Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold471
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: 409746
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:1341 original size:21 final size:21
Alignment explanation
Indices: 1312--1356 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1302 AAGTTTTTAT
*
1312 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1332 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1354 TTT
1 TTT
1357 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3576 original size:20 final size:20
Alignment explanation
Indices: 3551--3602 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
3541 TACAAGCCAA
** *
3551 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
3571 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
3590 TGTATCGATACAA
1 TGTATCGATACAA
3603 GTTTGGCGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:3608 original size:19 final size:18
Alignment explanation
Indices: 3551--3608 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
3541 TACAAGCCAA
*
3551 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
3571 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3590 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3609 CGACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:6656 original size:52 final size:52
Alignment explanation
Indices: 6508--6636 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
6498 CGAAATATGA
6508 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* * *
6560 AAATTTGCCTACATGTATCGATACATTTTATAATCTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
6612 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
6637 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:6663 original size:13 final size:13
Alignment explanation
Indices: 6645--6669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6635 CAAAGATCAG
6645 TGTATCGATACAA
1 TGTATCGATACAA
6658 TGTATCGATACA
1 TGTATCGATACA
6670 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11963 original size:52 final size:52
Alignment explanation
Indices: 11814--11942 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
11804 CGAAATATGA
* *
11814 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
11866 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
11918 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
11943 AAGATCAGTG
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:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:12025 original size:13 final size:13
Alignment explanation
Indices: 12007--12071 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 13
11997 AGCTTCGTAG
12007 CGATACATTGTAT
1 CGATACATTGTAT
12020 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
*
12039 CGATATATTGTAT
1 CGATACATTGTAT
12052 CGATAC-TATGTAT
1 CGATACAT-TGTAT
12065 CGATACA
1 CGATACA
12072 ATTTCTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
12 1 0.02
13 24 0.57
15 2 0.05
16 5 0.12
17 2 0.05
19 8 0.19
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:13786 original size:17 final size:17
Alignment explanation
Indices: 13761--13825 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
13751 ATAAAATATA
13761 TAAATTTTAATTTAATT
1 TAAATTTTAATTTAATT
13778 TAAAATTTATAA-TT-ATT
1 T-AAATTT-TAATTTAATT
* * *
13795 T-GAGTTTAATTAAATT
1 TAAATTTTAATTTAATT
*
13811 TTAATTTTAATTTAA
1 TAAATTTTAATTTAA
13826 GATAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 4 0.11
17 15 0.41
18 8 0.22
19 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAAATTTTAATTTAATT
Found at i:14041 original size:13 final size:13
Alignment explanation
Indices: 14023--14048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14013 AGATCAATCG
14023 AATTTTAATTTTA
1 AATTTTAATTTTA
14036 AATTTTAATTTTA
1 AATTTTAATTTTA
14049 CTTTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTTTAATTTTA
Found at i:14685 original size:23 final size:23
Alignment explanation
Indices: 14654--14700 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14644 TACAATAAAA
* *
14654 TTTATATTTTAATTACTTCAAAT
1 TTTAAATTTAAATTACTTCAAAT
* *
14677 TTTAAATTTAAATTATTTTAAAT
1 TTTAAATTTAAATTACTTCAAAT
14700 T
1 T
14701 CAGATGATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAATTTAAATTACTTCAAAT
Found at i:15035 original size:22 final size:21
Alignment explanation
Indices: 15008--15048 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14998 TATTAAAAAT
* *
15008 TATTTTTATATTAATATTTATA
1 TATTTTCAAATTAA-ATTTATA
15030 TATTTTCAAATTAAATTTA
1 TATTTTCAAATTAAATTTA
15049 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTCAAATTAAATTTATA
Found at i:15462 original size:3 final size:3
Alignment explanation
Indices: 15454--15498 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15444 TTTAGTTAAC
15454 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15499 AATTAAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16005 original size:22 final size:22
Alignment explanation
Indices: 15963--16010 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
15953 TTTTTTTCAC
* * *
15963 ATTTGTTTATTTCATGTTATTT
1 ATTTGTATATTTCATGATATTA
15985 ATTTGTATATTATCAT-ATATTA
1 ATTTGTATATT-TCATGATATTA
16007 ATTT
1 ATTT
16011 TTTTATATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (22 bp):
ATTTGTATATTTCATGATATTA
Found at i:17298 original size:2 final size:2
Alignment explanation
Indices: 17291--17317 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17281 CTTCTATGGT
17291 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17318 GTTTATATCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18776 original size:19 final size:18
Alignment explanation
Indices: 18752--18787 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
18742 AAATTTAAAA
18752 ATTTATATATTTATATTAT
1 ATTTATATATTT-TATTAT
18771 ATTTATATATTTTATTA
1 ATTTATATATTTTATTA
18788 CATTATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:21956 original size:16 final size:16
Alignment explanation
Indices: 21935--21977 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
21925 ATGTCAAAAT
*
21935 TAAAATATTAATACAA
1 TAAAATATTAAGACAA
* *
21951 TAAAATCTTAAGATAA
1 TAAAATATTAAGACAA
*
21967 TAAAATTTTAA
1 TAAAATATTAA
21978 ACGTACTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAAATATTAAGACAA
Found at i:22811 original size:23 final size:23
Alignment explanation
Indices: 22786--22829 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22776 AAATTTTATT
*
22786 TTTTAAATATT-TTCTTGTGAAA
1 TTTTAAAAATTATTCTTGTGAAA
*
22808 TTTTAAAAATTATTTTTGTGAA
1 TTTTAAAAATTATTCTTGTGAA
22830 TGATATCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTAAAAATTATTCTTGTGAAA
Found at i:23601 original size:168 final size:166
Alignment explanation
Indices: 23407--23862 Score: 524
Period size: 168 Copynumber: 2.7 Consensus size: 166
23397 AAATTTTTGG
* * *
23407 GAGGATTTTTCTTAGTTTTAAATTTTTTAAATTCATCAAATATTATTAATTAATTCATATTAAAT
1 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
*
23472 CAGTTTTTAAAAATTTATTCATTTTGATAAATTTTTGAATTTTTTCCTTGAAACTCCCCCT-TGT
66 CAGTTTTTAAAAATTTATTCATTTTCAT-AATTTTTGAATTTTTTCCTTGAAA-TCCCCCTATGT
* * **
23536 TCTGAAATATAGAATTTTCTACTATGTAAATATTTTT-GA
129 TC-AAAATACAGAATTTTCTACTACATAAAT-TTTTTCGA
* * *
23575 -AGGGATTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCACATTAAA
1 GA-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
* * * * *** *
23639 TCTGTTTTTAAAAATTTATTCATCTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTCCTATTT
65 TCAGTTTTTAAAAATTTATTCATTTTCAT-AATTTTTGAATTTTTTCCTTGAAATCCCCCTATGT
* * * *
23704 TCAAAATACGGAGTTTTCTACTCCATAAATTTTTTCGG
129 TCAAAATACAGAATTTTCTACTACATAAATTTTTTCGA
* * * * *
23742 GAGGCTTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATACTATTATTTGATTCATATTAAAA
1 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
* * * * *
23807 CA-TTTTTGAAAAATTAATTTATTTTCATGATTTTTGGATTTTTTCTTTGAAATCCC
66 CAGTTTTT-AAAAATTTATTCATTTTCATAATTTTTGAATTTTTTCCTTGAAATCCC
23863 TTTTTCTTGA
Statistics
Matches: 239, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
166 30 0.13
167 100 0.42
168 109 0.46
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (166 bp):
GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
CAGTTTTTAAAAATTTATTCATTTTCATAATTTTTGAATTTTTTCCTTGAAATCCCCCTATGTTC
AAAATACAGAATTTTCTACTACATAAATTTTTTCGA
Found at i:23791 original size:167 final size:165
Alignment explanation
Indices: 23345--23851 Score: 543
Period size: 167 Copynumber: 3.0 Consensus size: 165
23335 GAGTTAGTGA
* * * * * * *
23345 TTTTCCTTCGAAATTTCTCCTGTTTTCAAATTACGGGGTTTCCTTCTTCGTAAAATTTTTGGGAG
1 TTTTCCTTCAAAATTT-TCCT-TTTTCAAAATACGGAGTTTTCTACTACGTAAATTTTTTGGGAG
* * * *
23410 GATTTTTCTTAGTTTTAAATTTTTTAAATTCATCAAATATTATTAATTAATTCATATTAAATCAG
64 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCTG
* *
23475 TTTTTAAAAATTTATTCATTTTGATAAATTTTTGAATT
129 TTTTTAAAAATTTATTCATTTTCAT-GATTTTTGAATT
* * *** * * ** * * *
23513 TTTTCCTTGAAACTCCCCCTTGTTCTGAAATATAGAATTTTCTACTATGTAAATATTTTT-GAAG
1 TTTTCCTTCAAAATTTTCCTTTTTC-AAAATACGGAGTTTTCTACTACGTAAAT-TTTTTGGGA-
* * *
23577 GGATTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCACATTAAATCT
63 GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCT
*
23642 GTTTTTAAAAATTTATTCATCTTCATGAGTTTTTGAATT
128 GTTTTTAAAAATTTATTCATTTTCATGA-TTTTTGAATT
* *
23681 TTTTCCTT-AAAATTTTCCTATTTTCAAAATACGGAGTTTTCTACTCCATAAATTTTTTCGGGAG
1 TTTTCCTTCAAAATTTTCCT-TTTTCAAAATACGGAGTTTTCTACTACGTAAATTTTTT-GGGAG
* * * * *
23745 GCTTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATACTATTATTTGATTCATATTAAAACAT
64 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATC-T
* * * *
23810 -TTTTGAAAAATTAATTTATTTTCATGATTTTTGGATT
128 GTTTTTAAAAATTTATTCATTTTCATGATTTTTGAATT
23847 TTTTC
1 TTTTC
23852 TTTGAAATCC
Statistics
Matches: 276, Mismatches: 55, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
166 23 0.08
167 130 0.47
168 123 0.45
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (165 bp):
TTTTCCTTCAAAATTTTCCTTTTTCAAAATACGGAGTTTTCTACTACGTAAATTTTTTGGGAGGA
TTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCTGTT
TTTAAAAATTTATTCATTTTCATGATTTTTGAATT
Found at i:24160 original size:10 final size:10
Alignment explanation
Indices: 24145--24181 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
24135 TGATTTTTGA
24145 TAATTTGATT
1 TAATTTGATT
*
24155 TTATTTGATT
1 TAATTTGATT
24165 TAATTTGATT
1 TAATTTGATT
24175 TAATTTG
1 TAATTTG
