13 final size:13
Alignment explanation
Indices: 1981042--1981066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1981032 CAAAAAAATA
1981042 TGTATCGATACAT
1 TGTATCGATACAT
1981055 TGTATCGATACA
1 TGTATCGATACA
1981067 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1982689 original size:18 final size:19
Alignment explanation
Indices: 1982650--1982697 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1982640 CAACGATTTA
1982650 TATCGATACAAAAGTGTTG
1 TATCGATACAAAAGTGTTG
*
1982669 TATCGATACATAAGT-TTG
1 TATCGATACAAAAGTGTTG
1982687 TATCGATACAA
1 TATCGATACAA
1982698 TGTATCGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (19 bp):
TATCGATACAAAAGTGTTG
Found at i:1982838 original size:52 final size:52
Alignment explanation
Indices: 1982782--1982910 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1982772 TACTGATCTT
1982782 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * * *
1982834 TGTATCGATACATACAGGCAAATTTGCCCAGATGTGTTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1982886 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1982911 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1993579 original size:17 final size:17
Alignment explanation
Indices: 1993557--1993592 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1993547 ATTTTTACTA
1993557 ATATACATGCCAACATT
1 ATATACATGCCAACATT
1993574 ATATACATGCCAACATT
1 ATATACATGCCAACATT
1993591 AT
1 AT
1993593 GTGGTGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (17 bp):
ATATACATGCCAACATT
Found at i:1995746 original size:18 final size:18
Alignment explanation
Indices: 1995702--1995746 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1995692 TATTTTGTCT
*
1995702 AATTAATGATGTTAATTA
1 AATTAATGATGTGAATTA
* * *
1995720 AAATGATGATGTGATTTA
1 AATTAATGATGTGAATTA
1995738 AATTAATGA
1 AATTAATGA
1995747 ATAAAATAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (18 bp):
AATTAATGATGTGAATTA
Found at i:1996984 original size:44 final size:43
Alignment explanation
Indices: 1996899--1996990 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
1996889 TTTTGTGGGT
* *
1996899 TAAAATTTGCTATTATAAATTGATTATTTTGTTTTTTAGGAAG
1 TAAAATTTGCTATTATAAATCGATCATTTTGTTTTTTAGGAAG
* * *
1996942 TAAACTTTGTTATTATGAATCGATCA-TTTGTTTTGTTTAGGAAG
1 TAAAATTTGCTATTATAAATCGATCATTTTG-TTT-TTTAGGAAG
1996986 TAAAA
1 TAAAA
1996991 AATATTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.10
43 24 0.59
44 13 0.32
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (43 bp):
TAAAATTTGCTATTATAAATCGATCATTTTGTTTTTTAGGAAG
Found at i:1999162 original size:17 final size:18
Alignment explanation
Indices: 1999142--1999180 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1999132 TTAAAATTTT
1999142 CATAA-TTTGTATCGATA
1 CATAAGTTTGTATCGATA
1999159 CATAAGTTTTGTATCGATA
1 CATAAG-TTTGTATCGATA
1999178 CAT
1 CAT
1999181 GTATCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
19 15 0.75
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (18 bp):
CATAAGTTTGTATCGATA
Found at i:2000194 original size:20 final size:21
Alignment explanation
Indices: 2000147--2000195 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2000137 TCATGTTAAC
2000147 AGCTCATG-TTCATGCATTTTG
1 AGCT-ATGTTTCATGCATTTTG
*
2000168 AGCTATGTTTCATGCATTTTT
1 AGCTATGTTTCATGCATTTTG
2000189 AG-TATGT
1 AGCTATGT
2000196 CCAACACCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (21 bp):
AGCTATGTTTCATGCATTTTG
Found at i:2005621 original size:201 final size:201
Alignment explanation
Indices: 2005351--2005743 Score: 630
Period size: 201 Copynumber: 2.0 Consensus size: 201
2005341 CGGGTGGAAT
* *
2005351 AAATTCTTGAATTCGGGTAAAGTGCATGTTAGCAGAGCACGCAAGAGGAAAGGTATGATAAAGTT
1 AAATTCTTGAATTCGGGTAAAGTGCATGTTAGCAGAGCACGCAAAAGGAAAGGTATGAAAAAGTT
* *
2005416 TGAAAAATCATAACAGACTCATTGGGTATCGAAAAATTACAAATAATACCTTTTCAGAAAGGGAA
66 TGAAAAATCATAACAGACTCATTGGGCATCGAAAAATTACAAATAATACCTTTTCAGAAAGGAAA
2005481 TTTTGTAATATTTTTGGG-AAAATGTTTGGAAATTTTGAAAAAAATCATCTAGTGGGCCTGAATG
131 TTTTGTAATATTTTTGGGAAAAATGTTTGGAAATTTTG-AAAAAATCATCTAGTGGGCCTGAATG
2005545 GCATGAC
195 GCATGAC
*
2005552 AAATT-TTGAATTCGGGTAAAGTGTGC-TGTTAGCAGAGCACGCAAAAGGAAAGGTATGAAAAAT
1 AAATTCTTGAATTCGGGTAAA--GTGCATGTTAGCAGAGCACGCAAAAGGAAAGGTATGAAAAAG
