Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005676.1 Hibiscus syriacus cultivar Beakdansim tig00013275_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 284150
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1391 original size:21 final size:21
Alignment explanation
Indices: 1367--1407 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1357 ATAAAAATAT
* *
1367 TTAAAATATTATTATTTTTAC
1 TTAAAATATGAATATTTTTAC
1388 TTAAAATATGAATATTTTTA
1 TTAAAATATGAATATTTTTA
1408 ATATTTCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAAAATATGAATATTTTTAC
Found at i:1457 original size:21 final size:21
Alignment explanation
Indices: 1431--1471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1421 AATAACCAAT
*
1431 AATAATAAAACTGATAGAAAA
1 AATAATAAAACCGATAGAAAA
*
1452 AATAATAAAACCGGTAGAAA
1 AATAATAAAACCGATAGAAA
1472 TTTACCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
AATAATAAAACCGATAGAAAA
Found at i:5827 original size:19 final size:19
Alignment explanation
Indices: 5799--5835 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5789 AATATCTAAG
* *
5799 TGTATCGATTTGTATATAT
1 TGTATAGATTTGGATATAT
5818 TGTATAGATTTGGATATA
1 TGTATAGATTTGGATATA
5836 CATCTATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (19 bp):
TGTATAGATTTGGATATAT
Found at i:6052 original size:98 final size:98
Alignment explanation
Indices: 5883--6059 Score: 318
Period size: 98 Copynumber: 1.8 Consensus size: 98
5873 GTATTATCTT
* * *
5883 AATAGGTGGAGTACAAATAGTCTCCCGACTATAGCACATTACTTTGTTAACTCCCTTAATTATTA
1 AATAGGTGGAGTACAAATAGTCTCCCGACTATAACACATTACTTTATTAACTCCCCTAATTATTA
5948 AAAGTTACAAAATAGTTTCCTGATTATTTATAA
66 AAAGTTACAAAATAGTTTCCTGATTATTTATAA
*
5981 AATAGGTGGAGTACAAATAGTCTCCCGACTATAACACATTACTTTATTAAGTCCCCTAATTATTA
1 AATAGGTGGAGTACAAATAGTCTCCCGACTATAACACATTACTTTATTAACTCCCCTAATTATTA
6046 AAAGTTACAAAATA
66 AAAGTTACAAAATA
6060 ATCCTATTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (98 bp):
AATAGGTGGAGTACAAATAGTCTCCCGACTATAACACATTACTTTATTAACTCCCCTAATTATTA
AAAGTTACAAAATAGTTTCCTGATTATTTATAA
Found at i:17623 original size:20 final size:20
Alignment explanation
Indices: 17598--17645 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
17588 CATGCAATTC
17598 ATATCACACATCATATACAT
1 ATATCACACATCATATACAT
17618 ATATCACACATCATATACAT
1 ATATCACACATCATATACAT
17638 ATATCACA
1 ATATCACA
17646 TACATTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATCACACATCATATACAT
Found at i:17995 original size:23 final size:23
Alignment explanation
Indices: 17969--18037 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
17959 CACCACAGCT
*
17969 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
17992 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
18015 CGTAGAATTGCATCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
18038 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:18224 original size:103 final size:103
Alignment explanation
Indices: 18053--18263 Score: 386
Period size: 103 Copynumber: 2.0 Consensus size: 103
18043 TAATGTCCAT
* * *
18053 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
18118 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
18156 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCAACA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
18221 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
18259 AAGGA
1 AAGGA
18264 TCGCGTAGAC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:19681 original size:20 final size:21
Alignment explanation
Indices: 19640--19699 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
19630 TTCGCTTGAG
* *
19640 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCAC-TTGAAT
*
19662 GGGTACTGATTCC-CTTGAAT
1 GGGTACCGATTCCACTTGAAT
19682 GGGTACCGATTCCACTTG
1 GGGTACCGATTCCACTTG
19700 CCCAGAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.53
21 5 0.15
22 11 0.32
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (21 bp):
GGGTACCGATTCCACTTGAAT
Found at i:29056 original size:36 final size:35
Alignment explanation
Indices: 28985--29097 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
28975 AAAATAGTCC
* * * *
28985 TCAATTTCATTATAAACCCCAATTTTCAAAGTAAT
1 TCAATTTCATTTTAAACCCCAAATTCCAAAATAAT
*
29020 TCAATTTCATTTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTT-TAAACCCCAAATTCCAAAATAAT
* ** * *
29056 TTAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTTTAAACCCCAAATTCCAAAATAAT
29091 TCAATTT
1 TCAATTT
29098 AAGATTTAGA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 36 0.56
36 28 0.44
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTTTAAACCCCAAATTCCAAAATAAT
Found at i:29080 original size:35 final size:36
Alignment explanation
Indices: 28997--29096 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
28987 AATTTCATTA
* * * **
28997 TAAACCCCAATTTTCAAAGTAATTCAATTTCATTTC
1 TAAACCCCAAATTCCAAAATAATTCAATTAAATTTC
* *
29033 TAAACCCTAAATTCCAAAATAATTTAATTAAATTT-
1 TAAACCCCAAATTCCAAAATAATTCAATTAAATTTC
* *
29068 TAAACCCCAAATTCTAAAATACTTCAATT
1 TAAACCCCAAATTCCAAAATAATTCAATT
29097 TAAGATTTAG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
35 25 0.47
36 28 0.53
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (36 bp):
TAAACCCCAAATTCCAAAATAATTCAATTAAATTTC
Found at i:34751 original size:2 final size:2
Alignment explanation
Indices: 34746--34772 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34736 TGTGTGTGTG
34746 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34773 GAGAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48607 original size:30 final size:30
Alignment explanation
Indices: 48541--48646 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
48531 CAGAGGTCAT
* * *
48541 AAAGAACCTCGGCAACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
*
48571 AAAGAACCTAGGTAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
** * *
48601 TTAGAACATAGGTATACTGTCCATATGTCTCG
1 AAAGAACCTAGGTA-ACTGTCCATATGTC-CC
*
48633 AAAG-ACATAGGTAA
1 AAAGAACCTAGGTAA
48647 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 38 0.60
31 22 0.35
32 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAGAACCTAGGTAACTGTCCATATGTCCC
Found at i:48623 original size:31 final size:30
Alignment explanation
Indices: 48554--48646 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
48544 GAACCTCGGC
* *
48554 AACTGTCCATAGGTCCCAAAGAACCTAGGT
1 AACTGTCCATATGTCCCAAAGAACATAGGT
* **
48584 AACTGTCCATATGTTCCTTAGAACATAGGT
1 AACTGTCCATATGTCCCAAAGAACATAGGT
*
48614 ATACTGTCCATATGTCTCGAAAG-ACATAGGT
1 A-ACTGTCCATATGTC-CCAAAGAACATAGGT
48645 AA
1 AA
48647 AACCCTCGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 27 0.52
31 22 0.42
32 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (30 bp):
AACTGTCCATATGTCCCAAAGAACATAGGT
Found at i:48813 original size:17 final size:19
Alignment explanation
Indices: 48781--48816 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
48771 CATATATCTC
48781 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
48800 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
48817 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:49634 original size:21 final size:21
Alignment explanation
Indices: 49608--49683 Score: 152
Period size: 21 Copynumber: 3.6 Consensus size: 21
49598 GGTGTGTGGG
49608 GGGAATCGGTTCCCCCTTGAA
1 GGGAATCGGTTCCCCCTTGAA
49629 GGGAATCGGTTCCCCCTTGAA
1 GGGAATCGGTTCCCCCTTGAA
49650 GGGAATCGGTTCCCCCTTGAA
1 GGGAATCGGTTCCCCCTTGAA
49671 GGGAATCGGTTCC
1 GGGAATCGGTTCC
49684 TAAGTGTAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.24
Consensus pattern (21 bp):
GGGAATCGGTTCCCCCTTGAA
Found at i:49821 original size:75 final size:76
Alignment explanation
Indices: 49719--49927 Score: 280
Period size: 75 Copynumber: 2.8 Consensus size: 76
49709 CCGTTGTACA
* *
49719 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
** *
49783 CAAAACTGTTT
66 CAAAACCATTC
* * * *
49794 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
*
49858 CCAAACCATTC
66 CAAAACCATTC
*
49869 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCATA-CTGGAATT
49928 TTTGGCTTTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
75 86 0.74
76 6 0.05
77 24 0.21
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
CAAAACCATTC
Found at i:50554 original size:17 final size:17
Alignment explanation
Indices: 50532--50575 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
50522 TTCATAAATC
50532 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
50549 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
50566 -AAATATCCAA
1 CAAA-ATCCAA
50576 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:50567 original size:9 final size:8
Alignment explanation
Indices: 50527--50577 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
50517 CACCATTCAT
50527 AAATCC-A
1 AAATCCAA
50534 AAATCCAA
1 AAATCCAA
*
50542 CAATCCACA
1 AAATCCA-A
50551 AAAT-CAA
1 AAATCCAA
50558 ACAATCCAA
1 A-AATCCAA
50567 AATATCCAA
1 AA-ATCCAA
50576 AA
1 AA
50578 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:56447 original size:22 final size:21