24182 TTTTTCCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (10 bp):
TAATTTGATT
Found at i:24854 original size:16 final size:18
Alignment explanation
Indices: 24822--24855 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
24812 ATGAATCTTT
24822 AAATCTTATTATGAAACA
1 AAATCTTATTATGAAACA
24840 AAAT-TTATT-TGAAACA
1 AAATCTTATTATGAAACA
24856 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
AAATCTTATTATGAAACA
Found at i:25192 original size:19 final size:20
Alignment explanation
Indices: 25170--25213 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25160 ATAAAATATC
25170 AATATTA-CTTGA-AAATAAA
1 AATATTATCTT-ATAAATAAA
*
25189 AATATTATCTTATAAATCAA
1 AATATTATCTTATAAATAAA
25209 AATAT
1 AATAT
25214 GCAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATTATCTTATAAATAAA
Found at i:27120 original size:13 final size:13
Alignment explanation
Indices: 27101--27138 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
27091 TATTGGTGAG
27101 AAAGAAGGAAGAA
1 AAAGAAGGAAGAA
*
27114 GAAGAAGGAAGGAA
1 AAAGAAGGAA-GAA
27128 AAAGAA-GAAGA
1 AAAGAAGGAAGA
27139 GGAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 12 0.55
14 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (13 bp):
AAAGAAGGAAGAA
Found at i:27124 original size:17 final size:17
Alignment explanation
Indices: 27099--27145 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
27089 GTTATTGGTG
* *
27099 AGAAAGAAGGAAGAAGA
1 AGAAGGAAGGAAAAAGA
27116 AGAAGGAAGGAAAAAGA
1 AGAAGGAAGGAAAAAGA
27133 AGAA-G-AGGAAAAA
1 AGAAGGAAGGAAAAA
27146 AAACAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.29
16 1 0.04
17 19 0.68
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGAAGGAAGGAAAAAGA
Found at i:27146 original size:17 final size:19
Alignment explanation
Indices: 27109--27147 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
27099 AGAAAGAAGG
27109 AAGAAGAAGAAGGAAGGAAA
1 AAGAAGAAGAAGGAA-GAAA
27129 AAGAAGAAG-AGGAA-AAA
1 AAGAAGAAGAAGGAAGAAA
27146 AA
1 AA
27148 ACAAAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAGAAGAAGAAGGAAGAAA
Found at i:30324 original size:13 final size:13
Alignment explanation
Indices: 30306--30341 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30296 ATTTATGATG
*
30306 TATCGATACACTA
1 TATCGATACAATA
*
30319 TATCGATACAATG
1 TATCGATACAATA
30332 TATCGATACA
1 TATCGATACA
30342 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:30429 original size:22 final size:22
Alignment explanation
Indices: 30399--30454 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
30389 GTGAACAGTG
*
30399 TGAACAGTGATGTATTGATACA
1 TGAACAGTGATGTATCGATACA
*
30421 TGAAAAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
30443 TGAACAGTGATG
1 TGAACAGTGATG
30455 AATAGTGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:30461 original size:10 final size:10
Alignment explanation
Indices: 30442--30472 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30432 GTATCGATAC
30442 ATGAACAGTG
1 ATGAACAGTG
*
30452 ATGAATAGTG
1 ATGAACAGTG
30462 ATGAACAGTG
1 ATGAACAGTG
30472 A
1 A
30473 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:30562 original size:53 final size:53
Alignment explanation
Indices: 30497--30633 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
30487 CTACTACCAA
30497 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * *
30550 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
30603 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
30634 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:30739 original size:21 final size:21
Alignment explanation
Indices: 30713--30753 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30703 GTCAACCTTG
30713 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
30734 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
30754 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:31349 original size:5 final size:5
Alignment explanation
Indices: 31334--31370 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
31324 ATTACTCGTC
31334 TTTTG -TTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTT
31371 CTTGCATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:34066 original size:22 final size:22
Alignment explanation
Indices: 34041--34108 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
34031 GCAAAAGCAC
34041 AAAAAATG-AAAAGAAAAATAA
1 AAAAAATGCAAAAGAAAAATAA
* *
34062 AAAAAGTGCAAAAGTAAAAT--
1 AAAAAATGCAAAAGAAAAATAA
* *
34082 AAAAAATGAAACAACAAAAATAA
1 AAAAAATGCAA-AAGAAAAATAA
34105 AAAA
1 AAAA
34109 CAAGGATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.24
21 14 0.38
22 10 0.27
23 4 0.11
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.10
Consensus pattern (22 bp):
AAAAAATGCAAAAGAAAAATAA
Found at i:36066 original size:52 final size:52
Alignment explanation
Indices: 35988--36115 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
35978 CGAAATATGA
*
35988 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
36040 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
36092 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
36116 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:36142 original size:13 final size:13
Alignment explanation
Indices: 36124--36148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36114 CAAAGATCAG
36124 TGTATCGATACAA
1 TGTATCGATACAA
36137 TGTATCGATACA
1 TGTATCGATACA
36149 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36230 original size:13 final size:13
Alignment explanation
Indices: 36212--36236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36202 CAAAAAAATA
36212 TGTATCGATACAT
1 TGTATCGATACAT
36225 TGTATCGATACA
1 TGTATCGATACA
36237 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:36232 original size:33 final size:33
Alignment explanation
Indices: 36190--36256 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36180 AGTAGCTTAA
36190 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
36223 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
36256 A
1 A
36257 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:37274 original size:32 final size:32
Alignment explanation
Indices: 37238--37322 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 32
37228 TTTCCTTTCA
* *
37238 AAAGCCCACACAAGTTATTGGCAACCCCTTTT
1 AAAGCCCACACAAGTTAGTGGCAAACCCTTTT
* **
37270 AAAG-CC-CATAAGTCGGTGGCAAACCCTTTT
1 AAAGCCCACACAAGTTAGTGGCAAACCCTTTT
*
37300 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTAGTGGCA
37323 CTCGTTCAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 23 0.52
31 4 0.09
32 17 0.39
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (32 bp):
AAAGCCCACACAAGTTAGTGGCAAACCCTTTT
Found at i:37361 original size:62 final size:62
Alignment explanation
Indices: 37295--38330 Score: 1257
Period size: 62 Copynumber: 17.0 Consensus size: 62
37285 GTGGCAAACC
* * *
37295 CTTTTAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * *
37357 CTTTTAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * *
37419 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGTAGGATGCC-TTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * *
37480 -TTTTAAAGCCCACACAAGTT-GTGGCACCCGTTCAGCCCCCAAAGAGCAGGACGCTTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* *
37540 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCTTCAAAGAGCAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * ** * *
37602 CTTTTAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTTAAAGAATAGGACGTCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * *
37664 CTTTTAAAGCCCACATAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGCAGGAAGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * *
37726 CTTTTAAAGCCCACACAAGTTGGTGGCAGCCATTCAGTCCTCAAAGAGCAAGACGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * *
37788 CTTTTAAAGCCCACACAAGTTGGTGGCAGCCATTCAGTCCTCAAAGAGCAAGACGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * *
37850 CTTTTAAAGCCCACACAAGTTGGTGGCAGCCATTCAGTCCTCAAAGAGCAAGACGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * ** *
37912 CTTTTAAAGCCTATACAAGTTGGTGGCACATGTTCAGTCCTCAAAGAGCA-GACGCCTATTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
** * * * * *
37973 -TTAAAAAGCCCACACAAGTTTGTGGTACCCGTTCAGTCTTTAAAGAGCAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
** * * * *
38034 -TTAAAAAAGCCCACACAAGTTGGTGGCACCCATTCAGTTCTCAAAGAGTAGGATGCC--TTT
1 CTT-TTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * *
38094 -TTTAAAAGCCTACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAAGG-CACC--TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGC-AGGACGCCTTTTT
* * *
38153 -TTTAAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTCAAAGAGCAGGACACC--TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * ** * * * *
38212 -TTTAAAAGCCCACATAAGTTGGTGG--CCTATTTAGTCCTTAAAGAGCAGGATGTC-TTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
38270 -TTTAAAAGCCCACACAAGTTTGTGGCACCCGTTTAGTCCTCAAAGAGTAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
38331 TTAAGAGCAT
Statistics
Matches: 874, Mismatches: 89, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
57 21 0.02
58 29 0.03
59 152 0.17
60 93 0.11
61 48 0.05
62 531 0.61
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
Found at i:38387 original size:81 final size:80
Alignment explanation
Indices: 38265--38414 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 80
38255 AGCAGGATGT
* *
38265 CTTTTTTTAAAAGCCCACACAAGTTTGTGGCACCCGTTTAGTCCTCAAAGAGTAGGACACCTTTT
1 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGAC-CCTTTT
38330 TTTAAGAGCATGACGC
65 TTTAAGAGCATGACGC
* *
38346 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCTTTTT
1 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGACCCTTTTT
38411 TTAA
66 TTAA
38415 AGCCCACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 10 0.15
81 55 0.85
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (80 bp):
CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGACCCTTTTT
TTAAGAGCATGACGC
Found at i:38448 original size:31 final size:31
Alignment explanation
Indices: 38413--38539 Score: 123
Period size: 31 Copynumber: 4.1 Consensus size: 31
38403 CGCTTTTTTT
* *
38413 AAAGCCCACATAAGTTGACGGCACCATTA-TC
1 AAAGCCCACATGAGTTGACGGCACC-CTAGTC
* * *
38444 AAAGCCCGCACGAGTTGGCGGCACCCTAGTC
1 AAAGCCCACATGAGTTGACGGCACCCTAGTC
**
38475 AAAGCCCACATGAGTTGGA-AACACCCTAGTC
1 AAAGCCCACATGAGTT-GACGGCACCCTAGTC
* * * *
