Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold62
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: 1452230
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.24
Warning! 388291 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:2847 original size:13 final size:13
Alignment explanation
Indices: 2829--2855 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2819 TACAATGAAC
2829 ATGTATCGATACA
1 ATGTATCGATACA
2842 ATGTATCGATACA
1 ATGTATCGATACA
2855 A
1 A
2856 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3450 original size:20 final size:22
Alignment explanation
Indices: 3399--3453 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
3389 AGTTTTCATT
*
3399 TTTCTCTCCCTTAATTAAAGAA
1 TTTCTCTCCCTTAATCAAAGAA
*
3421 TTTCTCTCCCTTAATCAAAGCA
1 TTTCTCTCCCTTAATCAAAGAA
3443 TTTCTC-CCCTT
1 TTTCTCTCCCTT
3454 TTGTCAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.42
Consensus pattern (22 bp):
TTTCTCTCCCTTAATCAAAGAA
Found at i:5211 original size:20 final size:19
Alignment explanation
Indices: 5170--5209 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
5160 TTTTGTTGAT
5170 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
5190 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
5210 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:9316 original size:21 final size:21
Alignment explanation
Indices: 9274--9316 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9264 TGTGTTTTTC
* *
9274 TTAGCTAATTCATTATTTTCA
1 TTAGCTAATTCATTAATATCA
**
9295 TTAGCTAATTTTTTAATATCA
1 TTAGCTAATTCATTAATATCA
9316 T
1 T
9317 CTTGCAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (21 bp):
TTAGCTAATTCATTAATATCA
Found at i:11518 original size:20 final size:20
Alignment explanation
Indices: 11493--11542 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
11483 CAAGCAATGC
*
11493 ATCGATACAATTCAT-CATGT
1 ATCGATACAATT-ATACATAT
11513 ATCGATAC-ATTATACCATAT
1 ATCGATACAATTATA-CATAT
11533 ATCGATACAA
1 ATCGATACAA
11543 AGAGTGGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 20 0.77
21 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (20 bp):
ATCGATACAATTATACATAT
Found at i:11596 original size:20 final size:19
Alignment explanation
Indices: 11571--11644 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
11561 CTGTCAATTT
**
11571 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
11591 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
11610 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
11631 -ATGTATCGATACAA
1 CATGTATCGATACAA
11645 CTGGGTGAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.37
20 30 0.61
21 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:15479 original size:20 final size:21
Alignment explanation
Indices: 15436--15489 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
15426 CGTTAGGACA
* *
15436 ATGTATCGATAC-TTATCACT
1 ATGTATCGATACAATATCACC
15456 ATGTATCGATACAATAT-ACC
1 ATGTATCGATACAATATCACC
*
15476 ATGTATCAATACAA
1 ATGTATCGATACAA
15490 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATATCACC
Found at i:16030 original size:53 final size:53
Alignment explanation
Indices: 15923--16064 Score: 175
Period size: 53 Copynumber: 2.7 Consensus size: 53
15913 CACATTAGAT
15923 TTAAAGATGATAA-AGATGCC-AATGTGCTGATTCAAGGCTAACGACATCGAAC
1 TTAAAGATGATAAGA-ATGCCAAATGTGCTGATTCAAGGCTAACGACATCGAAC
* * * * * *
15975 TTAAAGATGGTAAGAATGCCAAATGGGCTGATTCAAGG-TCAGCGCCATTGGAC
1 TTAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGGCT-AACGACATCGAAC
16028 TTAGAA-ATGATAAGAATGCCAAATGTGCTGATTCAAG
1 TTA-AAGATGATAAGAATGCCAAATGTGCTGATTCAAG
16065 ATCAATGACA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
52 18 0.23
53 58 0.74
54 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (53 bp):
TTAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGGCTAACGACATCGAAC
Found at i:16091 original size:53 final size:52
Alignment explanation
Indices: 15914--16091 Score: 166
Period size: 53 Copynumber: 3.4 Consensus size: 52
15904 AAGGGTAGCC
* * *
15914 ACATTAGATTTAAAGATGATAA-AGATGCC-AATGTGCTGATTCAAGGCTAACG
1 ACATTAGACTAAAAGATGATAAGA-ATGCCAAATGTGCTGATTCAAGTC-AACG
* * * * *
15966 ACA-TCGAACTTAAAGATGGTAAGAATGCCAAATGGGCTGATTCAAGGTCAGCG
1 ACATTAG-ACTAAAAGATGATAAGAATGCCAAATGTGCTGATTCAA-GTCAACG
* * * *
16019 CCATTGGACTTAGAA-ATGATAAGAATGCCAAATGTGCTGATTCAAGATCAATG
1 ACATTAGAC-TAAAAGATGATAAGAATGCCAAATGTGCTGATTCAAG-TCAACG
16072 ACATTAGACTAAAAGATGAT
1 ACATTAGACTAAAAGATGAT
16092 GAAAGTACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
51 2 0.02
52 26 0.26
53 66 0.65
54 7 0.07
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (52 bp):
ACATTAGACTAAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGTCAACG
Found at i:16268 original size:31 final size:30
Alignment explanation
Indices: 16197--16323 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 30
16187 TAGAATGAAG
* *
16197 TGCCACCAACTTGTGTGGGCATTTGAGAGGGT
1 TGCCACCAACTTGTGTGGGC-TTT-AAAAGGT
* * *
16229 TGCTACCAACTTGCGTGGGCTTTAAACGAGT
1 TGCCACCAACTTGTGTGGGCTTTAAAAG-GT
16260 TGCCACCAACTTGTGTGGGCTTTAAAATGGT
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GGT
16291 TGCCACCAACTTGTGTGGGCTTTGGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTT--AAAAGGT
16323 T
1 T
16324 TCTCCACTAG
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
30 3 0.04
31 54 0.64
32 23 0.27
33 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (30 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGT
Found at i:18383 original size:19 final size:20
Alignment explanation
Indices: 18339--18387 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
18329 CTGCCAGTTT
* *
18339 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGATA
*
18359 CATGTATCGTTACAATGA-A
1 CATGTATCGATACAATGATA
18378 CATGTATCGA
1 CATGTATCGA
18388 GAGAATGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:18416 original size:20 final size:19
Alignment explanation
Indices: 18391--18446 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
18381 GTATCGAGAG
18391 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAG-AT
*
18411 AATGTATCGATACATCTAGAT
1 AATGTATCGATACA--AAGAT
18432 -ATGTATCGATACAAA
1 AATGTATCGATACAAA
18447 CAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
20 27 0.84
21 2 0.06
22 2 0.06
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAAAGAT
Found at i:20907 original size:13 final size:13
Alignment explanation
Indices: 20888--20927 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
20878 ATAGTAACCC
20888 ATGTATCGATACA
1 ATGTATCGATACA
*
20901 TTGTATCGATACA
1 ATGTATCGATACA
*
20914 ATGTATCAATACA
1 ATGTATCGATACA
20927 A
1 A
20928 AGAACATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25592 original size:32 final size:30
Alignment explanation
Indices: 25551--25610 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 30
25541 TAACAAAGAT
25551 TGAATAAAACCGAGAAAGACTTTGAAAAACCA
1 TGAATAAAACCGAGAAAG--TTTGAAAAACCA
25583 TGAATAAAACCGAGAAAGTTTGAAAAAC
1 TGAATAAAACCGAGAAAGTTTGAAAAAC
25611 ATGTTCTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 10 0.36
32 18 0.64
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (30 bp):
TGAATAAAACCGAGAAAGTTTGAAAAACCA
Found at i:33610 original size:33 final size:33
Alignment explanation
Indices: 33564--33629 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
33554 ATAGTTGATC
* *
33564 ACTTCACTTTCGCAACACATGAATGAGCACTTT
1 ACTTCACTCTCGCAACACATGAATGAACACTTT
* *
33597 ACTTCACTCTCGCAGCACATGGATGAACACTTT
1 ACTTCACTCTCGCAACACATGAATGAACACTTT
33630 GGTGCACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (33 bp):
ACTTCACTCTCGCAACACATGAATGAACACTTT
Found at i:34024 original size:21 final size:22
Alignment explanation
Indices: 33984--34029 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
33974 TTTTAAACGA
*
33984 TTATCAAAGGGGGGAAAATTTT
1 TTATCAAAGGGAGGAAAATTTT
*
34006 TTATC-AAGGGAGGATAATTTT
1 TTATCAAAGGGAGGAAAATTTT
34027 TTA
1 TTA
34030 AGCGAGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (22 bp):
TTATCAAAGGGAGGAAAATTTT
Found at i:44577 original size:11 final size:11
Alignment explanation
Indices: 44563--44597 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
44553 AAAAATGTAA
44563 AAAAAAAAGAG
1 AAAAAAAAGAG
44574 AAAAAAAAAGAG
1 -AAAAAAAAGAG
*
44586 AAAGAAAAGAG
1 AAAAAAAAGAG
44597 A
1 A
44598 GAAGAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:44577 original size:12 final size:12
Alignment explanation
Indices: 44562--44600 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
44552 AAAAAATGTA
44562 AAAAAAAAAGAG
1 AAAAAAAAAGAG
44574 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
44586 AAAGAAAAGAGAG
1 AAA-AAAAAAGAG
44599 AA
1 AA
44601 GAAATAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:48218 original size:61 final size:61
Alignment explanation
Indices: 48085--48542 Score: 494
Period size: 61 Copynumber: 7.4 Consensus size: 61
48075 AACCTTTTAT
* * * *
48085 CCTTTCAGTCCTTAAAGAGTAGGATGCCTTTTCCTCT-CTTAAAGCTCACACAAGTTGGTGACA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCT-TGC--AAAGCCCACACAAGTTGGTGGCA
* ** * * **
48148 TCTTTCAGTCCTTGAAGAGTAGGATGCCTTTTCTTTTTAAAGCCCGA-ACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCC-ACACAAGTTGGTGGCA
* * * *
48209 CCTTTCAGTCCTCGAAGAGCAAGACGCCTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * *
48270 TCTTTCAGTCCTTAAAGAGGAGGACGCCTTTTCCATGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * *
48331 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAACCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* *
48392 CCTTTCAGTCCTCAAAGAGTAAGACGCATTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * **
48453 CC-TTCTAGT-CTCCAAAGAG-CGAGACACTTTTTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
1 CCTTTC-AGTCCT-CAAAGAGTAG-GACGC----CTTTTCCTTGCAAAGCCCACACAAGTTGGTG
48515 GCA
59 GCA
* * *
48518 CCTTTTAGTCCTCAAAAAGCAGGAC
1 CCTTTCAGTCCTCAAAGAGTAGGAC
48543 ACACCTCATT
Statistics
Matches: 342, Mismatches: 40, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
60 6 0.02
61 252 0.74
62 2 0.01
63 32 0.09
65 45 0.13
66 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
Found at i:48396 original size:183 final size:181
Alignment explanation
Indices: 48086--48541 Score: 549
Period size: 183 Copynumber: 2.5 Consensus size: 181
48076 ACCTTTTATC
* * * * *
48086 CTTTCAGTCCTTAAAGAGTAGGATGCCTTTTCCTCTCTTAAAGCTCACACAAGTTGGTGACATCT
1 CTTTCAGTCCTTAAAGAGGAGGACGCCTTTTCCT-TC--AAAGCCCACACAAGTTGGTGGCACCT
** * * ** *
48151 TTCAGTCCTTGAAGAGTAGGATGCCTTTTCTTTTTAAAGCCCGAACAAGTTGGTGGCACCTTTCA
63 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAACCCGAACAAGTTGGTGGCACCTTTCA
* * *
48216 GTCCTCGAAGAGCAAGACGCCTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
128 GTCCTCAAAGAGCAAGACGCATTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
*
48270 TCTTTCAGTCCTTAAAGAGGAGGACGCCTTTTCCATGCAAAGCCCACACAAGTTGGTGGCACCTT
1 -CTTTCAGTCCTTAAAGAGGAGGACGCCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCACCTT
48335 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAACCC-ACACAAGTTGGTGGCACCTTTCA
64 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAACCCGA-ACAAGTTGGTGGCACCTTTCA
