Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_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: 3477501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 18
Found at i:1405284 original size:256 final size:256
Alignment explanation
Indices: 1404372--1405322 Score: 1350
Period size: 257 Copynumber: 3.7 Consensus size: 256
1404362 ATTTTATAAG
* * *
1404372 TTGAAAAATGAGAAAGCGATTTCCAAAGTCTCTCATTTAATGTTTTCAGAAAATGAAATTTTTTA
1 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGA
* * *
1404437 AAATGAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTT
66 AAGT-AAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCTT
* * * *
1404502 CGGGTCATCAGTAAGTCTTTCGAGCATGACGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGA
130 CAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
* * * ** *
1404567 GCAGGATGATAAGTCCTTCAGGCTATCTATAAGACCTTCGGGTAGGATGTTTTCACATGAAT
195 GCAGGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACGTGAAT
* * *
1404629 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTTATTTAATGTTTTCATAAAATGGAAA-TTTTG
1 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAAT-GAAATTTTTG
* * * * *
1404693 AAATGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAATTATTTCCAAAGTTAGTAAGTCTT
65 AAA-GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCT
* * *
1404758 TCAGGCCATCAGTAAGTCTATGGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
129 TCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * * * *
1404823 AGCAAGATGATAAGTCATTCGGACCATTCGTAAGACCTTCGGGTAGGTTGTTTTTACGTGAAT
194 AGCAGGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACGTGAAT
* * *
1404886 TTGAAAAATGAGAAAGTGGTTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGA
1 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG-
*
1404951 AAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTT-TAAGTCCTT
65 AAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCTT
* * * *
1405015 CAGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATCGTTCGAGTCATCTGTAAGTCTTTTGA
130 CAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
1405080 GCAGGATGATAAGTCATTCGGGCCATCCGTAAGA-CTTCGGGTAGGATGTTTTCACGTGAAT
195 GCAGGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACGTGAAT
* * * * * *
1405141 TTGAAAATTGAGAAAGCTATTTCCAAAGTTTCTCATTTAGTATTTTTAAAAAATGAAAGTTTTGA
1 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGA
** * *
1405206 ATAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCGGTAAATTATTTCCAAAATTTGTAAGTACTT
66 A-AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCTT
* * * *
1405271 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTCATTCGGGTTATCT
130 CAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCT
1405323 ATCGATCTCA
Statistics
Matches: 618, Mismatches: 70, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
254 2 0.00
255 131 0.21
256 155 0.25
257 322 0.52
258 8 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (256 bp):
TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGA
AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCTTC
AGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
CAGGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACGTGAAT
Found at i:1407475 original size:15 final size:15
Alignment explanation
Indices: 1407455--1407495 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
1407445 TTTATATTTT
1407455 AAAATTATTTTTCTA
1 AAAATTATTTTTCTA
1407470 AAAATTATTTTTCTA
1 AAAATTATTTTTCTA
1407485 AAAATTATTTT
1 AAAATTATTTT
1407496 AAAATGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AAAATTATTTTTCTA