38506 AAATCCCCCAGGAGTTGGCGGCACCCTAGTC
1 AAAGCCCACATGAGTTGACGGCACCCTAGTC
38537 AAA
1 AAA
38540 TCCTACACAA
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
30 3 0.04
31 73 0.95
32 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (31 bp):
AAAGCCCACATGAGTTGACGGCACCCTAGTC
Found at i:38560 original size:31 final size:31
Alignment explanation
Indices: 38463--38619 Score: 127
Period size: 31 Copynumber: 5.1 Consensus size: 31
38453 ACGAGTTGGC
* ** * *
38463 GGCACCCTAGTCAAAGCCCACATGAGTTGGA
1 GGCACCCTAGTCAAATCCCACACAAGTCGGT
** * ** * *
38494 AACACCCTAGTCAAATCCCCCAGGAGTTGGC
1 GGCACCCTAGTCAAATCCCACACAAGTCGGT
* *
38525 GGCACCCTAGTCAAATCCTACACAAGTCAGT
1 GGCACCCTAGTCAAATCCCACACAAGTCGGT
* * * * *
38556 GGCACCCTTGTCAAAGCCCGCACAAATTGGT
1 GGCACCCTAGTCAAATCCCACACAAGTCGGT
38587 GGCA-CCTAAGTCAAATCCCACACAAGTCGGT
1 GGCACCCT-AGTCAAATCCCACACAAGTCGGT
38618 GG
1 GG
38620 TGCCCCTTTT
Statistics
Matches: 98, Mismatches: 27, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
30 3 0.03
31 95 0.97
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (31 bp):
GGCACCCTAGTCAAATCCCACACAAGTCGGT
Found at i:38562 original size:62 final size:62
Alignment explanation
Indices: 38442--38619 Score: 187
Period size: 62 Copynumber: 2.9 Consensus size: 62
38432 GGCACCATTA
* * ** * ***
38442 TCAAAGCCCGCACGAGTTGGCGGCACCCTAGTCAAAGCCCACATGAGTTGGAAACACCCTAG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCCACACAAGTCGGTGGCACCCTAG
* * * * *
38504 TCAAATCCCCCAGGAGTTGGCGGCACCCTAGTCAAATCCTACACAAGTCAGTGGCACCCTTG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCCACACAAGTCGGTGGCACCCTAG
* * * *
38566 TCAAAGCCCGCACAAATTGGTGGCA-CCTAAGTCAAATCCCACACAAGTCGGTGG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCT-AGTCAAATCCCACACAAGTCGGTGG
38620 TGCCCCTTTT
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
61 3 0.03
62 91 0.97
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (62 bp):
TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCCACACAAGTCGGTGGCACCCTAG
Found at i:38675 original size:32 final size:31
Alignment explanation
Indices: 38639--38790 Score: 108
Period size: 32 Copynumber: 4.8 Consensus size: 31
38629 TCAAAAACCT
* * * *
38639 ACATAAGTTGGTGGCATCTTTTTTTAAAGCCC
1 ACATAAGTTGGTGGCAAC-CTCTTCAAAGCCC
* *
38671 ACATAAGTCGGTGGCAACC-CTCTCTAAAGTCC
1 ACATAAGTTGGTGGCAACCTCT-TC-AAAGCCC
* *
38703 ACATAAGTTGGTGGCAACACCCTTCAAAGCCT
1 ACATAAGTTGGTGGCAAC-CTCTTCAAAGCCC
* ** * * *
38735 ACACAAGTTCATGGCATCTTTTTCAAAGCCC
1 ACATAAGTTGGTGGCAACCTCTTCAAAGCCC
* *
38766 ACACAAGTTGGTGGTAACCCTCTTC
1 ACATAAGTTGGTGGCAA-CCTCTTC
38791 TGAAGACCAC
Statistics
Matches: 92, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
30 1 0.01
31 23 0.25
32 63 0.68
33 3 0.03
34 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
ACATAAGTTGGTGGCAACCTCTTCAAAGCCC
Found at i:38814 original size:96 final size:96
Alignment explanation
Indices: 38636--38814 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 96
38626 TTTTCAAAAA
* ** * * *
38636 CCTACATAAGTTGGTGGCATCTTTTTTTAAAGCCCACATAAGTCGGTGGCAACCCTCTCTAAAGT
1 CCTACACAAGTTCATGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGA
* *
38701 CCACATAAGTTGGTGGCAACACCCTTCAAAG
66 CCACATAAGTCGATGGCAACACCCTTCAAAG
* * *
38732 CCTACACAAGTTCATGGCATC-TTTTTCAAAGCCCACACAAGTTGGTGGTAACCCTCTTCTGAAG
1 CCTACACAAGTTCATGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAG
38796 ACCACA-ATAGTCGATGGCA
65 ACCACATA-AGTCGATGGCA
38815 TTTCCTTCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
95 32 0.46
96 38 0.54
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (96 bp):
CCTACACAAGTTCATGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGA
CCACATAAGTCGATGGCAACACCCTTCAAAG
Found at i:39919 original size:14 final size:14
Alignment explanation
Indices: 39900--39935 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
39890 ATTGGTGAGA
*
39900 AAGAAGGAAGGAAG
1 AAGAAGAAAGGAAG
39914 AAGAAGAAAGGAAG
1 AAGAAGAAAGGAAG
39928 AAGAAGAA
1 AAGAAGAA
39936 GATGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAGGAAG
Found at i:39930 original size:17 final size:18
Alignment explanation
Indices: 39903--39937 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
39893 GGTGAGAAAG
39903 AAGGAAGGAAGAAGAAGA
1 AAGGAAGGAAGAAGAAGA
39921 AAGGAA-GAAGAAGAAGA
1 AAGGAAGGAAGAAGAAGA
39938 TGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
AAGGAAGGAAGAAGAAGA
Found at i:42606 original size:20 final size:20
Alignment explanation
Indices: 42581--42620 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42571 TAGTAATAAG
*
42581 TAAAAATAAAA-AATTAAAAT
1 TAAAAA-AAAATAATAAAAAT
42601 TAAAAAAAAATAATAAAAAT
1 TAAAAAAAAATAATAAAAAT
42621 GAAGGCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAAAAAATAATAAAAAT
Found at i:42634 original size:13 final size:14
Alignment explanation
Indices: 42618--42717 Score: 50
Period size: 14 Copynumber: 8.2 Consensus size: 14
42608 AAATAATAAA
42618 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
42631 AATGATGGGCATGG
1 AATGATAGGCATGG
*
42645 AAT-ATA---A--A
1 AATGATAGGCATGG
42653 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
42666 AATGATGGGCATGG
1 AATGATAGGCATGG
*
42680 AAT-ATA---A--A
1 AATGATAGGCATGG
42688 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
42701 AATGATGGGCATGG
1 AATGATAGGCATGG
42715 AAT
1 AAT
42718 ATAAAAATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 29
0.62 0.09 0.29
Matches are distributed among these distances:
8 8 0.13
9 2 0.03
10 2 0.03
11 2 0.03
13 19 0.30
14 30 0.48
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (14 bp):
AATGATAGGCATGG
Found at i:42659 original size:35 final size:35
Alignment explanation
Indices: 42613--42782 Score: 331
Period size: 35 Copynumber: 4.9 Consensus size: 35
42603 AAAAAAAATA
42613 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
42648 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
42683 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
42718 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
42753 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
42783 AAAAAATGAA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 133 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:42663 original size:21 final size:20
Alignment explanation
Indices: 42638--42773 Score: 83
Period size: 21 Copynumber: 7.5 Consensus size: 20
42628 TGGAATGATG
42638 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
*
42659 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
42673 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
*
42694 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
42708 GGCATGGAATATAAAAATGGA
1 GGCATGGAATATAAAAAT-GA
*
42729 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
42743 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
42764 GGCATGGAAT
1 GGCATGGAAT
42774 GATGGGCATA
Statistics
Matches: 88, Mismatches: 6, Indels: 42
0.65 0.04 0.31
Matches are distributed among these distances:
14 21 0.24
15 4 0.05
16 14 0.16
19 14 0.16
20 4 0.05
21 31 0.35
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.20
Consensus pattern (20 bp):
GGCATGGAATATAAAAATGA
Found at i:44309 original size:79 final size:79
Alignment explanation
Indices: 44178--45102 Score: 1373
Period size: 79 Copynumber: 11.8 Consensus size: 79
44168 TTTAATTTTC
* * * *
44178 TCAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
44243 TTATTTCTAAAACA
66 TTATTTCTAAAACA
**
44257 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTAGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
44322 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* * *
44336 TGAATTTTTCATAATCGGGGATACTCCAACCGCGTTATTTTTGAGGGGATACTCCAACCCC-G--
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
44398 --ATTT-TATAACA
66 TTATTTCTAAAACA
* * * * *
44409 TCAATTTTTCATAATCGGGGATACTCTAACCCCATTTTTTTCGAGAGGATACTCCAATCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
44474 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* * *
44488 TCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
* *
44553 TTATCTCTAGAACA
66 TTATTTCTAAAACA
*
44567 TCATTTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
44632 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
44646 TCAATTTTTCATAATCGGGGATACTCCAACCTCGTTA-TTTCTGAGGGGATACTCCAACCCCGAT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGT
* *
44710 TTTATCTCTAGAACA
65 TTTATTTCTAAAACA
*
44725 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
44790 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
44804 TCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
* *
44869 TTATCTCTAGAACA
66 TTATTTCTAAAACA
*
44883 TCAATTTTTCGTAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
44948 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
44962 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
45027 TTATTTCAAAAACA
66 TTATTTCTAAAACA
* * * * * * *
45041 CCAATTTTTCACAATCGAGGATACTTCAAGCTCGTTA-TTTC-ATTAGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGA--GGGGATACTCCAACCCCG
45103 TTACCTTCGA
Statistics
Matches: 769, Mismatches: 67, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
73 59 0.08
74 4 0.01
77 1 0.00
78 11 0.01
79 690 0.90
80 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:45215 original size:51 final size:51
Alignment explanation
Indices: 45115--45283 Score: 175
Period size: 51 Copynumber: 3.3 Consensus size: 51
45105 ACCTTCGAGG
* ** * * * * * *
45115 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGA-TTTCTCATAATCGG
1 GGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTC-CACAATCGA
45166 GGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGA
1 GGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGA
* *
45217 GGATACTCTAACC-CTGGTTTTATTT-TAAAAACACCAATCTTT-CACAATCGA
1 GGATACTCCAACCTC-GGTTTTATTTCT-AAAACACTAAT-TTTCCACAATCGA
45268 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
45284 TTATTTCATC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.02
51 91 0.90
52 8 0.08
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGA
Found at i:45262 original size:209 final size:209
Alignment explanation
Indices: 45008--45390 Score: 649
Period size: 209 Copynumber: 1.8 Consensus size: 209
44998 ATTTCCGAGG
* * *
45008 GGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATTTTTCACAATCGAGGATACTTCAAGCT
1 GGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCT
* * *
