Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 246 of 297
Found at i:84155441 original size:46 final size:46
Alignment explanation
Indices: 84155350--84155516 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
84155340 GAGAACCAGC
*** *
84155350 GTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCCCCATCGAGACGAAAGCTAGT
*
84155398 GTAAGACATGTCTGGGACATGCATCCCCCTCGAGAC-ATAAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCCCCATCGAGACGA-AAGCTAGT
* ** * * *
84155444 GTAAGATATGTCTGGGACATGCATCGAC-TACAAGAGGATAG-TCAGT
1 GTAAGACATGTCTGGGACATGCATCCCCAT-CGAGACGAAAGCT-AGT
84155490 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
84155517 AGCACCTTAC
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 59 0.58
47 28 0.28
48 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCCCCATCGAGACGAAAGCTAGT
Found at i:84161234 original size:31 final size:29
Alignment explanation
Indices: 84161179--84161236 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
84161169 TGCATTATAT
*
84161179 ATATATATGCTGAATTAAGTTGTAAAAGA
1 ATATAAATGCTGAATTAAGTTGTAAAAGA
84161208 ATATAAATG-TGAAGTTGAAGTATGTAAAA
1 ATATAAATGCTGAA-TT-AAGT-TGTAAAA
84161237 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (29 bp):
ATATAAATGCTGAATTAAGTTGTAAAAGA
Found at i:84162488 original size:13 final size:13
Alignment explanation
Indices: 84162470--84162494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84162460 CGTGTGTGAC
84162470 ACACAGCCATGTT
1 ACACAGCCATGTT
84162483 ACACAGCCATGT
1 ACACAGCCATGT
84162495 GTCCCCTGGG
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:0.32, G:0.16, T:0.20
Consensus pattern (13 bp):
ACACAGCCATGTT
Found at i:84165502 original size:46 final size:44
Alignment explanation
Indices: 84165449--84165716 Score: 170
Period size: 47 Copynumber: 5.8 Consensus size: 44
84165439 ATTTTTGGCT
*
84165449 AGTGTAAGACAT-TTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTT-TGGGACATGCATCGG-CACATGA-GAGAGCC
* * ***
84165495 AGTGTAAGACCATGTCTGGAACATGGCATCGGCAC-TGAGACAAGAATT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCACATGAG---AGAGCC
*
84165543 AGTGTAAGACATGTTTGGGACATGAATCGGC-CATGAGACGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCACATGAGA-G--AGCC
* *
84165589 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCGGC-AC-ATGA-GAGAGCC
** * *
84165635 AGTGTAAGACCATGTCAGGGACACGGCATC-G-ACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTTTGGGACA-TGCATCGGCACATGAGA---GAGCC
* *
84165682 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCAC
84165717 CTTACCCATG
Statistics
Matches: 175, Mismatches: 24, Indels: 43
0.72 0.10 0.18
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 6 0.03
46 65 0.37
47 66 0.38
48 29 0.17
49 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCACATGAGAGAGCC
Found at i:84165696 original size:140 final size:140
Alignment explanation
Indices: 84165449--84165706 Score: 326
Period size: 140 Copynumber: 1.8 Consensus size: 140
84165439 ATTTTTGGCT
* *
84165449 AGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATTTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCAGG
* ** *
84165514 AACATGGCATCGGCACTGAGACAAGAATTAGTGTAAGACATGTTTGGGACATGAATCGGCCATGA
66 AACACGGCATCGGCACTGAGACAAGAACCAGTGTAAGACATGTCTGGGACATGAATCGGCCATGA
84165579 GACGTAAGCC
131 GACGTAAGCC
* * *
84165589 AGTGTAAGACATGTT-TGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCA
1 AGTGTAAGACAT-TTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCA
* *** *
84165652 GGGACACGGCATC-G-ACTTGAGATGTGAGCCAGTGTAAGACCATGTCTGGGACATG
64 GGAACACGGCATCGGCAC-TGAGACAAGAACCAGTGTAAGA-CATGTCTGGGACATG
84165707 GCATTGGCAC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 2 0.02
139 17 0.17
140 78 0.78
141 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATTTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCAGG
AACACGGCATCGGCACTGAGACAAGAACCAGTGTAAGACATGTCTGGGACATGAATCGGCCATGA
GACGTAAGCC
Found at i:84165710 original size:47 final size:48
Alignment explanation
Indices: 84165490--84165710 Score: 197
Period size: 47 Copynumber: 4.7 Consensus size: 48
84165480 CACATTATGA
* **
84165490 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAC-TGAGACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTTGAGACGT
*** * * * *
84165538 GAATTAGTGTAAGA-CATGTTTGGGACAT-GAATCGGCCATGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
* * * *
84165584 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACT-TGAGACG-T
* * * *
84165631 -AGTCAGTGTAAGACCATGTCAGGGACACGGCATC-GACTTGAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
84165677 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
84165711 TGGCACCTTA
Statistics
Matches: 141, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 61 0.43
48 18 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
Found at i:84167332 original size:19 final size:20
Alignment explanation
Indices: 84167295--84167333 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
84167285 ATAATGAGCA
84167295 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
84167315 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
84167334 CTTTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:84170141 original size:24 final size:24
Alignment explanation
Indices: 84170104--84170190 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
84170094 AGACTCACCA
84170104 CAGCTCATATGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACTATTTT
**
84170128 CAGCTCAT-TGGAGCTTACCGTTTT
1 CAGCTCATAT-GAGCTTACTATTTT
*
84170152 -AGCTCATATGAGCTTAC--TGTT
1 CAGCTCATATGAGCTTACTATTTT
84170173 CAGCTCGATA-GAGCTTAC
1 CAGCTC-ATATGAGCTTAC
84170191 CGTTTCAGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
21 3 0.05
22 13 0.23
23 19 0.34
24 21 0.38
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTATTTT
Found at i:84170164 original size:23 final size:23
Alignment explanation
Indices: 84170105--84170227 Score: 110
Period size: 23 Copynumber: 5.3 Consensus size: 23
84170095 GACTCACCAC
*
84170105 AGCTCATATGAGCTTACTATTTT
1 AGCTCATATGAGCTTACTGTTTT
*
84170128 CAGCTCAT-TGGAGCTTACCGTTTT
1 -AGCTCATAT-GAGCTTACTGTTTT
*
84170152 AGCTCATATGAGCTTACTG-TTC
1 AGCTCATATGAGCTTACTGTTTT
* *
84170174 AGCTCGATA-GAGCTTACCGTTTC
1 AGCTC-ATATGAGCTTACTGTTTT
*
84170197 AGCTTA-ATAGAGCTTACTGTTCATT
1 AGCTCATAT-GAGCTTACTGTT--TT
84170222 AGCTCA
1 AGCTCA
84170228 GGAGGAGCCG
Statistics
Matches: 82, Mismatches: 9, Indels: 15
0.77 0.08 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 38 0.46
24 20 0.24
25 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTGTTTT
Found at i:84170190 original size:45 final size:45
Alignment explanation
Indices: 84170104--84170219 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 45
84170094 AGACTCACCA
* *
84170104 CAGCTCATATGAGCTTACTATTTTCAGCTCATTGGAGCTTACCGTTT
1 CAGCTCATATGAGCTTAC--TGTTCAGCTCATTAGAGCTTACCGTTT
*
84170151 TAGCTCATATGAGCTTACTGTTCAGCTCGA-TAGAGCTTACCGTTT
1 CAGCTCATATGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCGTTT
*
84170196 CAGCTTA-ATAGAGCTTACTGTTCA
1 CAGCTCATAT-GAGCTTACTGTTCA
84170220 TTAGCTCAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 2 0.03
45 42 0.68
46 1 0.02
47 17 0.27
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (45 bp):
CAGCTCATATGAGCTTACTGTTCAGCTCATTAGAGCTTACCGTTT
Found at i:84171911 original size:40 final size:40
Alignment explanation
Indices: 84171833--84172013 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
84171823 ACCCAAGTAT
* *
84171833 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
84171872 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
84171912 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
84171952 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
84171992 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
84172014 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.08
40 118 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:84180535 original size:15 final size:15
Alignment explanation
Indices: 84180515--84180545 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84180505 GTGTTCTTGA
84180515 AAGTATCTCCATGGG
1 AAGTATCTCCATGGG
*
84180530 AAGTATCTCTATGGG
1 AAGTATCTCCATGGG
84180545 A
1 A
84180546 GAAAGTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (15 bp):
AAGTATCTCCATGGG
Found at i:84183922 original size:40 final size:40
Alignment explanation
Indices: 84183563--84183908 Score: 536
Period size: 40 Copynumber: 8.7 Consensus size: 40
84183553 TCGAATGATG
* * * * *
84183563 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
84183603 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84183643 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84183683 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84183723 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84183763 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84183803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84183843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
84183884 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
84183909 AACGAGTAGC
Statistics
Matches: 291, Mismatches: 11, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
39 1 0.00
40 280 0.96
41 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84186896 original size:86 final size:85
Alignment explanation
Indices: 84186739--84186898 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
84186729 AGCTCATACA
* *
84186739 ATGCCAACGTCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCTAGATAGGGT
1 ATGCCAACGCCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGATAGGGT
84186804 CTTACACAAAATCAAATATG
66 CTTACACAAAATCAAATATG
*
84186824 ATGCCAACGCCCCAAA-AGTGGTCTTAC-TCGTCAATCATAA-GTCGATGCCAAC-ATCCCAGA-
1 ATGCCAACGCCCCAAATA-TGGTCTTACAT-GT-AATCA-AATATCGATGCC-ACTATCCCAGAT
*
84186884 CGTGGTCTTACACAA
61 AG-GGTCTTACACAA