Found at i:1413884 original size:20 final size:21
Alignment explanation
Indices: 1413854--1413937 Score: 86
Period size: 20 Copynumber: 4.1 Consensus size: 21
1413844 TTCTCTGGCT
*
1413854 CAAAA-GATCGATTCCTTAG-
1 CAAAAGGATCGATCCCTTAGA
*
1413873 CAAAAGGATCGATCCCTTTGA
1 CAAAAGGATCGATCCCTTAGA
*
1413894 CCAAAGGATCGATCCCCTT-GA
1 CAAAAGGATCGAT-CCCTTAGA
* *
1413915 -AAAAAGATCGATCCCTTGGA
1 CAAAAGGATCGATCCCTTAGA
1413935 CAA
1 CAA
1413938 TAGTGAGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.18
20 24 0.44
21 16 0.29
22 5 0.09
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (21 bp):
CAAAAGGATCGATCCCTTAGA
Found at i:1413978 original size:20 final size:21
Alignment explanation
Indices: 1413949--1414001 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1413939 AGTGAGTTTG
1413949 GGATCGATCCCTTGA-CAAAA
1 GGATCGATCCCTTGAGCAAAA
* * *
1413969 GGATCAAT-CCTCGAGGAAAA
1 GGATCGATCCCTTGAGCAAAA
1413989 GGATCGATCCCTT
1 GGATCGATCCCTT
1414002 CCCAAAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 18 0.69
21 3 0.12
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (21 bp):
GGATCGATCCCTTGAGCAAAA
Found at i:1415157 original size:44 final size:44
Alignment explanation
Indices: 1415108--1415341 Score: 182
Period size: 44 Copynumber: 5.0 Consensus size: 44
1415098 TTGCTCTAAA
1415108 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
* *
1415152 ATAAATGAATGCCATAAATG-AAAATGCATAACGATGCATTTTTGGCAGAAAGGTGCC
1 AT--A--AATG--A-AAATGCATAA--C---A--ATGCATTATTGGCAGAAAGGTGCC
* *** *
1415209 ATAAATGAAAATGTATAATGGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
* * * *
1415253 ATAAATGAAAATGCATAACAGTGCATTACTGACAGAAAGGTGTC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
* ** * * *
1415297 ATAAATTAAAATGCATAATGATACATTATTAGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
1415341 A
1 A
1415342 CTCATGGTAT
Statistics
Matches: 150, Mismatches: 25, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
44 95 0.63
46 1 0.01
48 4 0.03
50 9 0.06
51 9 0.06
52 1 0.01
53 4 0.03
55 2 0.01
57 25 0.17
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
Found at i:1415166 original size:13 final size:13
Alignment explanation
Indices: 1415148--1415173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1415138 GGCAGAAAGG
1415148 TGCCATAAATGAA
1 TGCCATAAATGAA
1415161 TGCCATAAATGAA
1 TGCCATAAATGAA
1415174 AATGCATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
TGCCATAAATGAA
Found at i:1415170 original size:57 final size:57
Alignment explanation
Indices: 1415108--1415217 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 57
1415098 TTGCTCTAAA
1415108 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCCATAAATGAATGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCCATAAATGAATGCC
* *
1415165 ATAAATGAAAATGCATAACGATGCATTTTTGGCAGAAAGGTGCCATAAATGAA
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCCATAAATGAA
1415218 AATGTATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (57 bp):
ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCCATAAATGAATGCC
Found at i:1415266 original size:88 final size:88
Alignment explanation
Indices: 1415161--1415341 Score: 247
Period size: 88 Copynumber: 2.1 Consensus size: 88
1415151 CATAAATGAA
** * *
1415161 TGCCATAAATGAAAATGCATAAC-GATGCATTTTTGGCAGAAAGGTGCCATAAATGAAAATGTAT
1 TGCCATAAATGAAAATGCATAACAG-TGCATTACTGACAGAAAGGTGCCATAAATGAAAATGCAT
* * * *
1415225 AATGGTGCATTATTGGCAGAAATG
65 AATGATACATTATTAGCAGAAAGG
* *
1415249 TGCCATAAATGAAAATGCATAACAGTGCATTACTGACAGAAAGGTGTCATAAATTAAAATGCATA
1 TGCCATAAATGAAAATGCATAACAGTGCATTACTGACAGAAAGGTGCCATAAATGAAAATGCATA