45073 CGTTATTTCATTAGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGACTTTAT
66 CGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTAT
45138 TTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAA
131 TTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAA
45203 TTTTCCACAATCGA
196 TTTTCCACAATCGA
* * *
45217 GGATACTCTAACCCTGGTTTTATTTTAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCT
1 GGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCT
* *
45282 CGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTAT
66 CGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTAT
* *
45347 TTCCAGAATATTGATTTCTCATAATTGGGGATACTCCAACCTCG
131 TTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCG
45391 TTATTTTCGA
Statistics
Matches: 161, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
209 161 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (209 bp):
GGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCT
CGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTAT
TTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAA
TTTTCCACAATCGA
Found at i:45405 original size:107 final size:106
Alignment explanation
Indices: 44978--45410 Score: 357
Period size: 107 Copynumber: 4.1 Consensus size: 106
44968 TTTCATAATC
** *
44978 GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACACC
1 GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCAAAAACACC
* * *
45043 AATTTTTCACAATCGAGGATACTTCAAGCTCGTTATTTCATT
66 AATTTCTCACAATCGAGGATACTCCAACCTCGTTATTTCA-T
* * * * * * **
45085 AGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATT
1 GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCAAAAACACC
* * * *
45150 GATTTCTCATAATCGGGGATACTCCAACCTCGGT-TTT-AT
66 AATTTCTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
* ** ** * * * * * *
45189 -----TTCTAAAACACTAATTTTCCACAATCGA--GGATACTCTAACCCTGGTTTTATTTTAAAA
1 GGGGATACTCCAAC-CCCA-TTACCTC---CGAGGGGATACTCCAACCCCGGCTTTATTTCAAAA
45247 ACACCAATCTT-TCACAATCGAGGATACTCCAACCTCGTTATTTCAT
61 ACACCAAT-TTCTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
* * * *
45293 CGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAGAATAT
1 -GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCAAAAACAC
** * * *
45358 TGATTTCTCATAATTGGGGATACTCCAACCTCGTTATTTTCGA-
65 CAATTTCTCACAATCGAGGATACTCCAACCTCGTTA-TTTC-AT
45401 GGGGATACTC
1 GGGGATACTC
45411 TAATCCCAAT
Statistics
Matches: 247, Mismatches: 60, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
99 6 0.02
100 1 0.00
101 4 0.02
102 53 0.21
103 5 0.02
104 6 0.02
105 4 0.02
106 5 0.02
107 145 0.59
108 9 0.04
109 3 0.01
110 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCAAAAACACC
AATTTCTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
Found at i:45425 original size:79 final size:79
Alignment explanation
Indices: 45294--45468 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 79
45284 TTATTTCATC
** *
45294 GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAGAAT-AT
1 GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAACTTTATTTCC-CAATCAT
* * *
45358 TGATTTCTCATAATT
65 CGATTTCTCACAACT
* * ** * * * *
45373 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCTAATCCCAATTTTATTTCCCAATCATC
1 GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAACTTTATTTCCCAATCATC
*
45438 GATTTTTCACAACT
66 GATTTCTCACAACT
45452 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
45469 GTCATTATCT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 3 0.04
79 76 0.96
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAACTTTATTTCCCAATCATC
GATTTCTCACAACT
Found at i:54222 original size:79 final size:79
Alignment explanation
Indices: 54127--54661 Score: 807
Period size: 79 Copynumber: 6.8 Consensus size: 79
54117 TTAAATTTTC
* * *
54127 TCAATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCCAGTT
1 TCAATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
54192 TTATTTCTAAAACA
66 TTATCTCTAAAACA
* *
54206 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
54271 TTATCTCTAAAACA
66 TTATCTCTAAAACA
*
54285 TCAATTTTTCATAATCAGG-GATACTCCAACCCCGTTA-TTTCTGAGGGGATACTTCAA-CCCGG
1 TCAATTTTTCATAATC-GGAGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGG
*
54347 TTTTATTTCTAAAACA
64 TTTTATCTCTAAAACA
* *
54363 TCAATTTTTCATAATC-GAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGGT
1 TCAATTTTTCATAATCGGA-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGT
54427 TTTATCTCTAAAACA
65 TTTATCTCTAAAACA
* *
54442 TCAATTTTTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
54507 TTATCTCTAAAACA
66 TTATCTCTAAAACA
54521 TCAATTTTTCATAATC-GAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGT
1 TCAATTTTTCATAATCGGA-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGT
*
54585 TTTATTTCTAAAACA
65 TTTATCTCTAAAACA
* * *
54600 CCAATTTTTCACAATC-GAGGATACTCCAACCTCGTTATTTCATCGA--GGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGA-GATACTCCAACCCCGTTATTT--TCGAGGGGATACTCCAACCCCG
54662 TTACCTCCGA
Statistics
Matches: 423, Mismatches: 23, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
76 1 0.00
78 71 0.17
79 344 0.81
80 3 0.01
81 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATCTCTAAAACA
Found at i:54545 original size:236 final size:237
Alignment explanation
Indices: 54127--54660 Score: 882
Period size: 236 Copynumber: 2.3 Consensus size: 237
54117 TTAAATTTTC
* *
54127 TCAATTTTTCACAATCG-GAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCCAGT
1 TCAATTTTTCACAATCGAG-GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGT
*
54191 TTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
65 TTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
54256 ACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCAGGGATACTCCAACCCCGTT
130 ACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCAGGGATACTCCAACCCCGTT
*
54321 A-TTTCTGAGGGGATACTTCAA-CCCGGTTTTATTTCTAAAACA
195 ATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* * *
54363 TCAATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGGTT
1 TCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGTT
* *
54428 TTATCTCTAAAACATCAATTTTTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
66 TTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
54493 CTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC-GAGGATACTCCAACCCCGTT
131 CTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCAG-GGATACTCCAACCCCGTT
54557 ATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
195 ATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* *
54600 CCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCG-A-GGATACTCCAACCCC
1 TCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTT--TCGAAGGGATACTCCAACCCC
54661 GTTACCTCCG
Statistics
Matches: 279, Mismatches: 13, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
235 1 0.00
236 197 0.71
237 77 0.28
238 1 0.00
239 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (237 bp):
TCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGTT
TTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
CTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCAGGGATACTCCAACCCCGTTA
TTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:54628 original size:51 final size:51
Alignment explanation
Indices: 54567--54839 Score: 153
Period size: 51 Copynumber: 5.3 Consensus size: 51
54557 ATTTTCGAGG
54567 GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
* * * *** *
54618 GGATACTCCAACCTC-G--TTATTTCATCGAGGATACTCCAACCCCGTT-AC-CTCCGA
1 GGATACTCCAACCCCGGTTTTATTTC-T--A--AAACACCAA--TTTTTCACAAT-CGA
* * * * *** * * *
54672 GGGGATACTCCAACCTCGGCTTTATTTCCAAAATATTGATTTCTCATAATCGG
1 --GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
** * * *
54725 GGATACTCCAACCCCGGTTTTATTTCTAAAATGCTAATTTTCCACAATCGG
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
* * * **
54776 GGATACTCTAACCCCGATTTTATTT-TAAAAACACCAATCTTTCACAATTAA
1 GGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTTCACAATCGA
*
54827 GGATACTCAAACC
1 GGATACTCCAACC
54840 TCGTTATTTC
Statistics
Matches: 165, Mismatches: 41, Indels: 32
0.69 0.17 0.13
Matches are distributed among these distances:
48 7 0.04
49 1 0.01
50 2 0.01
51 108 0.65
52 1 0.01
53 11 0.07
54 9 0.05
55 2 0.01
56 16 0.10
57 1 0.01
59 7 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
Found at i:54645 original size:28 final size:28
Alignment explanation
Indices: 54613--54689 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
54603 ATTTTTCACA
**
54613 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCTCGTTACCTC
*
54641 ATCGAGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCTCGTTACCTC
54669 --CGAGGGGATACTCCAACCTCG
1 ATCGA--GGATACTCCAACCTCG
54690 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.07
28 40 0.93
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCTCGTTACCTC
Found at i:54645 original size:107 final size:107
Alignment explanation
Indices: 54534--54956 Score: 366
Period size: 107 Copynumber: 4.0 Consensus size: 107
54524 ATTTTTCATA
** * * *
54534 ATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
* *
54599 ACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTC
66 ACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
* *
54641 ATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAAT
1 ATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
*** * *
54706 ATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTC
66 ACCAATTTCTCACAATCGAGGATACTCCAACCCC-G--TTATTTC
** * * * * * * ** **
54751 -T--AAAATGCT--AA----TTTTCC-ACAATCGGGGATACTCTAACCCCGATTTTATTTTAAAA
1 ATCGAGGATACTCCAACCCCGTTACCTCCGA--GGGGATACTCCAACCCCGGCTTTATTTCCAAA
** * *
54806 ACACCAATCTT-TCACAATTAAGGATACTCAAACCTCGTTATTTC
64 ACACCAAT-TTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
* * *
54850 ATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
* * * *
54915 ATTC-ATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTC
66 A-CCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
54957 CGAGGGGATG
Statistics
Matches: 241, Mismatches: 57, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
99 7 0.03
100 3 0.01
101 5 0.02
102 53 0.22
103 2 0.01
104 2 0.01
105 2 0.01
106 2 0.01
107 149 0.62
108 6 0.02
109 3 0.01
110 7 0.03
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (107 bp):
ATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
ACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
Found at i:54809 original size:209 final size:209