84186899 GAACACATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
84 2 0.03
85 27 0.42
86 32 0.49
87 4 0.06
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (85 bp):
ATGCCAACGCCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGATAGGGT
CTTACACAAAATCAAATATG
Found at i:84194272 original size:11 final size:11
Alignment explanation
Indices: 84194256--84194282 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
84194246 TCATAGACCT
84194256 TAAAATAATCA
1 TAAAATAATCA
84194267 TAAAATAATCA
1 TAAAATAATCA
84194278 TAAAA
1 TAAAA
84194283 CATGAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAATAATCA
Found at i:84197198 original size:12 final size:12
Alignment explanation
Indices: 84197181--84197205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84197171 TTTTGGATGA
84197181 ATTTGATTGAAT
1 ATTTGATTGAAT
84197193 ATTTGATTGAAT
1 ATTTGATTGAAT
84197205 A
1 A
84197206 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:84197642 original size:43 final size:43
Alignment explanation
Indices: 84197481--84197651 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
84197471 CATAGGATTC
* *
84197481 CGATATGTGATTTCGTGTAAGGCCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * ** *
84197524 CGATTTGTGAATTTCTTGTAAGACCATGTCTGGGATA-TCAGTAT
1 CGATATGTG-ATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * *
84197568 CG-TATATGAGTTCTGTAAGACC-CTTTTTGGGACAG-TGGCAT
1 CGATATGTGATTTCTGTAAGACCAC-GTCTGGGACAGTTGGCAT
*
84197609 CGATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
84197652 TGTACAGGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 21 0.22
42 13 0.13
43 34 0.35
44 29 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCTGTAAGACCACGTCTGGGACAGTTGGCAT
Found at i:84206423 original size:26 final size:26
Alignment explanation
Indices: 84206390--84206466 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
84206380 GCCAACACAC
*
84206390 TAATATCGCAGCAAAGCTACCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* *
84206416 TAATATCGCAGCAGAGTTGCCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* * *
84206442 CAGTAACGCAGCAAAGCTGCCAGTA
1 TAATATCGCAGCAAAGCTGCCAGTA
84206467 TTAGTATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
TAATATCGCAGCAAAGCTGCCAGTAA
Found at i:84207248 original size:17 final size:17
Alignment explanation
Indices: 84207226--84207260 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
84207216 TAATAATACT
84207226 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
84207243 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
84207260 T
1 T
84207261 CTTCTGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.23, G:0.06, T:0.14
Consensus pattern (17 bp):
TAATCCAAAAAGAACAC
Found at i:84212796 original size:27 final size:27
Alignment explanation
Indices: 84212765--84212942 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84212755 TAAATTGTAC
84212765 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84212792 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84212818 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84212846 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84212874 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84212901 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84212928 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84212943 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84212879 original size:82 final size:81
Alignment explanation
Indices: 84212766--84212921 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84212756 AAATTGTACA
* *
84212766 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84212830 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84212847 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84212912 TGCGAGTTGA
65 TGCGAATTGA
84212922 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84212933 original size:82 final size:81
Alignment explanation
Indices: 84212762--84212942 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84212752 GATTAAATTG
* *
84212762 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84212827 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84212843 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84212907 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84212925 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84212943 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84220859 original size:27 final size:27
Alignment explanation
Indices: 84220828--84221005 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84220818 TAAATTGTAC
84220828 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84220855 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84220881 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84220909 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84220937 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84220964 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84220991 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84221006 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84220942 original size:82 final size:81
Alignment explanation
Indices: 84220829--84220984 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84220819 AAATTGTACA
* *
84220829 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84220893 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84220910 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84220975 TGCGAGTTGA
65 TGCGAATTGA
84220985 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84220996 original size:82 final size:81
Alignment explanation
Indices: 84220825--84221005 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84220815 GATTAAATTG
* *
84220825 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84220890 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84220906 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84220970 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84220988 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84221006 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84226237 original size:43 final size:42
Alignment explanation
Indices: 84226189--84226284 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
84226179 GTAGATATGG
* * *
84226189 TGGTCTTACATGAAA-TCCCGTATCGATGCCAATAGCCCAGCTA
1 TGGTCTTACA-CAAAGTCCCATATCGATGCC-ATAGCCCAGATA
* *
84226232 TGGTCTTACACAAAGTCTCATATCGATGCCATATCCCAGATA
1 TGGTCTTACACAAAGTCCCATATCGATGCCATAGCCCAGATA
84226274 TGGTCTTACAC
1 TGGTCTTACAC
84226285 GTAATCTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
42 24 0.51
43 23 0.49
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACAAAGTCCCATATCGATGCCATAGCCCAGATA
Found at i:84230391 original size:71 final size:71
Alignment explanation
Indices: 84230270--84230527 Score: 426
Period size: 71 Copynumber: 3.6 Consensus size: 71
84230260 CCTTATAATG
* * * * * **
84230270 TAGCCTTTTAGCTACTGACTTATTTCACTTTGATACTTACGGCAAGGGTATCAAACCTTGGGCAT
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
84230335 ATACTA
66 ATACTA
84230341 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
84230406 ATACTA
66 ATACTA
84230412 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
84230477 ATACTA
66 ATACTA
* * *
84230483 TAGCATTTTAGCTACTTACTTATTTTAGTCTGATACTTATCGCAA
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAA
84230528 CCCTGGTCCT
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 177 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (71 bp):
TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
ATACTA
Found at i:84233306 original size:86 final size:85
Alignment explanation
Indices: 84233202--84233361 Score: 189
Period size: 86 Copynumber: 1.9 Consensus size: 85
84233192 ATATGTGTTA
* * * * *
84233202 TCGTGTAAGACCAGGTCTGGGAC-GTTGGCATCGAT-TTCTGATTTACGTGTAAGACCATGTCTA
1 TCGTCTAAGACCAGGTCTGAGACAG-TAGCATCGATATT-TGA-TTACATGTAAGACCACGTCTA
84233265 GAACATTGGCATCGTATATGATT
63 GAACATTGGCATCGTATATGATT
** * * *
84233288 TCGTCTAAGACCCTGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTTTGGGA
1 TCGTCTAAGACCAGGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTCTAGAA
84233353 CATTGGCAT
66 CATTGGCAT
84233362 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 28 0.45
86 31 0.50
87 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (85 bp):
TCGTCTAAGACCAGGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTCTAGAA
CATTGGCATCGTATATGATT
Found at i:84233330 original size:43 final size:44
Alignment explanation
Indices: 84233229--84233343 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 44
84233219 TGGGACGTTG
* * *
84233229 GCATCGAT-TTCTGATTTACGTGTAAGACCATGTCTAGAACATTG
1 GCATCGATATT-TGATTTACGTCTAAGACCATGTCTAGAACAGTA
* *
84233273 GCATCG-TATATGATTT-CGTCTAAGACCCTGTCT-GAGACAGTA
1 GCATCGATATTTGATTTACGTCTAAGACCATGTCTAGA-ACAGTA
* *
84233315 GCATCGATATTTGA-TTACATGTAAGACCA
1 GCATCGATATTTGATTTACGTCTAAGACCA
84233344 CGTTTGGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.47
43 22 0.38
44 7 0.12
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
GCATCGATATTTGATTTACGTCTAAGACCATGTCTAGAACAGTA
Found at i:84252297 original size:42 final size:43
Alignment explanation
Indices: 84252193--84252324 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 43
84252183 TAGTATTTCA
* * *
84252193 ATATATG-TTATCGTGTAAG-CCACGTCTAGGACGTTGGCATTG
1 ATATATGATT-TCGTGTAAGACCATGTCTGGGACATTGGCATTG
* *
84252235 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTG
1 ATATATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATTG
* * * * *
84252279 -TATATGATTTCGTGTAAGACCCTATCTGGAACAGTGGCATCG
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTG
84252321 ATAT
1 ATAT
84252325 TTTATTACAT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
42 33 0.45
43 21 0.28
44 20 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTG
Found at i:84254102 original size:27 final size:26
