Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 64
Found at i:1317843 original size:33 final size:33
Alignment explanation
Indices: 1317805--1317884 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1317795 GCAACGAGAA
1317805 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
*
1317838 AAATGAAAATCGTAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
1317871 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1317885 TTGCGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:1317921 original size:14 final size:14
Alignment explanation
Indices: 1317902--1317958 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1317892 TTTCATTTCG
1317902 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1317916 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1317935 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1317949 CGTTGCGATT
1 CGTTGCGATT
1317959 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1317927 original size:33 final size:33
Alignment explanation
Indices: 1317885--1317966 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
1317875 CAAAATCGCA
1317885 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1317918 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1317951 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1317967 TCTCGTTGCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1317969 original size:21 final size:21
Alignment explanation
Indices: 1317943--1318007 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
1317933 CGCGTTGCGA
1317943 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1317964 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
*
1317984 TTCTCTCATTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1318005 TTC
1 TTC
1318008 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1318004 original size:20 final size:20
Alignment explanation
Indices: 1317909--1318005 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
1317899 TCGCGTTGCG
1317909 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1317929 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
1317942 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
1317962 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
*
1317983 ATTCTCTCATTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
1318003 ATT
1 ATT
1318006 TCAACCAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
13 3 0.05
14 9 0.15
19 9 0.15
20 22 0.37
21 17 0.28
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:1319849 original size:93 final size:93
Alignment explanation
Indices: 1319687--1319948 Score: 506
Period size: 93 Copynumber: 2.8 Consensus size: 93
1319677 TAGATTGCTT
* *
1319687 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTC
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1319752 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1319780 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1319845 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1319873 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1319938 TTTGTCTTTGT
66 TTTGTCTTTGT
1319949 AATTTATGCG
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1319979 original size:19 final size:19
Alignment explanation
Indices: 1319955--1320119 Score: 162
Period size: 19 Copynumber: 9.4 Consensus size: 19
1319945 TTGTAATTTA
1319955 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
1319974 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
*
1319988 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCAT
*
1320007 TGCGATTCTCATTTCCGCAT
1 TGCGATTTTCATTT-CGCAT
*
1320027 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
1320041 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1320060 TGCGATTTTCATTTCTGCAT
1 TGCGATTTTCATTTC-GCAT
1320080 TGCGATTTTC--TT-G--T
1 TGCGATTTTCATTTCGCAT
*
1320094 TGGGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1320113 TGCGATT
1 TGCGATT
1320120 CTCTCGTTGC
Statistics
Matches: 120, Mismatches: 9, Indels: 34
0.74 0.06 0.21
Matches are distributed among these distances:
14 22 0.18
16 15 0.12
17 14 0.12
18 4 0.03
19 42 0.35
20 23 0.19
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:1320035 original size:53 final size:53
Alignment explanation
Indices: 1319955--1320122 Score: 266
Period size: 53 Copynumber: 3.2 Consensus size: 53
1319945 TTGTAATTTA
* *
1319955 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1320007 TGCGATTCTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCGATTCTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
* * * * *
1320060 TGCGATTTTCATTTCTGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCAT
1 TGCGATTCTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1320113 TGCGATTCTC
1 TGCGATTCTC
1320123 TCGTTGCGAT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 13 0.12
53 94 0.88
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (53 bp):
TGCGATTCTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
Found at i:1320112 original size:86 final size:83
Alignment explanation
Indices: 1319955--1320133 Score: 229
Period size: 86 Copynumber: 2.1 Consensus size: 83
1319945 TTGTAATTTA
*
1319955 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCA-TT--CGTTGCGATTCTCATT
1320020 TCCGCATTGCGATTCTCTCGT
63 TCCGCATTGCGATTCTCTCGT
* *
1320041 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCTGCATTGCGATTTTC-TT-GTTGGGATTTTC
1 TGCGATTTTCATTTCGCATTGCGA--TTC---TCT-CATTGCGATTTTCATTCGTTGCGATTCTC
1320104 ATTT-CGCATTGCGATTCTCTCGT
60 ATTTCCGCATTGCGATTCTCTCGT
1320127 TGCGATT
1 TGCGATT
1320134 GTAATTTCCG
Statistics
Matches: 84, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
86 50 0.60
87 14 0.17
88 3 0.04
90 2 0.02
91 3 0.04
92 12 0.14
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (83 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTCGTTGCGATTCTCATTTCC
GCATTGCGATTCTCTCGT
Found at i:1320141 original size:33 final size:33
Alignment explanation
Indices: 1319955--1320133 Score: 166
Period size: 33 Copynumber: 5.2 Consensus size: 33
1319945 TTGTAATTTA
1319955 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
1319988 TGCGATTTTCATTTCGCGTTGCGATTCTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTC---T-CG--T
* * * * *
1320027 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
* *
1320060 TGCGATTTTCATTTCTGCATTGCGATTTTCTTGT
1 TGCGATTTTCATTTC-GCATTGCGATTCTCTCGT
*
1320094 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1320127 TGCGATT
1 TGCGATT
1320134 GTAATTTCCG
Statistics
Matches: 116, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
31 5 0.04
32 5 0.04
33 62 0.53
34 17 0.15
35 1 0.01
36 1 0.01
37 2 0.02
39 10 0.09
40 4 0.03
41 9 0.08
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1320148 original size:53 final size:53
Alignment explanation
Indices: 1319955--1320152 Score: 167
Period size: 53 Copynumber: 3.8 Consensus size: 53
1319945 TTGTAATTTA
* * *
1319955 TGCGATTTTCATTTC-GCATTGCGA-TTCTC-TCGTTGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTGCTGCATTGCAATTTC-CGT-GTTGCGATTTTCATTTCGCAT
* * * *
1320007 TGCGATTCTCATTTCCGCATTGCGA-TTCTC-TCGTTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTGCTGCATTGCAATTTC-CGT-GTTGCGATTTTCATTTCGCAT
* * * * *
1320060 TGCGATTTTCATTTCTGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCAT
1 TGCGATTTTCATTGCTGCATTGCAATTTCCGTGTTGCGATTTTCATTTCGCAT
* *
1320113 TGCGATTCTCTCGTTGC-G-ATTGTAATTTCCGTGTTGCGAT
1 TGCGATT-T-TCATTGCTGCATTGCAATTTCCGTGTTGCGAT
1320153 AGTCAAATGC
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 14 0.11
53 104 0.81
54 5 0.04
55 5 0.04
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTGCTGCATTGCAATTTCCGTGTTGCGATTTTCATTTCGCAT
Found at i:1322436 original size:12 final size:12
Alignment explanation
Indices: 1322419--1322443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1322409 TCTTCGGGGA
1322419 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1322431 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1322443 C
1 C
1322444 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:1322652 original size:24 final size:24
Alignment explanation
Indices: 1322618--1322664 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1322608 CTGAAACATC
1322618 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1322642 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1322665 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1323385 original size:20 final size:20
Alignment explanation
Indices: 1323357--1323585 Score: 237
Period size: 20 Copynumber: 11.4 Consensus size: 20
1323347 AAATTTCAGT
* * *
1323357 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1323377 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1323397 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
1323417 GTTGCGATTTACTGATTATC
1 GTTGCGATTTACGGATTCGC
*
1323437 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1323457 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1323477 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1323497 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1323517 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
*
1323537 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1323557 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1323577 GTTGCGATT
1 GTTGCGATT
1323586 CTGTAAAATC
Statistics
Matches: 186, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 185 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1323603 original size:21 final size:20
Alignment explanation
Indices: 1323579--1323649 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
1323569 ATATTCGCGT
1323579 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
1323600 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
1323621 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
1323642 TGCGATTT
1 TGCGATTT
1323650 TGGAAACTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:1325022 original size:23 final size:23
Alignment explanation