*
48399 GTCCTCAAAGAGTAAGACGCATTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
128 GTCCTCAAAGAGCAAGACGCATTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * * *
48453 CCTTCTAGT-CTCCAAAGAGCGA-GACACTTTTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CTTTC-AGTCCT-TAAAGAG-GAGGACGC----CTTTTCC-TTCAAAGCCCACACAAGTTGGTGG
* *
48516 CACCTTTTAGTCCTCAAAAAGCAGGA
58 CACCTTTCAGTCCTCAAAGAGCAGGA
48542 CACACCTCAT
Statistics
Matches: 236, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
182 7 0.03
183 142 0.60
184 2 0.01
185 32 0.14
186 1 0.00
187 52 0.22
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (181 bp):
CTTTCAGTCCTTAAAGAGGAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAACCCGAACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAAGACGCATTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
Found at i:48563 original size:41 final size:40
Alignment explanation
Indices: 48518--48763 Score: 210
Period size: 42 Copynumber: 6.0 Consensus size: 40
48508 GTTGGTGGCA
* * * *
48518 CCTTTTAGTCCTCAAAAAGCAGGACACACCTCATTTTTTTC
1 CCTTTT-GTCCTCAAAGAGCAGGACGCACTTTATTTTTTTC
* **
48559 CCTTTTGTCCTTAAAGATTAGGACGCACTTTATTTCCTTTT-
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTT--TTTTC
*
48600 CCTTTTGTCCTCAAAGTGCAGGACGCACTTTATTTTTTTTC
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTA-TTTTTTTC
* * *
48641 CC-TTTGTCCTCAAATAGCAGGATGCACTTTATTTCCTTTTTT
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTA-TT--TTTTTC
* * *
48683 CC-TTTGTCCTCAAAGGGTAGGATGCACTTTATTTCCTTTTC
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTT--TTTTC
* * * * * *
48724 CCCTTTGTCTTCAAAGAGCAAGACACACTTAATTTCTTTC
1 CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTTTTC
48764 TTTTCCTTTA
Statistics
Matches: 169, Mismatches: 27, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 59 0.35
41 44 0.26
42 65 0.38
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (40 bp):
CCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTTTTC
Found at i:48614 original size:81 final size:82
Alignment explanation
Indices: 48518--48759 Score: 220
Period size: 81 Copynumber: 2.9 Consensus size: 82
48508 GTTGGTGGCA
* **
48518 CCTTTTAGTCCTCAAAAAGCAGGACACACCTCA-TTTTTTTCCCTTTTGTCCTTAAAGATTAGGA
1 CCTTTT-GTCCTCAAAAAGCAGGACACACCTCATTTTTTTTCCC-TTTGTCCTCAAAGAGCAGGA
48582 CGCACTTTATTTCC-TTTT
64 CGCACTTTATTTCCTTTTT
** * * * * *
48600 CCTTTTGTCCTCAAAGTGCAGGACGCACTTTATTTTTTTTCCCTTTGTCCTCAAATAGCAGGATG
1 CCTTTTGTCCTCAAAAAGCAGGACACACCTCATTTTTTTTCCCTTTGTCCTCAAAGAGCAGGACG
48665 CACTTTATTTCCTTTTTT
66 CACTTTATTTCC-TTTTT
** * ** * * * * *
48683 CC-TTTGTCCTCAAAGGGTAGGATGCACTTTATTTCCTTTTCCCCTTTGTCTTCAAAGAGCAAGA
1 CCTTTTGTCCTCAAAAAGCAGGACACACCTCATTT--TTTTTCCCTTTGTCCTCAAAGAGCAGGA
* *
48747 CACACTTAATTTC
64 CGCACTTTATTTC
48760 TTTCTTTTCC
Statistics
Matches: 135, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
81 50 0.37
82 45 0.33
83 6 0.04
84 34 0.25
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (82 bp):
CCTTTTGTCCTCAAAAAGCAGGACACACCTCATTTTTTTTCCCTTTGTCCTCAAAGAGCAGGACG
CACTTTATTTCCTTTTT
Found at i:48694 original size:42 final size:42
Alignment explanation
Indices: 48552--48830 Score: 269
Period size: 42 Copynumber: 6.6 Consensus size: 42
48542 CACACCTCAT
* **
48552 TTTTTTCCCTTTTGTCCTTAAAGATTAGGACGCACTTTATTTCC
1 TTTTTT-CC-TTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
*
48596 --TTTTCCTTTTGTCCTCAAAGTGCAGGACGCACTTTATTT--
1 TTTTTTCC-TTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
* * *
48635 TTTTTCCCTTTGTCCTCAAATAGCAGGATGCACTTTATTTCC
1 TTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
* * *
48677 TTTTTTCCTTTGTCCTCAAAGGGTAGGATGCACTTTATTTCC
1 TTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
** * * * * *
48719 TTTTCCCCTTTGTCTTCAAAGAGCAAGACACACTTAATTTCT
1 TTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
* * * * *
48761 TTCTTTTCCTTTATCCTTAAAGAGTAAGACGCATTTTATTTCC
1 TT-TTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
*
48804 TTTTTTTTCCTTTGTCCTCGAAGAGCA
1 --TTTTTTCCTTTGTCCTCAAAGAGCA
48831 AGATGTACTC
Statistics
Matches: 192, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
40 29 0.15
41 36 0.19
42 76 0.40
43 30 0.16
44 19 0.10
45 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (42 bp):
TTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCC
Found at i:48704 original size:123 final size:128
Alignment explanation
Indices: 48551--48828 Score: 323
Period size: 123 Copynumber: 2.2 Consensus size: 128
48541 ACACACCTCA
* * *
48551 TTTTTTTCCCTTTTGTCCTTAAAGATTAGGACGCACTTTATTTCCTTTT-CCTTTTGTCCTCAAA
1 TTTTTTT-CC-TTTGTCCTCAAAGAGTAGGACGCACTTTATTTCCTTTTCCCCTTTGTCCTCAAA
* * * * * * * *
48615 GTGCAGGACGCACTTTA-TT-TTT-TTTCCCTTTGTCCTCAAATAGCAGGATGCACTTTATTTCC
64 GAGCAAGACACACTTAATTTCTTTCTTTCCCTTTATCCTCAAAGAGCAAGACGCACTTTATTTCC
* * *
48677 -TTTTTTCCTTTGTCCTCAAAGGGTAGGATGCACTTTATTTCCTTTTCCCCTTTGTCTTCAAAGA
1 TTTTTTTCCTTTGTCCTCAAAGAGTAGGACGCACTTTATTTCCTTTTCCCCTTTGTCCTCAAAGA
* * * *
48741 GCAAGACACACTTAATTTCTTTCTTTTCCTTTATCCTTAAAGAGTAAGACGCATTTTATTTCC
66 GCAAGACACACTTAATTTCTTTCTTTCCCTTTATCCTCAAAGAGCAAGACGCACTTTATTTCC
*
48804 TTTTTTTTCCTTTGTCCTCGAAGAG
1 -TTTTTTTCCTTTGTCCTCAAAGAG
48829 CAAGATGTAC
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
123 34 0.27
124 28 0.22
125 8 0.06
126 3 0.02
127 32 0.25
129 21 0.17
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (128 bp):
TTTTTTTCCTTTGTCCTCAAAGAGTAGGACGCACTTTATTTCCTTTTCCCCTTTGTCCTCAAAGA
GCAAGACACACTTAATTTCTTTCTTTCCCTTTATCCTCAAAGAGCAAGACGCACTTTATTTCC
Found at i:48869 original size:79 final size:74
Alignment explanation
Indices: 48763--48937 Score: 179
Period size: 75 Copynumber: 2.3 Consensus size: 74
48753 TAATTTCTTT
* * * * * * * *
48763 CTTTTCCTTTATCCTTAAAGAGTAAGACGCATTTTATTTCCTTTTTTTTCCTTTGTCCTCGAAGA
1 CTTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCA-TT-C--TCTTTTCCTTTATCCTCGAAAA
** *
48828 GCAAGATGTACTC
62 GCAAGACATAATC
* *
48841 CTTTTCCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTCTTTTCTTTTATCCTCGAAAAGCA
1 CTTTT-CCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTCTTTTCCTTTATCCTCGAAAAGCA
48906 AGACATAATC
65 AGACATAATC
*
48916 CTTTTCCATTGTCCTCAAAGAG
1 CTTTTCCTTTGTCCTCAAAGAG
48938 TAGGACGCCC
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
74 15 0.19
75 33 0.41
77 1 0.01
78 7 0.09
79 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.39
Consensus pattern (74 bp):
CTTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTCTTTTCCTTTATCCTCGAAAAGCAA
GACATAATC
Found at i:48960 original size:75 final size:75
Alignment explanation
Indices: 48798--48960 Score: 186
Period size: 75 Copynumber: 2.2 Consensus size: 75
48788 GACGCATTTT
* * ** * * *
48798 ATTTCCTTTT-TTTTCCTTTGTCCTCGAAGAGCAAGATGTACTCCTTTTCCCTTTGTCCTCAAGG
1 ATTTCCTTTTCTTTTCCTTTATCCTCGAAAAGCAAGACATAATCCTTTTCCCATTGTCCTCAAAG
48862 AGCAAGACCC
66 AGCAAGACCC
* * *
48872 ATTTCATTCTCTTTTCTTTTATCCTCGAAAAGCAAGACATAATCCTTTT-CCATTGTCCTCAAAG
1 ATTTCCTTTTCTTTTCCTTTATCCTCGAAAAGCAAGACATAATCCTTTTCCCATTGTCCTCAAAG
* *
48936 AGTAGGACGCC
66 AGCAAGAC-CC
*
48947 CTTTCCTTTTCTTT
1 ATTTCCTTTTCTTT
48961 CCCCTTCTAA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
74 27 0.38
75 45 0.62
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (75 bp):
ATTTCCTTTTCTTTTCCTTTATCCTCGAAAAGCAAGACATAATCCTTTTCCCATTGTCCTCAAAG
AGCAAGACCC
Found at i:53577 original size:95 final size:95
Alignment explanation
Indices: 53384--53596 Score: 286
Period size: 96 Copynumber: 2.2 Consensus size: 95
53374 TTTTTTGCTG
* * * *
53384 AAAAATAGGGTTGGAGTAT-CCCTTGGAGGAAAGGGGTTGGAGTGTCCCTAACAATATAGTTTAG
1 AAAAATAGGGTTGGAGTATCCCCTTGGAAGAAAGGGGTTGGAATGTCCCCAACAATATAGCTTAG
* *
53448 GTAAAAATAAGAATGATTTTGACAAGCTTA
66 GTAAAAACAAGAATGATCTTGACAAGCTTA
* ** *
53478 AAAAATAGGGTTAGAGTATCCCCTTGGAAGAATTGGGTTGGAATGTCCCCGACAATAATAGCTTA
1 AAAAATAGGGTTGGAGTATCCCCTTGGAAGAAAGGGGTTGGAATGTCCCCAACAAT-ATAGCTTA
*
53543 GGTACAAACAAGAATGATCTTGACAAGCTTA
65 GGTAAAAACAAGAATGATCTTGACAAGCTTA
*
53574 AAAAA-CGAGGTTGGAGTATCCCC
1 AAAAATAG-GGTTGGAGTATCCCC
53597 CCAGAATAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
94 18 0.17
95 31 0.30
96 54 0.52
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (95 bp):
AAAAATAGGGTTGGAGTATCCCCTTGGAAGAAAGGGGTTGGAATGTCCCCAACAATATAGCTTAG
GTAAAAACAAGAATGATCTTGACAAGCTTA
Found at i:55370 original size:12 final size:12
Alignment explanation
Indices: 55353--55387 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
55343 GCTAAGATGC
*
55353 TGCTGGAAGTGT
1 TGCTGGAAATGT
55365 TGCTGGAAATGT
1 TGCTGGAAATGT
*
55377 TGATGGAAATG
1 TGCTGGAAATG
55388 GGGCTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.37, T:0.31
Consensus pattern (12 bp):
TGCTGGAAATGT
Found at i:55837 original size:20 final size:20
Alignment explanation
Indices: 55812--55863 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
55802 TTTCCTACAA
*
55812 GTATCGATACCTTGAATAAT
1 GTATCGATACATTGAATAAT
*
55832 GTATCGATACATTGTATAAT
1 GTATCGATACATTGAATAAT
55852 GTATCGATACAT
1 GTATCGATACAT
55864 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTGAATAAT
Found at i:57046 original size:143 final size:142
Alignment explanation
Indices: 56785--57069 Score: 534
Period size: 143 Copynumber: 2.0 Consensus size: 142
56775 CCAAAAGATC
* *
56785 CTTTTTGCTGAACCAGTAGCTCTTATTTATTCACATGCTTGACCAATAGGATTAGGGGACAAACC
1 CTTTTTACTGAACCAGTAGCTCATATTTATTCACATGCTTGACCAATAGGATTAGGGGACAAACC
56850 AAGGGCAATGTAAGATTTTCTCCTTTGCACAAGGAGACAACCAACCACCAGCTCAGTCTGCCCTT
66 AAGGGCAATGTAAGATTTTCTCCTTTGCACAAGGAGACAACCAACCACCAGCTCAGTCTGCCCTT
56915 CATTGCCATTGG
131 CATTGCCATTGG
56927 CTTTTTACTGAACCAGTAGCTCATATTTATTCACATGCTTGACCAATAGGGATTAGGGGACAAAC
1 CTTTTTACTGAACCAGTAGCTCATATTTATTCACATGCTTGACCAATA-GGATTAGGGGACAAAC
*
56992 CAAGGGCAATGTAAGATTTTCTCCTTTGCACAAGGAGACAACCAACCACTAGCTCAGTCTGCCCT
65 CAAGGGCAATGTAAGATTTTCTCCTTTGCACAAGGAGACAACCAACCACCAGCTCAGTCTGCCCT
57057 TCATTGCCATTGG
130 TCATTGCCATTGG
57070 TTCTGCCATG
Statistics
Matches: 139, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
142 46 0.33
143 93 0.67
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (142 bp):
CTTTTTACTGAACCAGTAGCTCATATTTATTCACATGCTTGACCAATAGGATTAGGGGACAAACC
AAGGGCAATGTAAGATTTTCTCCTTTGCACAAGGAGACAACCAACCACCAGCTCAGTCTGCCCTT
CATTGCCATTGG
Found at i:57345 original size:19 final size:19
Alignment explanation
Indices: 57318--57383 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
57308 AATGGTCAAA
* *
57318 GATACATTGGGAATGTATC
1 GATACATTGAGAATGGATC
*
57337 GATATATTGAGAATGGATC
1 GATACATTGAGAATGGATC
* * *
57356 GATACAATGAAAAATGTATC
1 GATACATTG-AGAATGGATC
57376 GATACATT
1 GATACATT
57384 TACTTATGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (19 bp):
GATACATTGAGAATGGATC
Found at i:58697 original size:79 final size:78
Alignment explanation
Indices: 58578--59139 Score: 507
Period size: 79 Copynumber: 7.2 Consensus size: 78
58568 AAAAATGGGA
* * * * * *
58578 TTGGAGTATCCCCGATAGTGAAAAGTCAATATTTTGGAAATAAAATCAAGGTTAGAGTATCCCCT
1 TTGGAGTATCCCCGATGGTGAAAA-TCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
*
58643 CAGAAATAACGGGG
65 CAGAAATAACAGGG
* * * ***
58657 TTGGAGTATCCTCGATGATAGAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCTTTT
1 TTGGAGTATCCCCGATGGT-GAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
*
58722 CAAAAATAACTA-GG
65 CAGAAATAAC-AGGG
* * **
58736 TTGGAGTATCCCCGATGGTGGAAAATCGACGCTTTAGAAAT-GGATCCGAGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATGGT-GAAAATCGATGTTTTAGAAATAAAAT-CGAGGTTGGAGTATCCCC
* * **
58800 TTAAAAATAATGGGG
64 TCAGAAATAACAGGG
** * * * *
58815 TTGGAGTATCCTTGATGGTAGAAAATCGGTATTTTAAAAATAAAATCGAGGTTGGAGTATCTCCT
1 TTGGAGTATCCCCGATGGT-GAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
58880 C-GAAAATAACAGGG
65 CAG-AAATAACAGGG
* * * * * **
58894 TTGGAGTATCCCCGATGGTGAAAATTGGTGTTTTAAAAAT-AAATCGGGGTTAGAGTATAACCTC
1 TTGGAGTATCCCCGATGGTGAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT-
58958 CA-AAATAACAGGG
65 CAGAAATAACAGGG
* *
58971 TTGGAGTATCCCCAATGGTGAAAAATC-AGTGTTTTAGAAATAAAATCG-GGATTAGAGTATCCC
1 TTGGAGTATCCCCGATGGTG-AAAATCGA-TGTTTTAGAAATAAAATCGAGG-TTGGAGTATCCC
*
59034 CTC-GAAAATTACAGGG
63 CTCAG-AAATAACAGGG
* ** * *
59050 TTGGAATAT-CTTGATAGTGAAAAATCGATGTTTTAGAAATAAAA-CCAGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATGGTG-AAAATCGATGTTTTAGAAATAAAATCGA-GGTTGGAGTATCCCC
**
59113 TCA-AGAATAATGGGG
64 TCAGA-AATAACAGGG
59128 TTGGAGTATCCC
1 TTGGAGTATCCC
59140 TTCGAAAATA
Statistics
Matches: 393, Mismatches: 70, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
77 51 0.13
78 98 0.25
79 237 0.60
80 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCCCCGATGGTGAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTC
AGAAATAACAGGG
Found at i:58800 original size:158 final size:157
Alignment explanation
Indices: 58578--59138 Score: 584
Period size: 158 Copynumber: 3.6 Consensus size: 157
58568 AAAAATGGGA
* * * * *
58578 TTGGAGTATCCCCGATAGT-GAAAAGTCAATATTTTGGAAATAAAAT-CAAGGTTAGAGTATCCC
1 TTGGAGTATCCCCGATGGTGGAAAA-TCGATGTTTTAGAAAT-AAATCCGAGGTTAGAGTATCCC
* *
58641 CTCAGAAATAACGGGGTTGGAGTATCCTCGATGATAGAAAATCGATGTTTTAGAAATAAAACCGA
64 CTCA-AAATAACGGGGTTGGAGTATCCTCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGA
** *
58706 GGTTGGAGTATCTTTTCAAAAATAACTA-GG
128 GGTTGGAGTATCTCCTCGAAAATAAC-AGGG
* * ** *
58736 TTGGAGTATCCCCGATGGTGGAAAATCGACGCTTTAGAAATGGATCCGAGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAATCCGAGGTTAGAGTATCCCC-
* * * * * *
58801 TAAAAATAATGGGGTTGGAGTATCCTTGATGGTAGAAAATCGGTATTTTAAAAATAAAATCGAGG
65 TCAAAATAACGGGGTTGGAGTATCCTCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGAGG
58866 TTGGAGTATCTCCTCGAAAATAACAGGG
130 TTGGAGTATCTCCTCGAAAATAACAGGG
* * * * **
58894 TTGGAGTATCCCCGATGGT-GAAAATTGGTGTTTTAAAAATAAAT-CGGGGTTAGAGTATAACCT
1 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAATCCGAGGTTAGAGTATCCCCT
* * *
58957 CCAAAATAACAGGGTTGGAGTATCCCCAATGGT-GAAAAATC-AGTGTTTTAGAAATAAAATCG-
66 -CAAAATAACGGGGTTGGAGTATCCTCGATGGTAG-AAAATCGA-TGTTTTAGAAATAAAATCGA
* * *
59019 GGATTAGAGTATCCCCTCGAAAATTACAGGG
128 GG-TTGGAGTATCTCCTCGAAAATAACAGGG
* ** * * * *
59050 TTGGAATAT-CTTGATAGTGAAAAATCGATGTTTTAGAAATAAAACC-AGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAATCCGA-GGTTAGAGTATCCCC
*
59113 TCAAGAATAATGGGGTTGGAGTATCC
65 TCAA-AATAACGGGGTTGGAGTATCC
59139 CTTCGAAAAT
Statistics
Matches: 332, Mismatches: 59, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
155 10 0.03
156 119 0.36
157 54 0.16
158 142 0.43
159 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (157 bp):
TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAATCCGAGGTTAGAGTATCCCCT
CAAAATAACGGGGTTGGAGTATCCTCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGAGGT
TGGAGTATCTCCTCGAAAATAACAGGG
Found at i:59130 original size:28 final size:28
Alignment explanation
Indices: 59097--59165 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
59087 AATAAAACCA
*
59097 GGGTTGGAGTATCCCCTC-AAGAATAATG
1 GGGTTGGAGTATCCCCTCGAA-AATAACG
*
59125 GGGTTGGAGTATCCCTTCGAAAATAACG
1 GGGTTGGAGTATCCCCTCGAAAATAACG
59153 GGGTTGGAGTATC
1 GGGTTGGAGTATC
59166 TCTGATGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCGAAAATAACG
Found at i:61694 original size:18 final size:19
Alignment explanation
Indices: 61671--61721 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
61661 AAAACCCAGA
*
61671 ATGTATCAATACAATTA-T
1 ATGTATCGATACAATTACT
*
61689 ATGTATCGATACATTTACTT
1 ATGTATCGATACAATTAC-T
61709 ATGTATCGATACA
1 ATGTATCGATACA
61722 TTTCCTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.52
20 14 0.48
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACAATTACT
Found at i:61713 original size:20 final size:18
Alignment explanation
Indices: 61671--61724 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 18
61661 AAAACCCAGA
* *
61671 ATGTATCAATACAATTAT
1 ATGTATCGATACATTTAT
61689 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTA--T
61709 ATGTATCGATACATTT
1 ATGTATCGATACATTT
61725 CCTTTGCAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (18 bp):
ATGTATCGATACATTTAT
Found at i:62551 original size:61 final size:61
Alignment explanation
Indices: 62369--62551 Score: 224
Period size: 61 Copynumber: 3.0 Consensus size: 61
62359 AAAATGAGAG
* * *
62369 AGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCA-CAGCTTGTGTGGGCTTTAAAAGAAAAA
1 AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAA
* * * * * *
62430 AGGAATTGTCCTGCTTTTTGAGAACTAACAGGTGCCACCACCTTGTGTGGGCTTTGAAAAGAAA
1 AGGCA---TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
* *
62494 AGGCATCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAG
1 AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
62552 TGAGAGCTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
61 50 0.49
64 33 0.32
65 19 0.19
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (61 bp):
AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
Found at i:63396 original size:19 final size:18
Alignment explanation
Indices: 63351--63408 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
63341 TACTCCCAGT
63351 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
63370 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
63389 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
63408 T
1 T
63409 ATTGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:63434 original size:33 final size:32
Alignment explanation
Indices: 63373--63437 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
63363 ACAATTGTCC
* *
63373 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
*
63405 ATGTATTGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
63438 TCTATGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:65805 original size:20 final size:21
Alignment explanation
Indices: 65780--65819 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65770 TTTATTGATA
65780 ATTTTG-A-TGAAATATGAAGT
1 ATTTTGAAGTGAAA-ATGAAGT
65800 ATTTTGAAGTGAAAATGAAG
1 ATTTTGAAGTGAAAATGAAG
65820 AAATTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (21 bp):
ATTTTGAAGTGAAAATGAAGT
Found at i:65825 original size:22 final size:20
Alignment explanation
Indices: 65779--65853 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
65769 TTTTATTGAT
65779 AATTTTGATGAAATATGAAG
1 AATTTTGATGAAATATGAAG
*
65799 TATTTTGAAGTGAAA-ATGAAG
1 AATTTTG-A-TGAAATATGAAG
* * * *
65820 AAATTTG-TAAAAGATTTGATG
1 AATTTTGAT-GAA-ATATGAAG
65841 AATTTTGATGAAA
1 AATTTTGATGAAA
65854 AGATGTTAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.02
19 2 0.05
20 8 0.20
21 24 0.59
22 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (20 bp):
AATTTTGATGAAATATGAAG
Found at i:66005 original size:20 final size:18
Alignment explanation
Indices: 65967--66018 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 18
65957 CAAGGAATAT
65967 TGTATCGATACATTTCAA
1 TGTATCGATACATTTCAA
65985 TGTATCGATACATCCTTCAA
1 TGTATCGATACAT--TTCAA
66005 TGTATCGATACATT
1 TGTATCGATACATT
66019 CTGGAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.44
20 18 0.56
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATTTCAA
Found at i:72198 original size:13 final size:13
Alignment explanation
Indices: 72180--72204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72170 ACCAGTTTCA
72180 TGTATCGATACAG
1 TGTATCGATACAG
72193 TGTATCGATACA
1 TGTATCGATACA
72205 AAGCATAATG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:72658 original size:59 final size:59
Alignment explanation
Indices: 72526--73011 Score: 508
Period size: 59 Copynumber: 8.4 Consensus size: 59
72516 GAAGGCATCA
* * * * * * *
72526 TGCTCTTTAAAGACTAGAAGGTGCTAGCAACCTGTGTGGG-TTTGAAAGGAAAGTGTCA
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* * *
72584 TGCACTTTGAGGACTAGAAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAATGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* * * * *
72643 TACTCTTTGAGGACTAGAAGGTGCTACCAACTTTTATGGGCTTTAGAAAGAGAAGGTGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAG-GAAAGTGTCC
* *
72704 TGCTGTTTGAGGACTAGAATGTG---CC-AC---TGTGGGCTTTAAAA-GAAAGTGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* * * * *
72755 TACTCTTTGAGGGCTAGAAGGTGCCATCAACTTGTGTGAGCTTTAAAAAGAAAGTGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* *
72814 TGCTCTTTGAGGACAAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGCCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* * * * * *
72873 TGCTCTTTGAGGACTAAAAGTTGCCATCAACCTGTGTTGGCTTTGAAAGGAGAACGTGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA-GTGTCC
* ** * * *
72934 TGCTCTTTGAGGACTA-AAGGTGTCATTAACCTGTGTGGGCTTTAAAA-GAAGGTGTCT
1 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
* * *
72991 TACTCTTTAAGGACTAAAAGG
1 TGCTCTTTGAGGACTAGAAGG
73012 ATAAAAGGTT
Statistics
Matches: 361, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
51 28 0.08
53 3 0.01
54 11 0.03
55 2 0.01
57 21 0.06
58 53 0.15
59 162 0.45
60 32 0.09
61 49 0.14
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (59 bp):
TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC
Found at i:72822 original size:171 final size:174
Alignment explanation
Indices: 72526--73011 Score: 538
Period size: 171 Copynumber: 2.8 Consensus size: 174
72516 GAAGGCATCA
* * * * * * * * *
72526 TGCTCTTTAAAGACTAGAAGGTGCTAGCAACCTGTGTGGGTTTGAAAGGAAAGTGTCATGCACTT
1 TGCTCTTTGAGGACTAAAAGTTGCCA-CAACCTGTG-GGCTTTGAAAAGAAAGTGTCCTGCTCTT
* * *
72591 TGAGGACTAGAAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAATGTCCTACTCTTTGAGGA
64 TGAGGACTAGAAGGTGTCATCAACTTGTGTGGGCTTTAAAAAGAAAGTGTCCTACTCTTTGAGGA
* * * *
72656 CTAGAAGGTGCTACCAACTTTTATGGGCTTTAGAAAGAGAAGGTGTCC
129 CTAGAAGGTGCCACCAACTTGTATGGGCTTTA-AAAG-GAAAGTGCCC
* * *
72704 TGCTGTTTGAGGACTAGAA-TGTG-C-C-A-CTGTGGGCTTT-AAAAGAAAGTGTCCTACTCTTT
1 TGCTCTTTGAGGACTAAAAGT-TGCCACAACCTGTGGGCTTTGAAAAGAAAGTGTCCTGCTCTTT
* * * *
72763 GAGGGCTAGAAGGTGCCATCAACTTGTGTGAGCTTTAAAAAGAAAGTGTCCTGCTCTTTGAGGAC
65 GAGGACTAGAAGGTGTCATCAACTTGTGTGGGCTTTAAAAAGAAAGTGTCCTACTCTTTGAGGAC
* *
72828 AAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGCCC
130 TAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAGTGCCC
*
72873 TGCTCTTTGAGGACTAAAAGTTGCCATCAACCTGTGTTGGCTTTGAAAGGAGAACGTGTCCTGCT
1 TGCTCTTTGAGGACTAAAAGTTGCCA-CAACCTGTG--GGCTTTGAAA--AGAAAGTGTCCTGCT
* * * * *
72938 CTTTGAGGACTA-AAGGTGTCATTAACCTGTGTGGGCTTT-AAAAGAAGGTGTCTTACTCTTTAA
61 CTTTGAGGACTAGAAGGTGTCATCAACTTGTGTGGGCTTTAAAAAGAAAGTGTCCTACTCTTTGA