Alignment explanation
Indices: 56405--56444 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56395 GAGTTTGTTT
*
56405 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
56426 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
56445 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:58539 original size:75 final size:76
Alignment explanation
Indices: 58369--58566 Score: 267
Period size: 74 Copynumber: 2.6 Consensus size: 76
58359 CCGTTGTACA
* * * *
58369 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
** *
58433 CAAAACTGTTT
66 CAAAACCATTC
* *
58444 A-GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
*
58507 CGAAACCATTC
66 CAAAACCATTC
*
58518 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCA
58567 ATCTAGAATT
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
74 62 0.57
75 23 0.21
77 23 0.21
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
CAAAACCATTC
Found at i:59243 original size:64 final size:65
Alignment explanation
Indices: 59135--59294 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 65
59125 CAATGAATGT
* * *
59135 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTT-TATTTAATGGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAATGGGG
**
59199 ATGCATCGATGCACT-CTTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAA-AA
1 ATGCATCGATGCACTAC-TTATGCATCGATGCATAAAATCC-ATTCGATGTTTTCTATTTAATGG
**
59261 TC
64 GG
* * *
59263 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACTTATGCATCGATGCA
59295 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
63 6 0.07
64 69 0.83
65 8 0.10
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAATGGGG
Found at i:62786 original size:30 final size:30
Alignment explanation
Indices: 62720--62825 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
62710 CAGAGGTCAT
* * *
62720 AAAGAACCTCGGCAACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
*
62750 AAAGAACCTAGGTAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
** * * *
62780 TTAGAACATTGGTATACTGTCCATATGTCTCG
1 AAAGAACCTAGGTA-ACTGTCCATATGTC-CC
*
62812 AAAG-ACATAGGTAA
1 AAAGAACCTAGGTAA
62826 AACCCTCGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
30 37 0.61
31 21 0.34
32 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAGAACCTAGGTAACTGTCCATATGTCCC
Found at i:62992 original size:17 final size:19
Alignment explanation
Indices: 62960--62995 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
62950 CATATATCTC
62960 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
62979 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
62996 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:63557 original size:64 final size:65
Alignment explanation
Indices: 63484--63643 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 65
63474 CAATGAATGT
* *
63484 ATGCATCGATGCACTACTTATGCATCGGTGCATAAAATGC-ATTCGATGTTTT-TATTTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAATGGG
63547 G
65 G
* ****
63548 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA-AATC
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGGG
* * *
63612 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACTTATGCATCGATGCA
63644 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 5 0.06
64 72 0.86
65 7 0.08
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGGG
Found at i:64422 original size:2 final size:2
Alignment explanation
Indices: 64415--64443 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
64405 GTTACAATAC
64415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64444 AGTACAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64661 original size:33 final size:34
Alignment explanation
Indices: 64615--64681 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
64605 ATATATAACC
* *
64615 ATAGAATAGGGACCCACTTTCAT-TTTTTTTTCT
1 ATAGAATAAGGACCCACTTTCATATTTTTCTTCT
64648 ATAGAATAAGGACCCACTTTCATATTTTTCTTCT
1 ATAGAATAAGGACCCACTTTCATATTTTTCTTCT
64682 TCATCATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.43
Consensus pattern (34 bp):
ATAGAATAAGGACCCACTTTCATATTTTTCTTCT
Found at i:66651 original size:13 final size:13
Alignment explanation
Indices: 66633--66657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66623 AATCACATTA
66633 AATTATTAAAAGG
1 AATTATTAAAAGG
66646 AATTATTAAAAG
1 AATTATTAAAAG
66658 TATATAATAC
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:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
AATTATTAAAAGG
Found at i:73513 original size:29 final size:31
Alignment explanation
Indices: 73481--73556 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
73471 GTCGGGTCAT
*
73481 ACCGGTCAAACCGGTTTG-AATCGGTCG-AA
1 ACCGGTCAAACCGGTTTGAAACCGGTCGAAA
* * *
73510 ACCGGTCAAACC-GATCGAAACCGGTTGAAA
1 ACCGGTCAAACCGGTTTGAAACCGGTCGAAA
73540 ACCGGTCAAACCGGTTT
1 ACCGGTCAAACCGGTTT
73557 CCAGCCCTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 19 0.50
30 14 0.37
31 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.18
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTTGAAACCGGTCGAAA
Found at i:73515 original size:10 final size:10
Alignment explanation
Indices: 73481--73554 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 10
73471 GTCGGGTCAT
73481 ACCGGTC-AA
1 ACCGGTCGAA
*
73490 ACCGGTTTG-A
1 ACCGG-TCGAA
*
73500 ATCGGTCGAA
1 ACCGGTCGAA
73510 ACCGGTC-AA
1 ACCGGTCGAA
*
73519 ACCGATCGAA
1 ACCGGTCGAA
*
73529 ACCGGTTGAAA
1 ACCGGTCG-AA
73540 ACCGGTC-AA
1 ACCGGTCGAA
73549 ACCGGT
1 ACCGGT
73555 TTCCAGCCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
9 23 0.44
10 21 0.40
11 8 0.15
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (10 bp):
ACCGGTCGAA
Found at i:80654 original size:7 final size:7
Alignment explanation
Indices: 80643--80686 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
80633 GTCAAAGGAA
*
80643 GTCAACA
1 GTCAACG
80650 GTCAACG
1 GTCAACG
80657 GTC-ACG
1 GTCAACG
80663 GTCAACG
1 GTCAACG
*
80670 GTTAACG
1 GTCAACG
80677 GTCAACG
1 GTCAACG
80684 GTC
1 GTC
80687 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:80668 original size:20 final size:21
Alignment explanation
Indices: 80643--80686 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
80633 GTCAAAGGAA
80643 GTCAACAGTCAACGGTC-ACG
1 GTCAACAGTCAACGGTCAACG
* *
80663 GTCAACGGTTAACGGTCAACG
1 GTCAACAGTCAACGGTCAACG
80684 GTC
1 GTC
80687 GGGTCGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
GTCAACAGTCAACGGTCAACG
Found at i:80701 original size:14 final size:14
Alignment explanation
Indices: 80684--80736 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
80674 ACGGTCAACG
80684 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
* *
80698 GTCGGAT-TGG--A
1 GTCGGGTCGGGTCA
80709 -TCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
80722 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
80736 G
1 G
80737 ACCGGTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.16
11 3 0.10
13 3 0.10
14 20 0.65
ACGTcount: A:0.09, C:0.19, G:0.49, T:0.23
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:80743 original size:9 final size:9
Alignment explanation
Indices: 80731--80781 Score: 66
Period size: 9 Copynumber: 5.3 Consensus size: 9
80721 AGTCGGGTCG
*
80731 GGTCAGACC
1 GGTCAAACC
80740 GGTCAAACC
1 GGTCAAACC
80749 GGTCAGAACC
1 GGTCA-AACC
80759 GGTCGAAAACC
1 GGTC--AAACC
80770 GGTCAAACC
1 GGTCAAACC
80779 GGT
1 GGT
80782 TTCCAGCCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
9 21 0.55
10 8 0.21
11 8 0.21
12 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (9 bp):
GGTCAAACC
Found at i:93487 original size:4 final size:4
Alignment explanation
Indices: 93478--96674 Score: 6203
Period size: 4 Copynumber: 805.8 Consensus size: 4
93468 ACGCTTTCGG
93478 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93526 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93574 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93622 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TA--
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93668 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93716 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93764 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93812 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93860 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93908 TATC TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