Indices: 1324974--1325022 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1324964 GAATAATTTC
* * *
1324974 GTCTGTGTTGCATGTTTATTTTT
1 GTCTGTGTTGCACGTTTATCTCT
1324997 GTCTGTGTTGCACGTTTATCTCT
1 GTCTGTGTTGCACGTTTATCTCT
1325020 GTC
1 GTC
1325023 ATTATGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.08, C:0.16, G:0.22, T:0.53
Consensus pattern (23 bp):
GTCTGTGTTGCACGTTTATCTCT
Found at i:1332592 original size:32 final size:32
Alignment explanation
Indices: 1332546--1332653 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 32
1332536 AGCTTGTGTG
* *
1332546 ATGCATAACT-GAGTCAATATTGCATTCAAATA
1 ATGCATAA-TAGAGTCAGTATTGTATTCAAATA
* * *
1332578 ATGCATAGTAGAGTCAGTATTATATTCAGATA
1 ATGCATAATAGAGTCAGTATTGTATTCAAATA
* * * *
1332610 ATTCATAACAGAGTTAGTATCGTATTCAAATA
1 ATGCATAATAGAGTCAGTATTGTATTCAAATA
*
1332642 ATGTATAATAGA
1 ATGCATAATAGA
1332654 TACATACATT
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 1 0.02
32 59 0.98
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (32 bp):
ATGCATAATAGAGTCAGTATTGTATTCAAATA
Found at i:1337051 original size:21 final size:21
Alignment explanation
Indices: 1337027--1337079 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1337017 GGATTTTAAT
1337027 AGGGGAGTATCGATACTGTCA
1 AGGGGAGTATCGATACTGTCA
*
1337048 AGGGAAGTATCGATACTGTCA
1 AGGGGAGTATCGATACTGTCA
* *
1337069 ATGAGAGTATC
1 AGGGGAGTATC
1337080 AATCCTGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (21 bp):
AGGGGAGTATCGATACTGTCA
Found at i:1338903 original size:32 final size:32
Alignment explanation
Indices: 1338859--1338986 Score: 159
Period size: 32 Copynumber: 4.0 Consensus size: 32
1338849 TTGTGTGATT
*
1338859 CATAGTAGAGTCAATATTGCATTCATATAATG
1 CATAGTAGAGTCAATATTGCATTCAGATAATG
* * *
1338891 CATAGTATAGTCAATATTGCATTCATATAATT
1 CATAGTAGAGTCAATATTGCATTCAGATAATG
*
1338923 CATA-TCAGGGTCAATATTGCATTCAGATAATG
1 CATAGT-AGAGTCAATATTGCATTCAGATAATG
* * * *
1338955 CATATTAGAGTTAGTATTACATTCAGATAATG
1 CATAGTAGAGTCAATATTGCATTCAGATAATG
1338987 TGGAACAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
31 1 0.01
32 82 0.98
33 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
CATAGTAGAGTCAATATTGCATTCAGATAATG
Found at i:1341007 original size:14 final size:14
Alignment explanation
Indices: 1340988--1341019 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1340978 CCCTAAATTT
*
1340988 ATAAATTCTTAAAC
1 ATAAATCCTTAAAC
1341002 ATAAATCCTTAAAC
1 ATAAATCCTTAAAC
1341016 ATAA
1 ATAA
1341020 TACCCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAATCCTTAAAC
Found at i:1341047 original size:20 final size:21
Alignment explanation
Indices: 1341004--1341048 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1340994 TCTTAAACAT
*
1341004 AAATCCTTAAACATAATACCC
1 AAATCCCTAAACATAATACCC
*
1341025 AAATCCCTAACCATAAT-CCC
1 AAATCCCTAAACATAATACCC
1341045 AAAT
1 AAAT
1341049 TTATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATCCCTAAACATAATACCC
Found at i:1345059 original size:17 final size:20
Alignment explanation
Indices: 1345026--1345065 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1345016 TCGATACCCG
1345026 TTAGAAATAACACAGA-TAA
1 TTAGAAATAACACAGATTAA
1345045 TTAGAAAT-A-ACAGATTAA
1 TTAGAAATAACACAGATTAA
1345063 TTA
1 TTA
1345066 ACCCTCGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (20 bp):
TTAGAAATAACACAGATTAA
Found at i:1347852 original size:2 final size:2
Alignment explanation
Indices: 1347847--1347872 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1347837 ATATATTTTA
1347847 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1347873 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1348070 original size:24 final size:25
Alignment explanation
Indices: 1348042--1348100 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
1348032 ATTCATGTTA
*
1348042 AAATAAAATACATTAATCTAT-AT-T
1 AAATAAAATACA-TAATCAATAATCT
1348066 AAATAAAATACATAATCAATAATCT
1 AAATAAAATACATAATCAATAATCT
1348091 AAATTAAAAT
1 AAA-TAAAAT
1348101 TTTATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 4 0.13
26 6 0.19
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAAAATACATAATCAATAATCT
Found at i:1348752 original size:24 final size:25
Alignment explanation
Indices: 1348702--1348760 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
1348692 TCTATATTAT
1348702 ATTCTTTATATATAATTAAAATTTG
1 ATTCTTTATATATAATTAAAATTTG
1348727 ATTCTTTA-ACTATAATT-AAATTTG
1 ATTCTTTATA-TATAATTAAAATTTG
1348751 ATTCTTTATA
1 ATTCTTTATA
1348761 AAATTTGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (25 bp):
ATTCTTTATATATAATTAAAATTTG
Found at i:1349980 original size:19 final size:20
Alignment explanation
Indices: 1349937--1349982 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1349927 TAATATGCTG
* * *
1349937 GAAATTAATGTTGGAGTGTT
1 GAAATTGATGTTAGAATGTT
1349957 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
1349976 GAAATTG
1 GAAATTG
1349983 GATCATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:1351814 original size:20 final size:19
Alignment explanation
Indices: 1351789--1351827 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1351779 TATACATTGG
*
1351789 GCTATGAATTTGAAAGTAAA
1 GCTATGAATCTGAAA-TAAA
1351809 GCTATGAATCTGAAATAAA
1 GCTATGAATCTGAAATAAA
1351828 TTATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (19 bp):
GCTATGAATCTGAAATAAA
Found at i:1352652 original size:20 final size:20
Alignment explanation
Indices: 1352627--1352691 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1352617 TACATTGGGC
1352627 TATGAATACGAAAATAAAGT
1 TATGAATACGAAAATAAAGT
* * *
1352647 TATGAATATGAAAGTAAAGC
1 TATGAATACGAAAATAAAGT
1352667 TATGAAT-CTG-AAATAAA-T
1 TATGAATAC-GAAAATAAAGT
1352685 TATGAAT
1 TATGAAT
1352692 TTGGAAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 7 0.18
19 6 0.16
20 25 0.66
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
TATGAATACGAAAATAAAGT
Found at i:1352669 original size:40 final size:39
Alignment explanation
Indices: 1352625--1352700 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
1352615 TATACATTGG
1352625 GCTATGAATAC-GAAAATAAAGTTATGAATAT-GAAAGTAAA
1 GCTATGAAT-CTG-AAATAAA-TTATGAATATGGAAAGTAAA
*
1352665 GCTATGAATCTGAAATAAATTATGAATTTGGAAAGT
1 GCTATGAATCTGAAATAAATTATGAATATGGAAAGT
1352701 TCTGGATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
38 9 0.27
39 14 0.42
40 10 0.30
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (39 bp):
GCTATGAATCTGAAATAAATTATGAATATGGAAAGTAAA
Found at i:1354603 original size:20 final size:20
Alignment explanation
Indices: 1354578--1354691 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
1354568 AATTGGGAAA
1354578 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1354598 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
1354618 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1354639 ATCGCAATGAGAAACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1354659 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
1354679 TTCGCAACGCGAT
1 ATCGCAATGCGAT
1354692 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1354622 original size:61 final size:59
Alignment explanation
Indices: 1354557--1354687 Score: 136
Period size: 61 Copynumber: 2.2 Consensus size: 59
1354547 GAATAAGTAA
** * * * *
1354557 ATCGCAACGAGAATTGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGAGAA-T-ACAAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACT
* * *
1354618 ATCGCAATGCGATAATACAAAATCGCAATGAGAAACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAA--CGAGAATACAAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACT
*
1354679 TTCGCAACG
1 ATCGCAACG
1354688 CGATTTACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 2 0.03
61 50 0.86
62 1 0.02
63 5 0.09
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (59 bp):
ATCGCAACGAGAATACAAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACT
Found at i:1354691 original size:61 final size:61
Alignment explanation
Indices: 1354575--1354691 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1354565 GAGAATTGGG
* * * * *
1354575 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1354636 AAAATCGCAATGAGAAACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1354692 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAATGAGAAACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1355305 original size:19 final size:19
Alignment explanation
Indices: 1355283--1355452 Score: 188
Period size: 19 Copynumber: 9.1 Consensus size: 19
1355273 GAAACCAAAA
*
1355283 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1355302 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1355321 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1355340 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1355359 TCGCGTTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
* * **
1355373 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
1355392 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1355411 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1355431 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1355451 TC
1 TC
1355453 AACCAAAAGA
Statistics
Matches: 131, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
14 7 0.05
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 83 0.63
20 32 0.24
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1357596 original size:42 final size:42
Alignment explanation
Indices: 1357520--1357722 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
1357510 GACTCGCCTG
* * * * * * *
1357520 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
1357562 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* * * * * * *
1357604 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
1357646 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
1357688 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCATTCAAGAG
1357723 CCCGATTCAC
Statistics
Matches: 129, Mismatches: 30, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
41 4 0.03