Alignment explanation
Indices: 54565--54949 Score: 655
Period size: 209 Copynumber: 1.8 Consensus size: 209
54555 TTATTTTCGA
* * * *
54565 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATCTTTCACAATCAAGGATACTCAAAC
* *
54630 CTCGTTATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTT
66 CTCGTTATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTT
*
54695 ATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATGCT
131 ATTTCCAAAATATTCATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATGCT
54760 AATTTTCCACAATC
196 AATTTTCCACAATC
* *
54774 GGGGATACTCTAACCCCGATTTTATTT-TAAAAACACCAATCTTTCACAATTAAGGATACTCAAA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATCTTTCACAATCAAGGATACTCAAA
*
54838 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTT
65 CCTCGTTATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTT
*
54903 TATTTCCAAAATATTCATTTCTCATAATTGGGGATACTCCAACCCCG
130 TATTTCCAAAATATTCATTTCTCATAATCGGGGATACTCCAACCCCG
54950 TTATTTCCGA
Statistics
Matches: 164, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
208 1 0.01
209 163 0.99
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (209 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATCTTTCACAATCAAGGATACTCAAAC
CTCGTTATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTT
ATTTCCAAAATATTCATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATGCT
AATTTTCCACAATC
Found at i:54936 original size:79 final size:79
Alignment explanation
Indices: 54852--55056 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
54842 GTTATTTCAT
* ** *
54852 CGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAATCA
* *
54916 TTC-ATTTCTCATAAT
65 -TCGATTTCTCACAAC
* * * * * *
54931 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATGCTCTAATCCCGATTTTATTTCCCAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATCAT
*
54996 CGATTTTTCACAAC
66 CGATTTCTCACAAC
* *
55010 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
55057 TTATTATCTC
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 5 0.05
79 100 0.95
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATCAT
CGATTTCTCACAAC
Found at i:58196 original size:20 final size:20
Alignment explanation
Indices: 58134--58210 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
58124 TTTTACCTAG
*
58134 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* * * * *
58154 ATATATTGATAAATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
58174 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
58194 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
58211 ATCTTTTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:59608 original size:13 final size:13
Alignment explanation
Indices: 59590--59615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59580 CAATTTTTTG
59590 TGTATCGATACAT
1 TGTATCGATACAT
59603 TGTATCGATACAT
1 TGTATCGATACAT
59616 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:60354 original size:21 final size:21
Alignment explanation
Indices: 60313--60356 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60303 CTCCCCTTTA
* *
60313 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
60334 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
60355 TC
1 TC
60357 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:62181 original size:13 final size:13
Alignment explanation
Indices: 62163--62188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62153 ATAATCACCC
62163 TGTATCGATACAA
1 TGTATCGATACAA
62176 TGTATCGATACAA
1 TGTATCGATACAA
62189 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:64278 original size:15 final size:15
Alignment explanation
Indices: 64258--64288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64248 ATTTCGTTTG
*
64258 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
64273 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
64288 G
1 G
64289 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:66121 original size:21 final size:21
Alignment explanation
Indices: 66092--66136 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
66082 AAGTTTTCAT
*
66092 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
66112 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
66134 TTT
1 TTT
66137 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:68372 original size:13 final size:13
Alignment explanation
Indices: 68354--68379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68344 CAATTTTTTG
68354 TGTATCGATACAT
1 TGTATCGATACAT
68367 TGTATCGATACAT
1 TGTATCGATACAT
68380 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72861 original size:52 final size:52
Alignment explanation
Indices: 72776--72900 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
72766 ATATGAAAAG
* *
72776 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
72828 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
72880 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
72901 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:72913 original size:52 final size:51
Alignment explanation
Indices: 72776--72920 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
72766 ATATGAAAAG
*
72776 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
72828 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
72880 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
72921 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:72927 original size:13 final size:13
Alignment explanation
Indices: 72909--72933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72899 CAAAGATCAG
72909 TGTATCGATACAA
1 TGTATCGATACAA
72922 TGTATCGATACA
1 TGTATCGATACA
72934 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:73016 original size:33 final size:33
Alignment explanation
Indices: 72974--73043 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
72964 GGCAGTAGCT
72974 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
73007 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
73040 TACA
1 TACA
73044 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:73017 original size:13 final size:13
Alignment explanation
Indices: 72999--73023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72989 CAAAAAAATA
72999 TGTATCGATACAT
1 TGTATCGATACAT
73012 TGTATCGATACA
1 TGTATCGATACA
73024 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:81919 original size:52 final size:52
Alignment explanation
Indices: 81862--81960 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
81852 CTCGAAATAT
81862 GAAAATTTGCCTGCATGTATCGAAACAAAGAAT-AATGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGAAACAAAG-ATCAATGTATCGATACATTTGG
* * *
81914 GAAAATTTGCCTGCATGTATTGATACAAAGATCAATGTATTGATACA
1 GAAAATTTGCCTGCATGTATCGAAACAAAGATCAATGTATCGATACA
81961 ATGTATCGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGAAACAAAGATCAATGTATCGATACATTTGG
Found at i:83625 original size:39 final size:39
Alignment explanation
Indices: 83570--83734 Score: 159
Period size: 39 Copynumber: 4.0 Consensus size: 39
83560 AAAGACAAGG
* * * *
83570 TGCCAATACGCCGATTCAAAGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
83609 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A
*
83656 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* * *
83696 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
83735 AAGATGAGGT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
39 65 0.62
40 2 0.02
42 1 0.01
45 1 0.01
47 2 0.02
48 33 0.32
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:83629 original size:87 final size:87
Alignment explanation
Indices: 83483--83782 Score: 397
Period size: 87 Copynumber: 3.4 Consensus size: 87
83473 GTGATAAAGA
* * * * * *
83483 TGCCAATATGTTGATTCACGGACAACGATATTGGACTTGTGCCGATGTGCTGATTCAAGGCCAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAAG
* *
83548 GATATTGGACTTAAAGACAAGG
66 GACATTGGTCTTAAAGACAAGG
* * * * *
83570 TGCCAATACGCCGATTCAAAGCCAGCGATATTGGGCTTATGCCAATATGCTGATTCAAGGCC-AG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAAG
*
83634 TGACATTGGTCTTAAAGATGAA-G
66 -GACATTGGTCTTAAAGA-CAAGG
* *
83657 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAAG
**
83722 GACATTGGTCTTAAAGATGAGG
66 GACATTGGTCTTAAAGACAAGG
*
83744 TGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
83783 AAGGTGAAGG
Statistics
Matches: 186, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
86 3 0.02
87 180 0.97
88 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (87 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAAG
GACATTGGTCTTAAAGACAAGG
Found at i:83680 original size:48 final size:48
Alignment explanation
Indices: 83609--83791 Score: 213
Period size: 48 Copynumber: 4.0 Consensus size: 48
83599 ATTGGGCTTA
*
83609 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
* *
83657 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A-
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
* * *
83696 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
* * * *
83744 TGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
83792 GTGAGAAAAG
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
39 32 0.29
40 2 0.02
42 1 0.01
45 1 0.01
47 1 0.01
48 74 0.67
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
Found at i:84046 original size:29 final size:27
Alignment explanation
Indices: 83985--84086 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
83975 GGTTATATCA
** * *
83985 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTG-GCTTTAAAAGGGTGCCACCG
*
84013 ACTTGTAGGCTTTGAAAGGGATGCCACCG
1 ACTTGT-GGCTTTAAAAGGG-TGCCACCG
* *
84042 ACTTGTGGGTTTAAAAGGGTGCCACAG
1 ACTTGTGGCTTTAAAAGGGTGCCACCG
*
84069 AGTTGTGGAC-TTAAAAGG
1 ACTTGTGG-CTTTAAAAGG
84087 AAAAAGTGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 22 0.35
28 26 0.42
29 14 0.23
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (27 bp):
ACTTGTGGCTTTAAAAGGGTGCCACCG
Found at i:84074 original size:27 final size:27
Alignment explanation
Indices: 84000--84086 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
83990 TGTGCTTTTG
* * * *
84000 AAGGTTGCCACTGACTTGTAGGCTTTGA
1 AAGGGTGCCACAGACTTGT-GGATTTAA
* *
84028 AAGGGATGCCACCGACTTGTGGGTTTAA
1 AAGGG-TGCCACAGACTTGTGGATTTAA
* *
84056 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACAGACTTGTGGATTTAA
84083 AAGG
1 AAGG
84087 AAAAAGTGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 22 0.44
28 15 0.30
29 13 0.26
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (27 bp):