Alignment explanation
Indices: 84254058--84254109 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84254048 CTCGCTGCAA
*
84254058 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
84254085 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
84254110 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:84271678 original size:34 final size:34
Alignment explanation
Indices: 84271640--84271719 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
84271630 GCAAATAGTC
* *
84271640 TGGGCCTAAGCCC-TTAACAGTAGCAATATCAGTG
1 TGGGCCTTAGCCCATT-ACAGTAACAATATCAGTG
*
84271674 TGGGCCTTAGCCCATTACAGTAACAGTATCAGTG
1 TGGGCCTTAGCCCATTACAGTAACAATATCAGTG
84271708 TGGGCCTTAGCC
1 TGGGCCTTAGCC
84271720 TAATTCAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAACAATATCAGTG
Found at i:84271729 original size:34 final size:34
Alignment explanation
Indices: 84271656--84271738 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
84271646 TAAGCCCTTA
* *
84271656 ACAGTAGCAATATCAGTGTGGGCCTTAGCCCATT
1 ACAGTAACAATATCAGTGTGGGCCTTAGCCAATT
*
84271690 ACAGTAACAGTATCAGTGTGGGCCTTAGCCTAATT
1 ACAGTAACAATATCAGTGTGGGCCTTAGCC-AATT
*
84271725 -CAGT-ACATTATCAG
1 ACAGTAACAATATCAG
84271739 AGATACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 9 0.20
34 32 0.73
35 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
ACAGTAACAATATCAGTGTGGGCCTTAGCCAATT
Found at i:84276475 original size:49 final size:47
Alignment explanation
Indices: 84276357--84276486 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 47
84276347 TATAATGCCA
* **
84276357 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAATCAAGCCG
* * * *
84276404 ATGCCATTTTCCAAACATGGTCTTACACTGGCT-ATCGTAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--AATC-AAGCCG
*
84276453 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
84276487 TCACATATCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 3 0.04
47 30 0.44
48 3 0.04
49 32 0.47
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAATCAAGCCG
Found at i:84276555 original size:30 final size:30
Alignment explanation
Indices: 84276519--84276580 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
84276509 TGTCCCAGAC
* *
84276519 ATAGTCTTACATTGACACATCTCATAGTCG
1 ATAGTCTTACACTGACACATCTCATAGCCG
*
84276549 ATAGTCTTACACTGGCACATCTCATAGCCG
1 ATAGTCTTACACTGACACATCTCATAGCCG
84276579 AT
1 AT
84276581 CCATGTCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (30 bp):
ATAGTCTTACACTGACACATCTCATAGCCG
Found at i:84276632 original size:46 final size:45
Alignment explanation
Indices: 84276552--84276703 Score: 184
Period size: 46 Copynumber: 3.3 Consensus size: 45
84276542 ATAGTCGATA
* *
84276552 GTCTTACACTGGC--ACATCTCATAGCCGATCCATGTCCCAGACAT
1 GTCTTACACTGGCTTACATCTCA-AGCCAATGCATGTCCCAGACAT
*
84276596 GTCTTACACTGGCTTACATCTCAAGGCCAATGCATGTCGCAGACAT
1 GTCTTACACTGGCTTACATCTCAA-GCCAATGCATGTCCCAGACAT
* *
84276642 GTCTTACACTAGCTCT-CGTCTCAATGCCAATGCCATGTCCCAGACAT
1 GTCTTACACTGGCT-TACATCTCAA-GCCAATG-CATGTCCCAGACAT
84276689 GGTCTTACACTGGCT
1 -GTCTTACACTGGCT
84276704 CTCCAATAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
44 13 0.14
45 1 0.01
46 53 0.56
47 14 0.15
48 13 0.14
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGGCTTACATCTCAAGCCAATGCATGTCCCAGACAT
Found at i:84285365 original size:44 final size:42
Alignment explanation
Indices: 84285286--84285397 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 42
84285276 TCCAATATGT
* * * **
84285286 GATTTTGTGTAAGACCATGTCTGAGACTTTGGCATCGAT-TTGA
1 GATTTCGTGTAAGACCATGTCTGGGACATCAGCATC-ATATT-A
*
84285329 GATTTACGTGTAAGACCATGTCTGGGACATCAGCATCATATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACATCAGCATCATATTA
* *
84285372 GATTTCGTGTAAGACCTTTTCTGGGA
1 GATTTCGTGTAAGACCATGTCTGGGA
84285398 TAGTGGCATC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 19 0.32
43 12 0.20
44 28 0.47
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATCAGCATCATATTA
Found at i:84285414 original size:43 final size:42
Alignment explanation
Indices: 84285280--84285436 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
84285270 TAGGATTCCA
* * * *
84285280 ATATGTGATTTTGTGTAAGACCATGTCTGAGACTTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGA-TATGGCATCG
* * *
84285323 AT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCAGCATC-
1 ATATT-TGATTT-CGTGTAAGACCATGTCTGGGATAT-GGCATCG
* *
84285366 ATATTTGATTTCGTGTAAGACCTTTTCTGGGATAGTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGATA-TGGCATCG
* * *
84285409 ATATTTGATTACATGTAAGACCACGTCT
1 ATATTTGATTTCGTGTAAGACCATGTCT
84285437 TGTACTGCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 26 0.29
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
ATATTTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCG
Found at i:84286758 original size:225 final size:208
Alignment explanation
Indices: 84286367--84286800 Score: 654
Period size: 225 Copynumber: 2.0 Consensus size: 208
84286357 TGGCTAGGGT
*
84286367 TTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCTCGTTTTTAATGATTTTTACGTTTT
1 TTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCTCGTTTTTAATGATTCTTACGTTTT
*
84286432 TGGAGTCCCGGTAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAA
66 TGGAGTCCCCGTAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAA
84286497 AAATACCCAGAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTAT
131 AAATACCCAGAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTAT
84286562 GTTAGACAACTTG
196 GTTAGACAACTTG
84286575 NNNNNNNNNNNNNNNNNTTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCTCGTTTTT
1 -----------------TTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCTCGTTTTT
*
84286640 AATGATTCTTACGTTTTTGGAGTCCCCGTAGCTCGATTTAGCTTATGCTAGCAATAACTT-AACC
49 AATGATTCTTACGTTTTTGGAGTCCCCGTAGCTCGATTAAGCTTATGCTAGCAATAA-TTCAACC
* *
84286704 TAGGGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAA
113 TAGGGTTCATATTTGGAAAAATACCCAGAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAA
84286769 TATGAGGTTTTAAATTATGTTAGACAACTTG
178 TATGAGGTTTTAAATTATGTTAGACAACTTG
84286800 T
1 T
84286801 GCTACTCGGT
Statistics
Matches: 203, Mismatches: 5, Indels: 19
0.89 0.02 0.08
Matches are distributed among these distances:
208 1 0.00
225 200 0.99
226 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.38
Consensus pattern (208 bp):
TTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCTCGTTTTTAATGATTCTTACGTTTT
TGGAGTCCCCGTAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATTTGGAA
AAATACCCAGAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTAT
GTTAGACAACTTG
Found at i:84293877 original size:22 final size:22
Alignment explanation
Indices: 84293849--84293892 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
84293839 AACATACTAT
84293849 GTCATAACTTAATTTTGGCCTG
1 GTCATAACTTAATTTTGGCCTG
84293871 GTCATAACTTAATTTTGGCCTG
1 GTCATAACTTAATTTTGGCCTG
84293893 AAAGCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (22 bp):
GTCATAACTTAATTTTGGCCTG
Found at i:84301346 original size:40 final size:40
Alignment explanation
Indices: 84301160--84301376 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 40
84301150 CGGATGATAA
* * ** *
84301160 CCGGACTAAGATCCGAAGGCATTCATGCAAGTTGGTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
84301200 CCGGGCCATGTCCCGAAGGCATTTATGCTAA--TGATTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTG-TTATAT
* * *
84301240 CCGGGCTAAGACCCGAAGGCACTTGTGCGAGTTGTTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
84301280 CCGGGCTAAGACCCGAAGGCACTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
84301320 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
84301360 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
84301377 ATGCTTGGGT
Statistics
Matches: 154, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 16 0.10
40 133 0.86
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:84308882 original size:39 final size:40
Alignment explanation
Indices: 84308787--84309009 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
84308777 TTGAATGATG
*
84308787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
84308825 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
84308866 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
84308905 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
84308944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
84308983 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
84309010 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:84308973 original size:79 final size:81
Alignment explanation
Indices: 84308787--84309009 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
84308777 TTGAATGATG
* * *
84308787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
84308849 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
84308866 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
84308927 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
84308944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
84309008 TG
66 TG
84309010 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:84309031 original size:79 final size:79
Alignment explanation
Indices: 84308787--84309042 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
84308777 TTGAATGATG
* * * *
84308787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
84308848 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
84308866 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
84308930 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
84308944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
84309007 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
84309024 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
84309043 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:84317109 original size:5 final size:5
Alignment explanation
Indices: 84317099--84317124 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