42 123 0.95
43 2 0.02
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
Found at i:1357680 original size:21 final size:21
Alignment explanation
Indices: 1357656--1357722 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1357646 TCATTCCTCG
1357656 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1357677 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1357698 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1357719 AGAG
1 AGAG
1357723 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:1357701 original size:84 final size:84
Alignment explanation
Indices: 1357517--1357692 Score: 352
Period size: 84 Copynumber: 2.1 Consensus size: 84
1357507 CCCGACTCGC
1357517 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1357582 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
1357601 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1357666 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
1357685 CTGTCATC
1 CTGTCATC
1357693 GTTGAAGAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:1357722 original size:84 final size:84
Alignment explanation
Indices: 1357517--1357722 Score: 324
Period size: 84 Copynumber: 2.5 Consensus size: 84
1357507 CCCGACTCGC
* *
1357517 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1357582 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* *
1357601 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1357666 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** * *
1357685 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTGAAGAG
1357723 CCCGATTCAC
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 111 0.97
85 4 0.03
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:1359292 original size:19 final size:19
Alignment explanation
Indices: 1359270--1359368 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 19
1359260 CGAAATTAAA
*
1359270 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1359289 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
1359305 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1359322 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
1359336 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1359355 TTCGCATTGCGATT
1 TTCGCATTGCGATT
1359369 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
16 6 0.10
17 6 0.10
19 30 0.51
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1359316 original size:33 final size:32
Alignment explanation
Indices: 1359274--1359397 Score: 169
Period size: 33 Copynumber: 3.8 Consensus size: 32
1359264 ATTAAATTCG
1359274 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
1359307 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1359340 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
* *
1359373 CGTTGCAATTTTCATTTTGCATTGC
1 CGTTGCGATTTTCATTTCGCATTGC
1359398 AATAGTAATT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 75 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1359352 original size:66 final size:66
Alignment explanation
Indices: 1359267--1359397 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
1359257 ACGCGAAATT
* *
1359267 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1359332 G
66 G
* *
1359333 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTTGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1359398 AATAGTAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
G
Found at i:1361709 original size:12 final size:12
Alignment explanation
Indices: 1361692--1361716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1361682 TCTTCGGGGA
1361692 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1361704 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1361716 C
1 C
1361717 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:1361925 original size:24 final size:24
Alignment explanation
Indices: 1361891--1361936 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1361881 CTGAAACATC
1361891 ATCAAAATCCGAGCATTGACCAAT
1 ATCAAAATCCGAGCATTGACCAAT
* * *
1361915 ATCAAAGTCCGGGTATTGACCA
1 ATCAAAATCCGAGCATTGACCA
1361937 GGATCAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGCATTGACCAAT
Found at i:1361942 original size:24 final size:24
Alignment explanation
Indices: 1361891--1361944 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1361881 CTGAAACATC
*
1361891 ATCAAAATCCGAGCATTGACCAAT
1 ATCAAAATCCGAGCATTGACCAAG
* * * *
1361915 ATCAAAGTCCGGGTATTGACCAGG
1 ATCAAAATCCGAGCATTGACCAAG
1361939 ATCAAA
1 ATCAAA
1361945 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGCATTGACCAAG
Found at i:1362754 original size:20 final size:21
Alignment explanation
Indices: 1362729--1362780 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1362719 TCTTCCTAAT
*
1362729 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1362749 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1362770 TCGCAATGCGA
1 TCGCAATGCGA
1362781 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1362856 original size:20 final size:20
Alignment explanation
Indices: 1362765--1362856 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
1362755 TGCGAATTTG
* *
1362765 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
1362785 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
1362805 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** * *
1362826 GACTTTTGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
1362846 GAAAATCGCAA
1 GAAAATCGCAA
1362857 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
20 37 0.71
21 15 0.29
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:1363131 original size:20 final size:20
Alignment explanation
Indices: 1363054--1363123 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1363044 ATTCATTTGA
1363054 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
** *
1363074 CTATCGCAATTCG-AAATGAA
1 CTATCGCAACGCGAAAATG-G
**
1363094 AAATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
1363114 CTATCGCAAC
1 CTATCGCAAC
1363124 TAGAAAATCG
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 5 0.13
20 28 0.74
21 5 0.13
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:1363340 original size:14 final size:14
Alignment explanation
Indices: 1363321--1363357 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1363311 CATCAATTAA
1363321 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1363335 ACAAATCATCTTTT
1 ACAAATCAACATTT
1363349 ACAAATCAA
1 ACAAATCAA
1363358 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1365250 original size:20 final size:19
Alignment explanation
Indices: 1365227--1365294 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
1365217 GAAACTTAAA
1365227 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
1365247 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
1365267 ATCACAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1365286 ATCGCAACG
1 ATCGCAACG
1365295 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 13 0.33
20 25 0.64
21 1 0.03
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1365302 original size:14 final size:14
Alignment explanation
Indices: 1365283--1365373 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
1365273 ATGCGAAATG
1365283 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1365297 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1365316 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1365330 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
1365346 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1365362 AAAATCGCAACG
1 AAAATCGCAACG
1365374 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1365358 original size:32 final size:33
Alignment explanation
Indices: 1365271--1365378 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
1365261 ATGGCTATCA
1365271 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1365304 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1365337 CAATGCGAAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
1365369 CAACGCGAAA
1 CAATGCGAAA
1365379 CACAAATCGC
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 29 0.39
33 45 0.61
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:1365426 original size:14 final size:14
Alignment explanation
Indices: 1365407--1365464 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1365397 TTTCATTTCG
1365407 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1365421 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1365437 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1365453 CGTTGCGATTTT
1 CGTTGCGATTTT
1365465 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1365471 original size:33 final size:33
Alignment explanation
Indices: 1365390--1365480 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1365380 ACAAATCGCA
*
1365390 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1365423 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1365455 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1365481 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1365499 original size:20 final size:19
Alignment explanation
Indices: 1365465--1365519 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1365455 TTGCGATTTT
*
1365465 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1365484 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1365504 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1365520 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1366029 original size:18 final size:18
Alignment explanation
Indices: 1366008--1366045 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1365998 AGATGATGGT
*
1366008 TCTGGGTGAGGTGATAGC
1 TCTGGGCGAGGTGATAGC
*
1366026 TCTGGGCGAGGTGATGGC
1 TCTGGGCGAGGTGATAGC
1366044 TC
1 TC
1366046 CCGAAGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.45, T:0.26
Consensus pattern (18 bp):
TCTGGGCGAGGTGATAGC
Found at i:1367413 original size:20 final size:20
Alignment explanation
Indices: 1367365--1367423 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1367355 AATAGTTTCT