AAGGGTGCCACAGACTTGTGGATTTAA
Found at i:84198 original size:35 final size:35
Alignment explanation
Indices: 84054--84654 Score: 826
Period size: 35 Copynumber: 17.1 Consensus size: 35
84044 TTGTGGGTTT
* *
84054 AAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
* * ** *
84088 AAAAGTGTGTCATGGAGTTGTGGGC-TTCAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
84122 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTT-AAAAGGA
*
84159 AAAAGAGTGCCACAGAGATGTGGGCTTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
*
84194 AAAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGGA
84230 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGGA
* *
84266 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
*
84301 AGAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGA
1 A-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
84335 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTT-AAAAGGA
* *
84372 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
*
84407 AGAAAG-GTGCCACGGAGTTGTGGGC-TTAAAA-GA
1 A-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
84440 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTT-AAAAGGA
*
84477 AAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
84512 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGGA
*
84548 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
** * *
84583 AGAAAG-GTGCCATGGAGTTGTGGAC-TTAGAAGG-
1 A-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
*
84616 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
84651 AAAA
1 AAAA
84655 AGATGCTATG
Statistics
Matches: 508, Mismatches: 39, Indels: 39
0.87 0.07 0.07
Matches are distributed among these distances:
32 8 0.02
33 42 0.08
34 94 0.19
35 144 0.28
36 133 0.26
37 87 0.17
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (35 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGA
Found at i:84223 original size:71 final size:71
Alignment explanation
Indices: 84054--84657 Score: 842
Period size: 71 Copynumber: 8.6 Consensus size: 71
84044 TTGTGGGTTT
* * * * ** *
84054 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGTGTGTCATGGAGTTGTGGGC-TTC
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
84116 AAAGGA
66 AAAGGA
*
84122 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGAAAAAGAGTGCCACAGAGATGTGGGCTTT
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
84187 AAAAGGA
65 AAAAGGA
*
84194 AAAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
84259 AAAAGGA
65 AAAAGGA
* *
84266 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAA-GAAGAAAG-GTGCCACGGAGTTGTGGGC-TT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA-AAAGAGTGCCACAGAGTTGTGGGCTTT
84328 AAAAGGA
65 AAAAGGA
*
84335 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTT
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
*
84400 AAAAAGA
65 AAAAGGA
*
84407 AGAAAG-GTGCCACGGAGTTGTGGGC-TT-AAAA-GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 A-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TT
84468 TAAAAAGGA
64 T-AAAAGGA
*
84477 AAAAGAGTGCCATAGAGTTGTGGGCTTT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
84541 AAAAGGA
65 AAAAGGA
** *
84548 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-GAAGAAAG-GTGCCATGGAGTTGTGGAC-TT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA-AAAGAGTGCCACAGAGTTGTGGGCTTT
*
84610 AGAAGG-
65 AAAAGGA
*
84616 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGA
84658 TGCTATGGAG
Statistics
Matches: 488, Mismatches: 28, Indels: 39
0.88 0.05 0.07
Matches are distributed among these distances:
68 86 0.18
69 49 0.10
70 44 0.09
71 169 0.35
72 136 0.28
73 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (71 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
AAAGGA
Found at i:84359 original size:176 final size:175
Alignment explanation
Indices: 84059--84654 Score: 891
Period size: 176 Copynumber: 3.4 Consensus size: 175
84049 GGTTTAAAAG
* * ** * *
84059 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGTGTGTCATGGAGTTGTGGGC-TTCAAAGGAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
*
84123 AAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGGAAAAAGAGTGCCACAGAGATGTGGGCTTT-
66 AAAGAGTGCCACAGAGTTGTGGGC-TTT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
*
84187 AAAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGGAA-AAA
129 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-GAAGAAA
* *
84234 GAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAA
1 G-GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
*
84299 GAAGAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
63 GAA-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-T
*
84362 TTAAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAGAAA
126 TTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAGAAA
* *
84412 GGTGCCACGGAGTTGTGGGCTTAAAA-GAAAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAAGG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTTAAAAA-G
*
84476 AAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
64 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
84541 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAGAAA
129 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAGAAA
** *
84588 GGTGCCATGGAGTTGTGGACTTAGAAGG-AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
84652 AAA
66 AAA
84655 AGATGCTATG
Statistics
Matches: 388, Mismatches: 20, Indels: 27
0.89 0.05 0.06
Matches are distributed among these distances:
174 32 0.08
175 25 0.06
176 169 0.44
177 63 0.16
178 69 0.18
179 26 0.07
180 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (175 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAGAAA
Found at i:84764 original size:30 final size:29
Alignment explanation
Indices: 84688--84764 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
84678 TTGAAGGTTA
* *
84688 CCACTGGTTTGTGGGCTTTGGAAAAGATG
1 CCACTGGCTTGTGGGCTTCGGAAAAGATG
* * *
84717 CTACTGACTTGTGGGCTTCGGAAAAGGGTG
1 CCACTGGCTTGTGGGCTTCGGAAAA-GATG
*
84747 CCACTGGCTTATGGGCTT
1 CCACTGGCTTGTGGGCTT
84765 TTGAAGGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 21 0.54
30 18 0.46
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (29 bp):
CCACTGGCTTGTGGGCTTCGGAAAAGATG
Found at i:84776 original size:28 final size:28
Alignment explanation
Indices: 84668--84796 Score: 105
Period size: 28 Copynumber: 4.5 Consensus size: 28
84658 TGCTATGGAG
* * **
84668 TTGTGGACTTTTGAAGGTTACCACTGGT
1 TTGTGGGCTTTTGAAGGTTGCCACTGAC
* * * *
84696 TTGTGGGCTTTGGAAAAGATGCTACTGAC
1 TTGTGGGCTTTTG-AAGGTTGCCACTGAC
** * *
84725 TTGTGGGCTTCGGAAAAGGGTGCCACTGGC
1 TTGTGGGCTTTTG--AAGGTTGCCACTGAC
* *
84755 TTATGGGCTTTTGAAGGTTGCCACTGAA
1 TTGTGGGCTTTTGAAGGTTGCCACTGAC
84783 TTGTGGGCTTTTGA
1 TTGTGGGCTTTTGA
84797 CAGGGTGAGG
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 36 0.46
29 21 0.27
30 22 0.28
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.34
Consensus pattern (28 bp):
TTGTGGGCTTTTGAAGGTTGCCACTGAC
Found at i:86244 original size:1 final size:1
Alignment explanation
Indices: 86240--86316 Score: 73
Period size: 1 Copynumber: 77.0 Consensus size: 1
86230 GTTGTTGTTG
* * * * * ** *
86240 TTTTTTTTGTTTTTTTGTTTGTTTTTTTTTCTTTTTTTCTTTTTTTTCCTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
86305 TTCTTTTTTTTT
1 TTTTTTTTTTTT
86317 GGAGGACGCC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (1 bp):
T
Found at i:86249 original size:9 final size:9
Alignment explanation
Indices: 86225--86315 Score: 67
Period size: 9 Copynumber: 9.6 Consensus size: 9
86215 ATCCGGACCC
*
86225 TTTTTGTTG
1 TTTTTGTTT
*
86234 TTGTTGTTT
1 TTTTTGTTT
86243 TTTTTGTTTTT
1 TTTTTG--TTT
86254 TTGTTTGTTT
1 TT-TTTGTTT
86264 TTTTT-TCTT
1 TTTTTGT-TT
*
86273 TTTTTCTTT
1 TTTTTGTTT
*
86282 TTTTTCCTTT
1 TTTTT-GTTT
*
86292 TTTCTTTTTT
1 TTT-TTGTTT
*
86302 TTTTTCTTT
1 TTTTTGTTT
86311 TTTTT
1 TTTTT
86316 TGGAGGACGC
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
8 1 0.01
9 39 0.56
10 19 0.27
11 7 0.10
12 4 0.06
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.86
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:86292 original size:25 final size:26
Alignment explanation
Indices: 86264--86312 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
86254 TTGTTTGTTT
86264 TTTTTTCTTTTTTTCTTT-TTTTTCC
1 TTTTTTCTTTTTTTCTTTCTTTTTCC
*
86289 TTTTTTCTTTTTTTTTTTCTTTTT
1 TTTTTTCTTTTTTTCTTTCTTTTT
86313 TTTTGGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (26 bp):
TTTTTTCTTTTTTTCTTTCTTTTTCC
Found at i:95083 original size:28 final size:27
Alignment explanation
Indices: 95013--95088 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
95003 TTTTTTCACA
95013 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
95040 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
95066 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
95089 GCTTTATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.51
28 18 0.40
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:95130 original size:79 final size:79
Alignment explanation
Indices: 95040--95613 Score: 963
Period size: 79 Copynumber: 7.3 Consensus size: 79
95030 CCCGTTAATC
* *
95040 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
95105 ATCAATTTTTCATA
66 ATCAATTTTTCATA
*
95119 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATCTT-TAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTAT-TTCTAAAA
95183 CATCAATTTTTCATA
65 CATCAATTTTTCATA
* * *
95198 ATCGAGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
95263 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * * *
95277 ATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGGTACTCCAACCCCGGCTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
95342 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
95356 ATCGAGGATGCTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
95421 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
95435 ATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
95500 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
95514 ATCGGGGATACTCCAACACCC-TTATTTCTGAGAGGATACTCCAACCCCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAAC-CCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
95578 CATCAATTTTTCATA
65 CATCAATTTTTCATA
*
95593 ATCGGGGATACTCTAACCCCG
1 ATCGGGGATACTCCAACCCCG
95614 ATTTTATTTT
Statistics
