Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 51
Found at i:9948237 original size:139 final size:140
Alignment explanation
Indices: 9947988--9948714 Score: 985
Period size: 140 Copynumber: 5.2 Consensus size: 140
9947978 GGTTTTCTCC
* * * * * **
9947988 TCTCATTATGAACTCTCTATTGGAAATGTTGATCTCTCGAGTGA-GTGTCATTGATTCAACTCCA
1 TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
* * * * *
9948052 AATACAATGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTC-ATCA
66 TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCG
9948116 GATGAGTTCT
131 GATGAGTTCT
* * * * *
9948126 TCTCATTATGAACTCTCCATTAGTAATGTTAGTCCCTCAAGTGAGGCGTCGCTGATTTAACTTCA
1 TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
* *
9948191 TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAATTTCTTCTGCCTCTATCG
66 TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCG
9948256 GATGAGTTCT
131 GATGAGTTCT
* * * * * *
9948266 TCTCATTATGAACTCTTCATTGGAAATTTTAATCTCTC-AGAGAGGCATCACTGATTCAACTCCA
1 TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
* * * * *
9948330 TATTCGATGAATTGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCCCCCTCTATCA
66 TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCG
9948395 GATGAGTTCT
131 GATGAGTTCT
* * * *
9948405 TCTCAATATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTTATTCAACTCCA
1 TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
* *
9948470 TATGCGATGAATCGAGTAAAGGTTGAACAAGTTATTCTCATTATGAACTTGTTCTCCCTCTATCG
66 TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCG
* *
9948535 GATAATTTCT
131 GATGAGTTCT
*
9948545 TCTCATTATGAACTCTCCACTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
1 TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
* * * * * * *
9948610 TATGCAATGAATCGAGCAAAGGTTGAATATA-TTCTTCTCATTATAAACTTCTTATCTCTCTATT
66 TATGCGATGAATCGAGCAAAGGTTGAACA-AGTTATTCTCATTATGAACTTCTTCTCCCTCTATC
9948674 GGATGAGTTCT
130 GGATGAGTTCT
* *
9948685 TCTTATTATGAACTCTCCACTGGAAATGTT
1 TCTCATTATGAACTCTCCATTGGAAATGTT
9948715 GGTTGGTCTA
Statistics
Matches: 514, Mismatches: 71, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
138 37 0.07
139 192 0.37
140 284 0.55
141 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (140 bp):
TCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
TATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCG
GATGAGTTCT
Found at i:9948493 original size:279 final size:279
Alignment explanation
Indices: 9947988--9948714 Score: 1012
Period size: 279 Copynumber: 2.6 Consensus size: 279
9947978 GGTTTTCTCC
* * *
9947988 TCTCATTATGAACTC-TCTATTGGAAATGTTGATCTCTCGAGTGAGTG-TCATTGATTCAACTCC
1 TCTCATTATGAACTCTTC-ATTGGAAATGTTAATCTCTCAAGTGAG-GCTCACTGATTCAACTCC
* * *
9948051 AAATACAATGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTC-ATC
64 ATATACAATGAATCGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCCTCTATC
* * * *
9948115 AGATGAGTTCTTCTCATTATGAACTCTCCATTAGTAATGTTAGTCCCTCAAGTGAGGCGTCGCTG
129 AGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCTG
* * *
9948180 ATTTAACTTCATATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAATTTCTTC
194 ATTCAACTCCATATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
* *
9948245 TGCCTCTATCGGATGAGTTCT
259 TCCCTCTATCGGATAAGTTCT
* *
9948266 TCTCATTATGAACTCTTCATTGGAAATTTTAATCTCTC-AGAGAGGCATCACTGATTCAACTCCA
1 TCTCATTATGAACTCTTCATTGGAAATGTTAATCTCTCAAGTGAGGC-TCACTGATTCAACTCCA
* * * *
9948330 TATTCGATGAATTGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCCCCCTCTATCA
65 TATACAATGAATCGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCCTCTATCA
* * *
9948395 GATGAGTTCTTCTCAATATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTTA
130 GATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCTGA
* *
9948460 TTCAACTCCATATGCGATGAATCGAGTAAAGGTTGAACAAGTTATTCTCATTATGAACTTGTTCT
195 TTCAACTCCATATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCT
*
9948525 CCCTCTATCGGATAATTTCT
260 CCCTCTATCGGATAAGTTCT
* * * *
9948545 TCTCATTATGAACTCTCCACTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAACTCCA
1 TCTCATTATGAACTCTTCATTGGAAATGTTAATCTCTCAAGTGAGGC-TCACTGATTCAACTCCA
* * * * * * * **
9948610 TATGCAATGAATCGAGCAAAGGTTGAATATATTCTTCTCATTATAAACTTCTTATCTCTCTATTG
65 TATACAATGAATCGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCCTCTATCA
* *
9948675 GATGAGTTCTTCTTATTATGAACTCTCCACTGGAAATGTT
130 GATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTT
9948715 GGTTGGTCTA
Statistics
Matches: 396, Mismatches: 48, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
276 1 0.00
277 5 0.01
278 102 0.26
279 175 0.44
280 113 0.29
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (279 bp):
TCTCATTATGAACTCTTCATTGGAAATGTTAATCTCTCAAGTGAGGCTCACTGATTCAACTCCAT
ATACAATGAATCGAGCAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCCTCTATCAG
ATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCTGAT
TCAACTCCATATGCGATGAATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTC
CCTCTATCGGATAAGTTCT
Found at i:9949771 original size:12 final size:12
Alignment explanation
Indices: 9949756--9949807 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
9949746 CTTTTTTCTT
9949756 TTTTCTATTTTA
1 TTTTCTATTTTA
*
9949768 TTTTCTATTTTC
1 TTTTCTATTTTA
* *
9949780 TATTTATTTTTTA
1 T-TTTCTATTTTA
9949793 TTTT-TATTTTA
1 TTTTCTATTTTA
9949804 TTTT
1 TTTT
9949808 TTAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 10 0.29
12 15 0.44
13 9 0.26
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTATTTTA
Found at i:9949808 original size:19 final size:19
Alignment explanation
Indices: 9949756--9949822 Score: 93
Period size: 18 Copynumber: 3.6 Consensus size: 19
9949746 CTTTTTTCTT
*
9949756 TTTTCTATTTTATTTTCTA
1 TTTTCTATTTTATTTTTTA
9949775 TTTTCTA-TTTATTTTTTA
1 TTTTCTATTTTATTTTTTA
9949793 TTTT-TATTTTATTTTTTAA
1 TTTTCTATTTTATTTTTT-A
*
9949812 TTTTTTATTTT
1 TTTTCTATTTT
9949823 TCTTAGGCGT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
17 2 0.05
18 24 0.55
19 12 0.27
20 6 0.14
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTATTTTATTTTTTA
Found at i:9949814 original size:8 final size:7
Alignment explanation
Indices: 9949741--9949823 Score: 62
Period size: 7 Copynumber: 11.6 Consensus size: 7
9949731 TTGAACCTTC
*
9949741 TTTTTCT
1 TTTTTAT
*
9949748 TTTTTCT
1 TTTTTAT
*
9949755 TTTTTCT
1 TTTTTAT
*
9949762 ATTTTAT
1 TTTTTAT
*
9949769 TTTCTAT
1 TTTTTAT
*
9949776 TTTCTAT
1 TTTTTAT
9949783 TTATTT-T
1 TT-TTTAT
9949790 TTATTT-T
1 TT-TTTAT
9949797 TATTTTAT
1 T-TTTTAT
9949805 TTTTTAAT
1 TTTTT-AT
9949813 TTTTTAT
1 TTTTTAT
9949820 TTTT
1 TTTT
9949824 CTTAGGCGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
7 55 0.82
8 12 0.18
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:9961426 original size:37 final size:37
Alignment explanation
Indices: 9961350--9961426 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
9961340 TTTTTATATT
*
9961350 TTTAATTTTGTAAAACAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAACAAATTATATAAATATTATCAA
* *
9961387 TTTAATTTTTTAAAGA-AAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-ACAAATTATATAAATATTAT-CAA
9961424 TTT
1 TTT
9961427 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 21 0.60
38 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAACAAATTATATAAATATTATCAA
Found at i:9961608 original size:20 final size:20
Alignment explanation
Indices: 9961572--9961609 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9961562 ATCCTATTCC
**
9961572 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
9961592 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
9961610 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:9962751 original size:22 final size:22
Alignment explanation
Indices: 9962724--9962767 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9962714 GAACCTCATG
*
9962724 TATGTCCCGCAGGACCTATGTA
1 TATGTCCCGAAGGACCTATGTA
9962746 TATGTCCCGAAGGACCTATGTA
1 TATGTCCCGAAGGACCTATGTA
9962768 ACCCTCGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTATGTA
Found at i:9962836 original size:32 final size:32
Alignment explanation
Indices: 9962800--9962873 Score: 148
Period size: 32 Copynumber: 2.3 Consensus size: 32
9962790 CTAGCTCTTA
9962800 TATCACATATCTTGGGCATTATCAGTTATGTT
1 TATCACATATCTTGGGCATTATCAGTTATGTT
9962832 TATCACATATCTTGGGCATTATCAGTTATGTT
1 TATCACATATCTTGGGCATTATCAGTTATGTT
9962864 TATCACATAT
1 TATCACATAT
9962874 TTACACATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (32 bp):
TATCACATATCTTGGGCATTATCAGTTATGTT
Found at i:9962983 original size:22 final size:22
Alignment explanation
Indices: 9962937--9962984 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9962927 TGTAGAGTCT
*
9962937 CATATCTCATCATCATGTATTA
1 CATATCACATCATCATGTATTA
9962959 CATATCACAT-ATCATGTATTCA
1 CATATCACATCATCATGTATT-A
9962981 CATA
1 CATA
9962985 AATATGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (22 bp):
CATATCACATCATCATGTATTA
Found at i:9966920 original size:21 final size:22
Alignment explanation
Indices: 9966883--9966925 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
9966873 TGTAGAGTCT
*
9966883 CATATCTCATCATCATGTATTC
1 CATATCACATCATCATGTATTC
9966905 CATATCACAT-ATCATGTATTC
1 CATATCACATCATCATGTATTC
9966926 ACAAAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.40
Consensus pattern (22 bp):
CATATCACATCATCATGTATTC
Found at i:9966935 original size:21 final size:21
Alignment explanation
Indices: 9966894--9966935 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9966884 ATATCTCATC
**
9966894 ATCATGTATTCCATATCACAT
1 ATCATGTATTCCATAAAACAT
9966915 ATCATGTATTCACA-AAAACAT
1 ATCATGTATTC-CATAAAACAT
9966936 GTAAACACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (21 bp):
ATCATGTATTCCATAAAACAT
Found at i:9969705 original size:23 final size:23
Alignment explanation
Indices: 9969667--9969728 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
9969657 TCCTTTTCTT
**
9969667 GGGTCGGGTTTGGTTTAGGCTCC
1 GGGTCGGGTTCAGTTTAGGCTCC
*
9969690 GGGTCGGGTTCAGTTTGGGCTCC
1 GGGTCGGGTTCAGTTTAGGCTCC
** *
9969713 AAGTTGGGTTCAGTTT
1 GGGTCGGGTTCAGTTT
9969729 GAGTTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.35
Consensus pattern (23 bp):
GGGTCGGGTTCAGTTTAGGCTCC
Found at i:9970974 original size:7 final size:7
Alignment explanation
Indices: 9970962--9971001 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