** *
1367365 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1367385 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1367405 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1367424 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1367714 original size:22 final size:22
Alignment explanation
Indices: 1367687--1367730 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1367677 GATGGAGATA
1367687 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
1367709 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
1367731 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:1368004 original size:20 final size:20
Alignment explanation
Indices: 1367898--1368032 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
1367888 CGCTTTGAAA
*
1367898 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
1367919 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1367939 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
1367959 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
1367980 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1368000 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1368020 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1368033 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 66 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1368004 original size:61 final size:61
Alignment explanation
Indices: 1367898--1368035 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
1367888 CGCTTTGAAA
* * * *
1367898 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
1367959 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
1368020 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
1368036 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1368051 original size:61 final size:61
Alignment explanation
Indices: 1367898--1368053 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
1367888 CGCTTTGAAA
* ** * * * *
1367898 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
1367959 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
1368020 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
1368054 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1368143 original size:21 final size:21
Alignment explanation
Indices: 1368103--1368143 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1368093 ACTGTAGACC
** *
1368103 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
1368124 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
1368144 GCGAATTTGC
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:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:1390705 original size:34 final size:34
Alignment explanation
Indices: 1390667--1390736 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
1390657 GAAGGTAAAA
*
1390667 TATTTTATTATATTATAATAAATTAATATTTTAT
1 TATTTTATTAAATTATAATAAATTAATATTTTAT
* * * *
1390701 TATTTTATTAAATTTTATTATATTAATTTTTTAT
1 TATTTTATTAAATTATAATAAATTAATATTTTAT
1390735 TA
1 TA
1390737 ATTTCTACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (34 bp):
TATTTTATTAAATTATAATAAATTAATATTTTAT
Found at i:1392449 original size:21 final size:22
Alignment explanation
Indices: 1392425--1392479 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1392415 TATACATTTT
**
1392425 GCAACCATTTCAGATG-GCACC
1 GCAACCATTTCAGATGAAAACC
*
1392446 GCAACCATATCAGATGAAAACC
1 GCAACCATTTCAGATGAAAACC
*
1392468 GCATCCATTTCA
1 GCAACCATTTCA
1392480 TTTGCCACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.20
Consensus pattern (22 bp):
GCAACCATTTCAGATGAAAACC
Found at i:1399581 original size:15 final size:16
Alignment explanation
Indices: 1399521--1399581 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
1399511 TTTGTATATG
1399521 AATATGTTATATG-GA
1 AATATGTTATATGTGA
* * *
1399536 AATGTGTTCTACGTGA
1 AATATGTTATATGTGA
* *
1399552 AAAATGCTATATGTG-
1 AATATGTTATATGTGA
*
1399567 AATATGTTCTATGTG
1 AATATGTTATATGTG
1399582 GATAAAAGAT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (16 bp):
AATATGTTATATGTGA
Found at i:1399723 original size:23 final size:23
Alignment explanation
Indices: 1399697--1399774 Score: 104
Period size: 23 Copynumber: 3.3 Consensus size: 23
1399687 TTCTACGCTA
*
1399697 TCCTACGGGACAATTCTATATGG
1 TCCTTCGGGACAATTCTATATGG
*
1399720 TCCTTCGGGACAAATTCTACATGG
1 TCCTTCGGGAC-AATTCTATATGG
*
1399744 TCCTTCGGGACAAATCTATATGG
1 TCCTTCGGGACAATTCTATATGG
1399767 -CACTTCGG
1 TC-CTTCGG
1399775 TGCAATTTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 26 0.53
24 22 0.45
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
TCCTTCGGGACAATTCTATATGG
Found at i:1399743 original size:24 final size:24
Alignment explanation
Indices: 1399697--1399774 Score: 108
Period size: 24 Copynumber: 3.3 Consensus size: 24
1399687 TTCTACGCTA
*
1399697 TCCTACGGGAC-AATTCTATATGG
1 TCCTTCGGGACAAATTCTATATGG
*
1399720 TCCTTCGGGACAAATTCTACATGG
1 TCCTTCGGGACAAATTCTATATGG
1399744 TCCTTCGGGACAAA-TCTATATGG
1 TCCTTCGGGACAAATTCTATATGG
1399767 -CACTTCGG
1 TC-CTTCGG
1399775 TGCAATTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.02
23 24 0.48
24 25 0.50
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTATATGG
Found at i:1405536 original size:29 final size:29
Alignment explanation
Indices: 1405484--1405550 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
1405474 ACAAGCCTTA
* * * *
1405484 GAAAAATTAGGGACCATTTTGTAAGTTTT
1 GAAAAATTGGGGACCAATTCGTAAATTTT
*
1405513 GAAAAATTGGGGATCAATTCGTAAATTTT
1 GAAAAATTGGGGACCAATTCGTAAATTTT
*
1405542 GGAAAATTG
1 GAAAAATTG
1405551 ATGGGTTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (29 bp):
GAAAAATTGGGGACCAATTCGTAAATTTT
Found at i:1406755 original size:47 final size:44
Alignment explanation
Indices: 1406658--1406775 Score: 128
Period size: 47 Copynumber: 2.6 Consensus size: 44
1406648 GTAACCAAGT
* *
1406658 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGGAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTAGAA
* * * *
1406702 AAATAAGCTTATGAGCTTATGGAATTTAAATGGTAGGTATTTTAGTA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTAGAA
* * *
1406749 AAATAAGCTTACGAGATTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
1406776 ATGGTAAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
44 25 0.40
45 1 0.02
46 1 0.02
47 35 0.56
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTAGAA
Found at i:1412126 original size:41 final size:42
Alignment explanation
Indices: 1412025--1412131 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
1412015 CCAAAATTGG
* *
1412025 TAAGTCCTTCGGGTCATCAATAAGTCTTTTGAGCATGATGAT
1 TAAGTCCTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGAT
* * * *
1412067 TAAATCATTCGGGTCATCTGTCAGT-TTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGTCATCTATAAGTCTTTT-GAGCAAGATGAT
*
1412108 TAAGTCCTTCGGGACATCTATAAG
1 TAAGTCCTTCGGGTCATCTATAAG
1412132 ACCTTCGGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 23 0.43
42 30 0.57
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGAT
Found at i:1412492 original size:3 final size:3
Alignment explanation
Indices: 1412484--1412532 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
1412474 AAGTTTTTAG
* *
1412484 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAAT TAT TTT TAT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
1412528 TAT TA
1 TAT TA
1412533 CATGCCTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1416463 original size:36 final size:37
Alignment explanation
Indices: 1416412--1416490 Score: 142
Period size: 36 Copynumber: 2.1 Consensus size: 37
1416402 TGAAAGTAAA
1416412 TACAGATCGTGTTCAATTATTTTAAGGCATAATAGAGC
1 TACAGATC-TGTTCAATTATTTTAAGGCATAATAGAGC
1416450 TACAGAT-TGTTCAATTATTTTAAGGCATAATAGAGC
1 TACAGATCTGTTCAATTATTTTAAGGCATAATAGAGC
1416486 TACAG
1 TACAG
1416491 CAATCTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.83
38 7 0.17
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (37 bp):
TACAGATCTGTTCAATTATTTTAAGGCATAATAGAGC
Found at i:1426289 original size:19 final size:21
Alignment explanation
Indices: 1426267--1426312 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1426257 TTTATATATG
1426267 TAATATTA-AT-ATATTATTT
1 TAATATTATATAATATTATTT
*
1426286 TAATATTATTTTAATATTATTT
1 TAATATTA-TATAATATTATTT
1426308 TAATA
1 TAATA
1426313 AAAATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
21 1 0.04
22 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATTATATAATATTATTT
Found at i:1426291 original size:11 final size:11
Alignment explanation
Indices: 1426277--1426312 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
1426267 TAATATTAAT
1426277 ATATTATTTTA
1 ATATTATTTTA
1426288 ATATTATTTTA
1 ATATTATTTTA
1426299 ATATTATTTTA
1 ATATTATTTTA
1426310 ATA
1 ATA
1426313 AAAATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTATTTTA
Found at i:1426433 original size:29 final size:29
Alignment explanation
Indices: 1426376--1426433 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1426366 TATTTTATTG
* * * *
1426376 TTATAGTTATATTTTTATAATGTATAATA
1 TTATACTTATATTTTAATAATATAAAATA
*
1426405 TTATACTTTTATTTTAATAATATAAAATA
1 TTATACTTATATTTTAATAATATAAAATA
1426434 AATTATTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (29 bp):
TTATACTTATATTTTAATAATATAAAATA
Found at i:1426444 original size:21 final size:22
Alignment explanation
Indices: 1426418--1426465 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1426408 TACTTTTATT
*
1426418 TTAATAATA-TAAAATAAATTA
1 TTAATAAAATTAAAATAAATTA
* *
1426439 TTAATAAAATTAAAATTATTTA
1 TTAATAAAATTAAAATAAATTA
1426461 TTAAT
1 TTAAT
1426466 TTCATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAATAAAATTAAAATAAATTA
Found at i:1426597 original size:48 final size:46
Alignment explanation
Indices: 1426545--1426651 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 46
1426535 ATTTTAATAT
1426545 TATAATTTTTAATAATTTAATAATAATAT-TATTTTAATAAATAATTAA
1 TATAATTTTTAATAATTT-AT-ATAAT-TCTATTTTAATAAATAATTAA
*
1426593 TATAA---TTAATAA--TATATTATTCTATTTTAATAAATAATTAA