*
1415314 ATGATACATTATTAGCATAAAGG
66 ATGATACATTATTAGCAGAAAGG
1415337 TGCCA
1 TGCCA
1415342 CTCATGGTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 80 0.99
89 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (88 bp):
TGCCATAAATGAAAATGCATAACAGTGCATTACTGACAGAAAGGTGCCATAAATGAAAATGCATA
ATGATACATTATTAGCAGAAAGG
Found at i:1416215 original size:34 final size:34
Alignment explanation
Indices: 1416177--1416244 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1416167 ATAGAGGGTC
1416177 AAGAATCGTCGCTTTAGGTTAAAAAAGAAGAGTG
1 AAGAATCGTCGCTTTAGGTTAAAAAAGAAGAGTG
1416211 AAGAATCGTCGCTTTAGGTTAAAAAAGAAGAGTG
1 AAGAATCGTCGCTTTAGGTTAAAAAAGAAGAGTG
1416245 GTTTTTCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (34 bp):
AAGAATCGTCGCTTTAGGTTAAAAAAGAAGAGTG
Found at i:1418427 original size:18 final size:19
Alignment explanation
Indices: 1418396--1418436 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1418386 TAAAAATCAA
1418396 TTTT-ATTAACTTAA-AGTT
1 TTTTAATTAACTTAATA-TT
1418414 TTTTAATTAA-TTAATATT
1 TTTTAATTAACTTAATATT
1418432 TTTTA
1 TTTTA
1418437 GGAGACCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTAATTAACTTAATATT
Found at i:1419114 original size:31 final size:28
Alignment explanation
Indices: 1419072--1419155 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 28
1419062 AAAGTATTTT
*
1419072 TTTTTTATCAAAATAAATACTTAAAGTTA
1 TTTTTT-TCAAAATAAGTACTTAAAGTTA
*
1419101 TCTTTTTGGTCAAAACAAGTA-TCTAAA-TTA
1 T-TTTTT--TCAAAATAAGTACT-TAAAGTTA
1419131 TTTTTTT-AAAATAAGTACTTAAAGT
1 TTTTTTTCAAAATAAGTACTTAAAGT
1419156 ATTCAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
26 13 0.28
27 3 0.07
29 6 0.13
30 10 0.22
31 14 0.30
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTTTTCAAAATAAGTACTTAAAGTTA
Found at i:1425089 original size:15 final size:16
Alignment explanation
Indices: 1425069--1425098 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1425059 GTGGCAAAAT
1425069 GAAATGG-ATGATGTG
1 GAAATGGAATGATGTG
1425084 GAAATGGAATGATGT
1 GAAATGGAATGATGT
1425099 TTATATGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (16 bp):
GAAATGGAATGATGTG
Found at i:1426691 original size:20 final size:20
Alignment explanation
Indices: 1426654--1426696 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1426644 ATTCTACCAC
*
1426654 ATGCAACTATATGCTCCTAA
1 ATGCAACTACATGCTCCTAA
* *
1426674 ATGCATCTACATGGTCCTAA
1 ATGCAACTACATGCTCCTAA
1426694 ATG
1 ATG
1426697 AGGTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTACATGCTCCTAA
Found at i:1445440 original size:17 final size:18
Alignment explanation
Indices: 1445418--1445451 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1445408 TCTTTAAGGT
1445418 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
1445435 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
1445452 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:1447308 original size:20 final size:20
Alignment explanation
Indices: 1447283--1447323 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1447273 CAAATTGCTT
1447283 ACATCTGATTGATTAACAAC
1 ACATCTGATTGATTAACAAC
1447303 ACATCTGATTGATTAACAAC
1 ACATCTGATTGATTAACAAC
1447323 A
1 A
1447324 TACCTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
ACATCTGATTGATTAACAAC
Found at i:1447440 original size:25 final size:24
Alignment explanation
Indices: 1447406--1447469 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 24
1447396 AGAAAGTAAT
1447406 ATAAAATAAAGAAAATAAGTGA-ATAA
1 ATAAAATAAAGAAAA-AA-T-ACATAA
1447432 A-AAAATAAAGATAAAAATACATAA