9970952 TAAAATACTT
9970962 TTATATA
1 TTATATA
9970969 TTATATA
1 TTATATA
9970976 TTATATA
1 TTATATA
9970983 TTATATA
1 TTATATA
9970990 TTATATA
1 TTATATA
9970997 TTATA
1 TTATA
9971002 GTTAATGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTATATA
Found at i:9971176 original size:14 final size:14
Alignment explanation
Indices: 9971159--9971189 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9971149 TTTATTAATT
9971159 ATTATATATATGAA
1 ATTATATATATGAA
*
9971173 ATTATATATTTGAA
1 ATTATATATATGAA
9971187 ATT
1 ATT
9971190 TAAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
ATTATATATATGAA
Found at i:9974491 original size:93 final size:95
Alignment explanation
Indices: 9974345--9974562 Score: 325
Period size: 94 Copynumber: 2.3 Consensus size: 95
9974335 TACCAACGAG
* **
9974345 GTAGTATCGATACCATGGTAA-GGTGTCGATACTAGGTCACATCAAATCTAAAAA-GGGTATCGA
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCAAATCTAAAAATGGGTATCGA
*
9974408 TACCGGAAGGGGTATCAGTACCATAATATA
66 TACCGGAAGGAGTATCAGTACCATAATATA
* *
9974438 GTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAATC-AAAAATTGGTATCGA
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCAAATCTAAAAATGGGTATCGA
*
9974502 TACCGGAAGGAGTATCAGTACCATAGTATA
66 TACCGGAAGGAGTATCAGTACCATAATATA
* * *
9974532 GTAGTATTGATACCATTGTAGGGGTATCGAT
1 GTAGTATCGATACCATGGTAAGGGTATCGAT
9974563 TAATATAGCC
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 26 0.23
94 87 0.77
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCAAATCTAAAAATGGGTATCGA
TACCGGAAGGAGTATCAGTACCATAATATA
Found at i:9974948 original size:58 final size:56
Alignment explanation
Indices: 9974886--9975050 Score: 176
Period size: 59 Copynumber: 2.9 Consensus size: 56
9974876 ATTACCAAAT
* * *
9974886 GGCACTAAGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTG
1 GGCACTATGTGTGCAAAAT-TTAAGAAATTCATACTAAGTGTATGAATTTCCGTA-TA
* *
9974944 GGCACTTTGTGTGCTAAAATATTAAGAAATTCATACTAAGAGTAT-AGATTTCCGTATA
1 GGCACTATGTGTGC-AAAAT-TTAAGAAATTCATACTAAGTGTATGA-ATTTCCGTATA
* * *
9975002 GGCACTATGTGTGCGAAA--TAAGAAATTAATA-TCAATTGTATGAATTTCC
1 GGCACTATGTGTGCAAAATTTAAGAAATTCATACT-AAGTGTATGAATTTCC
9975051 TTATGGGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 24 0.26
55 1 0.01
57 3 0.03
58 27 0.29
59 36 0.39
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAATTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
Found at i:9975469 original size:81 final size:81
Alignment explanation
Indices: 9975334--9975652 Score: 505
Period size: 81 Copynumber: 3.9 Consensus size: 81
9975324 GTGCCTTTGG
* * *
9975334 GGCCTAATTGTGCAATTGATAGAAATGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
9975399 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
9975415 GGCCTAACTGTGCAATTGGTAGAAAGGTATCAATTATGTC-GATTAGATGAACGGTTAAATACCG
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAG-TTAGATGAACGGTTAAATACCG
* *
9975479 TTTAGTAAAATAATAAT
65 TTGAGTAAAAGAATAAT
* * *
9975496 GGCCTAATTGTGCAATTGGTAGAAAGGTATCAATTATGCCGGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
9975561 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
9975577 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATCATGCCAGTGAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
9975642 TGAGTAAAAGA
66 TGAGTAAAAGA
9975653 CGAAAGGTTA
Statistics
Matches: 219, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.00
81 217 0.99
82 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:9978368 original size:26 final size:26
Alignment explanation
Indices: 9978332--9978388 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
9978322 ATCATTATTA
* *
9978332 ACCCATAATCGATCCGAGCCCATACG
1 ACCCAGAATCGAACCGAGCCCATACG
9978358 ACCCAGAATCGAACCGAGCCCATACG
1 ACCCAGAATCGAACCGAGCCCATACG
9978384 ACCCA
1 ACCCA
9978389 AACCCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.40, G:0.16, T:0.11
Consensus pattern (26 bp):
ACCCAGAATCGAACCGAGCCCATACG
Found at i:9981844 original size:4 final size:4
Alignment explanation
Indices: 9981835--9982217 Score: 685
Period size: 4 Copynumber: 98.0 Consensus size: 4
9981825 ACACTTTTTT
9981835 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
9981883 CATA CATA CATA CATA CATA C-TA CATA CATA CACA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9981929 CATA CATA CA-A CATA CATA CAT- -ATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9981974 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9982020 CATA CATA -ATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
9982066 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9982114 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9982162 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9982210 CATA CATA
1 CATA CATA
9982218 TGCATATGCA
Statistics
Matches: 366, Mismatches: 4, Indels: 18
0.94 0.01 0.05
Matches are distributed among these distances:
2 2 0.01
3 20 0.05
4 344 0.94
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:9987070 original size:20 final size:20
Alignment explanation
Indices: 9987047--9987110 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
9987037 TCGGGTCATC
9987047 TGTTAATCTTTCGAGCATGA
1 TGTTAATCTTTCGAGCATGA
*
9987067 TGTTTAAATCCTTT-GAGTCAT-C
1 TG-TT-AAT-CTTTCGAG-CATGA
* *
9987089 TGTTAGTCTTTCGAGCAAGA
1 TGTTAATCTTTCGAGCATGA
9987109 TG
1 TG
9987111 ATAAGTCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
19 6 0.18
20 9 0.26
21 4 0.12
22 8 0.24
23 7 0.21
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (20 bp):
TGTTAATCTTTCGAGCATGA
Found at i:9987088 original size:42 final size:42
Alignment explanation
Indices: 9987029--9987110 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
9987019 CACGAATTTA
* *
9987029 TAAATCCTTCGGGTCATCTGTTAATCTTTCGAGCATGATGTT
1 TAAATCCTTCGAGTCATCTGTTAATCTTTCGAGCAAGATGTT
* *
9987071 TAAATCCTTTGAGTCATCTGTTAGTCTTTCGAGCAAGATG
1 TAAATCCTTCGAGTCATCTGTTAATCTTTCGAGCAAGATG
9987111 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (42 bp):
TAAATCCTTCGAGTCATCTGTTAATCTTTCGAGCAAGATGTT
Found at i:9987092 original size:22 final size:22
Alignment explanation
Indices: 9987029--9987092 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
9987019 CACGAATTTA
* *
9987029 TAAATCCTTCGGGTCATCTG-T
1 TAAATCCTTTGAGTCATCTGTT
*
9987050 T-AAT-CTTTCGAG-CATGATGTT
1 TAAATCCTTT-GAGTCAT-CTGTT
9987071 TAAATCCTTTGAGTCATCTGTT
1 TAAATCCTTTGAGTCATCTGTT
9987093 AGTCTTTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
19 6 0.18
20 7 0.21
21 3 0.09
22 10 0.30
23 7 0.21
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (22 bp):
TAAATCCTTTGAGTCATCTGTT
Found at i:9987311 original size:20 final size:20
Alignment explanation
Indices: 9987286--9987408 Score: 174
Period size: 20 Copynumber: 6.1 Consensus size: 20
9987276 TTTTCCACGA
* *
9987286 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
9987306 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
* **
9987326 ATTTTGTATAGCCTTCAAGTC
1 A-TTTGTAAAGCCTTCGGGTC
9987347 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
*
9987367 ATTTGTAAAGCCTTCGGGTA
1 ATTTGTAAAGCCTTCGGGTC
*
9987387 ATTTGTAAATCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
9987407 AT
1 AT
9987409 CTGTTAGTCT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
20 74 0.81
21 17 0.19
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGGGTC
Found at i:9987640 original size:93 final size:93
Alignment explanation
Indices: 9987469--9987671 Score: 232
Period size: 93 Copynumber: 2.2 Consensus size: 93
9987459 CTCTCTCTGA
* *
9987469 AAGAGTAATGGAAGTAAATCAACCTTGAATCTGACTATAACGGAAGAGTAGTGAAACAGATTCTG
1 AAGAGTAGT-GAAGTAAATCAACCTTGAATCTGACTATAACGGAAGAGTAGTGAAACAAATTCTG
* * *
9987534 TTCAAGTTAATCATTTTTAACCTTCACGG
65 TTCAAATTAATCATTCTCAACCTTCACGG
** * *
9987563 AAGAGTAGTGAAGTATCTCAACCTTGAATCTGATCT-TCACGGAAGAGTAGTGAAATAAATTCT-
1 AAGAGTAGTGAAGTAAATCAACCTTGAATCTGA-CTATAACGGAAGAGTAGTGAAACAAATTCTG
** *
9987626 TCTCAAA-TATATCATTCTCAGTCTTCATGG
65 T-TCAAATTA-ATCATTCTCAACCTTCACGG
*
9987656 AAGAGTAGTAAAGTAA
1 AAGAGTAGTGAAGTAA
9987672 GAGCAAGAGT
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
92 3 0.03
93 79 0.86
94 10 0.11
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (93 bp):
AAGAGTAGTGAAGTAAATCAACCTTGAATCTGACTATAACGGAAGAGTAGTGAAACAAATTCTGT
TCAAATTAATCATTCTCAACCTTCACGG
Found at i:9992076 original size:170 final size:171
Alignment explanation
Indices: 9991794--9992139 Score: 685
Period size: 170 Copynumber: 2.0 Consensus size: 171
9991784 TAGTAATACC
9991794 CTCCAACCGAACACCGTTATGCAGTTCCCCAAAACTGTATCCATAAGGACTTTCCCTAAGCACAC
1 CTCCAACCGAACACCGTTATGCAGTTCCCCAAAACTGTATCCATAAGGACTTTCCCTAAGCACAC
9991859 GACAGAGGAGCCACCCTAAGGGAATGCCTTGGGGCCTATAGGCCTACCCAAGGGTCGCCTTAGGT
66 GACAGAGGAGCCACCCTAAGGGAATGCCTTGGGGCCTATAGGCCTACCCAAGGGTCGCCTTAGGT
9991924 CCATAAGGATTTACCAGCTTGGTTAG-GTTGAACCTCCATA
131 CCATAAGGATTTACCAGCTTGGTTAGAGTTGAACCTCCATA
9991964 CTCCAACCGAACACCGTTATGCAGTTCCCCAAAACTGTATCCATAAGGACTTTCCCTAAGCACAC
1 CTCCAACCGAACACCGTTATGCAGTTCCCCAAAACTGTATCCATAAGGACTTTCCCTAAGCACAC
9992029 GACAGAGGAGCCACCCTAAGGGAATGCCTTGGGGCCTATAGGCCTACCCAAGGGTCGCCTTAGGT
66 GACAGAGGAGCCACCCTAAGGGAATGCCTTGGGGCCTATAGGCCTACCCAAGGGTCGCCTTAGGT
9992094 CCATAAGGATTTACCAGCTTGGTTAGAGTTGAACCTCCATA
131 CCATAAGGATTTACCAGCTTGGTTAGAGTTGAACCTCCATA
9992135 CTCCA
1 CTCCA
9992140 GAATCCTACC
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 156 0.89
171 19 0.11
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (171 bp):
CTCCAACCGAACACCGTTATGCAGTTCCCCAAAACTGTATCCATAAGGACTTTCCCTAAGCACAC
GACAGAGGAGCCACCCTAAGGGAATGCCTTGGGGCCTATAGGCCTACCCAAGGGTCGCCTTAGGT
CCATAAGGATTTACCAGCTTGGTTAGAGTTGAACCTCCATA
Found at i:9992341 original size:32 final size:32
Alignment explanation
Indices: 9992287--9992356 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
9992277 ATCCATGATT
** * *
9992287 TACCCAAGGGAGTTCCTTGGGGCCTGAGAGCC
1 TACCCAAGAAAGTTCCTCGGGGCCTCAGAGCC
*
9992319 TACCCAAGAAAGTTTCTCGGGGCCTCAGAGCC
1 TACCCAAGAAAGTTCCTCGGGGCCTCAGAGCC
9992351 TACCCA
1 TACCCA
9992357 GATAATGTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (32 bp):
TACCCAAGAAAGTTCCTCGGGGCCTCAGAGCC
Found at i:9992518 original size:96 final size:95
Alignment explanation
Indices: 9992391--9992586 Score: 266
Period size: 96 Copynumber: 2.1 Consensus size: 95
9992381 AAGTAGTAAC
* * *
9992391 CAGTAGATTCCATGATCCATAATTCAGGAACGATCATATTTTCCAATAAAAACAAGAAACCAGAT