Matches: 464, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
78 5 0.01
79 454 0.98
80 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATCAATTTTTCATA
Found at i:95691 original size:52 final size:50
Alignment explanation
Indices: 95547--95691 Score: 150
Period size: 52 Copynumber: 2.8 Consensus size: 50
95537 ATTTCTGAGA
* *
95547 GGATACTCCAACCCCGGTTTTATTTCTAAAACA-TCAATTTTTCATAATCGG
1 GGATACTCTAACCCC-GTTTTATTTCTAAAATACT-AATTTTTCATAATCGG
* * **
95598 GGATACTCTAACCCCGATTTTATTTTTTAGAATAC-CGTTTTTCCATAATCGG
1 GGATACTCTAACCCCG-TTTTA-TTTCTAAAATACTAATTTTT-CATAATCGG
* *
95650 GGATACTCTAGCCCCGTTGTTATCTCTAAAATACTAATTTTT
1 GGATACTCTAACCCCGTT-TTATTTCTAAAATACTAATTTTT
95692 TCTCATTAGG
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
50 1 0.01
51 35 0.46
52 40 0.53
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (50 bp):
GGATACTCTAACCCCGTTTTATTTCTAAAATACTAATTTTTCATAATCGG
Found at i:102283 original size:13 final size:13
Alignment explanation
Indices: 102265--102292 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102255 ATACAAAGAT
102265 CAATGTATCGATA
1 CAATGTATCGATA
102278 CAATGTATCGATA
1 CAATGTATCGATA
102291 CA
1 CA
102293 TTTGAGTAAC
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:109168 original size:8 final size:8
Alignment explanation
Indices: 109155--109233 Score: 92
Period size: 8 Copynumber: 9.9 Consensus size: 8
109145 CCTTCGTACC
109155 CAAAAAAA
1 CAAAAAAA
109163 CAAAAAAA
1 CAAAAAAA
109171 -AACAAAGAA
1 CAA-AAA-AA
109180 -AAAAAAA
1 CAAAAAAA
109187 CAAAAAAA
1 CAAAAAAA
109195 CAGAAAAAA
1 CA-AAAAAA
*
109204 C-CAAAAA
1 CAAAAAAA
109211 CAAAAAAA
1 CAAAAAAA
*
109219 CAAACAAA
1 CAAAAAAA
109227 CAAAAAA
1 CAAAAAA
109234 GGGGTCCAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
7 10 0.16
8 41 0.66
9 11 0.18
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:109191 original size:32 final size:32
Alignment explanation
Indices: 109155--109233 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
109145 CCTTCGTACC
109155 CAAAAAAACAAAAAAAAACAAAGAA-AAAAAAA
1 CAAAAAAACAAAAAAAAACAAA-AACAAAAAAA
* *
109187 CAAAAAAACAGAAAAAACCAAAAACAAAAAAA
1 CAAAAAAACAAAAAAAAACAAAAACAAAAAAA
*
109219 CAAACAAACAAAAAA
1 CAAAAAAACAAAAAA
109234 GGGGTCCAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 2 0.05
32 40 0.95
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (32 bp):
CAAAAAAACAAAAAAAAACAAAAACAAAAAAA
Found at i:110516 original size:28 final size:28
Alignment explanation
Indices: 110485--110951 Score: 528
Period size: 28 Copynumber: 16.3 Consensus size: 28
110475 CGTTCATCTC
* *
110485 TTCAAAGCCCACAGGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
110513 TTCAAAGCCTACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
110541 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
110569 TTCAAAGCCCACAAGTTAGTGTCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
110597 TTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
110625 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
**
110652 CTTCAAAAAACCACAAGTCAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
110682 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
110710 TTCAAAGCTCACAAGTCAGTGGCATACCCC
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
110740 TTCAAAGACCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** * *
110768 TTCAAAGCTGACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
110796 TTCAAAGCCCATAAGTC-GTGGCATACCCC
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
110825 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
110853 TTCAAAGCCCCCAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
*
110883 TTCAAAGCCCACAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
110911 TTCAAAGCCCACACAAGTCTGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
110943 TTCAAAGCC
1 TTCAAAGCC
110952 TGTCACAACG
Statistics
Matches: 374, Mismatches: 47, Indels: 33
0.82 0.10 0.07
Matches are distributed among these distances:
27 11 0.03
28 238 0.64
29 43 0.11
30 68 0.18
31 5 0.01
32 8 0.02
33 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:110711 original size:85 final size:84
Alignment explanation
Indices: 110479--110951 Score: 549
Period size: 85 Copynumber: 5.5 Consensus size: 84
110469 CTAGAACGTT
* * * * * * *
110479 CATCTCTTCAAAGCCCACAGGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCTTTTC
1 CATCCCTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC
110544 AAAGCCCACAAGTCAGTGG
66 AAAGCCCACAAGTCAGTGG
* * * *
110563 CA-CCCTTTCAAAGCCCACAAGTTAGTGTCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTT
1 CATCCC-TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
110627 CAAAGCCCACAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGG
* **
110647 CATCTCTTCAAAAAACCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
1 CATCCCTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
*
110712 CAAAGCTCACAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGG
* * ** * *
110732 CATACCCCTTCAAAGACCACAAGTCAGTGGTATCCTTTCAAAGCTGACAAGTCAGTGACACCCTT
1 CAT--CCCTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTT
*
110797 TCAAAGCCCATAAGTC-GTGG
64 TCAAAGCCCACAAGTCAGTGG
*
110817 CATACCCCTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCCCAAGTTAGTGGCATACC
1 CAT--CCCTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGC--ACC
*
110881 CTTTCAAAGCCCACAAGTTAGTGG
61 CTTTCAAAGCCCACAAGTCAGTGG
* * *
110905 CA-CCTTTTCAAAGCCCACACAAGTCTGTGGCAACTCTTTTCAAAGCC
1 CATCC-CTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCC
110952 TGTCACAACG
Statistics
Matches: 336, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
83 2 0.01
84 79 0.24
85 128 0.38
86 69 0.21
87 27 0.08
88 19 0.06
89 1 0.00
90 10 0.03
91 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
CATCCCTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC
AAAGCCCACAAGTCAGTGG
Found at i:110831 original size:143 final size:143
Alignment explanation
Indices: 110485--110923 Score: 536
Period size: 143 Copynumber: 3.1 Consensus size: 143
110475 CGTTCATCTC
* * * * **
110485 TTCAAAGCCCACAGGTCAGTGGCATCAT-TTC--AAAGCCTACAAGTCAGTGGCATCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGACA-CCTCTTCAAAAAACC-ACAAGTCAGTGGCATCCCTTCAAA
* *
110547 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGTCAT--CCTTTTAAAGCCCACA
64 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACA
110610 AGTTAGTGGCATCCT
129 AGTTAGTGGCATCCT
* * *
110625 TTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAAACCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGACACCTCTTCAAAAAACCACAAGTCAGTGGCATCCCTTCAAAGC
* * * * *
110690 CCACAAGTTAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGCATACCCCTTCAAAGACCACAAG
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACAAG
* *
110755 TCAGTGGTATCCT
131 TTAGTGGCATCCT
** ** *
110768 TTCAAAGCTGACAAGTCAGTGACACC-CTTTC-AAAGCCCATAAGTC-GTGGCATACCCCTTCAA
1 TTCAAAGCCCACAAGTCAGTGACACCTC-TTCAAAAAACCACAAGTCAGTGGCAT--CCCTTCAA
* *
110830 AGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCCCAAGTTAGTGGCATACCCTTTCAAAGCCCAC
63 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCAC
110895 AAGTTAGTGGCA-CCTT
128 AAGTTAGTGGCATCC-T
110911 TTCAAAGCCCACA
1 TTCAAAGCCCACA
110924 CAAGTCTGTG
Statistics
Matches: 257, Mismatches: 33, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
139 1 0.00
140 26 0.10
141 73 0.28
142 19 0.07
143 138 0.54
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (143 bp):
TTCAAAGCCCACAAGTCAGTGACACCTCTTCAAAAAACCACAAGTCAGTGGCATCCCTTCAAAGC
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACAAG
TTAGTGGCATCCT
Found at i:114216 original size:20 final size:20
Alignment explanation
Indices: 114187--114261 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
114177 AAAAAGACAT
*
114187 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
114207 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
114227 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
114247 AATGTATCGATACAT
1 AATGTATCGATACAT
114262 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:114255 original size:40 final size:39
Alignment explanation
Indices: 114184--114261 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
114174 GGTAAAAAGA
* *
114184 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
114223 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
114262 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:114970 original size:28 final size:28
Alignment explanation
Indices: 114823--115858 Score: 1227
Period size: 29 Copynumber: 36.0 Consensus size: 28
114813 TAAAAAAAAT
* *
114823 GTGCCACTAACTTGTGTAGGCTTTGAAAAAA
1 GTGCCACTGACTTGTG--GGCTTTG-AAAGA
*
114854 GTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTG-AAAGA
** * *
114886 GTGTTACTGACTTGCGTGGGCTTTAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
114916 GTGCCACTGACTTGCGTGGGCTTTGAAAGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
* **
114946 ATGCCACTGACTCATGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
114973 GATGCCACAGACTTGTGGGCTTTGAAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
*
115002 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
115029 GGTACCACTGACTCGTGGTC-TTGAAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
115057 GTGCTACTAACTTATGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
115085 GTGCCACTGACTTGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
115112 GGTGCCACTAACTTGCGTGTGCTTTAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
*
115144 GTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
115174 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
115202 GTGCCACTGACTTGTGGGCTTCGCAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
115230 GTGCCACTAATTTGTGGGCTTCGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
115258 GTGCCACTGACTTGTGGGCTCTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
115286 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
115314 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
115343 GTACCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
115372 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
115401 GTGCCACTAATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* * *
115430 GTCCCACTGTCTTGTGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
115459 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
115488 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* * *