*
73001 GGACTAAAAGG
126 GGACTAGAAGG
73012 ATAAAAGGTT
Statistics
Matches: 258, Mismatches: 38, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
169 27 0.10
170 6 0.02
171 103 0.40
172 6 0.02
173 6 0.02
174 6 0.02
175 1 0.00
176 6 0.02
177 32 0.12
178 41 0.16
179 24 0.09
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (174 bp):
TGCTCTTTGAGGACTAAAAGTTGCCACAACCTGTGGGCTTTGAAAAGAAAGTGTCCTGCTCTTTG
AGGACTAGAAGGTGTCATCAACTTGTGTGGGCTTTAAAAAGAAAGTGTCCTACTCTTTGAGGACT
AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAGTGCCC
Found at i:74937 original size:23 final size:24
Alignment explanation
Indices: 74902--74949 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
74892 TGTCCATGCC
74902 CCACAGAGAAAAAAGGCCATGGGG
1 CCACAGAGAAAAAAGGCCATGGGG
*
74926 CCACATAG-AAAAAGGCCATGGGG
1 CCACAGAGAAAAAAGGCCATGGGG
74949 C
1 C
74950 TGTCATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.40, C:0.23, G:0.31, T:0.06
Consensus pattern (24 bp):
CCACAGAGAAAAAAGGCCATGGGG
Found at i:81406 original size:19 final size:19
Alignment explanation
Indices: 81382--81443 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
81372 ATTTGAATTT
81382 CAAACAATTTGTATCGATA
1 CAAACAATTTGTATCGATA
**
81401 CAAACAGTAAATGTATCGATA
1 CAAACA--ATTTGTATCGATA
* *
81422 CATA-AGTGTTGTATCGATA
1 CAAACAAT-TTGTATCGATA
81441 CAA
1 CAA
81444 TGTATCGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
CAAACAATTTGTATCGATA
Found at i:81449 original size:13 final size:13
Alignment explanation
Indices: 81431--81487 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
81421 ACATAAGTGT
81431 TGTATCGATACAA
1 TGTATCGATACAA
81444 TGTATCGATACATAA
1 TGTATCGATAC--AA
81459 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
81476 TGTATCGATACA
1 TGTATCGATACA
81488 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:81451 original size:32 final size:32
Alignment explanation
Indices: 81410--81514 Score: 201
Period size: 32 Copynumber: 3.3 Consensus size: 32
81400 ACAAACAGTA
81410 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
81442 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
81474 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
81506 AATGTATCG
1 AATGTATCG
81515 CTACGAAGCT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:81468 original size:19 final size:18
Alignment explanation
Indices: 81389--81506 Score: 94
Period size: 19 Copynumber: 6.8 Consensus size: 18
81379 TTTCAAACAA
*
81389 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
81408 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
81428 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
81444 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
81460 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
81476 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
81492 TTTTGTATCGATACA
1 -TTTGTATCGATACA
81507 ATGTATCGCT
Statistics
Matches: 81, Mismatches: 4, Indels: 28
0.72 0.04 0.25
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 35 0.43
20 3 0.04
21 13 0.16
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:81556 original size:21 final size:21
Alignment explanation
Indices: 81530--81573 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
81520 AAGCTACTAC
81530 TAAGGAAATGTATCGATACAT
1 TAAGGAAATGTATCGATACAT
81551 TAAGGAAATGTATCGATACAT
1 TAAGGAAATGTATCGATACAT
81572 TA
1 TA
81574 TATCGATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (21 bp):
TAAGGAAATGTATCGATACAT
Found at i:81579 original size:13 final size:13
Alignment explanation
Indices: 81561--81585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81551 TAAGGAAATG
81561 TATCGATACATTA
1 TATCGATACATTA
81574 TATCGATACATT
1 TATCGATACATT
81586 GATCTTTTGT
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:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:81648 original size:20 final size:20
Alignment explanation
Indices: 81615--81677 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
81605 TCTGAAAATT
81615 TTACCCAGATGTATCGATACA
1 TTACCCA-ATGTATCGATACA
81636 TTACCCAATGTATCGATACA
1 TTACCCAATGTATCGATACA
81656 TTACCCAATGTATCGATACA
1 TTACCCAATGTATCGATACA
81676 TT
1 TT
81678 CAGGCATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
20 35 0.83
21 7 0.17
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (20 bp):
TTACCCAATGTATCGATACA
Found at i:84028 original size:51 final size:50
Alignment explanation
Indices: 83968--84114 Score: 183
Period size: 51 Copynumber: 2.9 Consensus size: 50
83958 ATTTTTCATC
* *
83968 TCGGGGATACTCCAATCCCGGTTTCATTT-TCAAAACATCAA-TTTCTCTTAA
1 TCGGGGATACTCCAA-CCCGGTTTTATTTCT-AAAACATCAATTTTC-CATAA
*
84019 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAACA-CACATTTTCCATAA
1 TCGGGGATACTCCAAC-CCGGTTTTATTTCTAAAACATCA-ATTTTCCATAA
*
84070 TCGGGGATACTTCAACCTCGGTTTTATTTCTAAAACATCAATTTT
1 TCGGGGATACTCCAACC-CGGTTTTATTTCTAAAACATCAATTTT
84115 TTATTGAGGA
Statistics
Matches: 85, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
50 4 0.05
51 74 0.87
52 7 0.08
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (50 bp):
TCGGGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTCCATAA
Found at i:84169 original size:76 final size:76
Alignment explanation
Indices: 84072--84343 Score: 357
Period size: 76 Copynumber: 3.5 Consensus size: 76
84062 TTCCATAATC
* * * * *
84072 GGGGATACTTCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTATTGAGGATACTCTAACCCC
1 GGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
84137 GTTATTTTCGA
66 GTTATTTTCGA
* * *
84148 GGGGACACTCTAACCTTGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
*
84213 ATTATTTTCGA
66 GTTATTTTCGA
84224 GGGGACACTCCAA-CTCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GGGGACACTCCAACCT-CGGTTTTATTTCTAAAACATCAATTTTT--T-ATCGGGGATACTCCAA
* *
84288 TCCCGTTATTTTTGA
62 CCCCGTTATTTTCGA
* * * * *
84303 GGGAATACTCCAACCCCAGTTTTATTTCTAAAACACCAATT
1 GGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCAATT
84344 CTCCACAATC
Statistics
Matches: 171, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
75 2 0.01
76 106 0.62
79 62 0.36
80 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (76 bp):
GGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
GTTATTTTCGA
Found at i:84377 original size:51 final size:51
Alignment explanation
Indices: 84309--84421 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 51
84299 TTGAGGGAAT
84309 ACTCCAACCCCAGTTTTA-TTTCTAAAACACCAATTCTCCACAATCGGGGAC
1 ACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTCTCCACAATCGGGGAC
* * * * * *
84360 ACTCCAACTCC-GATTTTATTTTCAAAACACTAATTTTTCATAATCGGGGAT
1 ACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTCTCCACAATCGGGGAC
84411 ACTCCAACCCC
1 ACTCCAACCCC
84422 GTTATTTCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 48 0.91
52 4 0.08
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (51 bp):
ACTCCAACCCCAGTTTTATTTTCAAAACACCAATTCTCCACAATCGGGGAC
Found at i:84438 original size:28 final size:28
Alignment explanation
Indices: 84402--84478 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
84392 ATTTTTCATA
84402 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
84430 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
84458 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
84479 ACCTTATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:84573 original size:79 final size:79
Alignment explanation
Indices: 84430--84576 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 79
84420 CCGTTATTTC
* * * *
84430 ATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCTAAAAT
1 ATCGGGGACACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACATTATCTCCAAAAT
84495 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* **
84509 ATCGGGGACACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGTTATTATCTCCAAAA
1 ATCGGGGACACTCCAACCCCATTATTTCT-GAGGGGATACTCCAACCCCGACATTATCTCCAAAA
84573 TATT
65 TATT
84577 AAATTTTTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 59 0.98
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (79 bp):
ATCGGGGACACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACATTATCTCCAAAAT
ATTGATTTCTCACA
Found at i:88433 original size:14 final size:14
Alignment explanation
Indices: 88414--88441 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88404 CAAAAAGGAA
88414 AATGAATTAGTGAC
1 AATGAATTAGTGAC
88428 AATGAATTAGTGAC
1 AATGAATTAGTGAC
88442 TGTACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
AATGAATTAGTGAC
Found at i:90606 original size:51 final size:51
Alignment explanation
Indices: 90549--90651 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
90539 CCTCAAAAAT
* **
90549 AATGGGGTTAGAGTATACCTGGTGGTGAGAAA-TTGATATTTT-GAAAATAAA
1 AATGGGGTTAGAGTATACCCGAAGGTGA-AAAGTTGATATTTTAG-AAATAAA
* *
90600 AATGGGGTTGGAGTATCCCCGAAGGTGAAAAGTTGATATTTTAGAAATAAA
1 AATGGGGTTAGAGTATACCCGAAGGTGAAAAGTTGATATTTTAGAAATAAA
90651 A
1 A
90652 TCGAGGTGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
50 3 0.07
51 41 0.91
52 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (51 bp):
AATGGGGTTAGAGTATACCCGAAGGTGAAAAGTTGATATTTTAGAAATAAA
Found at i:90718 original size:51 final size:51
Alignment explanation
Indices: 90611--90721 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
90601 ATGGGGTTGG
* * * * *
90611 AGTATCCCCGAAGGTGAAAAGTTGATATTTTAGAAATAAAATCGAGGTGAG
1 AGTATCCCCGAAGGTAAAAAATCGATATTTTAGAAATAAAATCGAGATGAA
* * * *
90662 GGTATCCCCGATA-GTAAAAAATCGATGTTTTAGAAATAGAATCGAGATTAA
1 AGTATCCCCGA-AGGTAAAAAATCGATATTTTAGAAATAAAATCGAGATGAA
90713 AGTATCCCC
1 AGTATCCCC
90722 TCGAAAATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (51 bp):
AGTATCCCCGAAGGTAAAAAATCGATATTTTAGAAATAAAATCGAGATGAA
Found at i:90981 original size:78 final size:78
Alignment explanation
Indices: 90663--90982 Score: 331
Period size: 79 Copynumber: 4.1 Consensus size: 78
90653 CGAGGTGAGG
* ** * * * ** *
90663 GTATCCCCGATAGTAAAAAATCGATGTTTTAGAAATAGAATCGAGATTAAAGTATCCCCTCGAAA
1 GTATCCCCGATGGTGGAAAATTG-TGTTTTAAAAATAAAATCGAGATTGGAGTATCCCCTCAAAA
*
90728 ATAACAGGGTTGGA
65 ATAACGGGGTTGGA
* ** * *
90742 ATATCCCCGATGGTAAAAAATTGATGTTTTAAAAATAAAATCTAGATTGGAGTATCCCCTCAGAA
1 GTATCCCCGATGGTGGAAAATTG-TGTTTTAAAAATAAAATCGAGATTGGAGTATCCCCTCAAAA
* *
90807 ATAACGAGGTTAGA
65 ATAACGGGGTTGGA
* *
90821 GTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAATC-AGCTTTGGAGTATCCCCTAAAA
1 GTATCCCCGATGGTGGAAAATT-GTGTTTTAAAAATAAAATCGAG-ATTGGAGTATCCCCTCAAA
* *
90885 AATAACGGGATTGAA
64 AATAACGGGGTTGGA
* * * **
90900 GTAT-CCCGATGGTGGAAAATTAGTGTTTCAGAAATAAAATCGAGATTGGAGTATACCCAT-GGA
1 GTATCCCCGATGGTGGAAAATT-GTGTTTTAAAAATAAAATCGAGATTGGAGTAT-CCCCTCAAA
90963 AATAACGGGGTTGGA
64 AATAACGGGGTTGGA
90978 GTATC
1 GTATC
90983 TCCTCGAAAA
Statistics
Matches: 204, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
78 63 0.31
79 140 0.69
80 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (78 bp):
GTATCCCCGATGGTGGAAAATTGTGTTTTAAAAATAAAATCGAGATTGGAGTATCCCCTCAAAAA
TAACGGGGTTGGA
Found at i:95672 original size:11 final size:11
Alignment explanation
Indices: 95658--95697 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
95648 GGAAAATAGG
95658 GAGAAAAAAGA
1 GAGAAAAAAGA