1 CAGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTACAATAAAAACAAGAAACCAGAG
*
9992456 AAAACAGTTCAGGTAACCATAGTTCATAAA
66 AAAACAGTTCAAGTAACCATAGTTCATAAA
* * * * *
9992486 TCAGTAGATTTCATGATCCATAAATCAGGAACGATCATATTTTACAGTGAAAACATGTAACCAGA
1 -CAGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTACAATAAAAACAAGAAACCAGA
* * * *
9992551 GAACATATTTCAAGTAACCATAGTTCGTAAA
65 GAAAACAGTTCAAGTAACCATAGTTCATAAA
9992582 CAGTA
1 CAGTA
9992587 AATCGGTGAT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 5 0.06
96 82 0.94
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (95 bp):
CAGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTACAATAAAAACAAGAAACCAGAG
AAAACAGTTCAAGTAACCATAGTTCATAAA
Found at i:10004335 original size:55 final size:55
Alignment explanation
Indices: 10004251--10004362 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
10004241 ACTCCCTTGT
10004251 GTGGTTTTCACCTCCGCATGGGATAGTGGATCACTTCTGGAGCTCACGCCTTATG
1 GTGGTTTTCACCTCCGCATGGGATAGTGGATCACTTCTGGAGCTCACGCCTTATG
10004306 GTGGTTTTCACCTCCGCATGGGATAGTGGATCACTTCTGGAGCTCACGCCTTATG
1 GTGGTTTTCACCTCCGCATGGGATAGTGGATCACTTCTGGAGCTCACGCCTTATG
10004361 GT
1 GT
10004363 CCTCATGATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (55 bp):
GTGGTTTTCACCTCCGCATGGGATAGTGGATCACTTCTGGAGCTCACGCCTTATG
Found at i:10007602 original size:81 final size:82
Alignment explanation
Indices: 10007492--10007651 Score: 304
Period size: 81 Copynumber: 2.0 Consensus size: 82
10007482 ATACCTCATT
10007492 TACGAAGACTTCCATGTATGAGATGATGAACAACTTTATTTCATTTATCCCTTCAAATATATG-T
1 TACGAAGACTTCCATGTATGAGATGATGAACAACTTTATTTCATTTATCCCTTCAAATATATGAT
10007556 ATATACCCCTTGTCCCC
66 ATATACCCCTTGTCCCC
10007573 TACGAAGACTTCCATGTATGAGATGATGAACAACTTTATTTCATTTATCCCTTCAAATATATGTA
1 TACGAAGACTTCCATGTATGAGATGATGAACAACTTTATTTCATTTATCCCTTCAAATATATG-A
10007638 TATATACCCCTTGT
65 TATATACCCCTTGT
10007652 TGTCCCCTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
81 63 0.82
83 14 0.18
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (82 bp):
TACGAAGACTTCCATGTATGAGATGATGAACAACTTTATTTCATTTATCCCTTCAAATATATGAT
ATATACCCCTTGTCCCC
Found at i:10009577 original size:16 final size:18
Alignment explanation
Indices: 10009549--10009583 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10009539 CAATGGGATA
10009549 AAAATGTATGAAG-AGTG
1 AAAATGTATGAAGTAGTG
10009566 AAAATG-ATGAAGTAGTG
1 AAAATGTATGAAGTAGTG
10009583 A
1 A
10009584 CAGTGGAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.23
Consensus pattern (18 bp):
AAAATGTATGAAGTAGTG
Found at i:10010550 original size:79 final size:79
Alignment explanation
Indices: 10010450--10010642 Score: 323
Period size: 79 Copynumber: 2.4 Consensus size: 79
10010440 AAGCAAATCA
* * * *
10010450 ATCTTAAGTCTTTACTAAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCTGAAAATGATGATT
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATT
10010515 AAGTCCTCCGGCCC
66 AAGTCCTCCGGCCC
* *
10010529 ATCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATT
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATT
*
10010594 AAGTCCTCCGGGCC
66 AAGTCCTCCGGCCC
10010608 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAAT
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAAT
10010643 CAATCTTAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 106 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (79 bp):
ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATT
AAGTCCTCCGGCCC
Found at i:10010649 original size:116 final size:116
Alignment explanation
Indices: 10010529--10010774 Score: 429
Period size: 116 Copynumber: 2.1 Consensus size: 116
10010519 CCTCCGGCCC
10010529 ATCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATT
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATT
* * *
10010594 AAGTCCTCCGGGCCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCA
66 AAGTCCTCCGAGCCATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAATCA
* *
10010645 ATCTTAAGCCTTCATTGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGACAATGATGATT
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATT
**
10010710 AAGTCCTCCGAGCCATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAATTT
66 AAGTCCTCCGAGCCATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAATCA
10010761 ATCTTAAGCCTTCA
1 ATCTTAAGCCTTCA
10010775 AGTAGTAAAG
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 123 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (116 bp):
ATCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATT
AAGTCCTCCGAGCCATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAATCA
Found at i:10010750 original size:195 final size:194
Alignment explanation
Indices: 10010413--10010773 Score: 598
Period size: 195 Copynumber: 1.9 Consensus size: 194
10010403 GAGCAAGTCA
* *
10010413 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGTCTTTACTAAAGAGTAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTAAAGAGTAGTGA
*
10010478 AGCAAATTCATCAGTAAGCCTTCTGAAAATGATGATTAAGTCCTCCGGCCCATCTTAAGCCTTCA
66 AGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATTAAGTCCTCCGGCCCATCTTAAGCCTTCA
* *
10010543 CTGAAGAGTAGTGAAACAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
131 CTAAAAAGTAGTGAAACAAATTCATC-GTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
* *
10010608 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATTGAAGAGTAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTAAAGAGTAGTGA
*
10010673 AGCAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGAG-CCATCTTAAGCCTTC
66 AGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATTAAGTCCTCCG-GCCCATCTTAAGCCTTC
* * *
10010737 ACTAAAAAGTAGTGAAGCAAATTTATCTTAAGCCTTC
130 ACTAAAAAGTAGTGAAACAAATTCATCGTAAGCCTTC
10010774 AAGTAGTAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
194 9 0.06
195 144 0.94
196 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (194 bp):
ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTAAAGAGTAGTGA
AGCAAATTCATCAGTAAGCCTTCCGAAAATGATGATTAAGTCCTCCGGCCCATCTTAAGCCTTCA
CTAAAAAGTAGTGAAACAAATTCATCGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
Found at i:10010786 original size:31 final size:31
Alignment explanation
Indices: 10010743--10010805 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10010733 CTTCACTAAA
* **
10010743 AAGTAGTGAAGCAAATTTATCTTAAGCCTTC
1 AAGTAGTAAAGCAAATCCATCTTAAGCCTTC
*
10010774 AAGTAGTAAAGCAAATCCATCTTAATCCTTC
1 AAGTAGTAAAGCAAATCCATCTTAAGCCTTC
10010805 A
1 A
10010806 CCGAAGAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (31 bp):
AAGTAGTAAAGCAAATCCATCTTAAGCCTTC
Found at i:10010850 original size:36 final size:36
Alignment explanation
Indices: 10010606--10010968 Score: 263
Period size: 36 Copynumber: 9.9 Consensus size: 36
10010596 GTCCTCCGGG
*
10010606 CCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* **
10010642 TCAATCTTAAGCCTTCATTGAAGAGTAGTGAAGCAAA
1 -CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* * * * * **** * *
10010679 TTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGAG
1 -CCATC-TTAAGCCTT-C-AC--CGAAGAGT-AGTGAAGCAAA
** *
10010722 CCATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
** *
10010758 TTTATCTTAAGCCTT---C--A-AGTAGTAAAGCAAA
1 -CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* * *
10010789 TCCATCTTAATCCTTCACCGAAGAGTAGTGAAGCGAT
1 -CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* * *
10010826 CTATCCTAAGCCTTCACCTG-AGAGTAGTGAAGCAAT
1 CCATCTTAAGCCTTCACC-GAAGAGTAGTGAAGCAAA
10010862 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* * * * *
10010898 CCATTTTAAGCCTTTACTGGAGAGTAGTGAAGTAAA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
* *
10010934 CTATCTTAAGCCTTCACCGAAGAAATAGTGAAGCA
1 CCATCTTAAGCCTTCACCGAAG-AGTAGTGAAGCA
10010969 GAAGAAGATG
Statistics
Matches: 255, Mismatches: 55, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
31 25 0.10
32 1 0.00
34 1 0.00
35 1 0.00
36 115 0.45
37 76 0.30
38 8 0.03
39 3 0.01
40 2 0.01
41 8 0.03
42 10 0.04
43 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (36 bp):
CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
Found at i:10011117 original size:55 final size:55
Alignment explanation
Indices: 10010971--10011466 Score: 589
Period size: 55 Copynumber: 9.1 Consensus size: 55
10010961 GTGAAGCAGA
*
10010971 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATT-C
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT-TTGC
** *
10011025 AGAAGATT-TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
* **
10011079 AGAAGATTATTCGAGTTCCATACT-CCTAAAAGAAAGAGGGAGATAACCCGTTTGC
1 AGAAGATTATTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGC
** * * *
10011134 AGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGA--GA-CGAACCCGTTTAC
1 AGAAGATTATTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGC
* * ** * * *
10011187 AGAAGATTATTTGAGTTCTATACTTTCT-GAAAAAAAAGGGAGTGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGC
* * *
10011242 AGAAGATTATTCGACTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
** ** *
10011297 AGAAGATTATTCGAGTTATATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
* *
10011352 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
* * * *
10011406 AGAAGA-TGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGA
1 AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
10011460 AGAAGAT
1 AGAAGAT
10011467 GTCTGAGTTC
Statistics
Matches: 387, Mismatches: 44, Indels: 21
0.86 0.10 0.05
Matches are distributed among these distances:
52 5 0.01
53 35 0.09
54 164 0.42
55 171 0.44
56 12 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (55 bp):
AGAAGATTATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGC
Found at i:10011248 original size:163 final size:164
Alignment explanation
Indices: 10010971--10011466 Score: 600
Period size: 163 Copynumber: 3.0 Consensus size: 164
10010961 GTGAAGCAGA
* ** *
10010971 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATT-CAGAAGATT-
1 AGAAGATTATTCGAGTTATATACTCCCTAAAGAAAGA-GGAGCGAACCCGT-TTACAGAAGATTA
* **
10011033 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATTATTCGAGTTCC
64 TTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTCGAGTTCC
**
10011098 ATACT-CCTAAAAGAAAGAGGGAGATAACCCGTTTGC
129 ATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGC
*