84317089 AAGTAAATGA
84317099 AACAT AACAT AACAT AACAT AACAT A
1 AACAT AACAT AACAT AACAT AACAT A
84317125 TCTCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AACAT
Found at i:84320195 original size:27 final size:27
Alignment explanation
Indices: 84320091--84320416 Score: 262
Period size: 27 Copynumber: 12.1 Consensus size: 27
84320081 TTTGCCGGAA
*
84320091 AGGGGTATTTCT-GTAATTTTACACTAC-
1 AGGGGTATTT-TAGTAATTTTACA-AACT
* * *
84320118 AAGGGTATTTTAATAATTTTACACTA-T
1 AGGGGTATTTTAGTAATTTTACA-AACT
* *
84320145 AAGGGTA-TTTCGATAATTTTACAAACT
1 AGGGGTATTTTAG-TAATTTTACAAACT
*
84320172 AGGGGTATTTTAGTAATTTTACAAATT
1 AGGGGTATTTTAGTAATTTTACAAACT
* * * *
84320199 GGGGGTA-TTTCGAAAATTTTACAAACC
1 AGGGGTATTTTAG-TAATTTTACAAACT
** *
84320226 AGGGGTATTTCGGTAGTTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAAACT
* *
84320253 -GGGGTATTTCAGTAATTTTACAAATT
1 AGGGGTATTTTAGTAATTTTACAAACT
* *
84320279 GGGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAAACT
*
84320306 GGGGGTATTTT-GATAATTTTACAAACT
1 AGGGGTATTTTAG-TAATTTTACAAACT
*
84320333 -GAGGGTATTTTGGTAATTTTA-AAA-T
1 AG-GGGTATTTTAGTAATTTTACAAACT
*
84320358 CAGGGGTATTTT-GATAATTTTACAAACC
1 -AGGGGTATTTTAG-TAATTTTACAAACT
* * *
84320386 ACGGGTA-TTTCGATAATTTTACAAACC
1 AGGGGTATTTTAG-TAATTTTACAAACT
84320413 AGGG
1 AGGG
84320417 TCTTAATGAC
Statistics
Matches: 255, Mismatches: 27, Indels: 34
0.81 0.09 0.11
Matches are distributed among these distances:
25 2 0.01
26 57 0.22
27 188 0.74
28 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAAACT
Found at i:84320205 original size:54 final size:54
Alignment explanation
Indices: 84320091--84320410 Score: 314
Period size: 54 Copynumber: 6.0 Consensus size: 54
84320081 TTTGCCGGAA
* * * *
84320091 AGGGGTATTTCTG-TAATTTTACACTAC-AAGGGTATTTTAATAATTTTAC-ACTAT
1 AGGGGTATTTC-GATAATTTTACA-AACTAGGGGTATTTTAGTAATTTTACAAAT-T
*
84320145 AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * ** * *
84320199 GGGGGTATTTCGAAAATTTTACAAACCAGGGGTATTTCGGTAGTTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * *
84320253 -GGGGTATTTC-AGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCGA-TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * *
84320306 GGGGGTATTTTGATAATTTTACAAACT-GAGGGTATTTTGGTAATTTTA-AAATC
1 AGGGGTATTTCGATAATTTTACAAACTAG-GGGTATTTTAGTAATTTTACAAATT
* * * *
84320359 AGGGGTATTTTGATAATTTTACAAACCACGGGTA-TTTCGATAATTTTACAAA
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAG-TAATTTTACAAA
84320411 CCAGGGTCTT
Statistics
Matches: 227, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
52 5 0.02
53 90 0.40
54 129 0.57
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
Found at i:84320289 original size:80 final size:80
Alignment explanation
Indices: 84320147--84320411 Score: 381
Period size: 80 Copynumber: 3.3 Consensus size: 80
84320137 TACACTATAA
84320147 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
1 GGGTATTTCGATAATTTTACAAACT-GGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
*
84320212 AAATTTTACAAACCAG
65 TAATTTTACAAACCAG
* * *
84320228 GGGTATTTCGGTAGTTTTACAAACTGGGGTATTTCAGTAATTTTACAAATTGGGGGTATTTC-AG
1 GGGTATTTCGATAATTTTACAAACTGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA-
**
84320292 TAATTTTACAAACTGG
65 TAATTTTACAAACCAG
* * ** *
84320308 GGGTATTTTGATAATTTTACAAACTGAGGGTATTTTGGTAATTTTA-AAATCAGGGGTATTTTGA
1 GGGTATTTCGATAATTTTACAAACTG-GGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
*
84320372 TAATTTTACAAACCAC
65 TAATTTTACAAACCAG
84320388 GGGTATTTCGATAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAAC
84320412 CAGGGTCTTA
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 121 0.74
81 41 0.25
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
GGGTATTTCGATAATTTTACAAACTGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGAT
AATTTTACAAACCAG
Found at i:84320298 original size:107 final size:107
Alignment explanation
Indices: 84320147--84320411 Score: 349
Period size: 107 Copynumber: 2.5 Consensus size: 107
84320137 TACACTATAA
* *
84320147 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
1 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGA
* *
84320212 AAATTTTACAAACCAG-GGGTATTTCGGTAGTTTTACAAA-CTG
66 AAATTTTACAAA-CAGAGGGTATTTCGGTAATTTTA-AAATCAG
* * *
84320254 GGGTATTTC-AGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTTG
1 GGGTATTTCGA-TAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCG
* * *
84320318 ATAATTTTACAAACTGAGGGTATTTTGGTAATTTTAAAATCAG
65 AAAATTTTACAAACAGAGGGTATTTCGGTAATTTTAAAATCAG
* * *
84320361 GGGTATTTTGATAATTTTACAAACCACGGGTATTTC-GATAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAG-TAATTTTACAAAC
84320412 CAGGGTCTTA
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
106 7 0.05
107 130 0.94
108 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (107 bp):
GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGA
AAATTTTACAAACAGAGGGTATTTCGGTAATTTTAAAATCAG
Found at i:84325175 original size:50 final size:50
Alignment explanation
Indices: 84325015--84325199 Score: 259
Period size: 49 Copynumber: 3.7 Consensus size: 50
84325005 GAAGTTATCC
* *
84325015 GGTACGCATAGTAGCCTAG-ACTTAGTACTACACATGCGACC-AACAATCT
1 GGTACACATAGTAGCCT-GCACTTAGTACTACACATGTGACCTAACAATCT
*
84325064 GGTACACATAGTAGCCTGCACTTAGTACTACACA-GTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
** * * * *
84325113 CATACACGTAGTAGCCTGCACTTAGTACTGCACATGTGACCTAACTATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
84325163 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
84325200 AACACCACAA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 6 0.05
49 68 0.57
50 46 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
Found at i:84325871 original size:6 final size:6
Alignment explanation
Indices: 84325862--84326015 Score: 102
Period size: 6 Copynumber: 24.8 Consensus size: 6
84325852 AATTAAAATG
* * *
84325862 AGAATC AGAATC AGAATC AGGGGA-C AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC A--GAATC AGAATC AGAATC AGAATC AGAAT--C
* *
84325912 AGAATC AGAATC AGGATC ACGTAA-C AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
84325961 AGAATT AGGTGAT- AGAATC AGAATT AGTATC AGGTAAT- AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
84326011 AGAAT
1 AGAAT
84326016 GTAAATGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
5 10 0.09
6 87 0.75
7 11 0.09
8 8 0.07
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:84325895 original size:25 final size:25
Alignment explanation
Indices: 84325862--84325955 Score: 143
Period size: 25 Copynumber: 3.8 Consensus size: 25
84325852 AATTAAAATG
*
84325862 AGAATCAGAATCAGAATCAGGGGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
84325887 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
84325912 AGAATCAGAATCAGGATCACGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
84325937 AGAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
84325956 AAATCAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:84325899 original size:31 final size:31
Alignment explanation
Indices: 84325862--84325993 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
84325852 AATTAAAATG
84325862 AGAATCAGAATCAGAATCAGGGGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
*
84325893 AGAATCAGAAT-----T-AGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
84325918 AGAATCAGGATCACGTAA-CA--GAATCAGAATC
1 AGAATCAGAATCA-G-AATCAGGGGA-CAGAATC
* * * *
84325949 AGAATCAAAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
84325980 AGAATTAGTATCAG
1 AGAATCAGAATCAG
84325994 GTAATAGAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
25 22 0.29
26 1 0.01
29 2 0.03
30 3 0.04
31 46 0.61
32 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGGGACAGAATC
Found at i:84325914 original size:19 final size:19
Alignment explanation
Indices: 84325892--84325987 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 19
84325882 GGGACAGAAT
84325892 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
*
84325911 CAGAATCAGAATCAGGATCACGTAA
1 CAGAATCAGAATTAGG-T---G--A
* *
84325936 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTGA
*
84325953 TCAAAATCAGAATTAGGTGA
1 -CAGAATCAGAATTAGGTGA
*
84325973 TAGAATCAGAATTAG
1 CAGAATCAGAATTAG
84325988 TATCAGGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 12 0.20
19 29 0.48
20 2 0.03
23 1 0.02
24 1 0.02
25 15 0.25
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:84325953 original size:62 final size:62
Alignment explanation
Indices: 84325886--84326015 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
84325876 AATCAGGGGA
*
84325886 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
* * * * *
84325948 CAGAATCAAAATCAGAATTAGGTGATAGAATCAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
84326010 CAGAAT
1 CAGAAT
84326016 GTAAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
Found at i:84325977 original size:25 final size:25
Alignment explanation
Indices: 84325936--84326015 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
84325926 GATCACGTAA
*
84325936 CAGAATCA-G-AATCAGAATCAAAAT
1 CAGAATCAGGTAAT-AGAATCAGAAT
* *
84325960 CAGAATTAGGTGATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
* *
84325985 TAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
84326010 CAGAAT
1 CAGAAT
84326016 GTAAATGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 7 0.16
25 36 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (25 bp):
CAGAATCAGGTAATAGAATCAGAAT
Found at i:84326009 original size:31 final size:30
Alignment explanation
Indices: 84325886--84326015 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 30
84325876 AATCAGGGGA
*
84325886 CAGAATCAGAATCAG-AATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTAA-TAGAAT--CAGAAT
* *
84325917 CAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
* *
84325948 CAGAATCAAAATCAG-AATTAGGTGAT-AGAAT