95669 GAGAAAAAAGA
1 GAGAAAAAAGA
*
95680 -AAAGAAAAAGA
1 GAGA-AAAAAGA
95691 GAGAAAA
1 GAGAAAA
95698 TATGGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
GAGAAAAAAGA
Found at i:95675 original size:22 final size:21
Alignment explanation
Indices: 95649--95707 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
95639 AAAGGTTTTG
*
95649 GAAAATAGGGAGAAAAAAGAGA
1 GAAAATAAGGA-AAAAAAGAGA
*
95671 GAAAA-AAGAAAAGAAAAAGAGA
1 GAAAATAAG-GAA-AAAAAGAGA
*
95693 GAAAATATGGAAAAA
1 GAAAATAAGGAAAAA
95708 CAAGCTAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.20
22 22 0.73
23 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (21 bp):
GAAAATAAGGAAAAAAAGAGA
Found at i:96467 original size:22 final size:20
Alignment explanation
Indices: 96435--96489 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
96425 GTAAAAGAAA
* *
96435 TGTATCAATACATGCTCATGAT
1 TGTATCGATACATGATC-T-AT
*
96457 TGTATCGATACATTATCTAT
1 TGTATCGATACATGATCTAT
96477 TGTATCGATACAT
1 TGTATCGATACAT
96490 TCTGGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 15 0.50
21 1 0.03
22 14 0.47
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGATCTAT
Found at i:100326 original size:164 final size:163
Alignment explanation
Indices: 100101--100479 Score: 440
Period size: 164 Copynumber: 2.3 Consensus size: 163
100091 TATCCTTTCG
* * *
100101 GGTCTCCATTAAAGTACGAAATAAAATTTTTCAGAAAAAAAATAAATAAAATAATAAATAACTAT
1 GGTCTCCATTAAGGTACGAAATGAAA-TTTTCAGAAAAAAAATAAATAAAATAACAAATAACTAT
* * * * * * *
100166 TACTTTAT-C-CAATTATCACTTTAACTTTTCAGAATTTTTAATATTCCTATAGGTATCTGTGGG
65 TACTTTATGCAAAATTATCACCTCAACTTTTCAAAATTTCTAATATTCCCATAGGTATCTATGGG
* *
100229 GGTATGAAAATTTTTAAAACTTTTTATATCTTTTAA
130 GGTATGAAAA-TTTTAAAACTTTTCATACCTTTT-A
* *
100265 GGTCTCCATTAAGGTACGAAATGAAACTTTTGAGAATAAAAAA-ATATAAAATAACAAATAACTA
1 GGTCTCCATTAAGGTACGAAATGAAA-TTTTCAGAA-AAAAAATAAATAAAATAACAAATAACTA
100329 TTACTTTATGCAATAAAAATTATCACCTCAACTTTTCAAAATTTCTAATATTCCCATAGGTATCT
64 TTACTTTATGC----AAAATTATCACCTCAACTTTTCAAAATTTCTAATATTCCCATAGGTATCT
* * * * *
100394 ATGGGGTTATGGAAATTTTCAAACTTTTCGTACCTTTTT
125 ATGGGGGTATGAAAATTTTAAAACTTTTCATACCTTTTA
* * *
100433 GGTCCTCCATTAAGGCATGAAATGAAATTTTCAAAAAACAAAATAAA
1 GGT-CTCCATTAAGGTACGAAATGAAATTTTCAGAAAA-AAAATAAA
100480 AATCGTTTTA
Statistics
Matches: 180, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
164 60 0.33
165 7 0.04
167 2 0.01
168 14 0.08
169 42 0.23
170 55 0.31
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (163 bp):
GGTCTCCATTAAGGTACGAAATGAAATTTTCAGAAAAAAAATAAATAAAATAACAAATAACTATT
ACTTTATGCAAAATTATCACCTCAACTTTTCAAAATTTCTAATATTCCCATAGGTATCTATGGGG
GTATGAAAATTTTAAAACTTTTCATACCTTTTA
Found at i:102958 original size:6 final size:6
Alignment explanation
Indices: 102947--102974 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
102937 GTGGCAACAA
102947 CTCTTT CTCTTT CTCTTT CTCTTT CTCT
1 CTCTTT CTCTTT CTCTTT CTCTTT CTCT
102975 AAAGATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
CTCTTT
Found at i:107170 original size:13 final size:13
Alignment explanation
Indices: 107152--107177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107142 CAATTTTTTG
107152 TGTATCGATACAT
1 TGTATCGATACAT
107165 TGTATCGATACAT
1 TGTATCGATACAT
107178 ATTTTGTGTA
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:107174 original size:33 final size:31
Alignment explanation
Indices: 107132--107194 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
107122 TACAAGCCAA
*
107132 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATATTTTGTGTA-CGATACAT
107165 TGTATCGATACATATTTTGTGTACGATACA
1 TGTATCGATACATATTTTGTGTACGATACA
107195 ATTTGGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 7 0.24
32 11 0.38
33 11 0.38
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (31 bp):
TGTATCGATACATATTTTGTGTACGATACAT
Found at i:107297 original size:20 final size:21
Alignment explanation
Indices: 107243--107299 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
107233 AACATCTTTT
*
107243 TTATGTATCGATACATTGCAA
1 TTATGTATCGATACTTTGCAA
*
107264 -CATGTATCGATACTTTG-AA
1 TTATGTATCGATACTTTGCAA
107283 TTATGTATCGATACTTT
1 TTATGTATCGATACTTT
107300 AAGGGTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (21 bp):
TTATGTATCGATACTTTGCAA
Found at i:463852 original size:15 final size:16
Alignment explanation
Indices: 463832--463869 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
463822 AACAGTATTA
463832 TTTA-TTAATAGCTAC
1 TTTATTTAATAGCTAC
*
463847 TTTATTTACTAGCTAC
1 TTTATTTAATAGCTAC
463863 -TTATTTA
1 TTTATTTA
463870 CTTATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (16 bp):
TTTATTTAATAGCTAC
Found at i:463870 original size:15 final size:16
Alignment explanation
Indices: 463840--463871 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
463830 TATTTATTAA
463840 TAGCTACTTTATTTAC
1 TAGCTACTTTATTTAC
463856 TAGCTAC-TTATTTAC
1 TAGCTACTTTATTTAC
463871 T
1 T
463872 TATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
TAGCTACTTTATTTAC
Found at i:467077 original size:21 final size:21
Alignment explanation
Indices: 467051--467106 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
467041 CACTTGCAAC
*
467051 TCATTTCTTTT-TTCCTCTAAT
1 TCATTTATTTTCTT-CTCTAAT
*
467072 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTTCTCTAAT
* *
467093 TCACTTAATTTCTT
1 TCATTTATTTTCTT
467107 TTCAAGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTATTTTCTTCTCTAAT
Found at i:467107 original size:21 final size:21
Alignment explanation
Indices: 467066--467109 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
467056 TCTTTTTTCC
* *
467066 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
467087 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
467108 TC
1 TC
467110 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:469821 original size:153 final size:153
Alignment explanation
Indices: 469540--469824 Score: 355
Period size: 153 Copynumber: 1.9 Consensus size: 153
469530 AAGCTTAACA
* * *
469540 GAATTTTTCAAAACTGATTTAATATTGGTTAAACAATAATATTTGAAAAATTTTGAAAATTATAG
1 GAATTTTTCAAAACTGATTTAATATTGATTAAACAATAATATTTGAAAAACTTTAAAAATTATAG
*** *
469605 ACAAAGAAAAATCATACCGAAAAAATTTATGGAGTAGAAAACTCTGTATTTTGATAACAAAAAAA
66 ACAAAGAAAAATCATACCGAAAAAATTTACAAAGTAGAAAACTCTGTATTTTGATAAAAAAAAAA
469670 TTCTAAAACTCATAAAATAAATT
131 TTCTAAAACTCATAAAATAAATT
469693 GAATTTTTCAAAACTGATTTAATA-TGAATTAAACAATAATATTT-AAAGAACTTTAAAAATTAT
1 GAATTTTTCAAAACTGATTTAATATTG-ATTAAACAATAATATTTGAAA-AACTTTAAAAATTA-
*** * * * *
469756 TA-ATTTAGAAAAATCCTACC-AAAGAATTTTACAAAGTAGTAAACTTCT-TATTTTGAAAAATA
63 TAGACAAAGAAAAATCATACCGAAA-AAATTTACAAAGTAGAAAAC-TCTGTATTTTGATAAA-A
469818 AAAAAAT
125 AAAAAAT
469825 CTGAAAGAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
152 8 0.07
153 91 0.81
154 13 0.12
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (153 bp):
GAATTTTTCAAAACTGATTTAATATTGATTAAACAATAATATTTGAAAAACTTTAAAAATTATAG
ACAAAGAAAAATCATACCGAAAAAATTTACAAAGTAGAAAACTCTGTATTTTGATAAAAAAAAAA
TTCTAAAACTCATAAAATAAATT
Found at i:471729 original size:66 final size:67
Alignment explanation
Indices: 471617--471747 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 67
471607 GGGGACAGCT
*
471617 CTAGGTACTATGCTCAACTACTCTCATTCCTATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAA
1 CTAGGTACTATGCTCAACTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAA
471682 CA
66 CA
* * * *
471684 CTAGG-ACTATGCTTAGCTACTCTCATTCCCATTGGTTTTGTCATGCAGAGTAATGGTGCAGCAA
1 CTAGGTACTATGCTCAACTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAA
471748 TTCCAAGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
66 54 0.92
67 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (67 bp):
CTAGGTACTATGCTCAACTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAA
CA
Found at i:471771 original size:66 final size:66
Alignment explanation
Indices: 471623--471772 Score: 192
Period size: 66 Copynumber: 2.3 Consensus size: 66
471613 AGCTCTAGGT
* * * *
471623 ACTATGCTCAACTACTCTCATTCCTATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAACACTAG
1 ACTATGCTCAGCTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAACACCAA
471688 G
66 G
* * * **
471689 ACTATGCTTAGCTACTCTCATTCCCATTGGTTTTGTCATGCAGAGTAATGGTGCAGCAATTCCAA
1 ACTATGCTCAGCTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAACACCAA
471754 G
66 G
* * *
471755 ATTGTGCTCAGTTACTCT
1 ACTATGCTCAGCTACTCT
471773 TGTAGCCATT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (66 bp):
ACTATGCTCAGCTACTCTCATTCCCATTGGTTTTGCCATGCAGAGTAATAGTGCAGCAACACCAA
G
Found at i:472123 original size:19 final size:22
Alignment explanation
Indices: 472099--472139 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
472089 ATATGTTTTG
472099 TAATATT-A-TCATGTT-AAAT
1 TAATATTGATTCATGTTGAAAT
472118 TAATATTGATTCATGTTGAAAT
1 TAATATTGATTCATGTTGAAAT
472140 ATTAGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 7 0.37
22 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (22 bp):
TAATATTGATTCATGTTGAAAT
Found at i:472148 original size:21 final size:21
Alignment explanation
Indices: 472107--472149 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
472097 TGTAATATTA
*
472107 TCATGTTAAATTAATATTGAT
1 TCATGTTAAATTAATAGTGAT
*
472128 TCATGTTGAAA-TATTAGTGAT
1 TCATGTT-AAATTAATAGTGAT
472149 T
1 T
472150 TCATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (21 bp):
TCATGTTAAATTAATAGTGAT
Found at i:473198 original size:155 final size:154
Alignment explanation
Indices: 472917--473212 Score: 348
Period size: 155 Copynumber: 1.9 Consensus size: 154
472907 TATTTTCAAG
** * * *
472917 TCCTTTAAGGTCATTAGGATGCTTCAAGATGAAGGTTGTCCCTAAGGGTATTTTAGTAATTTTTC
1 TCCTTTAAGGTCACCAGGATGCTTCAAGAAGAAGGTAGTCCCTAAAGGTATTTTAGTAATTTTTC
* * * * * *
472982 TAAAATCGAGTCTGATGTAGTTATCAGGATGCGTTTATACTAGAGGTATATATTTAAGATAGGTT
66 TAAAACCAAGTCTGATGTAGTCATCAGGATGCGTTCATACCAGAGATATATATTTAAGATAGGTT
*
473047 CACTCTTTTATGATCATCCTCGAA
131 CACCCTTTTATGATCATCCTCGAA
*
473071 TCCTTTAAGGTCACCCGGATGCTTTCAAGAAGAAGGTAGTCCCTAAAGGTATTTTAGTAATTTCT
1 TCCTTTAAGGTCACCAGGATGC-TTCAAGAAGAAGGTAGTCCCTAAAGGTATTTTAGTAATTT-T
* * * * *
473136 TTTAAAACCAAGTTTGATGTAGTCA-CTAGGATGC-TTCATGCCA-A-ATATGTGCATTTAGGAT
64 TCTAAAACCAAGTCTGATGTAGTCATC-AGGATGCGTTCATACCAGAGATATAT--ATTTAAGAT
*
473197 AGTTTCACCCTTTTAT
126 AGGTTCACCCTTTTAT
473213 TATCTTTTTT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
153 4 0.03
154 20 0.17
155 66 0.56
156 28 0.24
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (154 bp):
TCCTTTAAGGTCACCAGGATGCTTCAAGAAGAAGGTAGTCCCTAAAGGTATTTTAGTAATTTTTC
TAAAACCAAGTCTGATGTAGTCATCAGGATGCGTTCATACCAGAGATATATATTTAAGATAGGTT
CACCCTTTTATGATCATCCTCGAA
Found at i:477303 original size:20 final size:20
Alignment explanation
Indices: 477278--477328 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
477268 CATTGAAGGA
477278 TAAGGTATTGATATTTTAAC
1 TAAGGTATTGATATTTTAAC
*
477298 TAAGGTA-T-ATATTTTAAT
1 TAAGGTATTGATATTTTAAC
*
477316 TAAGGTATCGATA
1 TAAGGTATTGATA
477329 CTTTCTCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.59
19 1 0.04
20 10 0.37
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (20 bp):
TAAGGTATTGATATTTTAAC
Found at i:477444 original size:12 final size:12