1 ATAAAATAAAGA-AAAAATACATAA
1447456 ATAAAATAAAGAAA
1 ATAAAATAAAGAAA
1447470 GATGATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 1 0.03
24 8 0.23
25 22 0.63
26 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (24 bp):
ATAAAATAAAGAAAAAATACATAA
Found at i:1447957 original size:19 final size:20
Alignment explanation
Indices: 1447909--1447957 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1447899 AGAGAAGAAT
*
1447909 ATAAAAAATA-CATAAATAA
1 ATAAAAAATATAATAAATAA
* *
1447928 ATATAATATATAATAAA-AA
1 ATAAAAAATATAATAAATAA
1447947 ATAAAAAATAT
1 ATAAAAAATAT
1447958 GTAATAGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAAATATAATAAATAA
Found at i:1447962 original size:21 final size:23
Alignment explanation
Indices: 1447922--1447963 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1447912 AAAAATACAT
1447922 AAATAAATATAATATATAATAAA
1 AAATAAATATAATATATAATAAA
*
1447945 AAATAAA-A-AATATGTAATA
1 AAATAAATATAATATATAATA
1447964 GTAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATAAATATAATATATAATAAA
Found at i:1449964 original size:106 final size:106
Alignment explanation
Indices: 1449807--1450760 Score: 1414
Period size: 106 Copynumber: 9.0 Consensus size: 106
1449797 TCCCCTTCCA
* * * * *
1449807 AGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTATTTGTTGACA
1 AGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
1449870 ACCATCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1449913 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
1449978 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1450019 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
1450084 CAACGGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** * *
1450125 AGCCCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
1450190 CAGCGGTCCCTTCGTCGTGAAGTTG-ACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * *
1450230 AGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTTTGAAATTAGGAAGTTATATATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * *
1450295 CAGTGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGTATGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1450336 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
1450401 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
1450442 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTAATAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
1450507 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1450548 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1450612 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1450653 AGTCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * *
1450717 CAGCGGTCCATTCGTCTTGAAGTTGAACTTGTGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1450758 AGT
1 AGT
1450761 GGCGCGACAT
Statistics
Matches: 775, Mismatches: 70, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
105 240 0.31
106 532 0.69
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1450343 original size:423 final size:421
Alignment explanation
Indices: 1449826--1450747 Score: 1418
Period size: 423 Copynumber: 2.2 Consensus size: 421
1449816 TCCTCCATCG
* * * *
1449826 TGAAGTTGAAATTGGCTCTGGAACTGGAAAATTATTTGTTGACAACCA-TCCGTCCCTTCGTTGT
1 TGAAGTTGAAATTGGCTCTGAAATTGG-AAGTTA-TTGTTGACAACCAGT-GGTCCCTTCGTTGT
** * * *
1449890 GAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAA
63 GAAGTTGAACTTGCATTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA
* * *
1449955 TTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGA
128 TTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * * *
1450020 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTTGTTGACAACC
193 GTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATTGTTTATTAACAACC
* *
1450085 AACGGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGCCCAATATCCTTCATTGTGAAGT
258 AACGGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTAGAGCCCAATATCCTTCACTGTGAAGT
1450150 TAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
323 TAAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1450215 -ACTTGCATTGTCTGGAGTCCAATATCCTTCGCTA
387 AACTTGCATTGTCTGGAGTCCAATATACTTCGCTA
* *
1450249 TGAAGTTGAAATTGGCTTTGAAATTAGGAAGTTATATATTGACAACCAGTGGTCCCTTCGTTGTG
1 TGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTAT-TGTTGACAACCAGTGGTCCCTTCGTTGTG
1450314 AAGTTGAACTTGCATTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
64 AAGTTGAACTTGCATTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
* *
1450379 TGGGAAGTTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
129 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
1450444 TCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTAATAACCA
194 TCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATTGTTTATTAACAACCA
* * * * *
1450509 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTT
259 ACGGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTAGAGCCCAATATCCTTCACTGTGAAGTT
*
1450574 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
324 AAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
1450639 CTTGCGTTGTCTGGAGTCCAATATACTTCGCTG
389 CTTGCATTGTCTGGAGTCCAATATACTTCGCTA
* * *
1450672 TGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCATTCGTCT-TG
1 TGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTATTGTTGACAACCAGTGGTCCCTTCGT-TGTG
1450736 AAGTTGAACTTG
64 AAGTTGAACTTG
1450748 TGTTGTCTTG
Statistics
Matches: 454, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
422 73 0.16
423 378 0.83
424 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (421 bp):
TGAAGTTGAAATTGGCTCTGAAATTGGAAGTTATTGTTGACAACCAGTGGTCCCTTCGTTGTGAA
GTTGAACTTGCATTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
GGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
CAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATTGTTTATTAACAACCAAC
GGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTAGAGCCCAATATCCTTCACTGTGAAGTTAA
AATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCATTGTCTGGAGTCCAATATACTTCGCTA
Found at i:1450388 original size:317 final size:314
Alignment explanation
Indices: 1449810--1450747 Score: 1405
Period size: 317 Copynumber: 3.0 Consensus size: 314
1449800 CCTTCCAAGT
* * * * * * *
1449810 CCAATATCCTCCATCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTATTTGTTGACAACCAT
1 CCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATTGG-AAATTGTTTGTTGACAACCAG
* * * *
1449875 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
*
1449940 AAATTGG-TTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGA
130 AAATTGGCTT-TGAAATT-GGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGA
* * *
1450004 ACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAG
192 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
*
1450069 TTGTTTGTTGACAACCAACGGTACCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGC
257 TTGTTTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGC
*
1450128 CCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACAACCAG
* *
1450193 CGGTCCCTTCGTCGTGAAGTTG-ACTTGCATTGTCTGGAGTCCAATATCCTTCGCTATGAAGTTG
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
* * *