10011134 AGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGA-GA-CGAACCCGTTTACAGAAGATTAT
1 AGAAGATTATTCGAGTTATATACTCCCT-AAAGAAAGAGGAGCGAACCCGTTTACAGAAGATTAT
* ** * * * * * *
10011197 TTGAGTTCTATACTTTCT-GAAAAAAAAGGGAGTGAACCCGTTTGCAGAAGATTATTCGACTTCT
65 TTGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTCGAGTTCC
10011261 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
129 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
* **
10011297 AGAAGATTATTCGAGTTATATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TA-AGAAGAAGAT
1 AGAAGATTATTCGAGTTATATACTCCCTAAAGAAAGA-GGAGCGAACCCGTTTACAGAAGATTAT
* *
10011359 GTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTCCGAGTTC
65 -TT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTCGAGTTC
* * *
10011423 CATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGA
128 CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
10011460 AGAAGAT
1 AGAAGAT
10011467 GTCTGAGTTC
Statistics
Matches: 284, Mismatches: 37, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
161 2 0.01
162 35 0.12
163 168 0.59
164 62 0.22
165 17 0.06
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (164 bp):
AGAAGATTATTCGAGTTATATACTCCCTAAAGAAAGAGGAGCGAACCCGTTTACAGAAGATTATT
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTCGAGTTCCAT
ACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
Found at i:10011475 original size:54 final size:54
Alignment explanation
Indices: 10010969--10011486 Score: 575
Period size: 54 Copynumber: 9.5 Consensus size: 54
10010959 TAGTGAAGCA
*
10010969 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATT
1 GAAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT-TT
* **
10011024 -CAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAA
1 GAAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* **
10011077 GAAGAAGATTATTCGAGTTCCATACT-CCTAAAAGAAAGAGGGAGATAACCCGTTT
1 GAAGAAGATT-TTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT
* ** * *
10011132 GCAGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGA--GA-CGAACCCGTTT
1 GAAGAAGATT-TTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT
* * ** * * *
10011185 -ACAGAAGATTATTTGAGTTCTATACTTTCT-GAAAAAAAAGGGAGTGAACCCGTTT
1 GA-AGAAGATT-TTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
10011240 GCAGAAGATTATTCGACTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGAAGATT-TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* ** **
10011295 GCAGAAGATTATTCGAGTTATATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAA
1 GAAGAAGATT-TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
10011350 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 GAAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
10011404 GAAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATTT
1 GAAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
10011458 GAAGAAGA-TGTCTGAGTTCTATACTCCCT
1 GAAGAAGATTTTC-GAGTTCCATACTCCCT
10011487 GAAAAATGGG
Statistics
Matches: 401, Mismatches: 50, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
52 5 0.01
53 35 0.09
54 179 0.45
55 170 0.42
56 12 0.03
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (54 bp):
GAAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:10014550 original size:22 final size:22
Alignment explanation
Indices: 10014501--10014551 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10014491 ACTAATCTAA
* *
10014501 ATTTGTTATTTTAAATAAAATT
1 ATTTTTTATTTAAAATAAAATT
*
10014523 AATTTTTATTTAAAATAACAA-T
1 ATTTTTTATTTAAAATAA-AATT
10014545 ATTTTTT
1 ATTTTTT
10014552 GGTGTCCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTTTATTTAAAATAAAATT
Found at i:10017891 original size:10 final size:11
Alignment explanation
Indices: 10017876--10017907 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
10017866 TTCCTTTAAT
10017876 TTTTATTTTC-
1 TTTTATTTTCA
10017886 TTTTA-TTTCA
1 TTTTATTTTCA
10017896 TTTTATTTTCA
1 TTTTATTTTCA
10017907 T
1 T
10017908 CATTTGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.20
10 10 0.50
11 6 0.30
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:10019769 original size:7 final size:7
Alignment explanation
Indices: 10019753--10019816 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
10019743 CAATCAGAAC
*
10019753 AAAAAGG
1 AAAAAAG
10019760 AAAAAAG
1 AAAAAAG
*
10019767 AAACAAG
1 AAAAAAG
* *
10019774 CAAAGAG
1 AAAAAAG
10019781 AAAATAA-
1 AAAA-AAG
10019788 AAAAAAG
1 AAAAAAG
*
10019795 AAACAA-
1 AAAAAAG
*
10019801 AAAAATG
1 AAAAAAG
10019808 AAAAAAG
1 AAAAAAG
10019815 AA
1 AA
10019817 GACAATATGC
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
6 6 0.14
7 36 0.84
8 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:10019811 original size:21 final size:21
Alignment explanation
Indices: 10019781--10019821 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10019771 AAGCAAAGAG
10019781 AAAATAAAAAAAAGAA-ACAAA
1 AAAAT-AAAAAAAGAAGACAAA
*
10019802 AAAATGAAAAAAGAAGACAA
1 AAAATAAAAAAAGAAGACAA
10019822 TATGCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAATAAAAAAAGAAGACAAA
Found at i:10021609 original size:36 final size:36
Alignment explanation
Indices: 10021549--10021837 Score: 301
Period size: 36 Copynumber: 8.1 Consensus size: 36
10021539 AATTTACTCA
*
10021549 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
10021586 AAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTCG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
10021622 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
10021658 AAACAAA------ATCT-TTGA-ATATGTTTTCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCTTG
* * * **
10021687 GAACAAATTTTGTCTC-CTTTAAGACAGATTCTTTTG
1 AAACAAATTTTGTCTCTC-TTGAGACAGTTTCCCTTG
* * *
10021723 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
10021760 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
10021796 AAACAAAATTTTG-CTTCCCTGGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTC-TCTCTTGAGACAGTTTCCCTTG
10021833 AAACA
1 AAACA
10021838 CAAAAAACCT
Statistics
Matches: 212, Mismatches: 26, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 3 0.01
35 2 0.01
36 116 0.55
37 69 0.33
38 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:10021765 original size:138 final size:137
Alignment explanation
Indices: 10021550--10021808 Score: 405
Period size: 138 Copynumber: 1.9 Consensus size: 137
10021540 ATTTACTCAA
* * *
10021550 AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAGTT
1 AACAAAGTTTTGTCTCTCTTAAGACAGATTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
10021615 TCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTT
66 TCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTGAATATGTT
10021680 TTCCTTGG
130 TTCCTTGG
* * *
10021688 AACAAA-TTTTGTCTC-CTTTAAGACAGATTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AACAAAGTTTTGTCTCTC-TTAAGACAGATTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
10021751 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTG
64 TTTCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTG
10021809 CTTCCCTGGA
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
136 1 0.01
137 31 0.28
138 79 0.71
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (137 bp):
AACAAAGTTTTGTCTCTCTTAAGACAGATTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGAATATGTTT
TCCTTGG
Found at i:10021808 original size:73 final size:73
Alignment explanation
Indices: 10021679--10021837 Score: 189
Period size: 73 Copynumber: 2.2 Consensus size: 73
10021669 TTGAATATGT
* ** * * * *
10021679 TTTC-CTTGGAACAAATTTTGTCTCCTTTAAGACAGATTCTTTTGGAACTAAGTTTTG-TCTCTC
1 TTTCTCTTGAAACAAATTTTGTCTCCTTTAAGACAGATTCCCTTGAAACAAAATTTTGCT-TCCC
*
10021742 TTGAGACAG
65 TGGAGACAG
* *
10021751 TTTCTCTTGAAACAAATTTTGTCT-CTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCTTCCC
1 TTTCTCTTGAAACAAATTTTGTCTCCT-TTAAGACAGATTCCCTTGAAACAAAATTTTGCTTCCC
10021815 TGGAGACAG
65 TGGAGACAG
10021824 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
10021838 CAAAAAACCT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
72 6 0.08
73 67 0.91
74 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTTGTCTCCTTTAAGACAGATTCCCTTGAAACAAAATTTTGCTTCCCT
GGAGACAG
Found at i:10021833 original size:37 final size:37
Alignment explanation
Indices: 10021679--10021837 Score: 155
Period size: 37 Copynumber: 4.4 Consensus size: 37
10021669 TTGAATATGT
* * **
10021679 TTTC-CTTGGAAC-AAATTTTGTCTCCTTTAAGACAG
1 TTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAG
* * * * * * *
10021714 ATTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAG
* *
10021751 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAG
*
10021787 TTTCCCTTGAAACAAAATTTTG-CTTCCCTGGAGACAG
1 TTTCTCTTGAAACAAAATTTTGTC-TCCCTGGAGACAG
10021824 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
10021838 CAAAAAACCT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
35 3 0.03
36 42 0.40
37 61 0.58
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAG
Found at i:10021865 original size:33 final size:33
Alignment explanation
Indices: 10021824--10021937 Score: 157
Period size: 30 Copynumber: 3.5 Consensus size: 33
10021814 CTGGAGACAG
10021824 TTTCTCTTGAAACACAAAAAACCTTTGAAATCA
1 TTTCTCTTGAAACACAAAAAACCTTTGAAATCA
*
10021857 TTTCTCTTG-AA-A-AAAAAACCTTTGAAATCG
1 TTTCTCTTGAAACACAAAAAACCTTTGAAATCA
*
10021887 TTTCTCTTGGAATACAAAAAAAACCTTTGAAA--A
1 TTTCTCTT-GAA-ACACAAAAAACCTTTGAAATCA
10021920 TTTCTCTTGAAACACAAA
1 TTTCTCTTGAAACACAAA
10021938 GATATTCGAG
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
30 25 0.34
31 8 0.11
32 6 0.08
33 18 0.25
34 1 0.01
35 15 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (33 bp):
TTTCTCTTGAAACACAAAAAACCTTTGAAATCA
Found at i:10024011 original size:21 final size:22
Alignment explanation
Indices: 10023987--10024056 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 22
10023977 TTCATAGGAT
10023987 ATTT-TATTTTATTATTTTTTC
1 ATTTCTATTTTATTATTTTTTC
*
10024008 ATTTCT-TTTCCTTTTGATTTACTTTC
1 ATTTCTATTT--TATT-ATTT--TTTC
10024034 ATTTCTATTTTAATTATTTTTTC
1 ATTTCTATTTT-ATTATTTTTTC
10024057 TCCTTTATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
21 7 0.18
22 1 0.03
23 7 0.18
24 4 0.10
25 5 0.13
26 12 0.31
27 3 0.08
ACGTcount: A:0.17, C:0.11, G:0.01, T:0.70
Consensus pattern (22 bp):
ATTTCTATTTTATTATTTTTTC
Found at i:10028581 original size:154 final size:148