1 TATAATTTTTAATAATTTATATAATTCTATTTTAATAAATAATTAA
* *
1426634 TATAATTTATAATTATTT
1 TATAATTTTTAATAATTT
1426652 TATTTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
40 1 0.02
41 28 0.56
42 2 0.04
43 1 0.02
44 5 0.10
45 7 0.14
46 1 0.02
48 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (46 bp):
TATAATTTTTAATAATTTATATAATTCTATTTTAATAAATAATTAA
Found at i:1426600 original size:25 final size:25
Alignment explanation
Indices: 1426551--1426608 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
1426541 ATATTATAAT
*
1426551 TTTTAATAATTTAATAATAATATTA
1 TTTTAATAATATAATAATAATATTA
1426576 TTTTAATAA-ATAAT--TAATA-TA
1 TTTTAATAATATAATAATAATATTA
*
1426597 -ATTAATAATATA
1 TTTTAATAATATA
1426609 TTATTCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 7 0.23
21 5 0.17
22 5 0.17
24 4 0.13
25 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTAATAATATAATAATAATATTA
Found at i:1426623 original size:41 final size:40
Alignment explanation
Indices: 1426519--1426663 Score: 149
Period size: 37 Copynumber: 3.6 Consensus size: 40
1426509 TCTTTAAAAT
* * **
1426519 ATAATACAATATTCTTATTTTAATATTATAATTTTTAATAATTTA
1 ATAATA-ATTATTC-TATTTTAATA-AATAATTAAT-ATAA-TTA
1426564 ATAATAA-TA-T-TATTTTAATAAATAATTAATATAATTA
1 ATAATAATTATTCTATTTTAATAAATAATTAATATAATTA
1426601 ATAATATATTATTCTATTTTAATAAATAATTAATATAATT-
1 ATAATA-ATTATTCTATTTTAATAAATAATTAATATAATTA
*
1426641 -T-ATAATTATTTTATTTTAATAAA
1 ATAATAATTATTCTATTTTAATAAA
1426664 ATATAACAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
37 27 0.29
38 8 0.09
39 10 0.11
40 11 0.12
41 26 0.28
42 1 0.01
43 2 0.02
44 1 0.01
45 6 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (40 bp):
ATAATAATTATTCTATTTTAATAAATAATTAATATAATTA
Found at i:1426634 original size:32 final size:36
Alignment explanation
Indices: 1426574--1426663 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 36
1426564 ATAATAATAT
1426574 TATTTTAATAAATAATTAATATAATTAATAATATATTATTC
1 TATTTTAATAAATAATTAATATAA-T--T-ATA-ATTATTC
*
1426615 TATTTTAATAAATAATTAATATAATTTATAATTATTT
1 TATTTTAATAAATAATTAATATAA-TTATAATTATTC
1426652 TATTTTAATAAA
1 TATTTTAATAAA
1426664 ATATAACAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
37 18 0.38
38 3 0.06
39 1 0.02
41 26 0.54
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
TATTTTAATAAATAATTAATATAATTATAATTATTC
Found at i:1427101 original size:13 final size:13
Alignment explanation
Indices: 1427065--1427117 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
1427055 ACTAATATTG
1427065 TAAA-TATATTAGA
1 TAAATTATATTA-A
*
1427078 TAATTTTATATTAA
1 TAA-ATTATATTAA
*
1427092 TAAATTATATTTA
1 TAAATTATATTAA
*
1427105 TAAATTATTTTAA
1 TAAATTATATTAA
1427118 AATATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 22 0.67
14 4 0.12
15 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TAAATTATATTAA
Found at i:1427120 original size:11 final size:13
Alignment explanation
Indices: 1427083--1427124 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1427073 TTAGATAATT
*
1427083 TTATATTAATAAA
1 TTATATTTATAAA
1427096 TTATATTTATAAA
1 TTATATTTATAAA
1427109 TTAT-TTTA-AAA
1 TTATATTTATAAA
1427120 -TATAT
1 TTATAT
1427125 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 3 0.11
11 4 0.15
12 4 0.15
13 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATTTATAAA
Found at i:1428385 original size:20 final size:20
Alignment explanation
Indices: 1428360--1428409 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1428350 ACCAAGCTTT
*
1428360 AGTATCGATATTGGC-CTTAC
1 AGTATCGATAATGGCTCTT-C
* *
1428380 AGTATCAATAATGTCTCTTC
1 AGTATCGATAATGGCTCTTC
1428400 AGTATCGATA
1 AGTATCGATA
1428410 CCTACCCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
AGTATCGATAATGGCTCTTC
Found at i:1430154 original size:14 final size:15
Alignment explanation
Indices: 1430134--1430177 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
1430124 TGGAGAGGGC
1430134 GCACCTTCCATTATT
1 GCACCTTCCATTATT
*
1430149 -CACCTTCAATTATT
1 GCACCTTCCATTATT
1430163 GC-CCTTTCCATTATT
1 GCACC-TTCCATTATT
1430178 ACCCTAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (15 bp):
GCACCTTCCATTATT
Found at i:1433761 original size:2 final size:2
Alignment explanation
Indices: 1433754--1433818 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1433744 TGTCATTTTC
1433754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1433796 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
1433819 CACATATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1434012 original size:27 final size:27
Alignment explanation
Indices: 1433935--1434020 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
1433925 ACCCTAAAAT
* *
1433935 AATTAAATAATACAAATATTACAATTGAAAT
1 AATTAAATAATAAAAATATT--AA--GAAAC
* *
1433966 AA-TGAATAATAAAAAAATTAAGAAAC
1 AATTAAATAATAAAAATATTAAGAAAC
1433992 AATTAAATAATAAAAATATTAAGAAAC
1 AATTAAATAATAAAAATATTAAGAAAC
1434019 AA
1 AA
1434021 AAAATTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.12
27 24 0.50
28 2 0.04
30 14 0.29
31 2 0.04
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (27 bp):
AATTAAATAATAAAAATATTAAGAAAC
Found at i:1434034 original size:27 final size:28
Alignment explanation
Indices: 1433973--1434057 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 28
1433963 AATAATGAAT
* *
1433973 AATAAAAAAATTAAGAAACAATTAAA-T-
1 AATAAAAATATTAAGAAACAA-AAAATTA
1434000 AATAAAAATATTAAGAAACAAAAAATTA
1 AATAAAAATATTAAGAAACAAAAAATTA
* * *
1434028 AATAAAAGTATT-ATAAACTAAATAATTA
1 AATAAAAATATTAAGAAAC-AAAAAATTA
1434056 AA
1 AA
1434058 ATAATTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.06
27 26 0.52
28 21 0.42
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (28 bp):
AATAAAAATATTAAGAAACAAAAAATTA
Found at i:1434831 original size:20 final size:20
Alignment explanation
Indices: 1434764--1434823 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
1434754 GCACTTATAT
* *
1434764 AAAGTATCGAAATTTTTGCA
1 AAAGTATCAAAAGTTTTGCA
1434784 AAAGTATCAAAAGTTTTGCA
1 AAAGTATCAAAAGTTTTGCA
1434804 AAAGTATCAAAAGTTTTGCA
1 AAAGTATCAAAAGTTTTGCA
1434824 GGAGTATCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
AAAGTATCAAAAGTTTTGCA
Found at i:1442896 original size:155 final size:155
Alignment explanation
Indices: 1442587--1442882 Score: 423
Period size: 155 Copynumber: 1.9 Consensus size: 155
1442577 TGTCGATTTA
** *
1442587 TGTCGATACTTTATAAAAATGTATCGATCCACATTAATATAACAGGAAAAAATATGACAAATCCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGACAAAACCG
* * * * * *
1442652 GTCACGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGCTACTTTAATATA
66 GTCACGAAAAGACAAAACCGATAAAGAGATACCGAATATATTGCAAATGTCGATACTTTAATATA
**
1442717 AGTATCGACACAAACGCCTATAAAG
131 AGTATCGACACAAACGAATATAAAG
* * * *
1442742 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGACAAAACCG
* **
1442807 GTCAGGAAAAGACAAAACCGATAAAGAGATATTGAATATATTG-AAATGTCGATACTTTAATATA
66 GTCACGAAAAGACAAAACCGATAAAGAGATACCGAATATATTGCAAATGTCGATACTTTAATATA
1442871 AGTATCGACACA
131 AGTATCGACACA
1442883 TTATGAATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
154 31 0.25
155 94 0.75
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (155 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGACAAAACCG
GTCACGAAAAGACAAAACCGATAAAGAGATACCGAATATATTGCAAATGTCGATACTTTAATATA
AGTATCGACACAAACGAATATAAAG
Found at i:1443698 original size:19 final size:19
Alignment explanation
Indices: 1443637--1443708 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
1443627 GACCGATTAT
1443637 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
* ** * *
1443656 ATAAATATGGATACAT-GTAT
1 AT-AATAT-TATAGGTAGAAA
1443676 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
*
1443695 ATAATATTTTAGGT
1 ATAATATTATAGGT
1443709 TGTATAAATG
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
18 4 0.10
19 22 0.56
20 9 0.23
21 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.15, T:0.36
Consensus pattern (19 bp):
ATAATATTATAGGTAGAAA
Found at i:1445062 original size:22 final size:23
Alignment explanation
Indices: 1445009--1445066 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
1444999 AGAACGTTTT
*
1445009 TATTTTTTTATATAAAATGATAA
1 TATTTTATTATATAAAATGATAA
* *
1445032 TATAGTTATTATATAAAATTATAA
1 TAT-TTTATTATATAAAATGATAA
1445056 -ATTTTATTATA
1 TATTTTATTATA
1445067 AATGTATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.27
23 5 0.17
24 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
TATTTTATTATATAAAATGATAA
Found at i:1445538 original size:25 final size:25
Alignment explanation
Indices: 1445510--1445568 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
1445500 AAATAGATGG
1445510 AGTGGTGAAAGAAGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGGGTGA
* *
1445535 AGTGGTGAAAGAAGTTGAGGTGTTA
1 AGTGGTGAAAGAAGTTGAGGGGTGA
*
1445560 AGGGGTGAA
1 AGTGGTGAA
1445569 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (25 bp):
AGTGGTGAAAGAAGTTGAGGGGTGA
Found at i:1445765 original size:18 final size:18
Alignment explanation
Indices: 1445742--1445780 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1445732 GAAAAAATAT
1445742 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
*
1445760 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGAGGGAG
1445778 GAA
1 GAA
1445781 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:1448067 original size:200 final size:200
Alignment explanation
Indices: 1447711--1449068 Score: 1530
Period size: 200 Copynumber: 6.8 Consensus size: 200
1447701 GTAAGCATAT
* * *
1447711 GTGTCGATACATTTATAAAAAGTTTCGATACCA-AAATCATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTGTCGATCCCAGAAA-CATCGAAACCCATAATTATAATGTAAT
** * * * **
1447775 AGGTAATTTTGAAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATATATCTACATAATG
65 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
* * * * * * *
1447840 TATCGACACTT-TTTCATTATATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
130 TATCGACACTTGTGTAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCAC
*
1447904 GCATAAC
194 GCATAAA
* * *
1447911 GTGTCGATACATTTATTGAAAGTGTCGATCCCAGAAATATCGAAACCCATAATTATAACGTAATA
1 GTGTCGATACATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
1447976 GGTAATTTTTCAATGTAATCGGTATAACTAAACCGGTTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * *
1448041 ATCGACACTTCTGGAATTTGTGTCGATACTGTTTCTCCAGAAGGAATGCCCAAATGGGTGCATGC
131 ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGC
*
1448106 AAAAA
196 ATAAA
* * * * *
1448111 GTGTTGAAACATTTATAAACAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATTAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * * * *
1448176 AGGTAATTTTTCAATGTAATCGTTATACATATACCGATTTTATGAGAGAATATGTGTACA-ATAT
65 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-AT
*
1448240 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTG-A
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGCA
1448304 C-C-TACTAA
193 CGCATA--AA
* *
1448312 GTGTCGATACATTTA-TAAGAAGTGTCGATCCCAGAAATATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATTAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* ** *
1448376 AGGTAATTTTTCAATGTAACCAGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAATAA-
65 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC-ATAAT
* *
1448440 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCATAAGGAATGCCCAAAAAGGGTGCA
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGCA
1448505 C-CACT-AA
193 CGCA-TAAA
* * * *
1448512 GTGTCGATACATTTA-TACAAGTGACGATCCTAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
1448576 GGTAATTTTGT-AATATAACCGGTATAAATATACCAGTTTTATGTA-AGAATAGGTCTACATAAT
66 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATG-AGAGAATAGGTCTACATAAT
* * * * * * * *
1448639 GTATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCAC
1448704 GCATAAA
194 GCATAAA
* * * *
1448711 GTGTCGATATATTTATAAAAAGTGTCGATACCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
1448776 GGTAAATTTACAATGTAACTGATATAATTATACCGGTTTTATGAGAGAATAGGTCTATA-ACATG
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* * * * * * *
1448840 TATCGACACTTGTGGAATTGGTGTCGATATTTTTTGTCCAGAAGGGATG-TC-AAAGGTTTGCAT
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGG-GTGCAC
1448903 GCATAAA
194 GCATAAA
* * * * **
1448910 GTGTCGATACTTTTTTTAAAAATGTCGATCCTA-AGAACATCGAAACTGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTGTCGATCCCAGA-AACATCGAAACCCATAATTATAATGTAAT
* * ** *** * * *
1448974 AGGTAAATTTCCAATGTAATTGGTATAAATATGTTGATTTTATGAGAAAATAGGTCGT-CATAAA
65 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC-TACATAAT
*
1449038 GTATCGACAATTGT-TAAATTTGTGTCGATAC
129 GTATCGACACTTGTGT-AATTTGTGTCGATAC
1449069 CATTTTAAAT
Statistics
Matches: 987, Mismatches: 145, Indels: 53
0.83 0.12 0.04
Matches are distributed among these distances:
198 19 0.02
199 294 0.30
200 492 0.50
201 172 0.17
202 9 0.01
203 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (200 bp):
GTGTCGATACATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGC
ATAAA
Found at i:1449017 original size:399 final size:396
Alignment explanation
Indices: 1447711--1449068 Score: 1641
Period size: 399 Copynumber: 3.4 Consensus size: 396
1447701 GTAAGCATAT
*
1447711 GTGTCGATACATTTATAAAAAGTTTCGATACC-AA-AATCATCGAAACCCATAATTATAATGTAA
1 GTGTCGATACATTTATAAAAA-TGTCGAT-CCTAAGAA-CATCGAAACCCATAATTATAATGTAA
* * * * **
1447774 TAGGTAATTTTGAAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATATATCTACATAAT
63 TAGGTAATTTTGCAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAAT
* *
1447839 GTATCGACACTT-TTTCATTATATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAA
128 GTATCGACACTTGTTTAATT-TGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAAATGATGAA
* **
1447903 CGCATAACGTGTCGATACATTTATTGAAAGTGTCGATCCCAGAAATATCGAAACCCATAATTATA
191 CGCATAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAATATCGAAACCCATAATTATA
* * * *
1447968 ACGTAATAGGTAATTTTTCAATGTAA-TCGGTATAACTAAACCGGTTTTATGAGAGAATAGGTCT
256 ATGTAATAGGTAATTTTTCAATGTAACT-GATATAATTATACCGGTTTTATGAGAGAATAGGTCT
* * *
1448032 ACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTGTTTCTCCAGAAGGAATGCCCAAATG
320 ACA-AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAA-G
*
1448097 GGTGCATGCAAAAA
383 GGTGCATGCATAAA
* * *
1448111 GTGTTGAAACATTTATAAACAAGTATCGATCCT-AGAAACATCGAAACCCATAATTATAATGTAA
1 GTGTCGATACATTTATAAA-AA-TGTCGATCCTAAG-AACATCGAAACCCATAATTATAATGTAA
* * * * * * *
1448175 TAGGTAATTTTTCAATGTAATCGTTATACATATACCGATTTTATGAGAGAATATGTGTACA-ATA
63 TAGGTAATTTTGCAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATA-A
* * * *
1448239 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTG-
127 TGTATCGACACTTGTTTAATTTGTGTCGATACTTTT-GTCCAGAATGAATGCCC-AAAATGATGA
* *
1448303 AC-C-TACTAAGTGTCGATACATTTATAAGAAGTGTCGATCCCAGAAATATCGAAAACCATAATT
190 ACGCATA--AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAATATCGAAACCCATAATT
* *
1448366 ATAATGTAATAGGTAATTTTTCAATGTAAC-CAGTATACTTATACCGGTTTTATGAGAGAATAGG
253 ATAATGTAATAGGTAATTTTTCAATGTAACTGA-TATAATTATACCGGTTTTATGAGAGAATAGG
* * * * *
1448430 TGTACAATAAGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCATAAGGAATGCCCAA
317 TCTACAA-ATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC--
*
1448495 AAAGGGTGCA-CCACT-AA
379 AAAGGGTGCATGCA-TAAA
* * * *
1448512 GTGTCGATACATTTATACAAGTGACGATCCTAAAAACATCGAAACCCATAATTATAATGTAATAG
1 GTGTCGATACATTTATAAAAATGTCGATCCTAAGAACATCGAAACCCATAATTATAATGTAATAG
*
1448577 GTAATTTTGTAATATAACCGGTATAAATATACC-AGTTTTATGTA-AGAATAGGTCTACATAATG
66 GTAATTTTGCAATATAACCGGTATAAATATACCGA-TTTTATG-AGAGAATAGGTCTACATAATG
* *
1448640 TATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAATGATGAACG
129 TATCGACACTTGTTTAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAAATGATGAACG
* * * *
1448705 CATAAAGTGTCGATATATTTATAAAAAGTGTCGATACCAGAAACATCGAAACCCATAAATATAAT
193 CATAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAATATCGAAACCCATAATTATAAT
* * *
1448770 GTAATAGGTAAATTTACAATGTAACTGATATAATTATACCGGTTTTATGAGAGAATAGGTCTATA
258 GTAATAGGTAATTTTTCAATGTAACTGATATAATTATACCGGTTTTATGAGAGAATAGGTCTACA
* * * * *
1448835 ACATGTATCGACACTTGTGGAATTGGTGTCGATATTTTTTGTCCAGAAGGGATG-TCAAAGGTTT
323 A-ATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAGG-GT
1448899 GCATGCATAAA
386 GCATGCATAAA
* * **
1448910 GTGTCGATACTTTTTTTAAAAATGTCGATCCTAAGAACATCGAAACTGATAATTATAATGTAATA
1 GTGTCGATAC-ATTTATAAAAATGTCGATCCTAAGAACATCGAAACCCATAATTATAATGTAATA
* * * ** *** * *
1448975 GGTAAATTTCCAATGTAATTGGTATAAATATGTTGATTTTATGAGAAAATAGGTCGT-CATAAAG
65 GGTAATTTTGCAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTC-TACATAATG
* *
1449039 TATCGACAATTGTTAAATTTGTGTCGATAC
129 TATCGACACTTGTTTAATTTGTGTCGATAC
1449069 CATTTTAAAT
Statistics
Matches: 818, Mismatches: 108, Indels: 65
0.83 0.11 0.07
Matches are distributed among these distances:
396 5 0.01
397 5 0.01
398 24 0.03
399 412 0.50
400 39 0.05
401 309 0.38
402 21 0.03
403 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (396 bp):
GTGTCGATACATTTATAAAAATGTCGATCCTAAGAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTTGCAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTGTTTAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCAT
AAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAATATCGAAACCCATAATTATAATGTA
ATAGGTAATTTTTCAATGTAACTGATATAATTATACCGGTTTTATGAGAGAATAGGTCTACAAAT
GTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAGGGTGCATG
CATAAA
Found at i:1450574 original size:3 final size:3
Alignment explanation
Indices: 1450555--1450595 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1450545 CAAGAGGTCA
* *
1450555 ATG AAG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1450596 CCAAACAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1451616 original size:11 final size:11
Alignment explanation
Indices: 1451575--1451626 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
1451565 CGTTGTGGGT
1451575 ACATTATTTGA
1 ACATTATTTGA
*
1451586 ACATTGTTATGTA
1 ACATTATT-TG-A
*
1451599 TAAATTATTTGA
1 -ACATTATTTGA
1451611 ACATTATTTGA
1 ACATTATTTGA
1451622 ACATT
1 ACATT
1451627 GTTATGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 22 0.65
12 3 0.09
13 3 0.09
14 6 0.18
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (11 bp):
ACATTATTTGA
Found at i:1451918 original size:15 final size:15
Alignment explanation
Indices: 1451898--1451936 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1451888 TCTCCACAAC
* *
1451898 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
1451913 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
1451928 AAAGTTTCC
1 AAAGTTTCC
1451937 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:1452642 original size:201 final size:200
Alignment explanation
Indices: 1452274--1452701 Score: 644
Period size: 201 Copynumber: 2.1 Consensus size: 200
1452264 AAATATGTCG
* * *
1452274 ACACTTTTTA-ATGTTGTGTTGATACTTTTTGTACAGAATGAATGCACAAAAGGGTGAACGCATA
1 ACACGTTTTAGAT-TTGTGTCGATACTTTTTGTACAAAATGAATGCACAAAAGGGTGAACGCATA
* *
1452338 AAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCAAAACTGATAATTATAATGTAA
65 AAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAATATCAAAACCGATAATTATAATGTAA
**
1452403 TAGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGTTAAAATAGGAGAACATAAT
130 TAGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAGGAGAACATAAT
1452468 GTATCA
195 GTATCA
* * *
1452474 ACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGC-CAAAAGGGTTGCACGTATA
1 ACACGTTTTAGATTTGTGTCGATACTTTTTGTACAAAATGAATGCACAAAAGGG-TGAACGCATA
* * **
1452538 AAGTGTCGATACATATTTTAAAAAGTATCGATTCAAAAAATATTGAAACCGATAATTATAATGTA
65 AAGTGTCGATACAT-TTATAAAAAGTATCGATCCAAAAAATATCAAAACCGATAATTATAATGTA
* * * *
1452603 ATAGGTAAATTTATAATGTAACCGGTATAAATGTACCAGTTTTATGAGAAAATAGGTGAACATAA
129 ATAGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAGGAGAACATAA
*
1452668 TGTATCG
194 TGTATCA
1452675 ACACGTTTTAGATTTGTGTCGATACTT
1 ACACGTTTTAGATTTGTGTCGATACTT
1452702 ATAAATAATG
Statistics