1450257 AAATTGGCTTTGAAATTAGGAAGTTATATATTGACAACCAGTGGTCCCTTCGTTGTGAAGTTGAA
130 AAATTGGCTTTGAAATT-GGAAGTTGT-TGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAA
* *
1450322 CTTGCATTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
193 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * * *
1450387 TGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
258 TGTTTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGC
** * * *
1450445 CCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTAATAACCAG
1 CCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAACCAG
*
1450510 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTG
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
* *
1450575 AAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
130 AAATTGGCTTTGAAATTG-GAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAAC
*
1450640 TTGCGTTGTCTGGAGTCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
194 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
*
1450705 G-TTGTTGACAACCAGCGGTCCATTCGTCTTGAAGTTGAACTTG
259 GTTTGTTGACAACCAGCGGTCC-TTCGTCGTGAAGTTGAACTTG
1450748 TGTTGTCTTG
Statistics
Matches: 563, Mismatches: 50, Indels: 16
0.90 0.08 0.03
Matches are distributed among these distances:
315 2 0.00
316 37 0.07
317 383 0.68
318 140 0.25
319 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (314 bp):
CCAATATCCTTCATTGTGAAGTTAAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
AATTGGCTTTGAAATTGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT
TTGTTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGC
Found at i:1451620 original size:42 final size:42
Alignment explanation
Indices: 1451559--1451639 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
1451549 TTTTGCTCTT
*
1451559 TTTTTTTATCTAGGGCGCCCTTTCGGGTTTTCACCCTAAATG
1 TTTTTTTATCTAGGACGCCCTTTCGGGTTTTCACCCTAAATG
*
1451601 TTTTTTTA-CTTAGGACGCCCTTTCGGGTTTTCATCCTAA
1 TTTTTTTATC-TAGGACGCCCTTTCGGGTTTTCACCCTAA
1451640 GCGTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTTTTTATCTAGGACGCCCTTTCGGGTTTTCACCCTAAATG
Found at i:1456295 original size:15 final size:15
Alignment explanation
Indices: 1456265--1456300 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1456255 AAAAGTAAAG
*
1456265 ATAAAA-ATACATAA
1 ATAAAATATAAATAA
1456279 ATAAAATATAAATAA
1 ATAAAATATAAATAA
1456294 ATAAAAT
1 ATAAAAT
1456301 GAAGAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAAAATATAAATAA
Found at i:1456702 original size:26 final size:26
Alignment explanation
Indices: 1456672--1456722 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1456662 ACAAGAGAAG
*
1456672 AATATA-AAAAATACATACATAAATAT
1 AATATATAAAAATAAATA-ATAAATAT
*
1456698 AATATATAATAATAAATAATAAATA
1 AATATATAAAAATAAATAATAAATA
1456723 AAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (26 bp):
AATATATAAAAATAAATAATAAATAT
Found at i:1456785 original size:7 final size:7
Alignment explanation
Indices: 1456764--1456806 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
1456754 TATATTTAAA
1456764 AAAAATT
1 AAAAATT
1456771 -AAAA-T
1 AAAAATT
1456776 AAAAATT
1 AAAAATT
1456783 AAAAA-T
1 AAAAATT
1456789 AAAAATT
1 AAAAATT
*
1456796 TAAAATT
1 AAAAATT
1456803 AAAA
1 AAAA
1456807 CATGAACTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 14 0.45
7 16 0.52
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:1464647 original size:340 final size:340
Alignment explanation
Indices: 1464027--1464707 Score: 1362
Period size: 340 Copynumber: 2.0 Consensus size: 340
1464017 GCACAATTTA
1464027 GAGCAAAAATTATATGCTTCTCCTGTTTACCGAAAAGAGTATTTAAATATAATCGTTTGATAAAC