93954 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94002 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94050 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94098 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94146 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94194 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94242 TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94288 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94336 TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94382 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94430 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94478 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94526 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94574 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94622 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94670 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94718 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94766 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94814 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94862 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94910 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
94958 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95006 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95054 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95102 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
95150 TCTC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95198 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95246 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95294 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95342 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95390 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95438 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95486 TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95532 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95580 TATC TATC TA-- TATC TATC --TC TATC TATC TATC TATC TATC TA--
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95622 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95670 TATC TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95716 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95764 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95812 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95860 TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95906 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
95954 TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96000 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96048 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96096 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96144 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96192 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96240 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96288 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96336 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96384 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96432 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96480 TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96526 TA-- TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96572 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96620 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
96668 TATC TAT
1 TATC TAT
96675 AATGAATCTA
Statistics
Matches: 3165, Mismatches: 2, Indels: 52
0.98 0.00 0.02
Matches are distributed among these distances:
2 26 0.01
4 3139 0.99
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:107115 original size:59 final size:59
Alignment explanation
Indices: 107040--107156 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
107030 TTATTAATAA
* * * * *
107040 AAACTATGGCTCTCATTTTAAATTGGTCCTTAAAC-TTTGAATAGTCTAATTTCATCCCT
1 AAACTATGACCCTCATTCTAAATTGATCC-CAAACTTTTGAATAGTCTAATTTCATCCCT
** *
107099 AAACTATGACCCTCATTCTAAATTGATCCCAAACTTTTGAATCTTTTAATTTCATCCC
1 AAACTATGACCCTCATTCTAAATTGATCCCAAACTTTTGAATAGTCTAATTTCATCCC
107157 AAAATTCAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 4 0.08
59 45 0.92
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (59 bp):
AAACTATGACCCTCATTCTAAATTGATCCCAAACTTTTGAATAGTCTAATTTCATCCCT
Found at i:108493 original size:2 final size:2
Alignment explanation
Indices: 108482--108515 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
108472 TAATATGATA
108482 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108516 CACACAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119310 original size:7 final size:7
Alignment explanation
Indices: 119298--119322 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
119288 CTCTATTTTA
119298 AATTAAT
1 AATTAAT
119305 AATTAAT
1 AATTAAT
119312 AATTAAT
1 AATTAAT
119319 AATT
1 AATT
119323 TATGGTGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:119837 original size:40 final size:40
Alignment explanation
Indices: 119782--119857 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
119772 CCCGGGTTTT
119782 AAACAACCTTTCCAACCCAAGCTATTTTGAACAGAAATGG
1 AAACAACCTTTCCAACCCAAGCTATTTTGAACAGAAATGG
*
119822 AAACAACCTTTCCAACCCAAGCTATTTTGATCAGAA
1 AAACAACCTTTCCAACCCAAGCTATTTTGAACAGAA
119858 CTGGGACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (40 bp):
AAACAACCTTTCCAACCCAAGCTATTTTGAACAGAAATGG
Found at i:124030 original size:19 final size:18
Alignment explanation
Indices: 123994--124043 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
123984 TAGATCTTTG
123994 TATTTTAATTTTCTTTAT
1 TATTTTAATTTTCTTTAT
124012 TATTTGTAATTTT-TATTAT
1 TATTT-TAATTTTCT-TTAT
*
124031 TTTGTTTAATTTT
1 TAT-TTTAATTTT
124044 AGTATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 20 0.71
20 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTAATTTTCTTTAT
Found at i:126988 original size:14 final size:15
Alignment explanation
Indices: 126960--126989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126950 ATTACACTCA
126960 GACAGTTCAGTACCC
1 GACAGTTCAGTACCC
126975 GACAGTTC-GTACCC
1 GACAGTTCAGTACCC
126989 G
1 G
126990 CTACCCACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.20
Consensus pattern (15 bp):
GACAGTTCAGTACCC
Found at i:136431 original size:92 final size:92
Alignment explanation
Indices: 136175--136598 Score: 606
Period size: 92 Copynumber: 4.7 Consensus size: 92
136165 TGAAAACATG
* * * * *
136175 ATGAGAAGAACTCATCCAACA-AGGGAGAAGAAGTACATAATGAGAAGAATTTGTTCAACATTGG
1 ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
* *
136239 TTTAAGATTTCCAGTGGGGAGTTCATA
66 TTCAAGATTTCCAGTGGAGAGTTCATA
*
136266 ATGAGAAGAACTCATCCAACA-AGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
1 ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
136330 TTCAAGATTTCCAGTGGAGAGTTCATA
66 TTCAAGATTTCCAGTGGAGAGTTCATA
* *
136357 ATGAGAAGAACTCATCCAACAGAGGTAAAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
1 ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
136422 TTCAAGATTTCCAGTGGAGAGTTCATA
66 TTCAAGATTTCCAGTGGAGAGTTCATA
* * *
136449 ATGAGAAGAACTCATCCAACAGAGGTAAAATAAGTTCATAATGAGAAGAATTTGTTCAACCTT-G
1 ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
* * * * *
136513 CATCAACATTTACAGCGGGGAGTTCATA
66 -TTCAAGATTTCCAGTGGAGAGTTCATA
* * * *
136541 ATGAGAAGAACCCATCCGA-TGAGGGAGAATATGTTCATAATGAGAAGAA-TTGTTCAAC
1 ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAAC
136599 TTGGGTGATT
Statistics
Matches: 310, Mismatches: 21, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
90 9 0.03
91 133 0.43
92 168 0.54
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (92 bp):
ATGAGAAGAACTCATCCAACAGAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
TTCAAGATTTCCAGTGGAGAGTTCATA
Found at i:136579 original size:183 final size:181
Alignment explanation
Indices: 136175--136598 Score: 591
Period size: 183 Copynumber: 2.3 Consensus size: 181
136165 TGAAAACATG
* * *
136175 ATGAGAAGAACTCATCCAACA-AGGGAGAAGAAGTACATAATGAGAAGAATTTGTTCAACATTGG
1 ATGAGAAGAACTCATCCAA-AGAGGGAGAATAAGTTCATAATGAGAAGAA-TTGTTCAACATTAG
* * *
136239 TTTAAGATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACAAGGGAGAAGAAGTTCAT
64 TTCAAGATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGGAAAAGAAGTTCAT
* * * *
136304 AATGAGAAGAACTTGTTCAACCTTAGTTCAAGATTTCCAGTGGAGAGTTCATA
129 AATGAGAAGAACTTGTTCAACCTTAGATCAACATTTACAGCGGAGAGTTCATA
* * *
136357 ATGAGAAGAACTCATCCAACAGAGGTAAAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAG
1 ATGAGAAGAACTCATCCAA-AGAGGGAGAATAAGTTCATAATGAGAAGAA-TTGTTCAACATTAG
* *
136422 TTCAAGATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGTAAAATAAGTTCA
64 TTCAAGATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACA-AGGGAAAAGAAGTTCA
* *
136487 TAATGAGAAGAATTTGTTCAACCTT-GCATCAACATTTACAGCGGGGAGTTCATA
128 TAATGAGAAGAACTTGTTCAACCTTAG-ATCAACATTTACAGCGGAGAGTTCATA
* * * *
136541 ATGAGAAGAACCCATCCGATGAGGGAGAATATGTTCATAATGAGAAGAATTGTTCAAC
1 ATGAGAAGAACTCATCCAAAGAGGGAGAATAAGTTCATAATGAGAAGAATTGTTCAAC
136599 TTGGGTGATT
Statistics
Matches: 215, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
182 30 0.14
183 109 0.51
184 76 0.35
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (181 bp):
ATGAGAAGAACTCATCCAAAGAGGGAGAATAAGTTCATAATGAGAAGAATTGTTCAACATTAGTT
CAAGATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGGAAAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTAGATCAACATTTACAGCGGAGAGTTCATA
Found at i:137889 original size:24 final size:22