Alignment explanation
Indices: 10028327--10028628 Score: 541
Period size: 154 Copynumber: 2.0 Consensus size: 148
10028317 TGGCTCTTTC
10028327 ATTCAATGACATGTTCATCGTCCGCAACACCATTCTTGTGGTCTTGCGCACTGTAAAATGCCTCT
1 ATTCAATGACATGTTCATCGTCCGCAACACCATTCTTGTGGTCTTGCGCACTGTAAAATGCCTCT
10028392 AAATCCTATGCCCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTACCATTGTCAGAC
66 AAATCCTATGCCCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTACCATTGTCAGAC
10028457 CGCAAACACTTGATTTTT
131 CGCAAACACTTGATTTTT
10028475 ATTCAATGACATGTTCATTCGTTCCGCAACACCATTCTGTTGTGGTGTCTTGCGCACTGTAAAAT
1 ATTCAATGACATGTTCA-TCG-TCCGCAACACCATTC--TTGT-G-GTCTTGCGCACTGTAAAAT
*
10028540 GCCTCTAAATCCTATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTACCATTG
60 GCCTCTAAATCCTATGCCCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTACCATTG
10028605 TCAGACCGCAAACACTTGATTTTT
125 TCAGACCGCAAACACTTGATTTTT
10028629 CGTCCTGTTT
Statistics
Matches: 147, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
148 17 0.12
149 3 0.02
150 15 0.10
152 4 0.03
153 1 0.01
154 107 0.73
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (148 bp):
ATTCAATGACATGTTCATCGTCCGCAACACCATTCTTGTGGTCTTGCGCACTGTAAAATGCCTCT
AAATCCTATGCCCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTACCATTGTCAGAC
CGCAAACACTTGATTTTT
Found at i:10031408 original size:19 final size:18
Alignment explanation
Indices: 10031373--10031416 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10031363 AAAATAAGAG
*
10031373 AAAAATAAAGATGCAATA
1 AAAAATAAAGAAGCAATA
10031391 TAAAAATAAA-AAGACAATA
1 -AAAAATAAAGAAG-CAATA
10031410 AAAAATA
1 AAAAATA
10031417 TCAACGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAATAAAGAAGCAATA
Found at i:10032169 original size:21 final size:21
Alignment explanation
Indices: 10032145--10032218 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
10032135 GCGTTGCATT
10032145 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
10032166 TCGCGTTGAGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
10032186 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
10032207 TCGCGTTGCGAT
1 TCGCGTTGCGAT
10032219 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:10032188 original size:41 final size:41
Alignment explanation
Indices: 10032141--10032238 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
10032131 ATTCGCGTTG
10032141 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTC
* *
10032182 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTC
10032223 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
10032239 TTTCTACAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTC
Found at i:10032191 original size:20 final size:20
Alignment explanation
Indices: 10032166--10032266 Score: 87
Period size: 20 Copynumber: 4.9 Consensus size: 20
10032156 TAGTTGAAAA
*
10032166 TCGCGTTGAGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
10032186 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
10032207 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
*
10032227 TCGCGTTGCGATTTTCTACAGT
1 TCGCGTTGCGATTTTC--CATT
10032249 T-GTCGTTGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
10032267 AATTCGTTGC
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
20 31 0.48
21 16 0.25
22 17 0.27
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:10032258 original size:22 final size:21
Alignment explanation
Indices: 10032207--10032264 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
10032197 TAGTTGAAAA
*
10032207 TCGCGTTGCGATTTT-TCATT
1 TCGCGTTGCGATTTTCTCAGT
10032227 TCGCGTTGCGATTTTCTACAGT
1 TCGCGTTGCGATTTTCT-CAGT
10032249 T-GTCGTTGCGATTTTC
1 TCG-CGTTGCGATTTTC
10032265 CAAATTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 15 0.44
21 2 0.06
22 17 0.50
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCTCAGT
Found at i:10032878 original size:5 final size:5
Alignment explanation
Indices: 10032864--10032895 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10032854 CCGCCGCCGC
10032864 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
10032896 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:10032903 original size:6 final size:6
Alignment explanation
Indices: 10032892--10032922 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10032882 TCGTCTCGTC
10032892 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
10032923 AATACGTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:10033022 original size:19 final size:19
Alignment explanation
Indices: 10032998--10033063 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
10032988 TCTTTTTTTT
10032998 CAACGAATTTGAAAAATCG
1 CAACGAATTTGAAAAATCG
** **
10033017 CAACGACAACTGTAGACTATCG
1 CAACGA-ATTTG-A-AAAATCG
*
10033039 CAACGAATTTGGAAAATCG
1 CAACGAATTTGAAAAATCG
10033058 CAACGA
1 CAACGA
10033064 CAACTGCAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 17 0.49
20 3 0.09
21 4 0.11
22 11 0.31
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGAAAAATCG
Found at i:10033040 original size:22 final size:22
Alignment explanation
Indices: 10033013--10033084 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
10033003 AATTTGAAAA
10033013 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
10033035 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
10033054 ATCGCAACGACAACTGCAGACT
1 ATCGCAACGACAACTGTAGACT
10033076 ATCGCAACG
1 ATCGCAACG
10033085 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:10033043 original size:41 final size:41
Alignment explanation
Indices: 10032998--10033104 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
10032988 TCTTTTTTTT
*
10032998 CAACGAATTTGAAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTGAAAAATCGCAACGACAACTGCAGACTATCG
*
10033039 CAACGAATTTGGAAAATCGCAACGACAACTGCAGACTATCG
1 CAACGAATTTGAAAAATCGCAACGACAACTGCAGACTATCG
*
10033080 CAACGCGAA-ATGAAAAATCGCAACG
1 CAA--CGAATTTGAAAAATCGCAACG
10033105 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 42 0.70
42 14 0.23
43 4 0.07
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (41 bp):
CAACGAATTTGAAAAATCGCAACGACAACTGCAGACTATCG
Found at i:10033101 original size:20 final size:20
Alignment explanation
Indices: 10033076--10033271 Score: 142
Period size: 20 Copynumber: 9.6 Consensus size: 20
10033066 ACTGCAGACT
10033076 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
10033096 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
* ** * **
10033116 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
** * **
10033137 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
*
10033158 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
* * **
10033178 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAA-ATGAAAA
*
10033199 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
** * **
10033219 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
10033240 ATCGCAACGCGAAATGGAAAA
1 ATCGCAACGCGAAAT-GAAAA
10033261 A-CGCAACGCGA
1 ATCGCAACGCGA
10033272 TTTTCAACTA
Statistics
Matches: 138, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
20 71 0.51
21 67 0.49
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:10033145 original size:21 final size:21
Alignment explanation
Indices: 10033073--10033293 Score: 164
Period size: 21 Copynumber: 10.8 Consensus size: 21
10033063 ACAACTGCAG
* *
10033073 ACTATCGCAACGCGAA-ATGA
1 ACTATCGCAACGCGAATTTCA
** * *
10033093 AAAATCGCAACGCGAA-ATGA
1 ACTATCGCAACGCGAATTTCA
** * *
10033113 AAAATCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
*
10033134 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
* **
10033155 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
*
10033176 A-AATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAATTTCA
* **
10033196 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* *
10033217 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
* **
10033237 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* * *
10033258 A-AAACGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
*
10033278 ACTATCGCAATGCGAA
1 ACTATCGCAACGCGAA
10033294 ATGCAACGTG
Statistics
Matches: 156, Mismatches: 41, Indels: 7
0.76 0.20 0.03
Matches are distributed among these distances:
20 77 0.49
21 79 0.51
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTCA
Found at i:10033182 original size:41 final size:41
Alignment explanation
Indices: 10033073--10033296 Score: 297
Period size: 41 Copynumber: 5.5 Consensus size: 41
10033063 ACAACTGCAG
* ** *
10033073 ACTATCGCAACGCGAAATGAAAAATCGCAACGCGA-AATGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
** * ** ** *
10033113 AAAATCGTAACGCGATTTTCAACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCA
*
10033155 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
10033196 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
10033237 ACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
10033278 ACTATCGCAATGCGAAATG
1 ACTATCGCAACGCGAAATG
10033297 CAACGTGAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 15 0.09
41 127 0.80
42 17 0.11
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:10033252 original size:62 final size:60
Alignment explanation
Indices: 10033050--10033230 Score: 202
Period size: 62 Copynumber: 3.0 Consensus size: 60
10033040 AACGAATTTG
* * *
10033050 GAAAATCGCAACGAC-AACTGCAGACTATCGCAACGCGAAATGAAAAATCGCAACGCGAAAT
1 GAAAATCGCAACG-CGAATTTCA-ACTATCGCAACGCGAAATGAAAAATCGCAACGCGAATT
* * ** * ** *
10033111 GAAAAATCGTAACGCGATTTTCAACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 G-AAAATCGCAACGCGAATTTCAACTATCGCAACGCGA-AATGAAAAATCGCAACGCG-AATT
*
10033174 GAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 GAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGA
10033231 TTTTCAACTA
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
60 1 0.01
61 30 0.31
62 63 0.65
63 3 0.03
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (60 bp):
GAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGAATT
Found at i:10033266 original size:123 final size:123
Alignment explanation
Indices: 10033032--10033296 Score: 313
Period size: 123 Copynumber: 2.1 Consensus size: 123
10033022 ACAACTGTAG
*
10033032 ACTATCGCAA-CGAATTTGGAAAATCGCAACGACAACTGCAGACTATCGCAACGCGAAATGAAAA
1 ACTATCGCAAGCGAA-ATGGAAAATCGCAACGACAACTGCAGACTATCGCAACGCGAAATGAAAA
* * ** * * *