1 GAGCAAAAATTATATGCTTCTCCTGTTTACCGAAAAGAGTATTTAAATATAATCGTTTGATAAAC
1464092 ACCTTAGAACTATAGATATGGCACATCCAAAGGACAACCACATACAGAAATTGAAGCGAGTAAAT
66 ACCTTAGAACTATAGATATGGCACATCCAAAGGACAACCACATACAGAAATTGAAGCGAGTAAAT
1464157 AAAAAACACTAATACTAACAGATATGGATTCCATATACAGTCATTGGTTATAATGTTACTTTGAC
131 AAAAAACACTAATACTAACAGATATGGATTCCATATACAGTCATTGGTTATAATGTTACTTTGAC
1464222 GTGAAACTAAGAAACGATTTCAGTTCTTCAAACTATTTATTAAGAGGCTACCTCAATCAACTTTA
196 GTGAAACTAAGAAACGATTTCAGTTCTTCAAACTATTTATTAAGAGGCTACCTCAATCAACTTTA
1464287 ATACCAATAATTCGCAGGCTTAATGATCACTCTTCCCTTTGGAGGAAAAGAATCTGCTAAAGCCT
261 ATACCAATAATTCGCAGGCTTAATGATCACTCTTCCCTTTGGAGGAAAAGAATCTGCTAAAGCCT
1464352 CGTAAATGTTTCTCC
326 CGTAAATGTTTCTCC
1464367 GAGCAAAAATTATATGCTTCTCCTGTTTACCGAAAAGAGTATTTAAATATAATCGTTTGATAAAC
1 GAGCAAAAATTATATGCTTCTCCTGTTTACCGAAAAGAGTATTTAAATATAATCGTTTGATAAAC
1464432 ACCTTAGAACTATAGATATGGCACATCCAAAGGACAACCACATACAGAAATTGAAGCGAGTAAAT
66 ACCTTAGAACTATAGATATGGCACATCCAAAGGACAACCACATACAGAAATTGAAGCGAGTAAAT
1464497 AAAAAACACTAATACTAACAGATATGGATTCCATATACAGTCATTGGTTATAATGTTACTTTGAC
131 AAAAAACACTAATACTAACAGATATGGATTCCATATACAGTCATTGGTTATAATGTTACTTTGAC
1464562 GTGAAACTAAGAAACGATTTCAGTTCTTCAAACTATTTATTAAGAGGCTACCTCAATCAACTTTA
196 GTGAAACTAAGAAACGATTTCAGTTCTTCAAACTATTTATTAAGAGGCTACCTCAATCAACTTTA
1464627 ATACCAATAATTCGCAGGCTTAATGATCACTCTTCCCTTTGGAGGAAAAGAATCTGCTAAAGCCT
261 ATACCAATAATTCGCAGGCTTAATGATCACTCTTCCCTTTGGAGGAAAAGAATCTGCTAAAGCCT
1464692 CGTAAATGTTTCTCC
326 CGTAAATGTTTCTCC
1464707 G
1 G
1464708 GAATTGGGTT
Statistics
Matches: 341, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 341 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (340 bp):
GAGCAAAAATTATATGCTTCTCCTGTTTACCGAAAAGAGTATTTAAATATAATCGTTTGATAAAC
ACCTTAGAACTATAGATATGGCACATCCAAAGGACAACCACATACAGAAATTGAAGCGAGTAAAT
AAAAAACACTAATACTAACAGATATGGATTCCATATACAGTCATTGGTTATAATGTTACTTTGAC
GTGAAACTAAGAAACGATTTCAGTTCTTCAAACTATTTATTAAGAGGCTACCTCAATCAACTTTA
ATACCAATAATTCGCAGGCTTAATGATCACTCTTCCCTTTGGAGGAAAAGAATCTGCTAAAGCCT
CGTAAATGTTTCTCC
Found at i:1468593 original size:21 final size:19
Alignment explanation
Indices: 1468542--1468595 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
1468532 TTCCGGATCG
1468542 AAATACCATAAACAAATTC
1 AAATACCATAAACAAATTC
* * * *
1468561 AATTTCCTTAAAGCCACATTC
1 AAATACCATAAA--CAAATTC
1468582 AAATACCATAAACA
1 AAATACCATAAACA
1468596 GAAACGTCTG
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
19 11 0.42
21 15 0.58
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATACCATAAACAAATTC
Found at i:1470333 original size:33 final size:33
Alignment explanation
Indices: 1470285--1470350 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1470275 GTGCACAAAC
* *
1470285 GAGGGAACGTGCAAGGAAAGACAACTAATATAA
1 GAGGAAACGTACAAGGAAAGACAACTAATATAA
1470318 GAGGAAACGTACAAGGAAAGACAACTAATATAA
1 GAGGAAACGTACAAGGAAAGACAACTAATATAA
1470351 AAACAAAGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGGAAACGTACAAGGAAAGACAACTAATATAA
Found at i:1471388 original size:38 final size:38
Alignment explanation
Indices: 1471346--1471436 Score: 173
Period size: 38 Copynumber: 2.4 Consensus size: 38
1471336 AAGTAGAATG
1471346 TAACATTATAGGTTGAATGAAGAAGATTGTGGTATAGA
1 TAACATTATAGGTTGAATGAAGAAGATTGTGGTATAGA
*
1471384 TAACATTATAGGTTGAATGAAGAAGATTGTGTTATAGA
1 TAACATTATAGGTTGAATGAAGAAGATTGTGGTATAGA
1471422 TAACATTATAGGTTG
1 TAACATTATAGGTTG
1471437 TAACTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (38 bp):
TAACATTATAGGTTGAATGAAGAAGATTGTGGTATAGA
Found at i:1476348 original size:14 final size:15
Alignment explanation