Alignment explanation
Indices: 137851--137950 Score: 78
Period size: 24 Copynumber: 4.3 Consensus size: 22
137841 ATTATATTTA
*
137851 ATTTTATTATATTTAGATCTTTGT
1 ATTTTATTTTATTTA-AT-TTTGT
* *
137875 ATTTTATTTTCTTTATTATTTGT
1 ATTTTATTTTATTTAAT-TTTGT
*
137898 AATTTTTATTTTGTTTAATTTTAGT
1 -A-TTTTATTTTATTTAATTTT-GT
*
137923 A-TTTATTTAATTT-ATTTTGT
1 ATTTTATTTTATTTAATTTTGT
137943 AATTTTAT
1 -ATTTTAT
137951 CTTAATTAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
20 2 0.03
21 6 0.10
22 15 0.24
23 6 0.10
24 18 0.29
25 16 0.25
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (22 bp):
ATTTTATTTTATTTAATTTTGT
Found at i:137936 original size:22 final size:22
Alignment explanation
Indices: 137870--137957 Score: 65
Period size: 22 Copynumber: 3.9 Consensus size: 22
137860 TATTTAGATC
**
137870 TTTGT-ATTTTATTTTCTTTATT
1 TTTGTAATTTTATTTAATTTA-T
**
137892 ATTTGTAATTTTTATTTTGTTTAAT
1 -TTTGTAA-TTTTATTTAATTT-AT
137917 TTTAGT-A-TTTATTTAATTTAT
1 TTT-GTAATTTTATTTAATTTAT
137938 TTTGTAATTTTATCTTAATT
1 TTTGTAATTTTAT-TTAATT
137958 AGGATTAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
20 2 0.04
21 6 0.11
22 15 0.27
23 11 0.20
24 5 0.09
25 15 0.27
26 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTGTAATTTTATTTAATTTAT
Found at i:150080 original size:2 final size:2
Alignment explanation
Indices: 150073--150098 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
150063 AGCATAAAAT
150073 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
150099 ACACTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:150627 original size:21 final size:21
Alignment explanation
Indices: 150601--150674 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
150591 ATTATTACTA
150601 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
*
150622 TCGCAATGCAATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* *
150643 TCGCATTGAGATTTTTCCAA-T
1 TCGCAATGCGA-TTTTCCAATT
150664 TCGCAATGCGA
1 TCGCAATGCGA
150675 ATAAGTAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.83
22 8 0.17
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:150796 original size:21 final size:21
Alignment explanation
Indices: 150601--150819 Score: 71
Period size: 21 Copynumber: 10.6 Consensus size: 21
150591 ATTATTACTA
*
150601 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
* *
150622 TCGCAATGCAATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
* * *
150643 TCGCATTGAGATTTTTC-CAAT
1 TCGCAATGCGA-TTTTCATAAT
* * *
150664 TCGCAATGCGA--ATAAGTAAG
1 TCGCAATGCGATTTTCA-TAAT
** *
150684 TCGCAATGCGAATTTGGA-AAA
1 TCGCAATGCG-ATTTTCATAAT
* * *
150705 TCGCAATGCGATAATACA-AAA
1 TCGCAATGCGAT-TTTCATAAT
* *
150726 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
** * *
150746 TCGCGTTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
150766 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
* * * *
150787 TCGCAATGCGA-ATACGTAAA
1 TCGCAATGCGATTTTCATAAT
150807 TCGCAATGCGATT
1 TCGCAATGCGATT
150820 AAGTAAATCG
Statistics
Matches: 155, Mismatches: 32, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
18 1 0.01
20 68 0.44
21 81 0.52
22 4 0.03
23 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:150817 original size:41 final size:41
Alignment explanation
Indices: 150661--150850 Score: 149
Period size: 40 Copynumber: 4.7 Consensus size: 41
150651 AGATTTTTCC
* * **
150661 AATTCGCAATGCGAATAAGTAAGTCGCAATGCGAATTTGGA-
1 AATTCGCAATGCGAATACGTAAATCGCAATGCG-ATTTTCAT
* * * *
150702 AAATCGCAATGCGATAATAC-AAAATCGCAATGCGATTTACGT
1 AATTCGCAATGCG--AATACGTAAATCGCAATGCGATTTTCAT
** * * **
150744 -ATTCGCGTTGCGATTTACGT-ATTCGCGTTGCGATTTTCAT
1 AATTCGCAATGCGA-ATACGTAAATCGCAATGCGATTTTCAT
*
150784 AATTCGCAATGCGAATACGTAAATCGCAATGCGA--TTAAGT
1 AATTCGCAATGCGAATACGTAAATCGCAATGCGATTTTCA-T
*
150824 AAATCGCAATGCGAATACGTAAATCGC
1 AATTCGCAATGCGAATACGTAAATCGC
150851 GTTGCGATAG
Statistics
Matches: 116, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
39 4 0.03
40 50 0.43
41 46 0.40
42 12 0.10
43 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (41 bp):
AATTCGCAATGCGAATACGTAAATCGCAATGCGATTTTCAT
Found at i:150837 original size:61 final size:61
Alignment explanation
Indices: 150661--150837 Score: 153
Period size: 61 Copynumber: 2.9 Consensus size: 61
150651 AGATTTTTCC
* * ** *
150661 AATTCGCAATGCGAATAAGTAAGTCGCAATGCGAATTTGGAAAATCGCAATGCGATAATACA
1 AATTCGCAATGCGAATACGTAAATCGCAATGCG-ATTAAGTAAATCGCAATGCGATAATACA
* * * ** * * ** * *
150723 AAATCGCAATGCGATTTACGT-ATTCGCGTTGCGATTTACGT-ATTCGCGTTGCGAT-TTTCA
1 AATTCGCAATGCGA-ATACGTAAATCGCAATGCGA-TTAAGTAAATCGCAATGCGATAATACA
150783 TAATTCGCAATGCGAATACGTAAATCGCAATGCGATTAAGTAAATCGCAATGCGA
1 -AATTCGCAATGCGAATACGTAAATCGCAATGCGATTAAGTAAATCGCAATGCGA
150838 ATACGTAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
60 13 0.15
61 45 0.52
62 25 0.29
63 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (61 bp):
AATTCGCAATGCGAATACGTAAATCGCAATGCGATTAAGTAAATCGCAATGCGATAATACA
Found at i:150857 original size:20 final size:20
Alignment explanation
Indices: 150664--150850 Score: 119
Period size: 20 Copynumber: 9.2 Consensus size: 20
150654 TTTTTCCAAT
* *
150664 TCGCAATGCGAATAAGTAAG
1 TCGCAATGCGAATACGTAAA
** *
150684 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
150705 TCGCAATGCGATAATAC-AAAA
1 TCGCAATGCG--AATACGTAAA
* *
150726 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * *
150746 TCGCGTTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * *
150766 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
150787 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
150807 TCGCAATGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
150827 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
150847 TCGC
1 TCGC
150851 GTTGCGATAG
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.01
20 95 0.69
21 39 0.28
22 1 0.01
23 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:151000 original size:6 final size:6
Alignment explanation
Indices: 150989--151024 Score: 51
Period size: 5 Copynumber: 6.5 Consensus size: 6
150979 GACACGTATT
150989 ACCACG ACCACG ACCACG A-CACG A-CACG A-CACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
151025 CGAGACGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.52
6 14 0.48
ACGTcount: A:0.36, C:0.47, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:152414 original size:2 final size:2
Alignment explanation
Indices: 152407--152435 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
152397 TATTCTGCCT
152407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
152436 GTGTGTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:155370 original size:29 final size:29
Alignment explanation
Indices: 155324--155383 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
155314 ATTCTACAGT
*
155324 GATCTCGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACACCATGCAATCCAGGC
*
155353 GATCTTGTAGGACACCATGCAATCCAGGC
1 GATCTCGTAGGACACCATGCAATCCAGGC
155382 GA
1 GA
155384 CTTACGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (29 bp):
GATCTCGTAGGACACCATGCAATCCAGGC
Found at i:155412 original size:21 final size:21
Alignment explanation
Indices: 155386--155430 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
155376 CCAGGCGACT
155386 TACGGGGTGACATACGAGCCA
1 TACGGGGTGACATACGAGCCA
155407 TACGGGGTGACATACGAGCCA
1 TACGGGGTGACATACGAGCCA
155428 TAC
1 TAC
155431 AAGGCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (21 bp):
TACGGGGTGACATACGAGCCA
Found at i:155515 original size:29 final size:29
Alignment explanation
Indices: 155471--155630 Score: 261
Period size: 29 Copynumber: 5.6 Consensus size: 29
155461 AGAGATCGAG
* * **
155471 AGGTCTCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
155500 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
155529 AGGTCGCCATGTAGTCTCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
155558 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
155587 AGGTCGCCATGTAGTCCCGGCGACC-T-T
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
155614 AGGTCGCCATGTAGTCC
1 AGGTCGCCATGTAGTCC
155631 TAGCTCACGA
Statistics
Matches: 125, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
27 18 0.14
28 1 0.01
29 106 0.85
ACGTcount: A:0.14, C:0.30, G:0.31, T:0.25
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:156242 original size:32 final size:33
Alignment explanation
Indices: 156206--156282 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
156196 TTAGTTAGTA
*
156206 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-ATAAAAAAAT
*
156238 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAAT
*
156272 ATTTTATTAGT
1 AGTTTATTAGT
156283 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 4 0.10
34 21 0.54
35 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAAT
Found at i:158548 original size:17 final size:17
Alignment explanation
Indices: 158526--158558 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
158516 CAATGATTTT
*
158526 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