10033096 ATCGCAACGCGAAATGAAAAATCGTAACGCGATTTTCAACTATCGCAACGCGATTTTCA
65 ATCGCAACGCGAAATCAAAAATCGCAACGCGAAATGCAACAAACGCAACGCGATTTTCA
* * *
10033155 ACTATCGCAACGCGAAATGGAAAATCGCAACG-CGAATTTCA-ACTATCGCAACGCGAAATGGAA
1 ACTATCGCAA-GCGAAATGGAAAATCGCAACGAC-AACTGCAGACTATCGCAACGCGAAATGAAA
** ** *
10033218 AATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-AAACGCAACGCGATTTTCA
64 AATCGCAACGCGA-AATCAAAAATCGCAACGCGAAATGCAACAAACGCAACGCGATTTTCA
10033278 ACTATCGCAATGCGAAATG
1 ACTATCGCAA-GCGAAATG
10033297 CAACGTGAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
123 80 0.66
124 37 0.31
125 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (123 bp):
ACTATCGCAAGCGAAATGGAAAATCGCAACGACAACTGCAGACTATCGCAACGCGAAATGAAAAA
TCGCAACGCGAAATCAAAAATCGCAACGCGAAATGCAACAAACGCAACGCGATTTTCA
Found at i:10035899 original size:17 final size:18
Alignment explanation
Indices: 10035856--10035896 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10035846 AATTTATATT
10035856 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
10035873 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
10035891 ATTAAA
1 AGTAAA
10035897 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:10036654 original size:22 final size:22
Alignment explanation
Indices: 10036629--10036691 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
10036619 GTAACGCGAT
10036629 TTTGAAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGAGAG
*
10036651 TTTGAAAAACATGTTGTTGCGATAG
1 TTTG-AAAA-ATG-TGTTGCGAGAG
10036676 --TGAAAAA-GTGTTGCGA
1 TTTGAAAAATGTGTTGCGA
10036692 TAGTGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 1 0.03
22 8 0.22
23 6 0.16
24 3 0.08
25 10 0.27
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (22 bp):
TTTGAAAAATGTGTTGCGAGAG
Found at i:10036689 original size:19 final size:19
Alignment explanation
Indices: 10036665--10036701 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10036655 AAAAACATGT
10036665 TGTTGCGATAGTGAAAAAG
1 TGTTGCGATAGTGAAAAAG
10036684 TGTTGCGATAGTGAAAAA
1 TGTTGCGATAGTGAAAAA
10036702 TCCAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAGTGAAAAAG
Found at i:10037227 original size:21 final size:21
Alignment explanation
Indices: 10037174--10037241 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
10037164 TGCGATAGTC
* *
10037174 AGAATCGCGTTGCGATTTAC-
1 AGAATCACGTTGCGATTTTCT
* * *
10037194 ATATTCACATTGCGATTTTCT
1 AGAATCACGTTGCGATTTTCT
10037215 AGAATCACGTTGCGATTTTCT
1 AGAATCACGTTGCGATTTTCT
*
10037236 AAAATC
1 AGAATC
10037242 GCAACGCTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (21 bp):
AGAATCACGTTGCGATTTTCT
Found at i:10037363 original size:21 final size:21
Alignment explanation
Indices: 10037339--10037379 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10037329 AGATCGCATT
* *
10037339 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
*
10037360 GCGAATTTGGAAAATCGCAA
1 GCGAATTTCGAAAATCGCAA
10037380 TGTGATAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:10037375 original size:113 final size:115
Alignment explanation
Indices: 10037224--10037467 Score: 357
Period size: 113 Copynumber: 2.1 Consensus size: 115
10037214 TAGAATCACG
* *
10037224 TTGCGATTTTCTAAAATCGCAACGCTAATTTGGAAAATCAAAATACGATAGTTAAAATCGCGTTG
1 TTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCAAAATACGATAGTCAAAATCGCGTTG
10037289 CGAATCTGGAAACTGATTTACGATAC-G-CGTTGCGATTTAGAGATCGCA
66 CGAATCTGGAAACTGATTTACGATACGGACGTTGCGATTTAGAGATCGCA
** **
10037337 TTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCGCAATGTGATAGTCAAAATCGCGTTG
1 TTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCAAAATACGATAGTCAAAATCGCGTTG
*
10037402 CGAATCTGGAAACTGATTTGCGATACTGGAGATCACGTTGCGATTTAGAGATCGCA
66 CGAATCTGGAAACTGATTTACGATAC--G-G---ACGTTGCGATTTAGAGATCGCA
10037458 TTGCGATTTT
1 TTGCGATTTT
10037468 ATTGGTCATT
Statistics
Matches: 116, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
113 84 0.72
117 1 0.01
121 31 0.27
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (115 bp):
TTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCAAAATACGATAGTCAAAATCGCGTTG
CGAATCTGGAAACTGATTTACGATACGGACGTTGCGATTTAGAGATCGCA
Found at i:10037454 original size:19 final size:19
Alignment explanation
Indices: 10037430--10037466 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10037420 TGCGATACTG
*
10037430 GAGATCACGTTGCGATTTA
1 GAGATCACATTGCGATTTA
*
10037449 GAGATCGCATTGCGATTT
1 GAGATCACATTGCGATTT
10037467 TATTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCACATTGCGATTTA
Found at i:10045087 original size:20 final size:20
Alignment explanation
Indices: 10045062--10045099 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10045052 TATGAATTGC
* *
10045062 CCAATGCATTTTTATATGGT
1 CCAATGCACTATTATATGGT
10045082 CCAATGCACTATTATATG
1 CCAATGCACTATTATATG
10045100 AGATTTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
CCAATGCACTATTATATGGT
Found at i:10054196 original size:20 final size:19
Alignment explanation
Indices: 10054167--10054204 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10054157 TTTATTTAAG
10054167 GTAGGTATCGATACATTCT
1 GTAGGTATCGATACATTCT
*
10054186 GTAGTGTATCGGTACATTC
1 GTAG-GTATCGATACATTC
10054205 CTTAACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (19 bp):
GTAGGTATCGATACATTCT
Found at i:10054314 original size:64 final size:64
Alignment explanation
Indices: 10054213--10054333 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 64
10054203 TCCTTAACAT
*
10054213 GTGTATCGATACACTACCTATATATCAATACACAAATTGCATTCGATGTTTTTATTTACCAATA
1 GTGTATCGATACACTACCTATATATCAATACACAAATTACATTCGATGTTTTTATTTACCAATA
** * *
10054277 GTGTATCGATACACTTTCTATGTATTAATACACAAATTACATTCGATGTTTTTATTT
1 GTGTATCGATACACTACCTATATATCAATACACAAATTACATTCGATGTTTTTATTT
10054334 TAAGAGGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (64 bp):
GTGTATCGATACACTACCTATATATCAATACACAAATTACATTCGATGTTTTTATTTACCAATA
Found at i:10058323 original size:20 final size:21
Alignment explanation
Indices: 10058298--10058336 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10058288 AGTGGCTGAA
10058298 AACCGG-TTTGAACGGTTTTG
1 AACCGGTTTTGAACGGTTTTG
*
10058318 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGAACGGTTT
10058337 GACCCGACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (21 bp):
AACCGGTTTTGAACGGTTTTG
Found at i:10058326 original size:11 final size:11
Alignment explanation
Indices: 10058298--10058336 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
10058288 AGTGGCTGAA
10058298 AACCGG-TTTG
1 AACCGGTTTTG
10058308 AA-CGGTTTTG
1 AACCGGTTTTG
10058318 AACCGGTTTTG
1 AACCGGTTTTG
10058329 -ACCGGTTT
1 AACCGGTTT
10058337 GACCCGACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 3 0.11
10 16 0.59
11 8 0.30
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:10058339 original size:9 final size:10
Alignment explanation
Indices: 10058299--10058340 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
10058289 GTGGCTGAAA
10058299 ACCGG-TTTG
1 ACCGGTTTTG
*
10058308 AACGGTTTTG
1 ACCGGTTTTG
10058318 AACCGGTTTTG
1 -ACCGGTTTTG
10058329 ACCGG-TTTG
1 ACCGGTTTTG
10058338 ACC
1 ACC
10058341 CGACCGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 11 0.38
10 9 0.31
11 9 0.31
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:10058349 original size:9 final size:9
Alignment explanation
Indices: 10058337--10058373 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
10058327 TGACCGGTTT
10058337 GACCCGACC
1 GACCCGACC
10058346 GACCCGAACC
1 GACCCG-ACC
10058356 GA-CCGACC
1 GACCCGACC
10058364 GACCCGACC
1 GACCCGACC
10058373 G
1 G
10058374 TTGACCGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 5 0.19
9 16 0.62
10 5 0.19
ACGTcount: A:0.24, C:0.51, G:0.24, T:0.00
Consensus pattern (9 bp):
GACCCGACC
Found at i:10063400 original size:209 final size:210
Alignment explanation
Indices: 10063038--10063458 Score: 808
Period size: 209 Copynumber: 2.0 Consensus size: 210
10063028 TTTGGAGTTA
10063038 GCAGCAATGATTTTTTCCTTGAAGATTTGGAGACACTATCTTTATAGAGAGAAGTGTTACAGTTT
1 GCAGCAATGATTTTTTCCTTGAAGATTTGGAGACACTATCTTTATA-AGAGAAGTGTTACAGTTT
10063103 CACGGATCATAAGAGTTTAAAGTATCTTCTGACCCAGAAGGAGCTTAATTTGAGACAGCGACTCT
65 CACGGATCATAAGAGTTTAAAGTATCTTCTGACCCAGAAGGAGCTTAATTTGAGACAGCGACTCT
*
10063168 GGCTAGAGCTTCAAAAGGATTATGATTGCGTGATTGATTATCACCTTGGTAAAGCTAATATTGTA
130 GGCTAGAGCTTCAAAAGGATTATGATTGCGTGATTGATTATCACCCTGGTAAAGCTAATATTGTA
10063233 GCGGATGCTTTGAGTC
195 GCGGATGCTTTGAGTC
10063249 GCAGCAATGATTTTTTCCTTGAAGATTTGGAGACACTATCTTTAT-AGAGAAGTGTTACAGTTTC
1 GCAGCAATGATTTTTTCCTTGAAGATTTGGAGACACTATCTTTATAAGAGAAGTGTTACAGTTTC
10063313 ACGGATCATAAGAGTTTAAAGTATCTTCTGACCCAGAAGGAGCTTAATTTGAGACAGCGACTCTG
66 ACGGATCATAAGAGTTTAAAGTATCTTCTGACCCAGAAGGAGCTTAATTTGAGACAGCGACTCTG
*
10063378 GCTAGAGCTTCTAAAGGATTATGATTGCGTGATTGATTATCACCCTGGTAAAGCTAATATTGTAG
131 GCTAGAGCTTCAAAAGGATTATGATTGCGTGATTGATTATCACCCTGGTAAAGCTAATATTGTAG
10063443 CGGATGCTTTGAGTC
196 CGGATGCTTTGAGTC
10063458 G
1 G
10063459 AAAGGCGGTA
Statistics
Matches: 208, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
209 163 0.78
211 45 0.22
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (210 bp):
GCAGCAATGATTTTTTCCTTGAAGATTTGGAGACACTATCTTTATAAGAGAAGTGTTACAGTTTC
ACGGATCATAAGAGTTTAAAGTATCTTCTGACCCAGAAGGAGCTTAATTTGAGACAGCGACTCTG
GCTAGAGCTTCAAAAGGATTATGATTGCGTGATTGATTATCACCCTGGTAAAGCTAATATTGTAG
CGGATGCTTTGAGTC
Found at i:10065797 original size:7 final size:7
Alignment explanation
Indices: 10065782--10065812 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10065772 CGCCCCGACC
10065782 GACCGTT
1 GACCGTT
*
10065789 GATCGTT
1 GACCGTT
10065796 GACCGTT
1 GACCGTT
10065803 GACCGTT
1 GACCGTT
10065810 GAC
1 GAC
10065813 TTCCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:10072640 original size:64 final size:64
Alignment explanation
Indices: 10072564--10072684 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
10072554 TCCTTAACAT
* * *
10072564 GTGTATCGATACACTACCTATGTATCGATACACAAATTGCGTTCGATGTTTTTATTTACCAAGA
1 GTGTATCAATACACTACCTATGTATCGATACACAAATTACATTCGATGTTTTTATTTACCAAGA
** *
10072628 GTGTATCAATACACTTTCTATGTATTGATACACAAATTACATTCGATGTTTTTATTT
1 GTGTATCAATACACTACCTATGTATCGATACACAAATTACATTCGATGTTTTTATTT
10072685 TAAGGGGTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (64 bp):
GTGTATCAATACACTACCTATGTATCGATACACAAATTACATTCGATGTTTTTATTTACCAAGA