Alignment explanation
Indices: 477427--477459 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
477417 ATTTTAGTAT
477427 TTTTTAAAAATA
1 TTTTTAAAAATA
477439 TTTTT-AAAATA
1 TTTTTAAAAATA
*
477450 ATTTTAAAAA
1 TTTTTAAAAA
477460 ACTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:480179 original size:19 final size:19
Alignment explanation
Indices: 480155--480218 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 19
480145 ATGAAATCAG
480155 ATATAGATATAACAAAAAT
1 ATATAGATATAACAAAAAT
480174 ATATAGATAAAAAATTAA-ATAAAAT
1 ATATAGAT-----A-TAACA-AAAAT
480199 ATATAGATATAACAAAAAT
1 ATATAGATATAACAAAAAT
480218 A
1 A
480219 GTAAAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
19 17 0.46
20 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (19 bp):
ATATAGATATAACAAAAAT
Found at i:481385 original size:18 final size:18
Alignment explanation
Indices: 481354--481401 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
481344 TTGGCTATCT
* *
481354 ATTTGAATAAAATAAAAC
1 ATTTCAATATAATAAAAC
* *
481372 TTTTCAATATAATAAATC
1 ATTTCAATATAATAAAAC
*
481390 ATTTCAAGATAA
1 ATTTCAATATAA
481402 AATATTTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (18 bp):
ATTTCAATATAATAAAAC
Found at i:482831 original size:30 final size:30
Alignment explanation
Indices: 482795--482858 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
482785 AACTCTCAAC
*
482795 TTTGATTTATCTCACAAATGGGTTCAGCCA
1 TTTGATTTATCACACAAATGGGTTCAGCCA
*
482825 TTTGATTTATCAGACAAATGGGTTCAGCCA
1 TTTGATTTATCACACAAATGGGTTCAGCCA
482855 TTTG
1 TTTG
482859 GTTACTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (30 bp):
TTTGATTTATCACACAAATGGGTTCAGCCA
Found at i:483248 original size:15 final size:15
Alignment explanation
Indices: 483228--483257 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
483218 TAATTTTATC
483228 AGGATGGTCTTCACT
1 AGGATGGTCTTCACT
483243 AGGATGGTCTTCACT
1 AGGATGGTCTTCACT
483258 CAATGATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
AGGATGGTCTTCACT
Found at i:485896 original size:2 final size:2
Alignment explanation
Indices: 485884--485916 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
485874 CTGTAATTTC
*
485884 CT CT CT TT CT CT CT CT CT CT CT CT -T CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
485917 TCTTTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:486702 original size:16 final size:16
Alignment explanation
Indices: 486681--486715 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
486671 TGTCTGGGCA
486681 TTTTTTTTTCTCCTTT
1 TTTTTTTTTCTCCTTT
*
486697 TTTTTTTTTTTCCTTT
1 TTTTTTTTTCTCCTTT
486713 TTT
1 TTT
486716 GCCTGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTCTCCTTT
Found at i:493762 original size:15 final size:16
Alignment explanation
Indices: 493735--493769 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
493725 TTATCAATAT
*
493735 TTTTTCTATTAAAACC
1 TTTTTCTATTAAAACA
493751 TTTTTCTA-TAAAACA
1 TTTTTCTATTAAAACA
493766 TTTT
1 TTTT
493770 GAAAGTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTCTATTAAAACA
Found at i:498344 original size:9 final size:9
Alignment explanation
Indices: 498330--498355 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
498320 GGCTGAATGA
498330 TTGTTGTTC
1 TTGTTGTTC
498339 TTGTTGTTC
1 TTGTTGTTC
498348 TTGTTGTT
1 TTGTTGTT
498356 GCTTTCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.23, T:0.69
Consensus pattern (9 bp):
TTGTTGTTC
Found at i:498496 original size:198 final size:198
Alignment explanation
Indices: 498158--498531 Score: 712
Period size: 198 Copynumber: 1.9 Consensus size: 198
498148 ATACAAAAGA
498158 GCTTTCAAAGAATAACAACAATGAATTTAAAAGCTCTTGAAAATGAGAAAAATAATGAAACTTCA
1 GCTTTCAAAGAATAACAACAATGAATTTAAAAGCTCTTGAAAATGAGAAAAATAATGAAACTTCA
*
498223 AATGCTTTAATTTCTTGATATTTTTTGATGGTTCTTGTTGTTCTTCAGCTATTGAAAACTCATAT
66 AATGCTTTAATCTCTTGATATTTTTTGATGGTTCTTGTTGTTCTTCAGCTATTGAAAACTCATAT
498288 TTATAGGTTAGAATGTAGACATACTCGTTAAAGGCTGAATGATTGTTGTTCTTGTTGTTCTTGTT
131 TTATAGGTTAGAATGTAGACATACTCGTTAAAGGCTGAATGATTGTTGTTCTTGTTGTTCTTGTT
498353 GTT
196 GTT
498356 GCTTTCAAAGAATAACAACAATGAATTTAAAAGCTCTTGAAAATGAGAAAAATAATGAAACTTCA
1 GCTTTCAAAGAATAACAACAATGAATTTAAAAGCTCTTGAAAATGAGAAAAATAATGAAACTTCA
*
498421 AATGCTTTAATCTCTTGGTATTTTTTGATGGTTCTTGTTGTTCTTCAGCTATTGAAAACTCATAT
66 AATGCTTTAATCTCTTGATATTTTTTGATGGTTCTTGTTGTTCTTCAGCTATTGAAAACTCATAT
* *
498486 TTATAGGTTAGAATGTAGATATACTCGTTGAAGGCTGAATGATTGT
131 TTATAGGTTAGAATGTAGACATACTCGTTAAAGGCTGAATGATTGT
498532 GTTTGTAACG
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 172 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (198 bp):
GCTTTCAAAGAATAACAACAATGAATTTAAAAGCTCTTGAAAATGAGAAAAATAATGAAACTTCA
AATGCTTTAATCTCTTGATATTTTTTGATGGTTCTTGTTGTTCTTCAGCTATTGAAAACTCATAT
TTATAGGTTAGAATGTAGACATACTCGTTAAAGGCTGAATGATTGTTGTTCTTGTTGTTCTTGTT
GTT
Found at i:498756 original size:19 final size:20
Alignment explanation
Indices: 498732--498782 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
498722 CAATTAAGTT
* *
498732 TGTATCGATACAATG-AGCA
1 TGTATCGATACAAAGTAGAA
*
498751 TGTATCGATACAAAGTATAA
1 TGTATCGATACAAAGTAGAA
498771 TGTATCGATACA
1 TGTATCGATACA
498783 TCTGGATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGTAGAA
Found at i:501039 original size:289 final size:289
Alignment explanation
Indices: 500520--501385 Score: 1657
Period size: 289 Copynumber: 3.0 Consensus size: 289
500510 TTGCATGTTA
500520 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
1 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
500585 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
66 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
500650 CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
131 CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
500715 AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
196 AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
500780 GTATTTTCTAGGACTGTAACATCTGCTGC
261 GTATTTTCTAGGACTGTAACATCTGCTGC
500809 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
1 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
500874 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
66 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
500939 CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
131 CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
501004 AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
196 AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
501069 GTATTTTCTAGGACTGTAACATCTGCTGC
261 GTATTTTCTAGGACTGTAACATCTGCTGC
501098 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
1 TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
501163 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTC-AACCTGTAATT
66 TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
* *
501227 CATAAGTAGGCATCACATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
131 CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
** * *
501292 AAATTCATGTTCAACATAACCAAAGAAGAAG--GGAAAAAAAAAACATTTAACTCGAAGCATCAT
196 AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
501355 GTATTTTCTAGGACTGTAACATCTGCTGC
261 GTATTTTCTAGGACTGTAACATCTGCTGC
501384 TG
1 TG
501386 CATCCGTTGC
Statistics
Matches: 571, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
286 59 0.10
288 105 0.18
289 407 0.71
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (289 bp):
TGATGAAACTGTAATTACAATGAATTCTTTATATGTAAATGGCTATTAGGTATTATTACAAGGAT
TGATTACAAATGCTTCTTTAGCATTCTCCATCAATATTGTTAACTTGAACTTCAAACCTGTAATT
CATAAGTAGGCGTCCCATTGGATAATTTTATTTAATAATAAAATATATTTGCAAGCAGGACATAA
AAATTCATGTTCAACATAACCAAAGAAGAAGAAGGGGAAAAAGAACCTTTAACTCGAAGCATCAT
GTATTTTCTAGGACTGTAACATCTGCTGC
Found at i:504815 original size:28 final size:27
Alignment explanation
Indices: 504760--504815 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
504750 AAATTTACTC
* * * *
504760 ACTAAGTTGTCATGTTAGAGAAATAAA
1 ACTAACTTGTCATGTAAGAAAAAAAAA
504787 ACTAACTTGGTCATGTAAGAAAAAAAAA
1 ACTAACTT-GTCATGTAAGAAAAAAAAA
504815 A
1 A
504816 TTACCAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (27 bp):
ACTAACTTGTCATGTAAGAAAAAAAAA
Found at i:506608 original size:15 final size:15
Alignment explanation
Indices: 506588--506617 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
506578 TTTTTTGAAC
506588 CTCTAGTAAGTAGAT
1 CTCTAGTAAGTAGAT
506603 CTCTAGTAAGTAGAT
1 CTCTAGTAAGTAGAT
506618 GTTTGTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
CTCTAGTAAGTAGAT
Found at i:507630 original size:13 final size:13
Alignment explanation
Indices: 507612--507637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
507602 CTATTTATGA
507612 TGTATCGATACAC
1 TGTATCGATACAC
507625 TGTATCGATACAC
1 TGTATCGATACAC
507638 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:507744 original size:10 final size:10
Alignment explanation
Indices: 507725--507755 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
507715 GTATCGATAC
507725 ATGAACAGTG
1 ATGAACAGTG
*
507735 ATGAATAGTG
1 ATGAACAGTG
507745 ATGAACAGTG
1 ATGAACAGTG
507755 A
1 A
507756 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:507844 original size:53 final size:53
Alignment explanation
Indices: 507780--507916 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
507770 CTACTTCCAA
507780 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
507833 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
507886 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
507917 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:507949 original size:20 final size:20
Alignment explanation
Indices: 507886--507956 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
507876 GCCAATGTCC
**
507886 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
507906 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
507926 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
507946 TGTATCGATAC
1 TGTATCGATAC
507957 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:508022 original size:21 final size:21
Alignment explanation
Indices: 507996--508036 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
507986 GTCAACCTTG
507996 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
508017 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
508037 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:509151 original size:13 final size:13
Alignment explanation
Indices: 509135--509164 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
509125 ATACATTGTT
509135 CATTATATCGATA
1 CATTATATCGATA
*
509148 CATTGTATCGATA
1 CATTATATCGATA
509161 CATT
1 CATT
509165 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:511695 original size:27 final size:27
Alignment explanation
Indices: 511665--511722 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
511655 CAATCTGGAT
*
511665 ACTCCAACTCCGTTATTTTCGAGGGAG
1 ACTCCAACTCCATTATTTTCGAGGGAG
*
511692 ACTCCAACTCCATTATTTTCGAGGGAT
1 ACTCCAACTCCATTATTTTCGAGGGAG
511719 ACTC
1 ACTC
511723 AAACCCCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (27 bp):
ACTCCAACTCCATTATTTTCGAGGGAG
Found at i:511797 original size:105 final size:105
Alignment explanation
Indices: 511609--511797 Score: 258