* * * * **
2005615 TTTGAAAAATCATAACAGACTCATTGGGCATTGAAAATTTACAAATGATGCCTTTTTGGAAAGGA
64 TTTGAAAAATCATAACAGACTCATTGGGCATCGAAAAATTACAAATAATACCTTTTCAGAAAGGA
*
2005680 AATTTTGTAATATTTTTGGGAAAAATGTTTGGAAATTTTGGAAAAATCATCTAGTGGGCCTGAA
129 AATTTTGTAATATTTTTGGGAAAAATGTTTGGAAATTTTGAAAAAATCATCTAGTGGGCCTGAA
2005744 CGGCCCAACT
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
200 15 0.08
201 139 0.79
202 23 0.13
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (201 bp):
AAATTCTTGAATTCGGGTAAAGTGCATGTTAGCAGAGCACGCAAAAGGAAAGGTATGAAAAAGTT
TGAAAAATCATAACAGACTCATTGGGCATCGAAAAATTACAAATAATACCTTTTCAGAAAGGAAA
TTTTGTAATATTTTTGGGAAAAATGTTTGGAAATTTTGAAAAAATCATCTAGTGGGCCTGAATGG
CATGAC
Found at i:2010497 original size:14 final size:14
Alignment explanation
Indices: 2010467--2010495 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2010457 ATAATATGAT
2010467 AATAAATTTAATCA
1 AATAAATTTAATCA
2010481 AATAAATTTAA-CA
1 AATAAATTTAATCA
2010494 AA
1 AA
2010496 ATTAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAATTTAATCA
Found at i:2011632 original size:13 final size:14
Alignment explanation
Indices: 2011614--2011650 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2011604 TAAGTGTATA
2011614 ATTAAATTTA-TTT
1 ATTAAATTTATTTT
2011627 ATTAAAATTTATTTT
1 ATT-AAATTTATTTT
2011642 ATT-AATTTA
1 ATTAAATTTA
2011651 GTATTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 7 0.32
15 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAAATTTATTTT
Found at i:2011636 original size:14 final size:15
Alignment explanation
Indices: 2011617--2011646 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2011607 GTGTATAATT
2011617 AAATTTA-TTTATTA
1 AAATTTATTTTATTA
2011631 AAATTTATTTTATTA
1 AAATTTATTTTATTA
2011646 A
1 A
2011647 TTTAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTTATTTTATTA
Found at i:2019041 original size:51 final size:51
Alignment explanation
Indices: 2018975--2019090 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
2018965 AATTAACTAG
* * *
2018975 ATGTATGGATGCATTGAAAAATGTATCGATCCATCT-GAGTAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCAATCCATCTAG-GTAAAAAAATAGA
**
2019026 ATGTATCGATACATTGAAAAATGTATCAATGTATCTAGGTAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCAATCCATCTAGGTAAAAAAATAGA
2019077 ATGTATCGATACAT
1 ATGTATCGATACAT
2019091 GTACTATTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCAATCCATCTAGGTAAAAAAATAGA
Found at i:2023318 original size:19 final size:18
Alignment explanation
Indices: 2023294--2023354 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
2023284 CGATACATTA
2023294 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
2023313 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
2023326 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
2023345 TATCGATACA
1 TATCGATACA
2023355 TATCGTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:2023330 original size:32 final size:32
Alignment explanation
Indices: 2023284--2023355 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
2023274 AGCTGCGTAG
2023284 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* *
2023316 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
2023348 CGATACAT
1 CGATACAT
2023356 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:2033769 original size:13 final size:13
Alignment explanation
Indices: 2033751--2033775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2033741 TGCCAAAAAA
2033751 TGTATCGATACAT
1 TGTATCGATACAT
2033764 TGTATCGATACA
1 TGTATCGATACA
2033776 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2038910 original size:96 final size:97
Alignment explanation
Indices: 2038700--2038913 Score: 261
Period size: 97 Copynumber: 2.2 Consensus size: 97
2038690 TTTTTGGTTA
* * * * * *
2038700 AAAAATAGGGTTGGAGTATCCCCTCAGAGAAATAGGGTTGGAGTGTCCTCAACAATGAGAATTTA
1 AAAAATGGGGTTGGAGTATCCCCTCAAAGAAATAGGGTTGAAGTATCATCAACAATGACAATTTA
*
2038765 GGCAAAAATAAGATTTAAATCTTGATAAGTTT
66 AGCAAAAATAAGATTTAAATCTTGATAAGTTT
* ****
2038797 AAAAATGGGGTTAGAGTATCCCCTCGAAAG-AATAGGGTTGAAGTATCATCGTTGATGACAATTT
1 AAAAATGGGGTTGGAGTATCCCCTC-AAAGAAATAGGGTTGAAGTATCATCAACAATGACAATTT
** * *
2038861 AAGCAAAAA-GGGATTTAATTCTTGGTAAGTTT