158543 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
158559 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:158796 original size:11 final size:11
Alignment explanation
Indices: 158766--159031 Score: 76
Period size: 11 Copynumber: 21.9 Consensus size: 11
158756 ATTAGTAATA
158766 ATTATTAAATC
1 ATTATTAAATC
158777 ATTAGTATTAAATC
1 A-T--TATTAAATC
*
158791 ATTATTATAAATA
1 ATTA-T-TAAATC
* *
158804 ATTACTAAATA
1 ATTATTAAATC
* * *
158815 ATAACTAAATA
1 ATTATTAAATC
158826 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
158840 ATTATTATAATG
1 ATTATTA-AATC
158852 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
158866 ATTACTAAATC
1 ATTATTAAATC
158877 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
158892 A-T-TTAAATC
1 ATTATTAAATC
158901 ATTATTAAATC
1 ATTATTAAATC
* *
158912 ATTTTTATAATG
1 ATTATTA-AATC
158924 ATTATTACTAAATC
1 ATTA-T--TAAATC
*
158938 ATTATTATAATG
1 ATTATTA-AATC
158950 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
158964 ATTACTAAATC
1 ATTATTAAATC
158975 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
158990 A-T-TTAAATC
1 ATTATTAAATC
158999 ATTATTAAATC
1 ATTATTAAATC
* *
159010 ATTTTTATAATG
1 ATTATTA-AATC
*
159022 ATTAATAAAT
1 ATTATTAAAT
159032 ACATAGAAAT
Statistics
Matches: 196, Mismatches: 22, Indels: 74
0.67 0.08 0.25
Matches are distributed among these distances:
8 12 0.06
9 2 0.01
10 4 0.02
11 68 0.35
12 33 0.17
13 16 0.08
14 41 0.21
15 8 0.04
16 12 0.06
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:158831 original size:35 final size:37
Alignment explanation
Indices: 158750--158836 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
158740 TTAGTATTCT
* * *
158750 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
158788 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
158823 ATAATTATTATAAA
1 ATAATTATTATAAA
158837 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:158857 original size:12 final size:13
Alignment explanation
Indices: 158766--158967 Score: 102
Period size: 14 Copynumber: 15.1 Consensus size: 13
158756 ATTAGTAATA
158766 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
158780 AGTATTAAATCATT
1 ATTA-TAAATCATT
158794 ATTATAAAT-A--
1 ATTATAAATCATT
158804 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
158815 ATAACTAAATAATT
1 ATTA-TAAATCATT
158829 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
158843 ATTAT-AATGATT
1 ATTATAAATCATT
158855 ATTATCAAATCATT
1 ATTAT-AAATCATT
158869 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
158888 AAATATTTAAATCATT
1 --AT-TATAAATCATT
158904 A-T-TAAATCATT
1 ATTATAAATCATT
* *
158915 TTTAT-AATGATT
1 ATTATAAATCATT
158927 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
158941 ATTAT-AATGATT
1 ATTATAAATCATT
158953 ATTATCAAATCATT
1 ATTAT-AAATCATT
158967 A
1 A
158968 CTAAATCATC
Statistics
Matches: 154, Mismatches: 14, Indels: 40
0.74 0.07 0.19
Matches are distributed among these distances:
10 4 0.03
11 24 0.16
12 35 0.23
13 9 0.06
14 56 0.36
15 1 0.01
16 8 0.05
17 1 0.01
18 3 0.02
19 11 0.07
20 1 0.01
21 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:158864 original size:26 final size:26
Alignment explanation
Indices: 158766--158967 Score: 131
Period size: 26 Copynumber: 8.2 Consensus size: 26
158756 ATTAGTAATA
* * *
158766 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
158791 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
158815 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
158840 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
158866 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
158889 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
158912 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
158938 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
158964 ATTA
1 ATTA
158968 CTAAATCATC
Statistics
Matches: 133, Mismatches: 30, Indels: 27
0.70 0.16 0.14
Matches are distributed among these distances:
21 4 0.03
22 2 0.02
23 16 0.12
24 20 0.15
25 28 0.21
26 62 0.47
27 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:158937 original size:98 final size:98
Alignment explanation
Indices: 158826--159025 Score: 384
Period size: 98 Copynumber: 2.0 Consensus size: 98
158816 TAACTAAATA
158826 ATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
158891 TATTTAAATCATTATTAAATCATTTTTATAATG
66 TATTTAAATCATTATTAAATCATTTTTATAATG
158924 ATTATTACT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAA
1 ATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAA
158988 ATATTTAAATCATTATTAAATCATTTTTATAATG
65 ATATTTAAATCATTATTAAATCATTTTTATAATG
159022 ATTA
1 ATTA
159026 ATAAATACAT
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 100 0.99
99 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (98 bp):
ATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAAATCATTATTAAATCATTTTTATAATG
Found at i:161910 original size:26 final size:24
Alignment explanation
Indices: 161852--161910 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
161842 CTAATAAACC
*
161852 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
161876 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
161904 TAATAAT
1 TAATAAT
161911 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:162630 original size:28 final size:30
Alignment explanation
Indices: 162590--162652 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
162580 ATTTTTTATA
*
162590 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
162620 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
162648 TAATA
1 TAATA
162653 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:162659 original size:28 final size:28
Alignment explanation
Indices: 162594--162659 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
162584 TTTATATAAT
*
162594 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
162622 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
162650 ATAATTTATA
1 ATAATATATA
162660 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:162662 original size:21 final size:21
Alignment explanation
Indices: 162629--162677 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
162619 CTAATATAAT
162629 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
162650 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
162671 ATTAACT
1 A-TAACT
162678 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:163086 original size:43 final size:40
Alignment explanation
Indices: 163032--163114 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 40
163022 AATAACGCAA
163032 CTATGGATGCAACACATGCAGCTACGGATGCAGGAATCTCCCAG
1 CTATGGATGCAACACATGCAGCTAC--A--CAGGAATCTCCCAG
* *
163076 CTAT-GATGCAACGCATGCAGTTACACAGGAATCTCCCAG
1 CTATGGATGCAACACATGCAGCTACACAGGAATCTCCCAG
163115 AGCTTGGTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
39 14 0.38
41 1 0.03
43 18 0.49
44 4 0.11
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (40 bp):
CTATGGATGCAACACATGCAGCTACACAGGAATCTCCCAG
Found at i:163207 original size:20 final size:20
Alignment explanation
Indices: 163182--163219 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
163172 ACGTGCATGC
*
163182 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
163202 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
163220 AACTCCCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:163232 original size:51 final size:51
Alignment explanation
Indices: 163177--163283 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
163167 GTTCGACGTG
163177 CATGCCCCATGCACAGTTCCCACGTCCCATGCACAGCTCCCACAACTCCCC
1 CATGCCCCATGCACAGTTCCCACGTCCCATGCACAGCTCCCACAACTCCCC
163228 CATGCCCCATGCACAGTTCCCACGTCCCATGCACAGCTCCCACAACTCCCC
1 CATGCCCCATGCACAGTTCCCACGTCCCATGCACAGCTCCCACAACTCCCC
163279 CATGC
1 CATGC
163284 ATGCTCCAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.21, C:0.50, G:0.12, T:0.16
Consensus pattern (51 bp):
CATGCCCCATGCACAGTTCCCACGTCCCATGCACAGCTCCCACAACTCCCC
Found at i:163256 original size:20 final size:20
Alignment explanation
Indices: 163233--163270 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
163223 TCCCCCATGC
*
163233 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
163253 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
163271 AACTCCCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:169060 original size:29 final size:29
Alignment explanation
Indices: 169005--169062 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
168995 CGATTTTATA
* * *
169005 AATTATTTATTAAAATAATACTTATTTTT
1 AATTATTTATCAAAATAACACTCATTTTT
169034 AATTATTTATC-AAATAAACACTCATTTTT
1 AATTATTTATCAAAAT-AACACTCATTTTT
169063 TACGTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (29 bp):
AATTATTTATCAAAATAACACTCATTTTT
Found at i:170085 original size:29 final size:30
Alignment explanation
Indices: 170049--170105 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
170039 TGACAATAAT
* *
170049 AATATCATTATGAGAAATAA-TTATAAATA
1 AATATCATTATAAAAAATAATTTATAAATA
*
170078 AATATCATTTTAAAAAATAATTTATAAA
1 AATATCATTATAAAAAATAATTTATAAA