1 CAGAATCAGAATCAGTAA-TA-G-AATCAGAAT
* *
84325979 CAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
84326010 CAGAAT
1 CAGAAT
84326016 GTAAATGCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 60 0.76
32 8 0.10
33 5 0.06
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (30 bp):
CAGAATCAGAATCAGTAATAGAATCAGAAT
Found at i:84326170 original size:27 final size:26
Alignment explanation
Indices: 84326133--84326240 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
84326123 AGCATGGCTG
*
84326133 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
84326159 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * **
84326186 CCAGAATAGATCTTTGTGGCCTAGCCA
1 CCAGAACAGAT-ATTGTGACAGAGCCA
* * *
84326213 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
84326240 C
1 C
84326241 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.15
27 52 0.76
28 6 0.09
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:84326427 original size:22 final size:22
Alignment explanation
Indices: 84326399--84326463 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
84326389 GCAAATACGT
*
84326399 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
84326421 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
84326443 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
84326464 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:84326695 original size:128 final size:128
Alignment explanation
Indices: 84326533--84326788 Score: 503
Period size: 128 Copynumber: 2.0 Consensus size: 128
84326523 GGTAATATAG
84326533 TCGGCGCACAGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTCGGCTTAA
1 TCGGCGCACAGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTCGGCTTAA
*
84326598 AAGCCACCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTAACAGATCAGATCTTCCTC
66 AAGCCACCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTAACAAATCAGATCTTCCTC
84326661 TCGGCGCACAGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTCGGCTTAA
1 TCGGCGCACAGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTCGGCTTAA
84326726 AAGCCACCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTAACAAATCAGATCTTCCTC
66 AAGCCACCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTAACAAATCAGATCTTCCTC
84326789 CATACAAAAT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (128 bp):
TCGGCGCACAGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTCGGCTTAA
AAGCCACCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTAACAAATCAGATCTTCCTC
Found at i:84327010 original size:27 final size:27
Alignment explanation
Indices: 84326980--84327064 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
84326970 GGGCAAAATG
* * *
84326980 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84327007 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
84327033 GATAATTCTACCCTATAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
84327061 GTAA
1 GTAA
84327065 CTTTGTAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:84327135 original size:27 final size:27
Alignment explanation
Indices: 84327105--84327282 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
84327095 TATAAATTAG
* * *
84327105 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** **
84327132 GGGTATTTCAGTAATTTTACAGGTCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * * *
84327159 GGGTATTTTAGTAAATTCACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
84327186 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
84327212 GGTGTATTTTGGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTACAAATCAA
** *
84327240 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
84327267 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
84327283 CTACCCTACA
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.03
27 122 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:84327147 original size:54 final size:54
Alignment explanation
Indices: 84327071--84327257 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 54
84327061 GTAACTTTGT
*** * * * *
84327071 AAATCGAGGGTAAAACAATAATTCTATAAATTAGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
* ** * * * * *
84327125 AAGTCGAGGGTATTTCAGTAATTTTACAGGTCAAGGGTATTTTAGTAAATTCAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
** * *
84327179 AAATCGAGGGTATTTTGGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
* * **
84327233 AAACCAAGGGTATTTTGGTAATTTT
1 AAATCGAGGGTATTTCAGTAATTTT
84327258 TTAAACCAAG
Statistics
Matches: 104, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
Found at i:84329238 original size:6 final size:6
Alignment explanation
Indices: 84329229--84329382 Score: 111
Period size: 6 Copynumber: 25.0 Consensus size: 6
84329219 AATCAAGTGA
* * * *
84329229 CAGAAT CAGAAT TAGAAT CAGAAT TAG-GT GACAGAAT CAGAAT CAGTAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * *
84329278 CAGGTAA- CAAAAT CAGAAT TAGAAT TAGAAT CA-ATAT CAGGTAA- CAGAAT
1 CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGA-AT CA-G-AAT CAGAAT
* *
84329328 CAGAAT CAGAAT CAGAAT CAGAAT CAGTAT TAGGTAAT -AGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
84329377 CAGAAT
1 CAGAAT
84329383 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
5 9 0.08
6 95 0.80
7 9 0.08
8 5 0.04
9 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
CAGAAT
Found at i:84329239 original size:25 final size:25
Alignment explanation
Indices: 84329205--84329302 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
84329195 AATAAAAATG
*
84329205 AGAATTAGAATTAGAATCAAGTGAC
1 AGAATCAGAATTAGAATCAAGTGAC
84329230 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATTAGAATC---A--A-GTGAC
* * * *
84329261 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATTAGAATCAAGTGAC
*
84329286 AAAATCAGAATTAGAAT
1 AGAATCAGAATTAGAAT
84329303 TAGAATCAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 35 0.59
28 2 0.03
30 1 0.02
31 21 0.36
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAAGTGAC
Found at i:84329270 original size:37 final size:35
Alignment explanation
Indices: 84329229--84329347 Score: 96
Period size: 37 Copynumber: 3.6 Consensus size: 35
84329219 AATCAAGTGA
*
84329229 CAGAATCAGAATTAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATTAGAATCA-AA-TAGGTAACAGAAT
*
84329266 CAGAATCAG---T---ATC----AGGTAACAAAAT
1 CAGAATCAGAATTAGAATCAAATAGGTAACAGAAT
*
84329291 CAGAATTAGAATTAGAATCAATATCAGGTAACAGAAT
1 CAGAATCAGAATTAGAATCAA-AT-AGGTAACAGAAT
*
84329328 CAGAATCAGAATCAGAATCA
1 CAGAATCAGAATTAGAATCA
84329348 GAATCAGTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
25 18 0.28
28 1 0.02
31 6 0.09
34 1 0.02
37 38 0.59
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (35 bp):
CAGAATCAGAATTAGAATCAAATAGGTAACAGAAT
Found at i:84329309 original size:43 final size:43
Alignment explanation
Indices: 84329260--84329382 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
84329250 AATTAGGTGA
84329260 CAGAATCAGAATCAGTATCAGGTAAC---A--A-AATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
* * *
84329297 TAGAATTAGAATCAATATCAGGTAACAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
* *
84329340 CAGAATCAGAATCAGTATTAGGTAATAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
84329383 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
37 23 0.32
40 1 0.01
42 1 0.01
43 47 0.65
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (43 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
Found at i:84329326 original size:31 final size:31
Alignment explanation
Indices: 84329205--84329348 Score: 134
Period size: 31 Copynumber: 4.6 Consensus size: 31
84329195 AATAAAAATG
* * *
84329205 AGAATTAGAATTAGAATCAAGTGACAGAATC
1 AGAATTAGAATCAGAATCAGGTAACAGAATC
* *
84329236 AGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATTAGAATCAGAATCAGGTAACAGAATC
* * * *
84329267 AGAATCAGTATCAGGTAA-CA--AAATCAGAATT
1 AGAATTAGAATCA-G-AATCAGGTAA-CAGAATC
84329298 AGAATTAGAATCA-ATATCAGGTAACAGAATC
1 AGAATTAGAATCAGA-ATCAGGTAACAGAATC
*
84329329 AGAATCAGAATCAGAATCAG
1 AGAATTAGAATCAGAATCAG
84329349 AATCAGTATT
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 3 0.03
31 79 0.87
32 5 0.05
33 2 0.02
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAATTAGAATCAGAATCAGGTAACAGAATC
Found at i:84329328 original size:19 final size:19
Alignment explanation
Indices: 84329266--84329329 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
84329256 GTGACAGAAT
*
84329266 CAGAATCAGTATCAGGTAA
1 CAGAATCAATATCAGGTAA
* *
84329285 CAAAATCAGA-ATTA-G-AA
1 CAGAATCA-ATATCAGGTAA
*
84329302 TTAGAATCAATATCAGGTAA
1 -CAGAATCAATATCAGGTAA
84329322 CAGAATCA
1 CAGAATCA
84329330 GAATCAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 3 0.09
18 10 0.30
19 18 0.55
20 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
CAGAATCAATATCAGGTAA
Found at i:84329354 original size:37 final size:37
Alignment explanation
Indices: 84329260--84329382 Score: 144
Period size: 37 Copynumber: 3.3 Consensus size: 37
84329250 AATTAGGTGA
* *
84329260 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
* *
84329297 TAGAATTAGAATCA-ATATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGA-ATCAGGTAACAGAATCAGAAT
**
84329334 CAGAATCAGAATCAGAATCA-GTATTAGGTAAT-AGAAT
1 CAGAATCAGAATCAGAATCAGGTAACA-G-AATCAGAAT
84329371 CAGAATCAGAAT
1 CAGAATCAGAAT
84329383 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
36 4 0.05
37 66 0.89
38 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:84329541 original size:27 final size:26
Alignment explanation
Indices: 84329500--84329585 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
84329490 AACATGGCTG
* *
84329500 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAGAGCCA
* *
84329526 CCAGATATAGTTATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTGTGACAGAGCCA
* *
84329553 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAATAGATA-TTGTGACAGAGCCA
*
84329580 CTAGAA
1 CCAGAA
84329586 ACAGATAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAGAGCCA
Found at i:84329597 original size:27 final size:27
Alignment explanation
Indices: 84329500--84329605 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
84329490 AACATGGCTG
* * *
84329500 CCAGAACAGATAT-TGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* * *
84329526 CCAGATATAGTTAT-TGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAAAGCCA
* * *
84329553 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
84329580 CTAGAAACAGATA-ATGTGGCAAAGCC
1 CCAG-AACAGATATATGTGGCAAAGCC
84329606 GCTTAATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.18
27 48 0.72
28 7 0.10
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAAAGCCA
Found at i:84329802 original size:22 final size:22
Alignment explanation
Indices: 84329766--84329831 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
84329756 GCAAATACGT
84329766 TTGGCACACAA-CCATAATCAGA
1 TTGGCACA-AAGCCATAATCAGA
* *
84329788 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGA
* *
84329810 TTGGCGCAAAGCCGTAATCAGA
1 TTGGCACAAAGCCATAATCAGA
84329832 ATAATTGCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:84330248 original size:27 final size:27
Alignment explanation
Indices: 84330218--84330301 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
84330208 GGGCAAAATG
* *
84330218 GTAATTTTACCCTACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84330245 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
84330271 G-ATATTCTACCCTACAAGGGTATTTCA
1 GTA-ATTCTACCCTACAAGGGTATTTCA
84330298 GTAA
1 GTAA
84330302 CTTTGTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 22 0.46
27 24 0.50
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:84330369 original size:54 final size:54
Alignment explanation
Indices: 84330311--84330417 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
84330301 ACTTTGTAAA
* *
84330311 TCGAGGGTAAAAC-GATAATTCTATAAATTAGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTAAAACAG-TAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAAG
*** * * *
84330365 TCGAGGGTATTTCAGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTACAA
1 TCGAGGGTAAAACAGTAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAA
84330418 ACCAAGGGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
TCGAGGGTAAAACAGTAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAAG
Found at i:84330372 original size:27 final size:26
Alignment explanation
Indices: 84330342--84330465 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 26
84330332 TATAAATTAG
* * *
84330342 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
** *
84330369 GGGTATTTCAGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
84330395 GGTGTATTTTGGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTACAAA-CAA
**
84330423 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
84330450 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
84330466 CTACCCTATA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.05
27 76 0.90
28 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:84338829 original size:19 final size:19
Alignment explanation
Indices: 84338805--84338843 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84338795 ATTTACAAGC
84338805 TTAGGGG-AATAAATGTAAT
1 TTAGGGGCAA-AAATGTAAT
*
84338824 TTAGGGGCAAAATTGTAAT
1 TTAGGGGCAAAAATGTAAT
84338843 T
1 T
84338844 ATTCCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (19 bp):
TTAGGGGCAAAAATGTAAT
Found at i:84339190 original size:27 final size:27
Alignment explanation
Indices: 84339149--84339202 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
84339139 TGTCATGTGA
* *
84339149 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
84339176 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
84339203 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:84339460 original size:81 final size:81
Alignment explanation
Indices: 84339325--84339485 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
84339315 TGTTGTAAAC
84339325 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
1 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
*
84339390 AGTCTTCAGAATAGAT
66 AGCCTTCAGAATAGAT
* *
84339406 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTG
1 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
*
84339471 AGCCTTCGGAATAGA
66 AGCCTTCAGAATAGA
84339486 AACGATACGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (81 bp):
TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
AGCCTTCAGAATAGAT
Found at i:84339690 original size:49 final size:50
Alignment explanation
Indices: 84339509--84339705 Score: 209
Period size: 50 Copynumber: 3.9 Consensus size: 50
84339499 ATCTATTGTG
* *
84339509 AGGTCGCATGTGTAGTACTAATTGCAGGCTACTATGCGTATCC-GATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAA-TT
* * * * *** * **
84339560 CGATCACGTGTGTAGTTCTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
84339610 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
84339660 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTAAGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
84339706 GCCTTGTCTA
Statistics
Matches: 120, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
49 41 0.34
50 45 0.38
51 34 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:84345144 original size:27 final size:27
Alignment explanation
Indices: 84345103--84345156 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
84345093 TGTCATGTGA
* *
84345103 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
84345130 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
84345157 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:84350804 original size:26 final size:26
Alignment explanation
Indices: 84350764--84350815 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
84350754 TGTCATGTGA
* *
84350764 AATTGAATGGCAAATTATTGTTACAT
1 AATTGAATGGCAAATTACTATTACAT
**
84350790 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGGCAAATTACTATTACAT
84350816 GGGTTGTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AATTGAATGGCAAATTACTATTACAT
Found at i:84351126 original size:51 final size:49
Alignment explanation
Indices: 84351043--84351237 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 49
84351033 TCTATTGTGA
*
84351043 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * **
84351093 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
84351143 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
84351193 GGTCGCATGTGTAGTACTAAGTTCAGGCTACTATGCG-ACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
84351238 GCCTTGTCTA
Statistics
Matches: 121, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 6 0.05
49 33 0.27
50 43 0.36
51 39 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:84351180 original size:26 final size:26
Alignment explanation
Indices: 84351101--84351182 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
84351091 TTCGATCACG
*
84351101 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
*
84351127 CGTGTA-T-C--AGATGGTTAGG-TCAC-A
1 TGTGTAGTACTAAG-T-G-TAGGCT-ACTA
84351151 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
84351177 TGTGTA
1 TGTGTA
84351183 CCGGATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 20
0.65 0.05 0.30
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 9 0.21
25 13 0.30
26 15 0.35
27 1 0.02
28 2 0.05
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGTAGGCTACTA
Found at i:84354022 original size:25 final size:25
Alignment explanation
Indices: 84353994--84354063 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
84353984 CTCTTTTAAT
*
84353994 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
84354019 AACTGGGACAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
84354044 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
84354064 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:84354296 original size:27 final size:27
Alignment explanation
Indices: 84354267--84354425 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
84354257 GGGCAAAATG
* * *
84354267 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84354294 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
84354321 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84354348 GTAATTCTACCATACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
84354375 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
84354402 GTAATTCTACCCTACAAGGGTATT
1 GTAATTCTACCCTACAAGGGTATT
84354426 CAATATTTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:84354406 original size:81 final size:81
Alignment explanation
Indices: 84354267--84354425 Score: 246
Period size: 81 Copynumber: 2.0 Consensus size: 81
84354257 GGGCAAAATG
* * ** *
84354267 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
84354332 CTACAAGGGTATTTTA
66 CTACAAGGGTATTTTA
* * *
84354348 GTAATTCTACCATACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
84354413 CTACAAGGGTATT
66 CTACAAGGGTATT
84354426 CAATATTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTTA
Found at i:84354521 original size:27 final size:27
Alignment explanation
Indices: 84354482--84354837 Score: 193
Period size: 27 Copynumber: 13.1 Consensus size: 27
84354472 GAGTACTTTG
* * *
84354482 GTAATTTTTACAAGTTGATGGTATTTTA
1 GTAA-TTTTACAAATTGAGGGTATTTCA
84354510 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * * *
84354537 GTAATTTTGCAAACTGAGGTTATTTCG
1 GTAATTTTACAAATTGAGGGTATTTCA
* ** **
84354564 GCAATTTTACAAA-CCAGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
** *** **
84354591 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAATTGAGGGTATTTCA
* **
84354618 GTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * **
84354645 ATAATTTCACAAATT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* **
84354672 GTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * * **
84354699 GTAATTTCAGAAA-TCAGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* * **