65 AAGCAAAAATAAGATTTAAATCTTGATAAGTTT
2038893 AAAAATGGGGTTGGAGTATCC
1 AAAAATGGGGTTGGAGTATCC
2038914 TTTCGGTAGA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
96 39 0.39
97 57 0.58
98 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (97 bp):
AAAAATGGGGTTGGAGTATCCCCTCAAAGAAATAGGGTTGAAGTATCATCAACAATGACAATTTA
AGCAAAAATAAGATTTAAATCTTGATAAGTTT
Found at i:2040281 original size:20 final size:21
Alignment explanation
Indices: 2040245--2040283 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2040235 TTGGACATGT
2040245 TAAAATACATGGAACATGGCG
1 TAAAATACATGGAACATGGCG
*
2040266 TAAAATGCAT-GAACATGG
1 TAAAATACATGGAACATGG
2040284 TCTATTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (21 bp):
TAAAATACATGGAACATGGCG
Found at i:2040931 original size:15 final size:15
Alignment explanation
Indices: 2040911--2040939 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2040901 CTACCACTAT
2040911 TTGTATCGATACATG
1 TTGTATCGATACATG
2040926 TTGTATCGATACAT
1 TTGTATCGATACAT
2040940 TGCTTCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
TTGTATCGATACATG
Found at i:2046961 original size:79 final size:79
Alignment explanation
Indices: 2046819--2047075 Score: 286
Period size: 79 Copynumber: 3.3 Consensus size: 79
2046809 AAAGAAAAAG
* * * * **
2046819 AAATCGAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCTTGATTAT-AGAAAATC
1 AAATCGAGGTTGGAGTATCCTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTATGAG-AAATC
2046883 AGTATTTTGAAAATA
65 AGTATTTTGAAAATA
* *
2046898 AAATCGAGGTTAGAGTATCCTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCA
1 AAATCGAGGTTGGAGTATCCTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCA
* *
2046963 ATATTTT-AGAAATG
66 GTATTTTGA-AAATA
* * * * * **
2046977 AAGTTGGGGTTGGAGTATCCTCGCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTG
1 AAATCGAGGTTGGAGTATCCTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCA
* *
2047042 GTGTTTTGGAAATA
66 GTATTTTGAAAATA
*
2047056 AAAT-TAGAGTTGGAGTATCC
1 AAATCGAG-GTTGGAGTATCC
2047076 CTGATTGTGA
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
78 2 0.01
79 144 0.97
80 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
AAATCGAGGTTGGAGTATCCTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCA
GTATTTTGAAAATA
Found at i:2047075 original size:51 final size:51
Alignment explanation
Indices: 2047013--2047128 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
2047003 AAATAACGGG
* * * *
2047013 GTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAATAAAATTAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
* * * *
2047064 GTTGGAGTATCCCTGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
2047115 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2047129 TCGGAAAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
Found at i:2047263 original size:28 final size:28
Alignment explanation
Indices: 2047223--2047291 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
2047213 TATAAAGTCG
2047223 GGGTTGGAGTATCCCCTCG-GAAATAACA
1 GGGTTGGAGTAT-CCCTCGAGAAATAACA
2047251 GGGTTGGAGTAT-CCTCGATGAAATAACA
1 GGGTTGGAGTATCCCTCGA-GAAATAACA
2047279 GGGTTGGAGTATC
1 GGGTTGGAGTATC
2047292 TCCAATTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.13
28 33 0.87
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCTCGAGAAATAACA
Found at i:2047304 original size:110 final size:109
Alignment explanation
Indices: 2047096--2047346 Score: 335
Period size: 110 Copynumber: 2.3 Consensus size: 109
2047086 AAAATTGGTA
2047096 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAAAAAAGGGATTGGAGTATCCTCGATG
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAAAAAAGGGATTGGAGTATCCTCGATG
* *
2047161 AAATAACGGGGTAGGAGTACCCCCGATTATGAAAGAAATCAATAT
66 AAATAACAGGGTAGGAGTACCCCCAATTATGAAA-AAATCAATAT
* * *
2047206 TTTTAGATATAAAGTCGGGGTTGGAGTATCCCCTCGGAAATAACAGGG-TTGGAGTATCCTCGAT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAA-AAAAGGGATTGGAGTATCCTCGAT
* * * * *** *
2047270 GAAATAACAGGGTTGGAGTATCTCCAATTGTGAAAAAATTGGTGT
65 GAAATAACAGGGTAGGAGTACCCCCAATTATGAAAAAATCAATAT
* *
2047315 TTTGA-AAATAAAATCGGAGTTGGAGTATCCCC
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