Found at i:10075573 original size:34 final size:34
Alignment explanation
Indices: 10075509--10075573 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
10075499 AGATAATATA
* *
10075509 TTTTAATTTAAAATATTTAAAATATCTTTTTGAT
1 TTTTAATTTAAAATATATAAAATATATTTTTGAT
10075543 TTTTAAATTTAAAA-ATATAATAA-ATATTTTT
1 TTTT-AATTTAAAATATATAA-AATATATTTTT
10075574 TAATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 16 0.59
35 11 0.41
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (34 bp):
TTTTAATTTAAAATATATAAAATATATTTTTGAT
Found at i:10079724 original size:15 final size:16
Alignment explanation
Indices: 10079689--10079732 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
10079679 ACTCTAAAAG
10079689 ATAATATCTTTTGATAT
1 ATAATATCTTTTGA-AT
10079706 ATAATATCTTTTG-AT
1 ATAATATCTTTTGAAT
10079721 ATAATATCTTTT
1 ATAATATCTTTT
10079733 AATTTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 14 0.52
17 13 0.48
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (16 bp):
ATAATATCTTTTGAAT
Found at i:10079764 original size:35 final size:34
Alignment explanation
Indices: 10079724--10079842 Score: 121
Period size: 36 Copynumber: 3.4 Consensus size: 34
10079714 TTTTGATATA
* *
10079724 ATATCTTTTAATTTGAATTATTTAAAAAGAAGTTG
1 ATATCTTTTAATTTAAATTATTTAAAAATAA-TTG
* * * **
10079759 ATATCTTTTTAATATTTAATTTTTTTAAAATAATAA
1 ATATC-TTTTAAT-TTAAATTATTTAAAAATAATTG
*
10079795 ATATCTTTTAATTTAAAATATTTAAAAATATATTG
1 ATATCTTTTAATTTAAATTATTTAAAAATA-ATTG
10079830 ATATCCTTTTAAT
1 ATAT-CTTTTAAT
10079843 ATATTTTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
34 14 0.21
35 18 0.26
36 21 0.31
37 15 0.22
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (34 bp):
ATATCTTTTAATTTAAATTATTTAAAAATAATTG
Found at i:10080283 original size:2 final size:2
Alignment explanation
Indices: 10080273--10080310 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10080263 TTTATTTTTT
10080273 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10080311 TTGTATTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10080382 original size:26 final size:26
Alignment explanation
Indices: 10080347--10080422 Score: 134
Period size: 26 Copynumber: 2.9 Consensus size: 26
10080337 ACTATTTTTA
*
10080347 TCTTCTAAAATTTTACAAATTCACAT
1 TCTTTTAAAATTTTACAAATTCACAT
*
10080373 TCTTTTAAAAATTTACAAATTCACAT
1 TCTTTTAAAATTTTACAAATTCACAT
10080399 TCTTTTAAAATTTTACAAATTCAC
1 TCTTTTAAAATTTTACAAATTCAC
10080423 CCATAATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (26 bp):
TCTTTTAAAATTTTACAAATTCACAT
Found at i:10081255 original size:14 final size:14
Alignment explanation
Indices: 10081236--10081263 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10081226 TTTTTAATAT
10081236 GATTGAAATTTCTG
1 GATTGAAATTTCTG
10081250 GATTGAAATTTCTG
1 GATTGAAATTTCTG
10081264 ATCATATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
GATTGAAATTTCTG
Found at i:10086134 original size:15 final size:15
Alignment explanation
Indices: 10086114--10086145 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10086104 ACTGTTGAAA
*
10086114 TCCTCATCTTCTTCT
1 TCCTCATCATCTTCT
10086129 TCCTCATCATCTTCT
1 TCCTCATCATCTTCT
10086144 TC
1 TC
10086146 ACCCGCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (15 bp):
TCCTCATCATCTTCT
Found at i:10086154 original size:18 final size:18
Alignment explanation
Indices: 10086117--10086155 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10086107 GTTGAAATCC
** *
10086117 TCATCTTCTTCTTCCTCA
1 TCATCTTCTTCACCCGCA
10086135 TCATCTTCTTCACCCGCA
1 TCATCTTCTTCACCCGCA
10086153 TCA
1 TCA
10086156 GAAAAATGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.41, G:0.03, T:0.41
Consensus pattern (18 bp):
TCATCTTCTTCACCCGCA
Found at i:10087460 original size:109 final size:109
Alignment explanation
Indices: 10087269--10087486 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
10087259 ATCAAGTAGG
10087269 GCTCGGCCATCAAATCTAAAACATGAGCATAACGAATTAATTTATAAAAAAATCGTCTAGAAGAA
1 GCTCGGCCATCAAATCTAAAACATGAGCATAACGAATTAATTTATAAAAAAATCGTCTAGAAGAA
10087334 TCCTGGTAATGAAGATAAATGAGAAATCAAAACTACCTATCGAT
66 TCCTGGTAATGAAGATAAATGAGAAATCAAAACTACCTATCGAT
10087378 GCTCGGCCATCAAATCTAAAACATGAGCATAACGAATTAATTTATAAAAAAATCGTCTAGAAGAA
1 GCTCGGCCATCAAATCTAAAACATGAGCATAACGAATTAATTTATAAAAAAATCGTCTAGAAGAA
10087443 TCCTGGTAATGAAGATAAATGAGAAATCAAAACTACCTATCGAT
66 TCCTGGTAATGAAGATAAATGAGAAATCAAAACTACCTATCGAT
10087487 TAAAATATCT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.24
Consensus pattern (109 bp):
GCTCGGCCATCAAATCTAAAACATGAGCATAACGAATTAATTTATAAAAAAATCGTCTAGAAGAA
TCCTGGTAATGAAGATAAATGAGAAATCAAAACTACCTATCGAT
Found at i:10087581 original size:22 final size:22
Alignment explanation
Indices: 10087556--10087607 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
10087546 ATTGATGGAT
10087556 GAAATAGAAGATTATATAAGGG
1 GAAATAGAAGATTATATAAGGG
10087578 GAAATAGAAGATTATATAAGGG
1 GAAATAGAAGATTATATAAGGG
*
10087600 AAAATAGA
1 GAAATAGA
10087608 TGCTTACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (22 bp):
GAAATAGAAGATTATATAAGGG
Found at i:10088146 original size:60 final size:60
Alignment explanation
Indices: 10088104--10088219 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
10088094 AACTATAGGG
* ***
10088104 TACTACTTTATTAAGTCCTTTGACTATTAAAAGTAAAAAAATGGTCTTTCGACTATAAAA
1 TACTACTTTATTAAGTCCCTTGACTATTAAAAGTAAAAAAATGGTCACCCGACTATAAAA
** *
10088164 TGTTACTTTATTAAGTCCCTTGACTATTAAAAGGT-ACAAAATGGTCACCCGACTAT
1 TACTACTTTATTAAGTCCCTTGACTATTAAAA-GTAAAAAAATGGTCACCCGACTAT
10088220 TCATTATGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (60 bp):
TACTACTTTATTAAGTCCCTTGACTATTAAAAGTAAAAAAATGGTCACCCGACTATAAAA
Found at i:10088767 original size:13 final size:13
Alignment explanation
Indices: 10088749--10088774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10088739 ACTTGTCCTT
10088749 AAAAATATAACTC
1 AAAAATATAACTC
10088762 AAAAATATAACTC
1 AAAAATATAACTC
10088775 CAATTGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATATAACTC
Found at i:10093178 original size:31 final size:31
Alignment explanation
Indices: 10093074--10093178 Score: 104
Period size: 31 Copynumber: 3.4 Consensus size: 31
10093064 CAAAATTAAC
* * *
10093074 AAATTGATCATTAACGTTATCGATTTGTAACA
1 AAATT-ATCACTAACATTATCGATTTGTAATA
* * * * * *
10093106 AAATAATAACTAATATTAACAATTTATAATA
1 AAATTATCACTAACATTATCGATTTGTAATA
10093137 AAA-TAGTCACTAACATTATCGATTTGTAATA
1 AAATTA-TCACTAACATTATCGATTTGTAATA
10093168 AAATTATCACT
1 AAATTATCACT
10093179 CCACCGTCGC
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
30 1 0.02
31 49 0.88
32 6 0.11
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (31 bp):
AAATTATCACTAACATTATCGATTTGTAATA
Found at i:10095185 original size:21 final size:20
Alignment explanation
Indices: 10095137--10095186 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10095127 ATTACTATCA
*
10095137 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAA-ATCG
**
10095158 CGTTGCGATTTTCCCAAATCG
1 CAATGCGATTTT-CCAAATCG
10095179 CAATGCGA
1 CAATGCGA
10095187 ATTTGGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (20 bp):
CAATGCGATTTTCCAAATCG
Found at i:10095251 original size:21 final size:21
Alignment explanation
Indices: 10095217--10095289 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
10095207 ATACTGACTA
* *
10095217 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
10095238 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
10095258 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
10095279 TCGCAATGCGA
1 TCGCAATGCGA
10095290 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:10095304 original size:20 final size:20
Alignment explanation
Indices: 10095279--10095372 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
10095269 TTTTCATAAT
10095279 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
10095299 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
10095319 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
10095340 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
10095360 TCGCAATGCGAAT
1 TCGCAATGCGAAT
10095373 CTGACTATCG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 46 0.72
21 18 0.28
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:10095310 original size:41 final size:40
Alignment explanation
Indices: 10095173--10095398 Score: 115
Period size: 41 Copynumber: 5.5 Consensus size: 40
10095163 CGATTTTCCC
* *
10095173 AAATCGCAATGCGAATTTGGA-AAATCGCAATGTG-ATAC-T
1 AAATCGCAATGCG-ATTT-CATAAATCGCAATGCGAATACGT
* * * * * *
10095212 GACTATCGCAATGCAATTTTCCTAATTCGCATTGCGATTTACGT
1 -A-AATCGCAATGCGA-TTTCATAAATCGCAATGCGA-ATACGT
* ** *
10095256 -ATTCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGT
1 AAATCGCAATGCGA-TTTCATAAATCGCAATGCGAATACGT
* * * *
10095296 AAATCGCAACGCGA-TTAAGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGATTTCA-TAAATCGCAATGCGAA-TACGT
* * *
10095337 AAATCGCAATGCGAATACGTAAATCGCAATGCGAAT-C-T
1 AAATCGCAATGCGATTTCATAAATCGCAATGCGAATACGT
*
10095375 GACTATCGCAATGCGATTTACATA
1 -A-AATCGCAATGCGATTT-CATA
10095399 GCGCCATTCG
Statistics
Matches: 139, Mismatches: 34, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
39 4 0.03
40 36 0.26
41 94 0.68
42 1 0.01
43 3 0.02
44 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (40 bp):
AAATCGCAATGCGATTTCATAAATCGCAATGCGAATACGT
Found at i:10095955 original size:19 final size:19
Alignment explanation
Indices: 10095913--10095972 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
10095903 TAGTTTCGAG
* *
10095913 AATGAAAATCGCAAGGTGGA
1 AATGAAAATCGCAACG-CGA
**
10095933 AATGACTATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
10095952 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
10095971 AA
1 AA
10095973 CCAAAATTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:10095978 original size:19 final size:19
Alignment explanation
Indices: 10095940--10095979 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10095930 GGAAATGACT
**
10095940 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACCAAA
10095959 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACCAAA
10095978 AT
1 AT
10095980 TGCATTGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.10
Consensus pattern (19 bp):
ATCGCAACGCGAAACCAAA
Found at i:10096020 original size:14 final size:14
Alignment explanation
Indices: 10096001--10096089 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