84354726 GTAATTTCACAAACT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* * **
84354753 GTAATTTTATAAACT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* *
84354780 GTAATTTTACAAACT-AGAGGTATTTTA
1 GTAATTTTACAAATTGAG-GGTATTTCA
* *
84354807 GTAATTTTACAAATTGAGGGCATTTAA
1 GTAATTTTACAAATTGAGGGTATTTCA
84354834 GTAA
1 GTAA
84354838 GTTGGTAAAC
Statistics
Matches: 270, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.01
27 256 0.95
28 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATTGAGGGTATTTCA
Found at i:84354570 original size:54 final size:54
Alignment explanation
Indices: 84354501--84354819 Score: 286
Period size: 54 Copynumber: 5.9 Consensus size: 54
84354491 ACAAGTTGAT
* ** *
84354501 GGTATTTTAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * * * * ** * *
84354555 GTTATTTCGGCAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * ** * *
84354609 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * *
84354663 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAA-TTT-CAGAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCA-AACT-AAG
* * ** ** *
84354717 GGTATTTTGGTAATTTCACAAA-CTAGGGGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCAGTAATTTTGCAAACTAAG
* * *
84354771 GGTATTTTGGTAATTTTACAAA-CTAGAGGTATTTTAGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAATCAAG-GGTATTTCAGTAATTTTGCAAA
84354820 TTGAGGGCAT
Statistics
Matches: 216, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.01
53 7 0.03
54 200 0.93
55 6 0.03
56 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
Found at i:84354586 original size:81 final size:82
Alignment explanation
Indices: 84354501--84354819 Score: 308
Period size: 81 Copynumber: 3.9 Consensus size: 82
84354491 ACAAGTTGAT
* *** * * *
84354501 GGTATTTTAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACT-GAGGTTATTTCGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
* * *
84354565 CAATTTTACAAACCAGG
66 TAATTTCACAAACTAGG
** ** *
84354582 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-AAGTCA-AGGGTATTTCA
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACT-AGAGGGTATTTCA
* *
84354645 ATAATTTCACAAATTAGG
65 GTAATTTCACAAACTAGG
** * * **
84354663 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTCAGAAA-TCAG-GGGTATTTTG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACT-AGAGGGTATTTCA
84354726 GTAATTTCACAAACTAGG
65 GTAATTTCACAAACTAGG
* * * ** *
84354744 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTTAG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
*
84354808 TAATTTTACAAA
66 TAATTTCACAAA
84354820 TTGAGGGCAT
Statistics
Matches: 192, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
80 3 0.02
81 186 0.97
82 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (82 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
TAATTTCACAAACTAGG
Found at i:84371141 original size:45 final size:45
Alignment explanation
Indices: 84371081--84371243 Score: 174
Period size: 45 Copynumber: 3.7 Consensus size: 45
84371071 TACCTCATAA
**
84371081 CGATGCCATTGTCCCAGACAGGGTCTTACACGTAACCACATATAT
1 CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
* * *
84371126 CGATGCCAACATCCCAGAC-GCGGTCTAACACG-AATCA-A-ATA-
1 CGATGCCAACGTCCCAGACAG-GGTCTTACACGTAACCACATATAT
* * * * *
84371167 CGATGACGATGTCCTAGACATGGTCTTACACGTAACCACATATAT
1 CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
* *
84371212 CGATGCCAACGTCCCAGACATGGTCTCACACG
1 CGATGCCAACGTCCCAGACAGGGTCTTACACG
84371244 AAAAAACATA
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
41 24 0.26
42 7 0.07
43 2 0.02
44 8 0.09
45 53 0.56
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (45 bp):
CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
Found at i:84372918 original size:16 final size:15
Alignment explanation
Indices: 84372897--84372940 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
84372887 TTTTAAAGGT
*
84372897 TAATTAAGTAGTATGA
1 TAATTAAGTA-AATGA
*
84372913 TAATTAACGTAAATGT
1 TAATTAA-GTAAATGA
84372929 TAATTAAGTAAA
1 TAATTAAGTAAA
84372941 AGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 17 0.68
17 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:84376617 original size:20 final size:20
Alignment explanation
Indices: 84376592--84376657 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
84376582 TGCTCCTGTT
*
84376592 TGTGCCCTTGATTGCACTTA
1 TGTGCCCCTGATTGCACTTA
* * *
84376612 TGTGCCCCTGTTTGTACTTC
1 TGTGCCCCTGATTGCACTTA
* * *
84376632 GGTACCCCTGAATGCACTTA
1 TGTGCCCCTGATTGCACTTA
84376652 TGTGCC
1 TGTGCC
84376658 TCTATTTATA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTGCCCCTGATTGCACTTA
Found at i:84376683 original size:40 final size:40
Alignment explanation
Indices: 84376604--84376684 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
84376594 TGCCCTTGAT
* * * *
84376604 TGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
1 TGCACTTATGTGCCCCTATTTATACTTCGATAACCCTGAA
* *
84376644 TGCACTTATGTGCCTCTATTTATAC-TCTGATAACTCTGAA
1 TGCACTTATGTGCCCCTATTTATACTTC-GATAACCCTGAA
84376684 T
1 T
84376685 CAAATAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (40 bp):
TGCACTTATGTGCCCCTATTTATACTTCGATAACCCTGAA
Found at i:84379248 original size:29 final size:29
Alignment explanation
Indices: 84379206--84379262 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
84379196 GAATTTTTAA
84379206 TTGCTTATGACTTACTAACCTTCAGAAGT
1 TTGCTTATGACTTACTAACCTTCAGAAGT
84379235 TTGCTTATGACTTACTAACCTTCAGAAG
1 TTGCTTATGACTTACTAACCTTCAGAAG
84379263 CTTACTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (29 bp):
TTGCTTATGACTTACTAACCTTCAGAAGT
Found at i:84384442 original size:41 final size:41
Alignment explanation
Indices: 84384326--84384468 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 41
84384316 TTAATGACAT
* * * *
84384326 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAG
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
* *
84384367 TCAGGCTTT-ATGCCTAGCAGG-CTTATTGCAGGTGTATAAAA
1 TCAGGCTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAA
* ** * * *
84384408 TTAGGCTTTGAGTTTAGCAGGCCTTGTGCTGGTGTGTGATA
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
*
84384449 -CAGGCTTAG-GCCTAGCAGGC
1 TCAGGCTTTGAGCCTAGCAGGC
84384469 TTTATGCCAG
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
39 9 0.11
40 11 0.14
41 56 0.70
42 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
Found at i:84389199 original size:41 final size:41
Alignment explanation
Indices: 84389083--84389225 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 41
84389073 TTAATGACAT
* * * *
84389083 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAG
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
* *
84389124 TCAGGCTTT-ATGCCTAGCAGG-CTTATTGCAGGTGTATAAAA
1 TCAGGCTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAA
* ** * * *
84389165 TTAGGCTTTGAGTTTAGCAGGCCTTGTGCTGGTGTGTGATA
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
*
84389206 -CAGGCTTAG-GCCTAGCAGGC
1 TCAGGCTTTGAGCCTAGCAGGC
84389226 TTTATGCCAG
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
39 9 0.11
40 11 0.14
41 56 0.70
42 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
Found at i:84401708 original size:93 final size:93
Alignment explanation
Indices: 84401596--84401766 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
84401586 GCCCATAAGT
* *
84401596 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84401661 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
84401689 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84401754 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84401767 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:84401763 original size:46 final size:46
Alignment explanation
Indices: 84401588--84401763 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
84401578 TGTAACCCGC
* * *
84401588 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
84401634 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
84401684 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
84401727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84401764 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84406078 original size:70 final size:70
Alignment explanation
Indices: 84406000--84406137 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
84405990 ATACGATGAA
84406000 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
1 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
84406065 GTGAT
66 GTGAT
84406070 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
1 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
84406135 GTG
66 GTG
84406138 CGATTTAAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (70 bp):
AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
GTGAT
Found at i:84406131 original size:40 final size:40
Alignment explanation
Indices: 84406086--84406181 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
84406076 ATAGTATTTC
* *
84406086 GCACTATA-TGTGCGATTTAAACTAGCTTTGGCTATGTGAG
1 GCACTA-AGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
84406126 GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
1 GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
84406166 GCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
84406182 ATCAACTTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
Found at i:84408441 original size:29 final size:29
Alignment explanation
Indices: 84408399--84408458 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
84408389 ACACTTAGCA
84408399 ATTCACAATTCATCCATTATTCCTATTCT
1 ATTCACAATTCATCCATTATTCCTATTCT
*
84408428 ATTCACAATTCATCCATTATTTCTATTCT
1 ATTCACAATTCATCCATTATTCCTATTCT
84408457 AT
1 AT
84408459 CTCATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTCACAATTCATCCATTATTCCTATTCT
Found at i:84426323 original size:23 final size:23
Alignment explanation