115517 GAGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
115545 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
115574 GTGCCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
115602 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
115631 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
115660 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
115689 GTGCCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
115717 GTGCCACTGACTTGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
115744 GATGCCACTGACTTGTGGGCTTTAAAAAGA
1 G-TGCCACTGACTTGTGGGCTTT-GAAAGA
* * *
115774 GTGCTACTGATTTGTGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
115803 GTGCCACTGACTTATGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAA-GA
* *
115832 ATGCCACTGACTTGTGGGCTTTAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAG
115859 GGATGAACAT
Statistics
Matches: 885, Mismatches: 95, Indels: 53
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.02
28 363 0.41
29 369 0.42
30 65 0.07
31 37 0.04
32 22 0.02
33 1 0.00
34 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:119023 original size:19 final size:19
Alignment explanation
Indices: 119001--119063 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
118991 TAGCCAAACT
119001 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
119020 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
119033 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
119052 TGTATCGATACA
1 TGTATCGATACA
119064 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:119037 original size:13 final size:13
Alignment explanation
Indices: 119019--119076 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
119009 TACACCAAGT
119019 ATGTATCGATACA
1 ATGTATCGATACA
119032 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
119049 GTATGTATCGATACA
1 --ATGTATCGATACA
119064 ATGTATCGATACA
1 ATGTATCGATACA
119077 CCAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:119042 original size:32 final size:32
Alignment explanation
Indices: 119001--119096 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
118991 TAGCCAAACT
119001 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
119033 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
**
119065 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAGTA-TGTATCGATACA
119097 TTGGCTTGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:121318 original size:22 final size:22
Alignment explanation
Indices: 121291--121346 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
121281 TTGCAAGTTG
121291 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
121313 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
121334 AAATAAA-AACTTG
1 AAATAAAGAACTTG
121347 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:125274 original size:13 final size:13
Alignment explanation
Indices: 125253--125289 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
125243 ATTTTTCTTT
*
125253 GTATTGATACATG
1 GTATCGATACATG
*
125266 GTATCGATACATT
1 GTATCGATACATG
125279 GTATCGATACA
1 GTATCGATACA
125290 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:125453 original size:20 final size:20
Alignment explanation
Indices: 125410--125455 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
125400 AAATCTTTTG
125410 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
125431 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
125451 CAAAA
1 CAAAA
125456 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:127862 original size:13 final size:13
Alignment explanation
Indices: 127844--127869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127834 TACACCAAGT
127844 ATGTATCGATACA
1 ATGTATCGATACA
127857 ATGTATCGATACA
1 ATGTATCGATACA
127870 CCAAATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:127867 original size:32 final size:31
Alignment explanation
Indices: 127826--127887 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
127816 TAGCCAAACT
*
127826 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAT-TGTATCGATACAA
127858 TGTATCGATACACCAAATTGTATCGATACA
1 TGTATCGATACACCAAATTGTATCGATACA
127888 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (31 bp):
TGTATCGATACACCAAATTGTATCGATACAA
Found at i:136683 original size:20 final size:20
Alignment explanation
Indices: 136654--136728 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
136644 AAAAAGACAT
*
136654 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
136674 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
136694 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
136714 AATGTATCGATACAT
1 AATGTATCGATACAT
136729 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:136701 original size:40 final size:39
Alignment explanation
Indices: 136651--136728 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
136641 GGTAAAAAGA
* *
136651 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
136690 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
136729 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:137016 original size:39 final size:37
Alignment explanation
Indices: 136926--137024 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 37
136916 TGGTGTCTAC
*
136926 AAAGCCCACACAAGTTAGTGGTACATTTTTTTTAAAA
1 AAAGCCCACACAAGTTAGTGGCACATTTTTTTTAAAA
* *
136963 AAAGCCTATACAAGTTAGTGGCAC-TTTTTTTTAAAAAAA
1 AAAGCCCACACAAGTTAGTGGCACATTTTTTTT---AAAA
* *
137002 AAAGCCCACGCAAGTTGGTGGCA
1 AAAGCCCACACAAGTTAGTGGCA
137025 ACCCTTTTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 8 0.15
37 21 0.40
39 23 0.44
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (37 bp):
AAAGCCCACACAAGTTAGTGGCACATTTTTTTTAAAA
Found at i:137125 original size:45 final size:46
Alignment explanation
Indices: 137070--137189 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 46
137060 TCCGATATCA
* *
137070 CTGGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCG
* * *
137115 CTGGCCTTGAATCAGCACAATGGTCCACTTTTCCCTTAGCCCAATGTCG
1 CTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTCG
**
137164 CTGGCCTTGAATTGGCACATTGGCAC
1 CTGGCCTTGAATCAGCACATTGGCAC
137190 TTCTCTCATC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 20 0.32
47 9 0.14
49 34 0.54
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCG
Found at i:137929 original size:20 final size:20
Alignment explanation
Indices: 137904--137957 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
137894 TACCTAGATT
137904 TATCGATACATTCTTCAATA
1 TATCGATACATTCTTCAATA
*
137924 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATA
137944 TATCGATACATTCT
1 TATCGATACATTCT
137958 ATCTTTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCTTCAATA
Found at i:141606 original size:167 final size:167
Alignment explanation
Indices: 141259--141607 Score: 441
Period size: 167 Copynumber: 2.1 Consensus size: 167
141249 TATCTTCATG
* * * * *
141259 GGTTTAAAATTTCTAAAATTTATCAAATATTATTATTTAATTTATATTAAATTAATTTTTGAAAA
1 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAA
** * * * * *
141324 TTCATTCGTTTTCATGATTTTTTGAATTTTTTCCTTGAAATTTCTCTATTTCTAAAAAATAGAGT
66 TTCATTCAATTCCATGAGTTTTGGAATTTTTTCCTTGAAATCTCCCTATTTCTAAAAAATAGAGT
* ** ** *
141389 TTTCTACTCTGTAAATTTTTTTGAGGGGAATTTTCTT
131 TTTCTAATCCATAAATACTTTCGAGGGGAATTTTCTT
**
141426 GGTTTCTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAA
1 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAA
** *
141491 TTCATTCAATTCCATGAGTTTTGGAATTTTTTTTTTGAAATCTCCCT-TTTCCTAAAAAATTGAG
66 TTCATTCAATTCCATGAGTTTTGGAATTTTTTCCTTGAAATCTCCCTATTT-CTAAAAAATAGAG
*
141555 TTTTCTAATCCATAAATACTTTCG-GGGGGATTTTCTTT
130 TTTTCTAATCCATAAATACTTTCGAGGGGAATTTTC-TT
*
141593 GGTTAAAAATTTTTA
1 GGTTTAAAATTTTTA
141608 TAATGTATCT
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
166 13 0.08
167 140 0.92
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (167 bp):
GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAA
TTCATTCAATTCCATGAGTTTTGGAATTTTTTCCTTGAAATCTCCCTATTTCTAAAAAATAGAGT
TTTCTAATCCATAAATACTTTCGAGGGGAATTTTCTT
Found at i:143390 original size:16 final size:16
Alignment explanation
Indices: 143371--143401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
143361 AAAATTTTTG
143371 AAAATAAAAAAATAAT
1 AAAATAAAAAAATAAT
*
143387 AAAATAAAATAATAA
1 AAAATAAAAAAATAA
143402 ATAATTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAAAAATAAT
Found at i:145456 original size:32 final size:30
Alignment explanation
Indices: 145420--145478 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
145410 GAAATCAAAT
145420 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
145452 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
145479 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:145776 original size:13 final size:13
Alignment explanation
Indices: 145758--145783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
145748 TAATTTTTTG
145758 TGTATCGATACAT
1 TGTATCGATACAT
145771 TGTATCGATACAT
1 TGTATCGATACAT
145784 ACTTTGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:147035 original size:21 final size:20
Alignment explanation
Indices: 147009--147050 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
146999 TAATGAATAG
147009 TTACACGCAAAAAAGGTTTTT
1 TTACACGCAAAAAA-GTTTTT
147030 TTACACGCAAAAAAGTTTTT
1 TTACACGCAAAAAAGTTTTT
147050 T
1 T
147051 ATCTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
TTACACGCAAAAAAGTTTTT
Found at i:147357 original size:10 final size:12
Alignment explanation
Indices: 147341--147387 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
147331 TTTTAAATAT
147341 AATATAAT-TAA
1 AATATAATATAA
147352 AA-ATAAT-TAA
1 AATATAATATAA
*
147362 AATATGATATAA
1 AATATAATATAA
147374 AATATAATATAA
1 AATATAATATAA
147386 AA
1 AA
147388 ATTTTTACGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 10 0.31
11 6 0.19
12 16 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
AATATAATATAA
Found at i:147382 original size:26 final size:27
Alignment explanation
Indices: 147320--147382 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
147310 ATTTAAAAAT
*
147320 AAATATAATAATTTTAAATATAATATA
1 AAATATAATAATTTAAAATATAATATA
*
147347 ATTAA-A-AATAA-TTAAAATATGATATA
1 A--AATATAATAATTTAAAATATAATATA
147373 AAATATAATA
1 AAATATAATA
147383 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 18 0.60
27 6 0.20
28 1 0.03
29 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
AAATATAATAATTTAAAATATAATATA
Done.