Period size: 105 Copynumber: 1.8 Consensus size: 105
511599 CTCACAATTG
*
511609 GGGATACTTCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCTGGATACTCCAACT
1 GGGATACTTCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGATACTCCAACT
*
511674 CCGTTATTTTCGAGGGAGACTCCAACTCCATTATTTTCGA
66 CCGTTATTTTCGAAGGAGACTCCAACTCCATTATTTTCGA
** * * * *
511714 GGGATAC-TCAAACCCCTGTTTTATTTCTAGAACATCGATTTTTTCACAATCGGGGATACTCCAA
1 GGGATACTTC-AACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATC-GGGATACTCCAA
511778 C-CTCGTTATTTTC-AAGGAGA
64 CTC-CGTTATTTTCGAAGGAGA
511798 TACTTCAACC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
104 2 0.03
105 49 0.67
106 22 0.30
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (105 bp):
GGGATACTTCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGATACTCCAACT
CCGTTATTTTCGAAGGAGACTCCAACTCCATTATTTTCGA
Found at i:511824 original size:80 final size:79
Alignment explanation
Indices: 511687--511835 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 79
511677 TTATTTTCGA
*
511687 GGGAGACTCCAACTCCATTATTTTCGAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
1 GGGAGACTCCAACTCCATTATTTTCAAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
511752 TTTTTTCACAATCG
66 TTTTTTCACAATCG
* *
511766 GGGATACTCCAAC-CTCGTTATTTTCAAGGAGATACTTC-AA-CCCTGATTTTATTTCTAGAACA
1 GGGAGACTCCAACTC-CATTATTTTCAAGG-GATAC-TCAAACCCCTG-TTTTATTTCTAGAACA
511828 TCGATTTT
62 TCGATTTT
511836 CCATAGTCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
78 1 0.02
79 29 0.46
80 31 0.49
81 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (79 bp):
GGGAGACTCCAACTCCATTATTTTCAAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
TTTTTTCACAATCG
Found at i:511849 original size:80 final size:79
Alignment explanation
Indices: 511687--511856 Score: 213
Period size: 80 Copynumber: 2.1 Consensus size: 79
511677 TTATTTTCGA
* *
511687 GGGAGACTCCAACTCCATTATTTTCGAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
1 GGGATACTCCAACTCCATTATTTTCAAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
*
511752 TTTTTTCACAATCG
66 TTTTTCCACAATCG
*
511766 GGGATACTCCAAC-CTCGTTATTTTCAAGGAGATACTTC-AA-CCCTGATTTTATTTCTAGAACA
1 GGGATACTCCAACTC-CATTATTTTCAAGG-GATAC-TCAAACCCCTG-TTTTATTTCTAGAACA
* *
511828 TCGA-TTTTCCATAGTCAG
62 TCGATTTTTCCACAATC-G
511846 GGGATACTCCA
1 GGGATACTCCA
511857 GCCCCATTGT
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
78 1 0.01
79 38 0.47
80 39 0.49
81 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACTCCATTATTTTCAAGGGATACTCAAACCCCTGTTTTATTTCTAGAACATCGA
TTTTTCCACAATCG
Found at i:518150 original size:46 final size:46
Alignment explanation
Indices: 518083--518175 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
518073 AGTATTGCAA
518083 GCTTTTGTAAAAGTGAGATTAGTGAGCTAGAAAGAAGAAGTCGTGG
1 GCTTTTGTAAAAGTGAGATTAGTGAGCTAGAAAGAAGAAGTCGTGG
518129 GCTTTTGTAAAAGTGAGATTAGTGAGCTAGAAAGAAGAAGTCGTGG
1 GCTTTTGTAAAAGTGAGATTAGTGAGCTAGAAAGAAGAAGTCGTGG
518175 G
1 G
518176 GTCATCTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.06, G:0.33, T:0.26
Consensus pattern (46 bp):
GCTTTTGTAAAAGTGAGATTAGTGAGCTAGAAAGAAGAAGTCGTGG
Found at i:518238 original size:19 final size:19
Alignment explanation
Indices: 518214--518250 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
518204 CATGATTTGC
*
518214 AGTAATGCCCATCATTCCT
1 AGTAATGCCCACCATTCCT
518233 AGTAATGCCCACCATTCC
1 AGTAATGCCCACCATTCC
518251 AAAGAAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (19 bp):
AGTAATGCCCACCATTCCT
Found at i:535841 original size:13 final size:13
Alignment explanation
Indices: 535823--535850 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
535813 ATACAAAGAT
535823 CAATGTATCGATA
1 CAATGTATCGATA
535836 CAATGTATCGATA
1 CAATGTATCGATA
535849 CA
1 CA
535851 TTGAATAATG
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:535861 original size:33 final size:33
Alignment explanation
Indices: 535805--535870 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
535795 AAATTCCCAG
*
535805 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTACCGATACA
**
535838 ATGTATCGATACATTGAAT-AATGTACCGATACA
1 ATGTATCGATACAAAG-ATCAATGTACCGATACA
535871 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTACCGATACA
Found at i:535926 original size:19 final size:19
Alignment explanation
Indices: 535902--535951 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
535892 AGCGATACAT
*
535902 TGTATCGCTACAACACTTA
1 TGTATCGATACAACACTTA
535921 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
535940 TTTATCGATACA
1 TGTATCGATACA
535952 GTTATTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:536876 original size:49 final size:51
Alignment explanation
Indices: 536812--537763 Score: 340
Period size: 39 Copynumber: 20.8 Consensus size: 51
536802 ATGTTAAAAA
* ** * *
536812 TGCCAATATGATGATTCAAGGCCAATGATATCGGAC-TCAAG-GATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * **
536861 TGCCAATGTGCTGATTTAAGGCCAGCGACT-TTGGTCTTAAAGATGACGAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGA-GATGAAGG
* *
536913 CGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AA-AGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* *
536962 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GATGAAGG
* * *
537014 TACCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-------T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * *
537053 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-AGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* *
537101 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * * *
537140 TGCCAATGTGCTGATTCAAGGTCAGTGACATTGGTCTTAAAGACA--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
*
537189 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-------T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * *
537228 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACA--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* *
537277 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGGC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * **
537316 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTTAA-AGATGGTGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
*
537365 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * * *
537404 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG-TTTTAA-AGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * *
537452 TGCCAATATGCTGATTCAAGACCAACGATATTGGGC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * * *
537491 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTTAA-AGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * *
537539 TACGAATATGCTGATTCACGGCCAGCGATATTGGAC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * *
537578 TGCTATTGTGCTGATTCAAGGCCAGCAATATTGGAC-T-------T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
* * * *
537617 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-AGATGAGAAGGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAT--GAA-GG
* * * *
537670 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT-AAGAGGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GATGAAGG
*
537721 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
537764 CAAGGTGCCA
Statistics
Matches: 702, Mismatches: 103, Indels: 193
0.70 0.10 0.19
Matches are distributed among these distances:
39 257 0.37
40 4 0.01
41 4 0.01
43 2 0.00
45 1 0.00
46 3 0.00
47 2 0.00
48 97 0.14
49 162 0.23
50 9 0.01
51 42 0.06
52 83 0.12
53 34 0.05
54 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (51 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGATGAAGG
Found at i:536884 original size:101 final size:101
Alignment explanation
Indices: 536808--537395 Score: 373
Period size: 88 Copynumber: 6.3 Consensus size: 101
536798 AGGAATGTTA
* * *
536808 AAAATGCCAATATGATGATTCAAGGCCAATGATATCGGACTCAAGGATGAAGGTGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
* * * *
536873 GATTTAAGGCCAGCGACTTTGGTCTTAAAGATGACG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
* * * * *
536909 AAAACGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
536974 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
** * * *
537010 AAGGTACCAATATGCTGATTCAAGGCCAACGATATTGGGCT------T----GTGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
* *
537065 GATTCAAGGCCAGCGACATTGGTCTT-AA-A-GA-C
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
** ** * *
537097 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCT------T--A--TGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
* * * *
537152 GATTCAAGGTCAGTGACATTGGTCTTAAAGA-CA--
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
** * * *
537185 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT------T----GTGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
* * *
537240 GATTCAAGGCCAACGACATTGGTCTTAAAGA-CA--
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
** * * * *
537273 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCT------T--A--TGCCAATGTGCT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
** *
537328 GATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
* *
537364 ---GTGCCAATATGCTGATTCAAGGCCAGCGATAT
1 AAAATGCCAATATGCTGATTCAAGGCCAACGATAT
537396 TGGGCTTATG
Statistics
Matches: 442, Mismatches: 37, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
87 75 0.17
88 200 0.45
89 3 0.01
90 2 0.00
91 38 0.09
95 1 0.00
101 123 0.28
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (101 bp):
AAAATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTCAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGATG
Found at i:536934 original size:52 final size:51
Alignment explanation
Indices: 536812--537392 Score: 234
Period size: 49 Copynumber: 12.5 Consensus size: 51
536802 ATGTTAAAAA
* ** * * *
536812 TGCCAATATGATGATTCAAGGCCAATGA-TATCGGACTCAAGGAT--GAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* * * **
536861 TGCCAATGTGCTGATTTAAGGCCAGCGACTTTGGTCTTAAAGATGACGAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGA-GAAGG
* *
536913 CGCCAATATGCTAATTCAAGGCCAGCGA-TATTGGACTTAAAGAT--GAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* *
536962 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGA-GAAGG
* * *
537014 TACCAATATGCTGATTCAAGGCCAACGA-TATTGGGC-T-----T------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* * * *
537053 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGAGAAGG
* *
537101 TGCCAATATGCTGATTCAAGGCCAGTGA-TATTGGGC-T-----T----A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* * * * * *
537140 TGCCAATGTGCTGATTCAAGGTCAGTGACATTGGTCTTAAAGA-CA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGAGAAGG
*
537189 TGCCAATATGCTGATTCAAGGCCAGCGA-TATTGGGC-T-----T------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* * * * *
537228 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGAGAAGG
* *
537277 TGCCAATATGTTGATTCAAGGCCAGCGA-TATTGGGC-T-----T----A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACT-TTGGACTTAAAGATGAGAAGG
* * ** *
537316 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATG-G-TGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGAGAAGG
537365 TGCCAATATGCTGATTCAAGGCCAGCGA
1 TGCCAATATGCTGATTCAAGGCCAGCGA