Indices: 84426297--84426369 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
84426287 AATATCGAGT
84426297 ACATGATTAATTTCATACATTAA
1 ACATGATTAATTTCATACATTAA
84426320 ACAT--TT-ATTT-A-ACAATATCAA
1 ACATGATTAATTTCATAC-AT-T-AA
84426341 GTACATGATTAATTTCATACATTAA
1 --ACATGATTAATTTCATACATTAA
84426366 ACAT
1 ACAT
84426370 TTATGCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 20
0.67 0.00 0.33
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 5 0.12
21 4 0.10
23 12 0.30
25 4 0.10
26 5 0.12
27 3 0.08
28 2 0.05
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (23 bp):
ACATGATTAATTTCATACATTAA
Found at i:84426328 original size:46 final size:46
Alignment explanation
Indices: 84426275--84426373 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
84426265 CGGGACTTAT
*
84426275 CATTTATTTAACAATATCGAGTACATGATTAATTTCATACATTAAA
1 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
84426321 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
1 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
84426367 CATTTAT
1 CATTTAT
84426374 GCAATTCACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.40
Consensus pattern (46 bp):
CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
Found at i:84429140 original size:27 final size:27
Alignment explanation
Indices: 84429110--84429169 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
84429100 TGAGGAGTTC
*
84429110 AAGGCCATAGTTACTGATGATGCTGAA
1 AAGGCCATAGTTACTGATGATGCCGAA
84429137 AAGGCCATAGTTACTGATGATGCCGAA
1 AAGGCCATAGTTACTGATGATGCCGAA
*
84429164 AGGGCC
1 AAGGCC
84429170 GAGTTCTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (27 bp):
AAGGCCATAGTTACTGATGATGCCGAA
Found at i:84435163 original size:27 final size:27
Alignment explanation
Indices: 84435104--84435255 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
84435094 TAAATTGTAC
*
84435104 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
84435132 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
84435159 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
84435186 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
84435214 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
84435241 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84435256 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:84435170 original size:55 final size:55
Alignment explanation
Indices: 84435104--84435255 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
84435094 TAAATTGTAC
84435104 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
84435159 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
84435214 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
84435256 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:84435218 original size:82 final size:82
Alignment explanation
Indices: 84435104--84435255 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
84435094 TAAATTGTAC
* *
84435104 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
84435169 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
84435186 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
84435251 GTGCG
66 GTGCG
84435256 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:84438496 original size:19 final size:19
Alignment explanation
Indices: 84438472--84438510 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84438462 AAGGGACTCT
84438472 ATTGT-GATATATGACTATG
1 ATTGTGGATA-ATGACTATG
*
84438491 ATTGTGGATAATGTCTATG
1 ATTGTGGATAATGACTATG
84438510 A
1 A
84438511 ATTGAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (19 bp):
ATTGTGGATAATGACTATG
Found at i:84444688 original size:44 final size:43
Alignment explanation
Indices: 84444625--84444783 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 43
84444615 TATGTGTTTT
84444625 CGTGTAAGACCACGTCTGGGACGTTGGCATCA-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATA-TT-TGATTTA
* *
84444669 CGTGTAAGACCACGTCTGGGACATTGTCATCATATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTTA
* *
84444711 CGTGTAAGACC-CTATTTGGGACAG-TGGCATCCATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT-CATATTTGATTTA
* *
84444754 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
84444784 TGTACAAGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 37 0.38
44 33 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTTA
Found at i:84447930 original size:24 final size:24
Alignment explanation
Indices: 84447885--84447931 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
84447875 TATAGAAGAT
*
84447885 TTAGAATTTATTAGTATGATATAC
1 TTAGAATTTATTAGTATAATATAC
*
84447909 TTAGCATTTATTA-TCATAATATA
1 TTAGAATTTATTAGT-ATAATATA
84447932 TTTGACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
TTAGAATTTATTAGTATAATATAC
Found at i:84449059 original size:14 final size:14
Alignment explanation
Indices: 84449040--84449069 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
84449030 ATCATTAATT
84449040 ATACTAATATTTAC
1 ATACTAATATTTAC
84449054 ATACTAATATTTAC
1 ATACTAATATTTAC
84449068 AT
1 AT
84449070 TCACTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATACTAATATTTAC
Found at i:84452202 original size:45 final size:45
Alignment explanation
Indices: 84452152--84452248 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
84452142 TAGTAGCTTG
* *
84452152 TCTACAACGAATAGTGATTTATCCA-AACGATAT-TAGCTACTTTTA
1 TCTACAACGAATAGTGATTTACCCACAACG-TATCTA-CAACTTTTA
* * * *
84452197 TCTACATCGATTAGTGGTTTACCCACACCGTATCTACAACTTTTA
1 TCTACAACGAATAGTGATTTACCCACAACGTATCTACAACTTTTA
84452242 TCTACAA
1 TCTACAA
84452249 ATATGTTGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 38 0.88
46 5 0.12
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (45 bp):
TCTACAACGAATAGTGATTTACCCACAACGTATCTACAACTTTTA
Found at i:84459733 original size:27 final size:27
Alignment explanation
Indices: 84459674--84459825 Score: 146
Period size: 27 Copynumber: 5.6 Consensus size: 27
84459664 GTGTGTCCTA
* * *
84459674 TATTTTTTAGATTTTACAGTGTTGCCCC
1 TATTTTTCAGATTTTACAAT-TTTCCCC
* *
84459702 T-TTTTTCAAAATTTACAATTTTCCCC
1 TATTTTTCAGATTTTACAATTTTCCCC
* *
84459728 TATTTTTTAGATTTTACAATTTTTCCC
1 TATTTTTCAGATTTTACAATTTTCCCC
* * *
84459755 TATTTTTTAGATTTTACAATTTTGCAC
1 TATTTTTCAGATTTTACAATTTTCCCC
*
84459782 TA-TTTTCTAGATTTTGCAATTTTACCCC
1 TATTTTTC-AGATTTTACAATTTT-CCCC
* *
84459810 TATTTTTGAAATTTTA
1 TATTTTTCAGATTTTA
84459826 AAGTTTTGCC
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 11 0.11
27 76 0.75
28 11 0.11
29 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.54
Consensus pattern (27 bp):
TATTTTTCAGATTTTACAATTTTCCCC
Found at i:84459761 original size:54 final size:54
Alignment explanation
Indices: 84459674--84459825 Score: 180
Period size: 54 Copynumber: 2.8 Consensus size: 54
84459664 GTGTGTCCTA
* * * *
84459674 TATTTTTTAGATTTTACAGTGTTGCCCCT-TTTTTCAAAATTTACAATTTTCCCC
1 TATTTTTTAGATTTTACAAT-TTTCCCCTATTTTTCAAATTTTACAATTTTCCAC
* * * *
84459728 TATTTTTTAGATTTTACAATTTTTCCCTATTTTTTAGATTTTACAATTTTGCAC
1 TATTTTTTAGATTTTACAATTTTCCCCTATTTTTCAAATTTTACAATTTTCCAC
* * *
84459782 TATTTTCTAGATTTTGCAATTTTACCCCTATTTTTGAAATTTTA
1 TATTTTTTAGATTTTACAATTTT-CCCCTATTTTTCAAATTTTA
84459826 AAGTTTTGCC
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.07
54 60 0.72
55 17 0.20
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.54
Consensus pattern (54 bp):
TATTTTTTAGATTTTACAATTTTCCCCTATTTTTCAAATTTTACAATTTTCCAC
Found at i:84459762 original size:81 final size:82
Alignment explanation
Indices: 84459674--84459825 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 82
84459664 GTGTGTCCTA
* * * *
84459674 TATTTTTTAGATTTTACAGTGTTGCCCCTTTTTTC-AAAATTTACAATTTT-CCCCTATTTTTTA
1 TATTTTTTAGATTTTACAATGTTG-CACTATTTTCTAAAATTTACAATTTTACCCCTATTTTTGA
*
84459737 GATTTTACAATTTTTCCC
65 AATTTTACAATTTTTCCC
* * * *
84459755 TATTTTTTAGATTTTACAATTTTGCACTATTTTCTAGATTTTGCAATTTTACCCCTATTTTTGAA
1 TATTTTTTAGATTTTACAATGTTGCACTATTTTCTAAAATTTACAATTTTACCCCTATTTTTGAA
84459820 ATTTTA
66 ATTTTA
84459826 AAGTTTTGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
80 8 0.13
81 34 0.57
82 18 0.30
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.54
Consensus pattern (82 bp):
TATTTTTTAGATTTTACAATGTTGCACTATTTTCTAAAATTTACAATTTTACCCCTATTTTTGAA
ATTTTACAATTTTTCCC
Found at i:84461523 original size:15 final size:16
Alignment explanation
Indices: 84461495--84461536 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
84461485 ATAAGAAAAA
84461495 ATTATAAATAATAAAT
1 ATTATAAATAATAAAT
*
84461511 ATTA-AAATTATAAAT
1 ATTATAAATAATAAAT
84461526 AATTATAAATA
1 -ATTATAAATA
84461537 TTATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 8 0.36
17 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATAAATAATAAAT
Found at i:84461566 original size:10 final size:10
Alignment explanation
Indices: 84461551--84461593 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
84461541 TAAAATATAA
*
84461551 AAATTCTAAC
1 AAATTCTAAT
84461561 AAATTCTAAT
1 AAATTCTAAT
*
84461571 AATTTTCTAAT
1 AA-ATTCTAAT
84461582 AAATTCTAAT
1 AAATTCTAAT
84461592 AA
1 AA
84461594 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTAAT
Found at i:84461578 original size:21 final size:21
Alignment explanation
Indices: 84461554--84461596 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
84461544 AATATAAAAA
84461554 TTCTAACAAATTCTAATAATT
1 TTCTAACAAATTCTAATAATT
*
84461575 TTCTAATAAATTCTAATAATT
1 TTCTAACAAATTCTAATAATT
84461596 T
1 T
84461597 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCTAACAAATTCTAATAATT
Found at i:84461580 original size:11 final size:11
Alignment explanation
Indices: 84461564--84461596 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
84461554 TTCTAACAAA
84461564 TTCTAATAATT
1 TTCTAATAATT
*
84461575 TTCTAATAA-A
1 TTCTAATAATT
84461585 TTCTAATAATT
1 TTCTAATAATT
84461596 T
1 T
84461597 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (11 bp):
TTCTAATAATT
Done.