Matches: 206, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
199 8 0.04
200 60 0.29
201 138 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (200 bp):
ACACGTTTTAGATTTGTGTCGATACTTTTTGTACAAAATGAATGCACAAAAGGGTGAACGCATAA
AGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAATATCAAAACCGATAATTATAATGTAAT
AGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAGGAGAACATAATG
TATCA
Found at i:1457135 original size:201 final size:197
Alignment explanation
Indices: 1456686--1457388 Score: 828
Period size: 200 Copynumber: 3.5 Consensus size: 197
1456676 ACCTAAATAT
* * * * *
1456686 GTGTCGATAGATTTTCAAAAAGTATCGACCCAAAAAACATCGAAACCAATAATTATAATATAATA
1 GTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
1456751 GGTAAATTAACAATGTAACCGATACAAATATACCGGTTAATTA-GAAAACATGTCAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTT--TTATGAAAATAGGTCAACATAATGT
* * * * *
1456815 ATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCTAGAATGAATGCCCAAACGAGGTGCACA
129 ATCGACACTTAT-TAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGAGGTGCACG
1456880 CATAAA
192 CATAAA
* * *
1456886 GTGTCGATACAATTATT-AAAATTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAA
1 GTGTCGATAC-ATTTTTAAAAAGTATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAA
* ** *
1456949 TAGGTAAATTTACAATGTAATCGGTATAAATATACCAATTTTATGTTAAAATAGGTGAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATG--AAAATAGGTCAACATAAT
*
1457014 GTATCGACACGTT-TTATATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAG-GGTTGC
127 GTATCGACAC-TTATTA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGAGG-TGC
1457077 ACGCATAAA
189 ACGCATAAA
* *
1457086 GTGTCAATACATGTTTTAAAAAGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAAT
1 GTGTCGATACAT-TTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
1457151 ATGTAAATTTACAATGTAACCAGTATAAATATATCGGTTTTATGAGAAAATAGGTCATCATAAAG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTAT--GAAAATAGGTCAACATAATG
* * * * *
1457216 TATC-ATACTTATTAAATTTGCGTCGATACATTTTGTCCAGAATGAATGCCCAATGAGGTGCACG
128 TATCGACACTTATT-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGAGGTGCACG
1457280 CATAAA
192 CATAAA
* *
1457286 GTGTCGATACA--TTTAAAATTGTATCGATCCAAAAAGCATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* ** * *
1457349 AGGTAAATTTGCAATGTTTCTGGTATAAATATATCGGTTT
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTT
1457389 ACTTATAAAA
Statistics
Matches: 434, Mismatches: 52, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
197 7 0.02
198 78 0.18
199 7 0.02
200 176 0.41
201 163 0.38
202 2 0.00
203 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAAAATAGGTCAACATAATGTAT
CGACACTTATTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGAGGTGCACGCATA
AA
Found at i:1457688 original size:2 final size:2
Alignment explanation
Indices: 1457681--1457713 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1457671 TTCCATACTA
1457681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1457714 ATTTTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1458553 original size:16 final size:16
Alignment explanation
Indices: 1458532--1458563 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1458522 ACAAAATTCC
1458532 AACATCAAATGACCAA
1 AACATCAAATGACCAA
1458548 AACATCAAATGACCAA
1 AACATCAAATGACCAA
1458564 GAAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.06, T:0.12
Consensus pattern (16 bp):
AACATCAAATGACCAA
Found at i:1458630 original size:75 final size:76
Alignment explanation
Indices: 1458507--1458660 Score: 247
Period size: 75 Copynumber: 2.0 Consensus size: 76
1458497 GCATTTCGAT
* ** * *
1458507 GAAAGCCAAATGAGAACAAAATTCCAACATCAAATGACCAAAACATCAA-ATGACCAAGAAGAAA
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAA
1458571 AAGAAGAAGAA
66 AAGAAGAAGAA
*
1458582 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAA
1458647 AAGAAGAAGAA
66 AAGAAGAAGAA
1458658 GAA
1 GAA
1458661 GAACTCTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 48 0.67
76 24 0.33
ACGTcount: A:0.59, C:0.18, G:0.15, T:0.08
Consensus pattern (76 bp):
GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAA
AAGAAGAAGAA
Found at i:1458784 original size:3 final size:3
Alignment explanation
Indices: 1458776--1458812 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1458766 TCAAATGACC
1458776 AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1458813 TTCTCTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1458870 original size:151 final size:155
Alignment explanation
Indices: 1458582--1458965 Score: 607
Period size: 151 Copynumber: 2.5 Consensus size: 155
1458572 AGAAGAAGAA
1458582 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
1458647 AAGAAGAAGAAGAAGAACTCTGAAATGTGGTGATGGTCCGGAAGTAACAATGAGGGGAGATTGTC
66 AAGAAGAAGAAGAAGAACTCTGAAATGTGGTGATGGTCCGGAAGTAACAATGAGGGGAGATTGTC
1458712 AGCGGAGGAAGGACTGCATTTCGAT
131 AGCGGAGGAAGGACTGCATTTCGAT
* * * * * *
1458737 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAGA-A-GAAGAAGAAGAAGAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
** * *
1458800 AA-AAGAAGAAGAA-TTCTCTGAAATGTGGTGCTGTTCCGGAAGTAACAATGAGGGGAGATTGTC
66 AAGAAGAAGAAGAAGAACTCTGAAATGTGGTGATGGTCCGGAAGTAACAATGAGGGGAGATTGTC
1458863 AGCGGAGGAAGGACTGCATTTCGAT
131 AGCGGAGGAAGGACTGCATTTCGAT
** * *
1458888 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAA-ATGACCAAGAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
1458952 AAGAAGAAGAAGAA
66 AAGAAGAAGAAGAA
1458966 AGCCAAAGGA
Statistics
Matches: 211, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
151 113 0.54
152 26 0.12
153 29 0.14
154 1 0.00
155 42 0.20
ACGTcount: A:0.47, C:0.15, G:0.25, T:0.14
Consensus pattern (155 bp):
GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAACAACAACAACAAGAAG
AAGAAGAAGAAGAAGAACTCTGAAATGTGGTGATGGTCCGGAAGTAACAATGAGGGGAGATTGTC
AGCGGAGGAAGGACTGCATTTCGAT
Found at i:1458934 original size:16 final size:16
Alignment explanation
Indices: 1458913--1458944 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1458903 ACAAAATTCC
1458913 AACATCAAATGACCAA
1 AACATCAAATGACCAA
1458929 AACATCAAATGACCAA
1 AACATCAAATGACCAA
1458945 GAAGAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.06, T:0.12
Consensus pattern (16 bp):
AACATCAAATGACCAA
Found at i:1459011 original size:75 final size:76
Alignment explanation
Indices: 1458888--1459041 Score: 274
Period size: 75 Copynumber: 2.0 Consensus size: 76
1458878 GCATTTCGAT
* *
1458888 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAA-ATGACCAAGAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAAGAAGAACAAGAAGAAG
1458952 AAGAAGAAGAA
66 AAGAAGAAGAA
*
1458963 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAAGAAGAAGAAGAAGAAG
1 GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAAGAAGAACAAGAAGAAG
1459028 AAGAAGAAGAA
66 AAGAAGAAGAA
1459039 GAA
1 GAA
1459042 GGGGTGACCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 49 0.65
76 26 0.35
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.07
Consensus pattern (76 bp):
GAAAGCCAAAGGAGAACAAAATTCCAACATCAAATGACCAAAACATCAAGAAGAACAAGAAGAAG
AAGAAGAAGAA
Found at i:1459018 original size:3 final size:3
Alignment explanation
Indices: 1459010--1459042 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1459000 CCAAAACATC
1459010 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1459043 GGGTGACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1462894 original size:14 final size:16
Alignment explanation
Indices: 1462877--1462913 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1462867 CTATCAATAT
*
1462877 TCTTATCATT-TAT-A
1 TCTTATAATTATATCA
1462891 TCTTATAATTATATCA
1 TCTTATAATTATATCA
1462907 TCTTATA
1 TCTTATA
1462914 TCTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (16 bp):
TCTTATAATTATATCA
Found at i:1463259 original size:23 final size:22
Alignment explanation
Indices: 1463233--1463310 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
1463223 CACCACAGCT
*
1463233 CGTATAAATGCACCGAAATGCCA
1 CGTA-AAATGCACCGAAGTGCCA
* *
1463256 CGTAGAATTGCACCGAAGTGCCG
1 CGTA-AAATGCACCGAAGTGCCA
*
1463279 CGTAGAATGGCACCGAAGTGCCA
1 CGTAAAAT-GCACCGAAGTGCCA
**
1463302 TATAAAATG
1 CGTAAAATG
1463311 TCCCTAAGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 3 0.07
23 41 0.93
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:1464855 original size:19 final size:19
Alignment explanation
Indices: 1464831--1464883 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
1464821 TCTTACGAGG
1464831 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
1464850 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
1464869 ATGCATCGATGCACT
1 ATGCATCGATGCACT
1464884 AATTGCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:1468637 original size:43 final size:43
Alignment explanation
Indices: 1468590--1468870 Score: 309
Period size: 43 Copynumber: 6.6 Consensus size: 43
1468580 ATATCTATTA
* * **
1468590 CGGCGTTTTTGGA-ACAAATGCCGCAAAAAGTTATGATATATAG
1 CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCA-GACCTATAG
* * * * * * *
1468633 CGGCGTTTCTAGA-AAAAACACCGTAAAAGGTCAGATCTATAG
1 CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
* * * **
1468675 CGGCGTTTTTTGATACAAACGCCGTAAAAAAACAGACCTATA-
1 CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
* *
1468717 CTGGCGTTTTTAGA-ACAAACGCCGCAAAAGGTCAGACCTATAG
1 C-GGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
* * *
1468760 CGGCGTTTTTGGACACAAACGCTGCAAAAGGTCAGACCTATAA
1 CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
*
1468803 CGGCGTTTTTGAACACAAACGCCGCAAAAAGTCAGACCTATAG
1 CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
*
1468846 CGGCGTTTTTGGATACAAACGCCGC
1 CGGCGTTTTTGGACACAAACGCCGC
1468871 TAATTACCTT
Statistics
Matches: 203, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
42 55 0.27
43 148 0.73
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (43 bp):
CGGCGTTTTTGGACACAAACGCCGCAAAAAGTCAGACCTATAG
Found at i:1468693 original size:86 final size:83
Alignment explanation