2047347 GATTGCGGTA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
108 24 0.20
109 10 0.08
110 83 0.67
111 6 0.05
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (109 bp):
TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAAAAAAGGGATTGGAGTATCCTCGATG
AAATAACAGGGTAGGAGTACCCCCAATTATGAAAAAATCAATAT
Found at i:2047425 original size:51 final size:51
Alignment explanation
Indices: 2047303--2047425 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
2047293 CCAATTGTGA
* **
2047303 AAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGCG
1 AAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
** * * *
2047354 GTAAATCGATGCTTTAAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
1 AAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
2047405 AAAAATTGATGTTTTGAAAAT
1 AAAAATTGATGTTTTGAAAAT
2047426 GAGACCGGGA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
Found at i:2049774 original size:20 final size:20
Alignment explanation
Indices: 2049749--2049842 Score: 129
Period size: 20 Copynumber: 4.7 Consensus size: 20
2049739 AAAATGCCTG
*
2049749 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
2049769 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
2049789 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGAGA
2049809 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
2049829 AATGTATCGATACA
1 AATGTATCGATACA
2049843 CCTAGGTAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.01
20 66 0.97
21 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:2049813 original size:40 final size:39
Alignment explanation
Indices: 2049749--2049925 Score: 139
Period size: 40 Copynumber: 4.4 Consensus size: 39
2049739 AAAATGCCTG
* *
2049749 AATGTATCGATACATTGTA-AAATGTATCGATACAATGAGC
1 AATGTATCGATACAATG-AGTAATGTATCGATACAATGA-C
*
2049789 AATGTATCGATACAATGAGTAATGTATCGATACAATGCAA
1 AATGTATCGATACAATGAGTAATGTATCGATACAATG-AC
* * *
2049829 AATGTATCGATACACCT-AGGTAAACCCAGAAT-G-TATCAAT-AC
1 AATGTATCGATACA-ATGA-GT-AA---TGTATCGATA-CAATGAC
** *
2049871 AATGTATCGATACAATGAACAATGTATCAATACAATGAAC
1 AATGTATCGATACAATGAGTAATGTATCGATACAATG-AC
2049911 AATGTATCGATACAA
1 AATGTATCGATACAA
2049926 ATTGTGAAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
37 3 0.03
38 4 0.04
39 3 0.03
40 67 0.61
41 5 0.05
42 18 0.16
43 2 0.02
44 5 0.05
45 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (39 bp):
AATGTATCGATACAATGAGTAATGTATCGATACAATGAC
Found at i:2049894 original size:20 final size:20
Alignment explanation
Indices: 2049869--2049925 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
2049859 ATGTATCAAT
2049869 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2049889 ACAATGTATCAATACAATGA
1 ACAATGTATCGATACAATGA
2049909 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
2049926 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2049907 original size:13 final size:13
Alignment explanation
Indices: 2049858--2049887 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2049848 GTAAACCCAG
2049858 AATGTATCAATAC
1 AATGTATCAATAC
*
2049871 AATGTATCGATAC
1 AATGTATCAATAC
2049884 AATG
1 AATG
2049888 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:2051619 original size:21 final size:22
Alignment explanation
Indices: 2051595--2051644 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2051585 ATCAAATCTT
* *
2051595 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2051616 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2051638 --TCAAAAT
1 CTTCAAAAT
2051645 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:2052902 original size:20 final size:19
Alignment explanation
Indices: 2052856--2052912 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2052846 TTGTATGGAT
*
2052856 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2052875 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2052894 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2052913 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2052978 original size:13 final size:13
Alignment explanation
Indices: 2052957--2052987 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2052947 TGATACATGG
*
2052957 TACAATGTATCGA
1 TACATTGTATCGA
2052970 TACATTGTATCGA
1 TACATTGTATCGA
2052983 TACAT