537393 TATTGGGCTT
Statistics
Matches: 409, Mismatches: 61, Indels: 124
0.69 0.10 0.21
Matches are distributed among these distances:
39 124 0.30
40 4 0.01
41 2 0.00
45 1 0.00
46 1 0.00
47 2 0.00
48 34 0.08
49 163 0.40
50 1 0.00
51 2 0.00
52 75 0.18
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (51 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATGAGAAGG
Found at i:537070 original size:39 final size:39
Alignment explanation
Indices: 537016--537650 Score: 343
Period size: 39 Copynumber: 14.8 Consensus size: 39
537006 GATGAAGGTA
* *
537016 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* *
537055 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT---------GTG
* * *
537103 CCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * * *
537142 CCAATGTGCTGATTCAAGGTCAGTGACATTGGTCTTAAAGACAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT----------GTG
*
537191 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * *
537230 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT----------GTG
* * *
537279 CCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* *
537318 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGG-------GCT--T-GTG
* *
537367 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * **
537406 CCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGACAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGG-------G-C-TTGTG
* * * *
537454 CCAATATGCTGATTCAAGACCAACGATATTGGGCTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* ** *
537493 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACAAGGTA
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGG-------G-C-TTGTG
* * * * *
537541 CGAATATGCTGATTCACGGCCAGCGATATTGGACTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * * * *
537580 CTATTGTGCTGATTCAAGGCCAGCAATATTGGACTTATG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* *
537619 CTAATGTGCTGATTCAAGGCCAGCGACATTGG
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGG
537651 TCTTAAAAGA
Statistics
Matches: 464, Mismatches: 75, Indels: 114
0.71 0.11 0.17
Matches are distributed among these distances:
39 257 0.55
40 3 0.01
41 1 0.00
42 2 0.00
46 4 0.01
47 2 0.00
48 96 0.21
49 99 0.21
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (39 bp):
CCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
Found at i:537226 original size:88 final size:87
Alignment explanation
Indices: 536962--537603 Score: 987
Period size: 88 Copynumber: 7.3 Consensus size: 87
536952 AAGATGAAGG
* * *
536962 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGTACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GA-CAAGGTGCCAATATGCTG
* *
537027 ATTCAAGGCCAACGATATTGGGCTTG
62 ATTCAAGGCCAGCGATATTGGGCTTA
537053 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
537118 AAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
537140 TGCCAATGTGCTGATTCAAGGTCAGTGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATT
*
537205 CAAGGCCAGCGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTA
* *
537228 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGGTGCCAATATGTTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATT
537293 CAAGGCCAGCGATATTGGGCTTA
65 CAAGGCCAGCGATATTGGGCTTA
* ***
537316 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
537381 CAAGGCCAGCGATATTGGGCTTA
65 CAAGGCCAGCGATATTGGGCTTA
* *
537404 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
537469 AAGACCAACGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
537491 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACAAGGTACGAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
537556 ACGGCCAGCGATATTGGACTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
537578 TGCTATTGTGCTGATTCAAGGCCAGC
1 TGCCAATGTGCTGATTCAAGGCCAGC
537604 AATATTGGAC
Statistics
Matches: 513, Mismatches: 36, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
87 224 0.44
88 249 0.49
89 1 0.00
90 2 0.00
91 37 0.07
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:537594 original size:126 final size:131
Alignment explanation
Indices: 537460--537708 Score: 355
Period size: 126 Copynumber: 1.9 Consensus size: 131
537450 GGTGCCAATA
* *
537460 TGCTGATTCAAGACCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 TGCTGATTCAAGACCAACAATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
* * *
537525 T-TT-TAA-A-GACAA-GGTACGAATATGCTGATTCACGGCCAGCGATATTGGACTTATGCTATT
66 TCTTAAAAGATGACAAGGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCTATT
537585 G
131 G
* * *
537586 TGCTGATTCAAGGCCAGCAATATTGGACTTATGCTAATGTGCTGATTCAAGGCCAGCGACATTGG
1 TGCTGATTCAAGACCAACAATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
* * * *
537651 TCTTAAAAGATGAGAAGGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
66 TCTTAAAAGATGACAAGGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
537709 AGAGGGTAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
126 61 0.58
127 2 0.02
128 2 0.02
129 1 0.01
130 4 0.04
131 36 0.34
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (131 bp):
TGCTGATTCAAGACCAACAATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
TCTTAAAAGATGACAAGGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGCTATT
G
Found at i:537709 original size:53 final size:53
Alignment explanation
Indices: 537625--537761 Score: 181
Period size: 51 Copynumber: 2.6 Consensus size: 53
537615 TATGCTAATG
* * *
537625 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATGAG-AAGGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGA-GAGTAAAGGTGCCAATA
* * *
537678 TGCTGATTCAAGGCTAGCGATATTGGGCTT--AAGAGGGTAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGAGAGTAAAGGTGCCAATA
*
537729 TGCTAATTCAAGGCCAGCGATATTGGACTTAAA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA
537762 GACAAGGTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.03
51 43 0.59
53 28 0.38
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (53 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGAGAGTAAAGGTGCCAATA
Found at i:537900 original size:41 final size:41
Alignment explanation
Indices: 537791--537910 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 41
537781 GTGGCCTTAC
* *
537791 AGGAAAAAAGGATGCCACGGAGGTGTGGGCTT------AAA
1 AGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAAGAAA
* *
537826 AGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGAAA
1 AGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAA-AGAAA
* * *
537868 AGGGAAAAGGG-TGCCACGGAGTTGTTGACTTAAAAAGAAA
1 AGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAAGAAA
537908 AGG
1 AGG
537911 TACCACGGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
35 31 0.43
40 7 0.10
41 21 0.29
42 13 0.18
ACGTcount: A:0.38, C:0.10, G:0.38, T:0.14
Consensus pattern (41 bp):
AGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAAGAAA
Found at i:537904 original size:42 final size:42
Alignment explanation
Indices: 537823--537910 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 42
537813 GTGTGGGCTT
*
537823 AAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGG
1 AAAAGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAGGG
* * * *
537865 AAAAGGGAAAAGGG-TGCCACGGAGTTGTTGACTTAAAA-AG
1 AAAAGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAGGG
537905 AAAAGG
1 AAAAGG
537911 TACCACGGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 7 0.17
41 21 0.51
42 13 0.32
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (42 bp):
AAAAGGAAAAAGGGATGCCACGGAGGTGTGGACTTAAAAGGG
Found at i:537909 original size:33 final size:33
Alignment explanation
Indices: 537865--539059 Score: 984
Period size: 33 Copynumber: 37.2 Consensus size: 33
537855 CTTAAAAGGG
*
537865 AAAAGGGAAAAGGGTGCCACGGAGTTGTTGACTT
1 AAAA-GGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
537899 AAAAAGAAAA-GGTACCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
*
537931 AAAAGGAATAA-GGTGCCACGGAGTTATGGACTT
1 AAAAGGAA-AAGGGTGCCACGGAGTTGTGGACTT
* * *
537964 CAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
537997 AAAAGGAAAAAGATGCCACAGAGTTATGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
538030 CAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGG--AAAAGGGTGCCACGGAGTTGTGGACTT
* **
538065 ------CAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538092 AAAAGGAAAAAGATGCCACGAAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538125 AAAAGGGAAAA-GATGCCTCAGAGTTGTGGACTT
1 AAAA-GGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538158 AAAAGGAACAAGGGTGCCACGAAGTTGTGGGCTT
1 AAAAGGAA-AAGGGTGCCACGGAGTTGTGGACTT
*
538192 ------AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *** *
538219 AAAAGGAAAAAGAGTGCAATAAAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
** * *
538253 AAAAGGAAAAACAGTGCCATGGAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
*
538287 ------AAAAGGGTGCCAAGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538314 AAAAGGAAAAAGATGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
538347 AAAAGGAACAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAA-AAGGGTGCCACGGAGTTGTGGACTT
* * *
538381 AAAAGGAACAAGGATTCCACGGAGTTGTGGGCTT
1 AAAAGGAA-AAGGGTGCCACGGAGTTGTGGACTT
*
538415 ------AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
538442 AAAAGGAAAAAGAGTGCCATGAAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538476 AAAAGGAAAAATGGTGCCACAGAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
*
538510 ------AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538537 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538570 -AAAGAGATCAAGGGTACCACAGAGTTGTGGACTT
1 AAAAG-GA-AAAGGGTGCCACGGAGTTGTGGACTT
* * * *
538604 AAAAGGGAAAATGGTGCCATGGAGTCGTTGACTT
1 AAAA-GGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538638 AAAAAGAAAA-GGTACCACAGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538670 AAAAGGAAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538703 AAAAGGAAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538736 AAAAGGAAAAAGATGCCACGGAGTTGTAGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * ** *
538769 AAAAGGAAAAAGATGCCATAGAGTTATGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538802 CAAAGGAAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG--AAAAGGGTGCCACGGAGTTGTGGACTT
* *
538837 ------CAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538864 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* *
538897 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
538931 AAAAGGAAAAAAGGTGCCACGAAGTTGTGGGCTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGACTT
538965 ------AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
*
538992 ------AAAAGGGTGCCACGGGGTTGTGGACTT
1 AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
539019 AAAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTT
1 AAAAGG-AAAAGGGTGCCACGGAGTTGTGGAC-TT
539054 AAAAGG
1 AAAAGG
539060 GTGCCACAAA
Statistics
Matches: 957, Mismatches: 142, Indels: 123
0.78 0.12 0.10
Matches are distributed among these distances:
27 185 0.19
28 4 0.00
32 63 0.07
33 348 0.36
34 301 0.31
35 55 0.06
36 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAAGGAAAAGGGTGCCACGGAGTTGTGGACTT
Done.