170106 ACCAACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (30 bp):
AATATCATTATAAAAAATAATTTATAAATA
Found at i:171020 original size:29 final size:29
Alignment explanation
Indices: 170988--171043 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
170978 TGACAATAAT
* *
170988 AATATCATTATGAGAAATAA-TTATAAATA
1 AATATCATT-TAAAAAATAATTTATAAATA
171017 AATATCATTTAAAAAATAATTTATAAA
1 AATATCATTTAAAAAATAATTTATAAA
171044 ACCAACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (29 bp):
AATATCATTTAAAAAATAATTTATAAATA
Found at i:171578 original size:17 final size:17
Alignment explanation
Indices: 171556--171588 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
171546 GAGTCTGCAG
171556 CTCCCATCAACCAGCAA
1 CTCCCATCAACCAGCAA
171573 CTCCCATCAACCAGCA
1 CTCCCATCAACCAGCA
171589 GCCCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.48, G:0.06, T:0.12
Consensus pattern (17 bp):
CTCCCATCAACCAGCAA
Found at i:172819 original size:8 final size:8
Alignment explanation
Indices: 172801--172832 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
172791 GCACTAATAG
172801 ATTTT-AA
1 ATTTTAAA
172808 ATTTTAAA
1 ATTTTAAA
172816 ATTTTAAA
1 ATTTTAAA
172824 ATTTTAAA
1 ATTTTAAA
172832 A
1 A
172833 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.21
8 19 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:175069 original size:25 final size:25
Alignment explanation
Indices: 175014--175075 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
175004 ATAAGTCTAG
*
175014 ATTCAATATTTTGATACATGATCACA
1 ATTC-ATATTATGATACATGATCACA
* *
175040 TTTCATATTATGATACATGA-CATGA
1 ATTCATATTATGATACATGATCA-CA
175065 ATTCATATTAT
1 ATTCATATTAT
175076 ATGCATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 26 0.84
26 3 0.10
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (25 bp):
ATTCATATTATGATACATGATCACA
Found at i:175173 original size:30 final size:31
Alignment explanation
Indices: 175117--175187 Score: 110
Period size: 30 Copynumber: 2.3 Consensus size: 31
175107 GTTATATGAG
175117 CTATGTGATAAAGGTATGGAAAATGATATGT
1 CTATGTGATAAAGGTATGGAAAATGATATGT
175148 CTATGTGGA-AAAGGTATGG-AAATGATATGT
1 CTATGT-GATAAAGGTATGGAAAATGATATGT
*
175178 CTACGTGATA
1 CTATGTGATA
175188 TAAACTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 2 0.05
30 17 0.46
31 16 0.43
32 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (31 bp):
CTATGTGATAAAGGTATGGAAAATGATATGT
Found at i:176708 original size:21 final size:21
Alignment explanation
Indices: 176678--176737 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
176668 CATATGAAAT
176678 TTGTCTCGAATGACCACTGTA
1 TTGTCTCGAATGACCACTGTA
*
176699 TTGTCCCGAATGACCACTGTA
1 TTGTCTCGAATGACCACTGTA
* *
176720 TTATCTCGAAGGACCACT
1 TTGTCTCGAATGACCACT
176738 ATAACCCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (21 bp):
TTGTCTCGAATGACCACTGTA
Found at i:203621 original size:24 final size:24
Alignment explanation
Indices: 203594--203652 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
203584 ACCCATAAAG
*
203594 AACGTGTCACGAA-AGCATAGAAAA
1 AACGTGTCACGAAGAGCAGAG-AAA
* *
203618 AACGTATCA-TAAGAGCAGAGAAA
1 AACGTGTCACGAAGAGCAGAGAAA
*
203641 AATGTGTCACGA
1 AACGTGTCACGA
203653 GAACATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.15
Consensus pattern (24 bp):
AACGTGTCACGAAGAGCAGAGAAA
Found at i:206629 original size:25 final size:25
Alignment explanation
Indices: 206600--206654 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
206590 AACTATAAGT
206600 TTTTAATATATT-AAATATA-AAATAA
1 TTTTAAT-TATTCAAATATATAAAT-A
*
206625 TTTTAATTATTCAAATTTATAAATA
1 TTTTAATTATTCAAATATATAAATA
206650 TTTTA
1 TTTTA
206655 CTAAATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 19 0.70
26 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAATTATTCAAATATATAAATA
Found at i:214058 original size:7 final size:7
Alignment explanation
Indices: 214047--214120 Score: 114
Period size: 7 Copynumber: 10.7 Consensus size: 7
214037 CCTATGCCTA
*
214047 AGGCTAA
1 AGGCTAG
*
214054 AGGCTAA
1 AGGCTAG
214061 AGGCTAG
1 AGGCTAG
214068 AGGCTAG
1 AGGCTAG
214075 AGGCTAG
1 AGGCTAG
*
214082 AGGCTAA
1 AGGCTAG
214089 AGGCTAG
1 AGGCTAG
214096 AGGCTAG
1 AGGCTAG
214103 AGGCTAG
1 AGGCTAG
214110 AGGCTA-
1 AGGCTAG
214116 AGGCT
1 AGGCT
214121 GTATAGAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
6 5 0.08
7 59 0.92
ACGTcount: A:0.32, C:0.15, G:0.38, T:0.15
Consensus pattern (7 bp):
AGGCTAG
Found at i:214087 original size:28 final size:28
Alignment explanation
Indices: 214047--214120 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
214037 CCTATGCCTA
*
214047 AGGCTAAAGGCTAAAGGCTAGAGGCTAG
1 AGGCTAGAGGCTAAAGGCTAGAGGCTAG
214075 AGGCTAGAGGCTAAAGGCTAGAGGCTAG
1 AGGCTAGAGGCTAAAGGCTAGAGGCTAG
214103 AGGCTAGAGGCT-AAGGCT
1 AGGCTAGAGGCTAAAGGCT
214121 GTATAGAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 6 0.13
28 39 0.87
ACGTcount: A:0.32, C:0.15, G:0.38, T:0.15
Consensus pattern (28 bp):
AGGCTAGAGGCTAAAGGCTAGAGGCTAG
Found at i:215530 original size:23 final size:24
Alignment explanation
Indices: 215489--215533 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
215479 AGTCGCATGG
*
215489 AATTTTTTAAAGAATTAAAATTAT
1 AATTTTTTAAAGAAATAAAATTAT
215513 AATTTTTTAAA-AAATAAAATT
1 AATTTTTTAAAGAAATAAAATT
215534 TCATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATTTTTTAAAGAAATAAAATTAT
Found at i:216869 original size:11 final size:12
Alignment explanation
Indices: 216853--216898 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
216843 AGTACGGTTT
216853 TTTATT-TTATC
1 TTTATTATTATC
216864 TTTATTATTAT-
1 TTTATTATTATC
216875 TATTATTATTAT-
1 T-TTATTATTATC
216887 TATTATTATTAT
1 T-TTATTATTAT
216899 TGCAGCCGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.21
12 26 0.79
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTATTATC
Found at i:216873 original size:3 final size:3
Alignment explanation
Indices: 216865--216899 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
216855 TATTTTATCT
216865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
216900 GCAGCCGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:222464 original size:2 final size:2
Alignment explanation
Indices: 222457--222481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
222447 CTATAACCGC
222457 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
222482 GGGGTGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:222832 original size:2 final size:2
Alignment explanation
Indices: 222825--222862 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
222815 CCCATGTATG
*
222825 TA TA TA TA TA TA TA TA TA TGA TA TA CA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
222863 AAATAGATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:222861 original size:13 final size:14
Alignment explanation
Indices: 222825--222862 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
222815 CCCATGTATG
*
222825 TATATATATATATA
1 TATATATATACATA
222839 TATATGATATACATA
1 TATAT-ATATACATA
222854 TA-ATATATA
1 TATATATATA
222863 AAATAGATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 10 0.45
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
TATATATATACATA
Found at i:222945 original size:14 final size:15
Alignment explanation
Indices: 222928--222966 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
222918 AAATTATTTG
222928 ATTTATATTTTA-TA
1 ATTTATATTTTACTA
*
222942 ATTTAAATTTTACTTA
1 ATTTATATTTTAC-TA
222958 ATTTATATT
1 ATTTATATT
222967 GAGTTGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
16 10 0.48
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTATATTTTACTA
Found at i:228382 original size:32 final size:34
Alignment explanation
Indices: 228313--228382 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 34
228303 AGATTCGAAT
**
228313 AAGAGGGGGCTCTCGATTTTTGAAAAAGAAAGGA
1 AAGAGGGGGCTCTCGATTTTTGAAAAAGAAAAAA
* * *
228347 AAGAGGGGGTTC-CG-TTTTTTAACAAGAAAAAA
1 AAGAGGGGGCTCTCGATTTTTGAAAAAGAAAAAA
228379 AAGA
1 AAGA
228383 AGAGACCAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 18 0.58
33 2 0.06
34 11 0.35
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (34 bp):
AAGAGGGGGCTCTCGATTTTTGAAAAAGAAAAAA
Found at i:229955 original size:2 final size:2
Alignment explanation
Indices: 229904--229936 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
229894 ATAGTGTGTG
229904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
229937 GTTTATACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:236371 original size:20 final size:21
Alignment explanation
Indices: 236348--236388 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
236338 TATTATATGT
**
236348 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
236368 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
236389 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:237300 original size:19 final size:18
Alignment explanation
Indices: 237276--237346 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
237266 TGGTATAGTT