Indices: 1468559--1468870 Score: 340
Period size: 85 Copynumber: 3.7 Consensus size: 83
1468549 TTTGAGAACA
* * * * *
1468559 AAAAAACGCCGCAATAGGTCAATATCTATTA-CGGCGTTTTTGGA-ACAAATGCCGCAAAAAGTT
1 AAAAAACGCCGCAAAAGGTC-AGACCTA-TAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTC
**
1468622 ATGATATATAGCGGCGTTTCTAG
64 A-GACCTATA-CGGCGTTT-TAG
* * * * * **
1468645 AAAAAACACCGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGTAAAAAAACAG
1 AAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCAG
1468710 ACCTATACTGGCGTTTTTAG
66 ACCTATAC-GGCG-TTTTAG
* * * *
1468730 AACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGCTGCAAAAGGTCAG
1 AAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCAG
*
1468795 ACCTATAACGGCGTTTTTG
66 ACCTAT-ACGGCGTTTTAG
*
1468814 AACACAAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGC
1 AA-A-AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGC
1468871 TAATTACCTT
Statistics
Matches: 191, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
84 10 0.05
85 95 0.50
86 86 0.45
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (83 bp):
AAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCAG
ACCTATACGGCGTTTTAG
Found at i:1468789 original size:128 final size:128
Alignment explanation
Indices: 1468590--1468870 Score: 343
Period size: 128 Copynumber: 2.2 Consensus size: 128
1468580 ATATCTATTA
* * *
1468590 CGGCGTTTTTGGAACAAATGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGAAAAAACACC
1 CGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCGTTTCTAGAAAAAACACC
* * * * *
1468655 GTAAAAGGTCAGATCTATAGCGGCGTTTTTTG-ATACAAACGCCGTAAAAAAACAGACCTATA-
66 GCAAAAGGTCAGACCTATAACGGCG-TTTTTGAACACAAACGCCGCAAAAAAACAGACCTATAG
* * * * * * *
1468717 CTGGCGTTTTTAGAACAAACGCCGCAAAAGGTCA-GACCTATAGCGGCGTTTTTGGACACAAACG
1 C-GGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCGTTTCTAGA-AAAAACA
* **
1468781 CTGCAAAAGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAAAAGTCAGACCTATAG
64 CCGCAAAAGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAAAAAACAGACCTATAG
1468846 CGGCGTTTTTGGATACAAACGCCGC
1 CGGCGTTTTTGGA-ACAAACGCCGC
1468871 TAATTACCTT
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
127 25 0.19
128 93 0.72
129 12 0.09
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (128 bp):
CGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCGTTTCTAGAAAAAACACC
GCAAAAGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAAAAAACAGACCTATAG
Found at i:1472321 original size:19 final size:20
Alignment explanation
Indices: 1472278--1472321 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1472268 AAACGGCGAA
*
1472278 GAGGAGAGGTGGATTGGGAG
1 GAGGAGAGGTGGATCGGGAG
*
1472298 G-GGAGAGGT-GATCGGGTG
1 GAGGAGAGGTGGATCGGGAG
1472316 GAGGAG
1 GAGGAG
1472322 GGAGCAGCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.23, C:0.02, G:0.61, T:0.14
Consensus pattern (20 bp):
GAGGAGAGGTGGATCGGGAG
Found at i:1472655 original size:58 final size:58
Alignment explanation
Indices: 1472565--1472675 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
1472555 GTAAAGCAAA
* *
1472565 ACCCTACTCATTTAATTGTTAACCACAACATTCGCATTATTTACAGTCGTACCCTCTC
1 ACCCTACTCATTCAATTGTTAACCACAACATTCGCATTATATACAGTCGTACCCTCTC
*
1472623 ACCCTACTCATTCAATTGTTAACCACATCATTCGCATTATATACAGTCGTACC
1 ACCCTACTCATTCAATTGTTAACCACAACATTCGCATTATATACAGTCGTACC
1472676 ACAAATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (58 bp):
ACCCTACTCATTCAATTGTTAACCACAACATTCGCATTATATACAGTCGTACCCTCTC
Found at i:1472842 original size:41 final size:41
Alignment explanation
Indices: 1472728--1473131 Score: 450
Period size: 41 Copynumber: 9.8 Consensus size: 41
1472718 TATGACAATT
*
1472728 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGTGTCTATA
*
1472770 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGTGTCTATA
* ** *
1472812 GCGGCGTTTGTGCA-AAAACGCCACTAAAGTACGAATTTATA
1 GCGGCGTTTG-GTATAAAACGCCACTAAAGTACGTGTCTATA
*
1472853 GCGGCGTTTGGTATTAAAAAGCCA-TAAAAGTA-GTGTCTATA
1 GCGGCGTTTGGTA-TAAAACGCCACT-AAAGTACGTGTCTATA
1472894 GCGGCGTTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTA-TAAAACGCCACT-AAAGTACGTGTCTATA
* *
1472936 GCGGCGTTTGTGTA-AAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTG-GTATAAAACGCCACTAAAGTACGTGTCTATA
*
1472977 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGTGTCTATA
* * *
1473019 GCAGCGTTT-GTATAAAAACGCCACTAAAATAC-TAGTTTATA
1 GCGGCGTTTGGTAT-AAAACGCCACTAAAGTACGT-GTCTATA
* * *
1473060 GCGGCGTTT-GTATAAAAACGCCACTACATTACGAT-TCTTTA
1 GCGGCGTTTGGTAT-AAAACGCCACTAAAGTACG-TGTCTATA
* *
1473101 GCGGCGTTT-TTATACAAACGCCATTAAAGTA
1 GCGGCGTTTGGTATA-AAACGCCACTAAAGTA
1473132 TAGTATTTTA
Statistics
Matches: 317, Mismatches: 31, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
40 8 0.03
41 187 0.59
42 116 0.37
43 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
GCGGCGTTTGGTATAAAACGCCACTAAAGTACGTGTCTATA
Found at i:1472868 original size:83 final size:83
Alignment explanation
Indices: 1472728--1473109 Score: 458
Period size: 83 Copynumber: 4.6 Consensus size: 83
1472718 TATGACAATT
1472728 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCC
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCC
1472793 ACAAAAGTACGTGTCTATA
65 ACAAAAGTACGTGTCTATA
* * * *
1472812 GCGGCGTTTGTGCA-AAAACGCCACTAAAGTACGAATTTATAGCGGCGTTTGGTATTAAAAAGCC
1 GCGGCGTTTG-GTATAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCC
*
1472876 ATAAAAGTA-GTGTCTATA
65 ACAAAAGTACGTGTCTATA
* *
1472894 GCGGCGTTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAATG
1 GCGGCGTTTGGTA-TAAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTG-GTATTAAAACG
* *
1472956 CCACTAAAGTACGAGTCTATA
63 CCACAAAAGTACGTGTCTATA
* * * *
1472977 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCAGCGTTT-GTATAAAAACGCC
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCC
*
1473041 ACTAAAA-TAC-TAGTTTATA
65 AC-AAAAGTACGT-GTCTATA
* * * *
1473060 GCGGCGTTT-GTATAAAAACGCCACTACATTACGATTCTTTAGCGGCGTTT
1 GCGGCGTTTGGTAT-AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
1473110 TTATACAAAC
Statistics
Matches: 260, Mismatches: 26, Indels: 26
0.83 0.08 0.08
Matches are distributed among these distances:
81 6 0.02
82 66 0.25
83 170 0.65
84 16 0.06
85 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (83 bp):
GCGGCGTTTGGTATAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
CAAAAGTACGTGTCTATA
Found at i:1472953 original size:124 final size:125
Alignment explanation
Indices: 1472728--1473131 Score: 554
Period size: 124 Copynumber: 3.3 Consensus size: 125
1472718 TATGACAATT
*
1472728 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGC
1 GCGGCGTTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGC
* *
1472792 CACAAAAGTACGTGTCTATAGCGGCGTTTGTGCAAAAACGCCACTAAAGTACGAATTTATA
65 CATAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATTTATA
*
1472853 GCGGCGTTTGGTATTAAAAAGCCATAAAAGTA-GTGTCTATAGCGGCGTTTGGTATTAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCATAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCC
* * *
1472917 ATAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATA
66 ATAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATTTATA
* * *
1472977 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCAGCGTTT-GTATAAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCATAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCC
* * * * *
1473041 ACTAAAA-TAC-TAGTTTATAGCGGCGTTTGTATAAAAACGCCACTACATTACG-ATTCTTTA
66 A-TAAAAGTACGT-GTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATT-TATA
* *
1473101 GCGGCGTTT-TTA-TACAAACGCCATTAAAGTA
1 GCGGCGTTTGGTATTA-AAACGCCATAAAAGTA
1473132 TAGTATTTTA
Statistics
Matches: 251, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
122 2 0.01
123 18 0.07
124 180 0.72
125 51 0.20
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (125 bp):
GCGGCGTTTGGTATTAAAACGCCATAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCC
ATAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATTTATA
Found at i:1473449 original size:31 final size:31
Alignment explanation
Indices: 1473414--1473493 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
1473404 ATTCAACGTC
*
1473414 TAAGTGACCAAAACTTAATAAAACTATAACG
1 TAAGTGACCAAAACTTAATAAAACAATAACG
1473445 TAAGTGA-CATAAACTTAATAAAACAATAACG
1 TAAGTGACCA-AAACTTAATAAAACAATAACG
1473476 TAAGTGACCAAAA-TTAAT
1 TAAGTGACCAAAACTTAAT
1473494 GTTTTTTGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 7 0.15
31 37 0.80
32 2 0.04
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24
Consensus pattern (31 bp):
TAAGTGACCAAAACTTAATAAAACAATAACG
Found at i:1480970 original size:49 final size:47
Alignment explanation
Indices: 1480917--1481023 Score: 153
Period size: 47 Copynumber: 2.2 Consensus size: 47
1480907 TAGCGCGGAT
*
1480917 CAGGTACCGCG-CTATACCTTTACTCCTAATAATTTTATATAGCACGGGG
1 CAGGTACCGCGAC-ATACCTTTACTAC--ATAATTTTATATAGCACGGGG
*
1480966 CAGGTACCGCGACATACCTTTACTACATAATTTTATATAGCGCGGGG
1 CAGGTACCGCGACATACCTTTACTACATAATTTTATATAGCACGGGG
*
1481013 CAAGTACCGCG
1 CAGGTACCGCG
1481024 TTTTGTATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
47 30 0.56
49 23 0.43
50 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (47 bp):
CAGGTACCGCGACATACCTTTACTACATAATTTTATATAGCACGGGG
Found at i:1481014 original size:47 final size:48
Alignment explanation
Indices: 1480905--1481023 Score: 161
Period size: 49 Copynumber: 2.5 Consensus size: 48
1480895 CACGTAGGGG
** *
1480905 TATAGCGCGGATCAGGTACCGCGCTATACCTTTACTCCTAATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCGCTATACCTTTACTAC-AATAATTTTA
*
1480954 TATAGCACGGGGCAGGTACCGCGAC-ATACCTTTACTAC-ATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCG-CTATACCTTTACTACAATAATTTTA
*
1481001 TATAGCGCGGGGCAAGTACCGCG
1 TATAGCGCGGGGCAGGTACCGCG
1481024 TTTTGTATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 30 0.48
49 32 0.51
50 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
TATAGCGCGGGGCAGGTACCGCGCTATACCTTTACTACAATAATTTTA
Done.