1 TACAT
2052988 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2059363 original size:154 final size:154
Alignment explanation
Indices: 2059078--2059386 Score: 591
Period size: 154 Copynumber: 2.0 Consensus size: 154
2059068 TACATTGAAG
2059078 CATGTATCGATACATCTAGAAAACCTAGATGTATCGAAACAACATTCCTTGTATCGATACATGGG
1 CATGTATCGATACATCTAGAAAACCTAGATGTATCGAAACAACATTCCTTGTATCGATACATGGG
*
2059143 TTACTATTTAAATAGTCAAACCTTCCTCCTTCACTTTGTATCGATACCTATCACCCCAAAAACTA
66 TTACTATTTAAATAGTCAAACCTTCCTCCTTCACTTTGTATCGATACCCATCACCCCAAAAACTA
2059208 AAATCCTCTCAAACCCTAACAATC
131 AAATCCTCTCAAACCCTAACAATC
2059232 CATGTATCGATACATCTAGAAAACCTAGATGTATCGAAACAACATTCCTTGTATCGATACATGGG
1 CATGTATCGATACATCTAGAAAACCTAGATGTATCGAAACAACATTCCTTGTATCGATACATGGG
* *
2059297 TTACTATTTAAATAGTCGAACCTTCCTCCTTCACTTTGTATCGATACCCATCACCCCAAAACCTA
66 TTACTATTTAAATAGTCAAACCTTCCTCCTTCACTTTGTATCGATACCCATCACCCCAAAAACTA
2059362 AAATCCTCTCAAACCCTAACAATC
131 AAATCCTCTCAAACCCTAACAATC
2059386 C
1 C
2059387 TTCTTCAAAA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (154 bp):
CATGTATCGATACATCTAGAAAACCTAGATGTATCGAAACAACATTCCTTGTATCGATACATGGG
TTACTATTTAAATAGTCAAACCTTCCTCCTTCACTTTGTATCGATACCCATCACCCCAAAAACTA
AAATCCTCTCAAACCCTAACAATC
Found at i:2070979 original size:59 final size:59
Alignment explanation
Indices: 2070770--2071604 Score: 987
Period size: 59 Copynumber: 14.3 Consensus size: 59
2070760 TCCACTTTTT
* * * * **
2070770 AGTCCTCAGAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* * **
2070832 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCGCACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
2070891 TAGTCCTCAAAGAGCAGGACGTTTTTTCTCTTAAATCCCACACAAGTTGGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
2070951 AGTCCTCAAAGAGCGGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
2071010 AGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
2071069 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2071128 AGTCCTCAAAGAG-AGGGACGCCTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACTTTT
1 AGTCCTCAAAGAGCA-GGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
2071187 AATCCTCAAAGAACAAGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
2071246 AGTCCTCAAAGAGCAGGATG-CTTTTGC-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTC
* * *
2071306 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
2071367 AGTCCCCAAAGAGCAGGAC-CC-CTT-TC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* **
2071422 AGTCCTCAAAGAGCAGGACACC--TT-TC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
2071477 AGTCCTCAAAGAGCAGGAC-AC----CTCTTAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
2071532 AGTCCTCAAAGAGCAGGACGCC--TT-TC--AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
2071587 TGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
2071605 TACACTTTAT
Statistics
Matches: 698, Mismatches: 56, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
53 2 0.00
54 3 0.00
55 177 0.25
56 5 0.01
57 2 0.00
58 7 0.01
59 293 0.42
60 156 0.22
61 29 0.04
62 24 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:2071447 original size:27 final size:27
Alignment explanation
Indices: 2071417--2071557 Score: 67
Period size: 28 Copynumber: 5.1 Consensus size: 27
2071407 TTGGTGGCAT
2071417 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
2071444 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
2071472 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
** * **
2071499 TCTTAAAG-CCTACACAAGTTGGTGG-CACC
1 T-TTCCAGTCCT-CA-AAG-AGCAGGACACC
*
2071528 TTT-CAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
2071554 TTTC
1 TTTC
2071558 AAAGCCCACA
Statistics
Matches: 78, Mismatches: 24, Indels: 24
0.62 0.19 0.19
Matches are distributed among these distances:
25 6 0.08
26 14 0.18
27 18 0.23
28 21 0.27
29 13 0.17
30 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:2072361 original size:20 final size:20
Alignment explanation
Indices: 2072336--2072390 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
2072326 GCCAAGGAAA
*
2072336 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
* ** *
2072356 TGTATCAATACATGGATCTT
1 TGTATCGATACATTTATCTG
2072376 TGTATCGATACATTT
1 TGTATCGATACATTT