*
237276 TGTTTTTTTTTCCTTTCTC
1 TGTTTTTTTTT-CTGTCTC
237295 TGTTTTTTTTTCTGTCTC
1 TGTTTTTTTTTCTGTCTC
* **
237313 TGTCTCTAGTTTCTGTCTC
1 TGT-TTTTTTTTCTGTCTC
237332 TGCTTTTTTTCTTCT
1 TG-TTTTTTT-TTCT
237347 TTTTTTTTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 9 0.21
19 28 0.67
20 5 0.12
ACGTcount: A:0.01, C:0.21, G:0.10, T:0.68
Consensus pattern (18 bp):
TGTTTTTTTTTCTGTCTC
Found at i:237302 original size:18 final size:18
Alignment explanation
Indices: 237279--237342 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
237269 TATAGTTTGT
*
237279 TTTTTTTTCCTTTCTCTG
1 TTTTTTTTCCTGTCTCTG
*
237297 TTTTTTTTTCTGTCTCTG
1 TTTTTTTTCCTGTCTCTG
**
237315 TCTCTAGTTT-CTGTCTCTG
1 T-T-TTTTTTCCTGTCTCTG
*
237334 CTTTTTTTC
1 TTTTTTTTC
237343 TTCTTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 18 0.50
19 10 0.28
20 4 0.11
ACGTcount: A:0.02, C:0.22, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTTTTTCCTGTCTCTG
Found at i:237829 original size:3 final size:3
Alignment explanation
Indices: 237821--237903 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
237811 AATATATATT
*
237821 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
237869 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
237904 TGGATAAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:238370 original size:113 final size:112
Alignment explanation
Indices: 238223--238634 Score: 680
Period size: 113 Copynumber: 3.7 Consensus size: 112
238213 AGTATCAAAC
**
238223 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
238288 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTCAGGTA
66 ATGAACTTTCTCTGGAAA-AATAATCCATCAAGTGATGAATTCAGATA
238336 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
238401 ATGAACTTTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGATT
66 ATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGATA
*
238449 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
238514 ATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAACA
66 ATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGATA
238562 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
238627 ATGAACTT
66 ATGAACTT
238635 CTTCTTCCTT
Statistics
Matches: 280, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 277 0.99
114 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (112 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAATAATCCATCAAGTGATGAATTCAGATA
Found at i:238620 original size:40 final size:40
Alignment explanation
Indices: 238574--238677 Score: 190
Period size: 40 Copynumber: 2.6 Consensus size: 40
238564 AGGTTGAACA
238574 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
*
238614 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
238654 AATTCTTCTCATTATGAACCTTCT
1 AATTCTTCTCATTATGAA-CTTCT
238678 CTGGAAAAGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 56 0.92
41 5 0.08
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.47
Consensus pattern (40 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:238636 original size:153 final size:153
Alignment explanation
Indices: 238463--238787 Score: 564
Period size: 153 Copynumber: 2.1 Consensus size: 153
238453 GTTGAACAAA
* *
238463 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
238528 GCAAAA-ATAATCCATCAAGTGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGA
66 G-AAAAGATAATCCATCAAGTGATAGAATT-AAACAAAAGGTTGAACAAATTCTTCTCATTATGA
238591 ACTTCTTCTTCCTTCTTCAGATGAG
129 ACTTCTTCTTCCTTCTTCAGATGAG
238616 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
** * *
238681 GAAAAGATAATCCATCAAGTGATAGAATTAGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGATAATCCATCAAGTGATAGAATTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
238746 TTCTTCTTCCTTCTTCAGATGAG
131 TTCTTCTTCCTTCTTCAGATGAG
238769 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
238788 TCTCTGGAAA
Statistics
Matches: 164, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
152 4 0.02
153 155 0.95
154 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (153 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
GAAAAGATAATCCATCAAGTGATAGAATTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAG
Found at i:238733 original size:113 final size:113
Alignment explanation
Indices: 238616--238819 Score: 347
Period size: 113 Copynumber: 1.8 Consensus size: 113
238606 TTCAGATGAG
238616 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
*
238681 GAAAAGAT-AATCCATCAAGTGATAGAATTAGGCAGAAGGTTGAACAAA
66 GAAAAG-TCAATCCATCAAATGATAGAATTAGGCAGAAGGTTGAACAAA
* * *
238729 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
*
238794 GAAATGTCAATCCATCAAATGATAGA
66 GAAAAGTCAATCCATCAAATGATAGA
238820 TTTGAATCTT
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
112 1 0.01
113 84 0.99
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACCTTCTCTG
GAAAAGTCAATCCATCAAATGATAGAATTAGGCAGAAGGTTGAACAAA
Found at i:239758 original size:82 final size:83
Alignment explanation
Indices: 239620--239784 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 83
239610 TCTACTATGA
239620 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACAC
239685 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
239703 GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTCTAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACAC
239767 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
239785 AGTCTCTTTC
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 54 0.67
83 27 0.33
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:240932 original size:1 final size:1
Alignment explanation
Indices: 240928--240980 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
240918 CTTGACCCCC
** * * *
240928 TTTTTTTTTCCTTTTTTTTTCTTTTTTTTTTCTTTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
240981 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:240942 original size:11 final size:11
Alignment explanation
Indices: 240928--240981 Score: 99
Period size: 11 Copynumber: 4.9 Consensus size: 11
240918 CTTGACCCCC
*
240928 TTTTTTTTTCC
1 TTTTTTTTTCT
240939 TTTTTTTTTCT
1 TTTTTTTTTCT
240950 TTTTTTTTTCT
1 TTTTTTTTTCT
240961 TTTTTTTTTCT
1 TTTTTTTTTCT
240972 TTTTTTTTTC
1 TTTTTTTTTC
240982 AAGCATAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:253360 original size:3 final size:3
Alignment explanation
Indices: 253343--253381 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
253333 TTAATATATT
253343 TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
253382 GGCGCTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:253546 original size:187 final size:186
Alignment explanation
Indices: 253195--253564 Score: 606
Period size: 187 Copynumber: 2.0 Consensus size: 186
253185 ACGGCAGATG
*
253195 AGGCGGTGGTTAGATTAGGGTTAGGAAACCCTAACTGGAAACCCAAATTTAGGGTTTCTGGTTTG
1 AGGCGCTGGTTAGATTAGGGTTAGGAAACCCTAACTGGAAACCCAAATTTAGGGTTTCTGGTTTG
253260 ATTTGGACGGTTCTGGTTGGTTTGTAACTGGGCCGGTCCAGTTGTAATGGGCCTGTAATTATTAT
66 ATTTGGACGGTTCTGGTTGGTTTGTAACTGGGCCGGTCCAGTTGTAATGGGCCTGTAATTATTAT
*
253325 TTTTATGTTTAATATATTTAATATAATATAATAATAATAATAATAATAATAATAAT
131 TTTTATGTATAATATATTTAATATAATATAATAATAATAATAATAATAATAATAAT
253381 AGGCGCTGGTTTAGATTAGGGTTAGGAAACCCTAACTGGAAACCCAAATGTTTAGGGTTTCTGGT
1 AGGCGCTGG-TTAGATTAGGGTTAGGAAACCCTAACTGGAAACCCAAA--TTTAGGGTTTCTGGT
*
253446 TTGATTTGGACCGGTTCTGGTTGGTTTGTGACT-GGCCGGTCCAGTTGTAATTGGGCCTGTAATT
63 TTGATTTGGA-CGGTTCTGGTTGGTTTGTAACTGGGCCGGTCCAGTTGTAA-TGGGCCTGTAATT
* *
253510 ATTA-TTTT-T-TAT-ATATGTTTAATATATATTTAATAATAATAATAATAATAATAAT
126 ATTATTTTTATGTATAATATATTTAATATA-ATATAATAATAATAATAATAATAATAAT
253565 GATAATAATA
Statistics
Matches: 173, Mismatches: 5, Indels: 11
0.92 0.03 0.06
Matches are distributed among these distances:
186 21 0.12
187 67 0.39
188 1 0.01
189 46 0.27
190 38 0.22
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (186 bp):
AGGCGCTGGTTAGATTAGGGTTAGGAAACCCTAACTGGAAACCCAAATTTAGGGTTTCTGGTTTG
ATTTGGACGGTTCTGGTTGGTTTGTAACTGGGCCGGTCCAGTTGTAATGGGCCTGTAATTATTAT
TTTTATGTATAATATATTTAATATAATATAATAATAATAATAATAATAATAATAAT
Found at i:253548 original size:3 final size:3
Alignment explanation
Indices: 253540--253625 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
253530 AATATATATT
*
253540 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
253588 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
253626 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:254327 original size:18 final size:18
Alignment explanation
Indices: 254306--254358 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
254296 AAATTTTGGC
254306 TTTTTTGTTTTGTTTTTGT
1 TTTTTTGTTTT-TTTTTGT
*
254325 TTTTTTGTCTTTTTTTGT
1 TTTTTTGTTTTTTTTTGT
*
254343 CTTTTTGTTTTTTTTT
1 TTTTTTGTTTTTTTTT
254359 TAAAATAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 21 0.68
19 10 0.32
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (18 bp):
TTTTTTGTTTTTTTTTGT
Found at i:254329 original size:8 final size:8
Alignment explanation
Indices: 254318--254356 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