10095991 TTTCATTTCG
10096001 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
10096015 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
10096034 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
10096048 CGTTGTGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
*
10096067 CGTTGAGATTCTCT
1 CGTTGCGATTCTCT
10096081 CGTTGCGAT
1 CGTTGCGAT
10096090 AGTCATTTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 27 0.47
16 6 0.10
17 6 0.10
19 19 0.33
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:10096026 original size:33 final size:33
Alignment explanation
Indices: 10095984--10096138 Score: 202
Period size: 33 Copynumber: 4.5 Consensus size: 33
10095974 CAAAATTGCA
10095984 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
10096017 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
10096050 TTGTGATTTTCATTTCACGTTGAGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
10096083 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
10096123 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
10096139 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
33 75 0.71
34 7 0.07
39 1 0.01
40 22 0.21
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:10096115 original size:20 final size:21
Alignment explanation
Indices: 10096075--10096138 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
10096065 CACGTTGAGA
* **
10096075 TTCTCTCGTTGCGATAGTCAT
1 TTCTCGCGTTGCGATTTTCAT
10096096 TTC-CGCGTTGCGATTTTCA-
1 TTCTCGCGTTGCGATTTTCAT
*
10096115 TTCTCTCGTTGCGATTTTCAT
1 TTCTCGCGTTGCGATTTTCAT
10096136 TTC
1 TTC
10096139 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 28 0.76
21 6 0.16
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCGCGTTGCGATTTTCAT
Found at i:10096256 original size:25 final size:24
Alignment explanation
Indices: 10096202--10096256 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
10096192 TTATGTTTAT
* *
10096202 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
10096226 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
10096252 TGTTT
1 TGTTT
10096257 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:10098418 original size:21 final size:21
Alignment explanation
Indices: 10098394--10098460 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
10098384 TCATTCCCCG
10098394 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
10098415 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
10098436 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
10098457 AGAG
1 AGAG
10098461 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:10099848 original size:13 final size:14
Alignment explanation
Indices: 10099802--10099838 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10099792 GATTGTTTAA
10099802 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
10099816 ATGATTTGTAAAAG
1 TTGATTTGTAAAAG
10099830 TTGATTTGT
1 TTGATTTGT
10099839 TTAATTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:10099973 original size:13 final size:13
Alignment explanation
Indices: 10099955--10100006 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
10099945 TGCGAAATGA
10099955 AAATCGCAACAAG
1 AAATCGCAACAAG
*
10099968 AAATCGCAACGAG
1 AAATCGCAACAAG
*
10099981 AGAATCACAACGAAATG
1 A-AATCGCAAC--AA-G
10099998 AAATCGCAA
1 AAATCGCAA
10100007 TCGCAACGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 13 0.42
14 8 0.26
16 8 0.26
17 2 0.06
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (13 bp):
AAATCGCAACAAG
Found at i:10099986 original size:14 final size:13
Alignment explanation
Indices: 10099955--10099993 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
10099945 TGCGAAATGA
*
10099955 AAATCGCAACAAG
1 AAATCGCAACGAG
10099968 AAATCGCAACGAG
1 AAATCGCAACGAG
*
10099981 AGAATCACAACGA
1 A-AATCGCAACGA
10099994 AATGAAATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.08
Consensus pattern (13 bp):
AAATCGCAACGAG
Found at i:10100041 original size:18 final size:19
Alignment explanation
Indices: 10100005--10100042 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10099995 ATGAAATCGC
10100005 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
10100024 AATCGCAACTCG-AACTAA
1 AATCGCAACGCGAAACTAA
10100042 A
1 A
10100043 TTTGAGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:10100135 original size:19 final size:19
Alignment explanation
Indices: 10100049--10100126 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
10100039 TAAATTTGAG
*
10100049 TTGCGATTTTCATTTCGCT
1 TTGCGATTTTCATTTCGCA
10100068 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
10100087 TTGCGA--TTC-CCTCG--
1 TTGCGATTTTCATTTCGCA
10100101 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
10100120 TTGCGAT
1 TTGCGAT
10100127 AGTCATTTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 6 0.12
16 6 0.12
17 6 0.12
19 31 0.63
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:10101135 original size:23 final size:25
Alignment explanation
Indices: 10101090--10101139 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 25
10101080 ACATAGTAAG
10101090 GGTAATTTCTGGGAAGACGACTTAGA
1 GGTAATTTCTGGG-AGACGACTTAGA
10101116 GGTAATTTCT-GG-GACGACTTAGA
1 GGTAATTTCTGGGAGACGACTTAGA
10101139 G
1 G
10101140 CGTTGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.50
25 2 0.08
26 10 0.42
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (25 bp):
GGTAATTTCTGGGAGACGACTTAGA
Found at i:10102191 original size:12 final size:12
Alignment explanation
Indices: 10102174--10102198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10102164 TCTTCGGGGA
10102174 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10102186 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10102198 C
1 C
10102199 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:10102398 original size:23 final size:24
Alignment explanation
Indices: 10102365--10102411 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10102355 CTGAAACATC
10102365 ATCAAAATCCGAGTATT-ACCAAT
1 ATCAAAATCCGAGTATTGACCAAT
* *
10102388 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAT
10102412 CAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAT
Found at i:10103254 original size:21 final size:20
Alignment explanation
Indices: 10103228--10103363 Score: 114
Period size: 20 Copynumber: 6.7 Consensus size: 20
10103218 CGAAAGTCAG
*
10103228 TATCGCGTTGCGATTTTGCAT
1 TATCGCATTGCGATTTT-CAT
** *
10103249 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATTTTCAT
10103269 TATCGCATTGCGATTTTCCA-
1 TATCGCATTGCGATTTT-CAT
* * *
10103289 AATTCGCGTTGCGATTTTGTAT
1 TA-TCGCATTGCGATTTT-CAT
* **
10103311 TATCGCGTTGCGATAGTCAT
1 TATCGCATTGCGATTTTCAT
*
10103331 TATCGCATTGCGATTTAC-T
1 TATCGCATTGCGATTTTCAT
10103350 TATTCGCATTGCGA
1 TA-TCGCATTGCGA
10103364 ATTGGGAAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.03
20 45 0.48
21 44 0.47
22 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
TATCGCATTGCGATTTTCAT
Found at i:10103267 original size:41 final size:40
Alignment explanation
Indices: 10103175--10103344 Score: 137
Period size: 41 Copynumber: 4.2 Consensus size: 40
10103165 CAAAATCTCG
* * *** ** *
10103175 TTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGAATCGCG
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCATTATCGCA
*
10103215 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGCATTATCGCA
1 TTGCGATAGTCAGTATCGCGTTGCGATTTT-CATTATCGCA
* * *
10103256 TTGCGATAGTCAGTATCGCATTGCGATTTTCCA-AATTCGCG
1 TTGCGATAGTCAGTATCGCGTTGCGATTTT-CATTA-TCGCA
* * **
10103297 TTGCGATTTTGT-ATTATCGCGTTGCGATAGTCATTATCGCA
1 TTGCGA--TAGTCAGTATCGCGTTGCGATTTTCATTATCGCA
10103338 TTGCGAT
1 TTGCGAT
10103345 TTACTTATTC
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 27 0.25
41 59 0.56
42 16 0.15
43 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
TTGCGATAGTCAGTATCGCGTTGCGATTTTCATTATCGCA
Found at i:10103274 original size:20 final size:20
Alignment explanation
Indices: 10103148--10103344 Score: 146
Period size: 20 Copynumber: 9.7 Consensus size: 20
10103138 GATTCTGTAT
* *
10103148 TATCTCGTTGCGATAGTCAA
1 TATCGCGTTGCGATAGTCAG
* * *
10103168 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
10103188 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
10103208 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
** *
10103228 TATCGCGTTGCGATTTTGCAT
1 TATCGCGTTGCGATAGT-CAG
*
10103249 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* **
10103269 TATCGCATTGCGATTTTCCA-
1 TATCGCGTTGCGATAGT-CAG
* * *
10103289 AATTCGCGTTGCGATTTTGT-AT
1 TA-TCGCGTTGCGA--TAGTCAG
*
10103311 TATCGCGTTGCGATAGTCAT
1 TATCGCGTTGCGATAGTCAG
*
10103331 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
10103345 TTACTTATTC
Statistics
Matches: 149, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.02
20 102 0.68
21 40 0.27
22 1 0.01
23 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:10103315 original size:62 final size:62
Alignment explanation
Indices: 10103230--10103346 Score: 207
Period size: 62 Copynumber: 1.9 Consensus size: 62
10103220 AAAGTCAGTA
10103230 TCGCGTTGCGATTTTGCATTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTGCATTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
* * *
10103292 TCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCATTATCGCATTGCGATTT
1 TCGCGTTGCGATTTTGCATTATCGCATTGCGATAGTCAGTATCGCATTGCGATTT
10103347 ACTTATTCGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (62 bp):
TCGCGTTGCGATTTTGCATTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
Found at i:10103405 original size:21 final size:22
Alignment explanation
Indices: 10103353--10103405 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
10103343 ATTTACTTAT
10103353 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
10103374 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
10103395 TCGCATTGCGA
1 TCGCATTGCGA
10103406 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:10114496 original size:22 final size:22
Alignment explanation
Indices: 10114471--10114512 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10114461 GAAACTTGAT
10114471 GCTTGTGTAAGGGTTATTTCCG
1 GCTTGTGTAAGGGTTATTTCCG
*
10114493 GCTTGTGTATGGGTTATTTC
1 GCTTGTGTAAGGGTTATTTC
10114513 TTCCGAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.45
Consensus pattern (22 bp):
GCTTGTGTAAGGGTTATTTCCG
Done.