2072391 GGAAATTTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:2074810 original size:51 final size:53
Alignment explanation
Indices: 2074724--2074853 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 53
2074714 AGTTTCTAAA
* * * * *
2074724 TTCTCCACAATCAGGGATATTCCAA-TCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
2074774 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
2074828 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2074854 CCCGTTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
49 2 0.03
50 18 0.27
51 14 0.21
53 9 0.13
54 21 0.31
55 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2074953 original size:52 final size:53
Alignment explanation
Indices: 2074871--2075039 Score: 148
Period size: 52 Copynumber: 3.2 Consensus size: 53
2074861 TTTCCAAGGA
* * * * *
2074871 GATATTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCACAATCGGG
* * * * ** *
2074923 GATACTCTAACCCCGATTTTTTTTTC-AAAACGCCAA-TTTTCCTTTAATTGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCC-ACAATCGGG
* * * *
2074975 GATATTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTTT-CACAATCGAG
1 GATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTTTTCCACAATCGGG
2075028 GATACTCCAACC
1 GATACTCCAACC
2075040 TCGTTATTTC
Statistics
Matches: 89, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
51 6 0.07
52 52 0.58
53 18 0.20
54 9 0.10
55 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (53 bp):
GATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCACAATCGGG
Found at i:2075058 original size:28 final size:28
Alignment explanation
Indices: 2075022--2075098 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
2075012 ATTTTTCACA
* * *
2075022 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2075050 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
2075078 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
2075099 ACTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2075067 original size:185 final size:184
Alignment explanation
Indices: 2074727--2075070 Score: 503
Period size: 185 Copynumber: 1.9 Consensus size: 184
2074717 TTCTAAATTC
* * *
2074727 TCCACAATCAGGGATATTCCAATCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGAT
1 TCCACAATCAGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGAT
*
2074792 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCC
66 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
*
2074857 GTTATTTCCAAGGAGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
131 GTTATTTCCAAGGAGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
* * * * * *
2074911 TCCACAATCGGGGATACTCTAACCCCGATTTTTTTTTCAAAACGCCAATTTTCCTTTAATTGGGG
1 TCCACAATCAGGGATACTCCAA-CCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
2074976 ATATTCCAACTCCGATTTTATTTCCAAAAAATACCAATTT-TTCACAATCGAGGATACTCCAACC
64 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
2075040 TCGTTATTT-CATCGGGGATACTCCAACCCCG
129 CCGTTATTTCCA-AGGAGATACTCCAACCCCG
2075071 TTACTTCTGA
Statistics
Matches: 141, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
184 21 0.15
185 72 0.51
186 48 0.34
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (184 bp):
TCCACAATCAGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGAT
ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
GTTATTTCCAAGGAGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
Found at i:2075232 original size:78 final size:79
Alignment explanation
Indices: 2075052--2075255 Score: 225
Period size: 78 Copynumber: 2.6 Consensus size: 79
2075042 GTTATTTCAT
*
2075052 CGGGGATACTCCAACCCCGTTA-CTTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGACTTTATTCCCAAAATA
* * *
2075116 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * ** *
2075131 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGA-TTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
2075194 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * * *
2075209 CGGGGATACTCGAGCCCCATTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2075256 TTATTATCTC
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
77 3 0.03
78 58 0.55
79 41 0.39
80 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Done.