254308 TTTTGTTTTG
254318 TTTTTGTT
1 TTTTTGTT
254326 TTTTTGTCTT
1 TTTTTG--TT
*
254336 TTTTTGTC
1 TTTTTGTT
254344 TTTTTGTT
1 TTTTTGTT
254352 TTTTT
1 TTTTT
254357 TTTAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (8 bp):
TTTTTGTT
Found at i:254358 original size:10 final size:9
Alignment explanation
Indices: 254306--254357 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
254296 AAATTTTGGC
254306 TTTTTTGTT
1 TTTTTTGTT
254315 TTGTTTT-TGT
1 TT-TTTTGT-T
254325 TTTTTTGTCT
1 TTTTTTGT-T
254335 TTTTTTG-T
1 TTTTTTGTT
*
254343 CTTTTTGTT
1 TTTTTTGTT
254352 TTTTTT
1 TTTTTT
254358 TTAAAATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.19
9 13 0.36
10 16 0.44
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:257054 original size:14 final size:14
Alignment explanation
Indices: 257013--257055 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
257003 TTCTTAAAAA
*
257013 ATTATAAATATATC
1 ATTATAAATATATT
*
257027 AAT-TAAAT-TATT
1 ATTATAAATATATT
257039 ATTATAAATATATT
1 ATTATAAATATATT
257053 ATT
1 ATT
257056 TTATCTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATAAATATATT
Found at i:261107 original size:20 final size:19
Alignment explanation
Indices: 261082--261135 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
261072 GCGAAATAAA
261082 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
261102 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
261122 AATCGCAACGCGAT
1 AATCGCAACGCGAT
261136 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:261197 original size:21 final size:21
Alignment explanation
Indices: 261082--261197 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 21
261072 GCGAAATAAA
*
261082 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
261102 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* **
261122 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
261143 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
261163 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
261185 AATCGCAACGCGA
1 AATCGCAACGCGA
261198 ACATATAAAT
Statistics
Matches: 70, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 42 0.60
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:261276 original size:41 final size:41
Alignment explanation
Indices: 261226--261437 Score: 311
Period size: 41 Copynumber: 5.2 Consensus size: 41
261216 GATTCTGACT
* * * *
261226 ATCGCAACGAGTATCCGTAAAATCACAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
261267 ATCGTAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
261308 ATCGCAATGAGAATACGT-AAATTGCAACGCGTATCGGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
261348 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
261388 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
261429 ATCGCAACG
1 ATCGCAACG
261438 CGATCGATAA
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 73 0.48
41 80 0.52
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:261368 original size:60 final size:61
Alignment explanation
Indices: 261226--261435 Score: 237
Period size: 61 Copynumber: 3.4 Consensus size: 61
261216 GATTCTGACT
* * * * * * *
261226 ATCGCAACGAGTATCCGTAAAATCACAACGTGTATCCGTAAATCGTAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGT-AAATCGCAATGAGAATACGTAAATCGCAACGACAATACGTAAA
* *
261288 ATCGCAACGCGTATCCGTAAATCGCAATGAGAATACGTAAATTGCAACG-C-GTATCGGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAATGAGAATACGTAAATCGCAACGACAATA-C-GTAAA
* * * * * *
261348 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAATGAGAATACGTAAATCGCAACGACAATACGTAAA
261409 ATCGCAACGCGTATCCGTAAATCGCAA
1 ATCGCAACGCGTATCCGTAAATCGCAA
261436 CGCGATCGAT
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
59 2 0.02
60 48 0.39
61 54 0.44
62 19 0.15
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (61 bp):
ATCGCAACGCGTATCCGTAAATCGCAATGAGAATACGTAAATCGCAACGACAATACGTAAA
Found at i:261438 original size:20 final size:20
Alignment explanation
Indices: 261226--261458 Score: 213
Period size: 20 Copynumber: 11.6 Consensus size: 20
261216 GATTCTGACT
*
261226 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
* *
261247 ATCACAACGTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
261267 ATCGTAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
261288 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
261308 ATCGCAATGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
261328 ATTGCAACGCGTATCGGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
261348 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
261368 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
261388 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
261409 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
261429 ATCGCAACGCG-AT-CGATAA
1 ATCGCAACGCGTATCCG-TAA
*
261448 TTCGCAACGCG
1 ATCGCAACGCG
261459 ATCTCCGGCA
Statistics
Matches: 170, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
18 2 0.01
19 15 0.09
20 105 0.62
21 48 0.28
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:261454 original size:19 final size:18
Alignment explanation
Indices: 261203--261461 Score: 151
Period size: 20 Copynumber: 12.9 Consensus size: 18
261193 CGCGAACATA
261203 TAAATCGCAACGCGATTC-
1 TAAATCGCAACGCGA-TCG
* *
261221 TGACTATCGCAACGAGTATCCG
1 T-A-AATCGCAACGCG-AT-CG
* *
261243 TAAAATCACAACGTGTATCCG
1 T-AAATCGCAACGCG-AT-CG
* *
261264 TAAATCGTAACGACAATACG
1 TAAATCGCAACG-CGAT-CG
261284 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCG-AT-CG
* *
261305 TAAATCGCAATGAGAATACG
1 TAAATCGCAACGCG-AT-CG
*
261325 TAAATTGCAACGCGTATCGG
1 TAAATCGCAACGCG-ATC-G
*
261345 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCG-AT-CG
*
261365 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCG-AT-CG
*
261385 TAAATCGCAACGACAATACG
1 TAAATCGCAACG-CGAT-CG
261405 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCG-AT-CG
261426 TAAATCGCAACGCGATCG
1 TAAATCGCAACGCGATCG
*
261444 ATAATTCGCAACGCGATC
1 -TAAATCGCAACGCGATC
261462 TCCGGCATCG
Statistics
Matches: 192, Mismatches: 35, Indels: 27
0.76 0.14 0.11
Matches are distributed among these distances:
18 3 0.02
19 20 0.10
20 116 0.60
21 51 0.27
22 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (18 bp):
TAAATCGCAACGCGATCG
Found at i:261538 original size:21 final size:21
Alignment explanation
Indices: 261509--261553 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
261499 ATTCTTACTA
261509 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
261530 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
261551 TCG
1 TCG
261554 TAACGCGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:261580 original size:20 final size:20
Alignment explanation
Indices: 261567--261696 Score: 190
Period size: 20 Copynumber: 6.5 Consensus size: 20
261557 CGCGATTACA
*
261567 TAAATCGCAACGCGAATACG
1 TAAATCGCAATGCGAATACG
* *
261587 TAAATCGTAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
261607 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
261627 TAAATCGCAATACGAATACG
1 TAAATCGCAATGCGAATACG
*
261647 TAAATCACAATGCGAATACG
1 TAAATCGCAATGCGAATACG
261667 TAAATCGCAATGCGAAT-CTG
1 TAAATCGCAATGCGAATAC-G
261687 TAAATCGCAA
1 TAAATCGCAA
261697 CGAAATTCTG
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
19 1 0.01
20 99 0.99
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:261596 original size:40 final size:40
Alignment explanation
Indices: 261551--261696 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
261541 TTTTCCTAAT
* * *
261551 TCGTAACGCGATTACATAAATCGCAACGCGAATACGTAAA
1 TCGTAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
*
261591 TCGTAATGCGATTACGTAAATCGCAATGCGATTACGTAAA
1 TCGTAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
* * * *
261631 TCGCAATACGAATACGTAAATCACAATGCGAATACGTAAA
1 TCGTAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
* *
261671 TCGCAATGCGAAT-CTGTAAATCGCAA
1 TCGTAATGCGATTAC-GTAAATCGCAA
261697 CGAAATTCTG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.99
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (40 bp):
TCGTAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
Found at i:262115 original size:14 final size:14
Alignment explanation
Indices: 262096--262132 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
262086 CATCAATTAA
262096 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
262110 ACAAATCATCTTTT
1 ACAAATCAACATTT
262124 ACAAATCAA
1 ACAAATCAA
262133 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:263593 original size:42 final size:42
Alignment explanation
Indices: 263514--263593 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
263504 TGATGACAAT
* * **
263514 GGCCTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGG
1 GGCCTCTTGAACGATGGGAGAGGACTCTTGAACGATGATAGG
*
263556 GGCCTCTTGAACGATAGGG-GAGGCCTCTTGAACGATGA
1 GGCCTCTTGAACGAT-GGGAGAGGACTCTTGAACGATGA
263594 CAGGTGAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (42 bp):
GGCCTCTTGAACGATGGGAGAGGACTCTTGAACGATGATAGG
Done.