Indices: 1476323--1476355 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1476313 AATTTATAAA
1476323 AAATATATTA-TTTT
1 AAATATATTATTTTT
1476337 AAATATATTATTTTT
1 AAATATATTATTTTT
1476352 AAAT
1 AAAT
1476356 TTATCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATATATTATTTTT
Found at i:1478002 original size:72 final size:71
Alignment explanation
Indices: 1477858--1478067 Score: 213
Period size: 72 Copynumber: 2.9 Consensus size: 71
1477848 ATAATACATA
* * **
1477858 TATCGATATTTTTACTATTGATCATCTTTATCATTTTTTTCAATTTATAAAAGTATCGATCATCA
1 TATCGATATTTTAACTTTTGATC-T-TTTATCAACTTTTTCAATTT-TAAAAGTATCGATCATCA
* *
1477923 TCTCATAAG
63 CCGCATAAG
* * * * *
1477932 TGTCGATATTTTAAATTTTGATCTTTTATCAACTTTTACAATATTTAAAAGTATCGATTATTACC
1 TATCGATATTTTAACTTTTGATCTTTTATCAACTTTTTCAAT-TTTAAAAGTATCGATCATCACC
1477997 GCATAAG
65 GCATAAG
* * * * * *
1478004 TATTGATATTTTAACTTTTTATTTTATTTTAAACTTTTTCAATTTTTAAAAGTATCAATCATCA
1 TATCGATATTTTAACTTTTGATCTT-TTATCAACTTTTTCAA-TTTTAAAAGTATCGATCATCA
1478068 TATATTAAGT
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
72 58 0.52
73 33 0.30
74 20 0.18
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (71 bp):
TATCGATATTTTAACTTTTGATCTTTTATCAACTTTTTCAATTTTAAAAGTATCGATCATCACCG
CATAAG
Found at i:1478077 original size:73 final size:71
Alignment explanation
Indices: 1477893--1478097 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 71
1477883 CTTTATCATT
* * *
1477893 TTTTTCAATTTATAAAAGTATCGATCATCATCTCATAAGTGTCGATATTTTAAATTTTGATCTTT
1 TTTTTCAATTTTTAAAAGTATCGATCATCATAT-ATAAGTATCGATATTTTAAATTTTGATCTTT
*
1477958 TATCAAC
65 TATAAAC
* * * * *** * * * *
1477965 TTTTACAATATTTAAAAGTATCGATTATTACCGCATAAGTATTGATATTTTAACTTTTTATTTTA
1 TTTTTCAATTTTTAAAAGTATCGATCATCA-TATATAAGTATCGATATTTTAAATTTTGATCTT-
*
1478030 TTTTAAAC
64 TTATAAAC
* * *
1478038 TTTTTCAATTTTTAAAAGTATCAATCATCATATATTAAGTATCGATATTTAAAAGTTTGA
1 TTTTTCAATTTTTAAAAGTATCGATCATCATATA-TAAGTATCGATATTTTAAATTTTGA
1478098 ACTGCTTTCT
Statistics
Matches: 102, Mismatches: 28, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
72 51 0.50
73 51 0.50
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.47
Consensus pattern (71 bp):
TTTTTCAATTTTTAAAAGTATCGATCATCATATATAAGTATCGATATTTTAAATTTTGATCTTTT
ATAAAC
Found at i:1478600 original size:158 final size:157
Alignment explanation
Indices: 1478208--1478796 Score: 743
Period size: 159 Copynumber: 3.7 Consensus size: 157
1478198 TCATAACATT
* * * * *
1478208 TTTTGTTCAAAGCTAAAGTAATAGTTTAGGAGCAACTCATTTTATTAATAAAAATATTAATGTTC
1 TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCATTTTATCAATAAAAATATTAATGTTC
* ** * *
1478273 CAGGTCACGATCTAATTTCTTAGTGAACCATGACATTCTTAGGCGTAACGAGATTTCTTATAGAT
66 CAGATTGCAACCTAATTTCTTAGTGAACCATGACATTCTTAGGCGTAAC-AGATTTCTTATAGAT
1478338 ATTAATAATATTTTTTATCTTTTAACTTA
130 ATTAATAATA-TTTTTATCTTTTAACTTA
*
1478367 TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCAATTTATCAATAAAAATATTAATGTTC
1 TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCATTTTATCAATAAAAATATTAATGTTC
*
1478432 CAG-TTCGCAACCTAATTTCTTAGTAAACCATGACATTCTTAGGCGTAATCAGATTTCTTATAGA
66 CAGATT-GCAACCTAATTTCTTAGTGAACCATGACATTCTTAGGCGTAA-CAGATTTCTTATAGA
1478496 TATTAATAATATTTTTATCTTTTAACTTA
129 TATTAATAATATTTTTATCTTTTAACTTA
* *
1478525 TTTTGTTCAAAACTAAATTAATATTTTAGGTTCAACCCATTTTATCAATAAAAATATTAATGTTC
1 TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCATTTTATCAATAAAAATATTAATGTTC
* * * ** *
1478590 CAGATTGCAACCTAATTTCTTAGTGATCTATGACATTCTTGGGCACAACCGCATCCATATTCATT
66 CAGATTGCAACCTAATTTCTTAGTGAACCATGACATTCTTAGGCGTAA---CA--GAT-TTC-TT
* *
1478655 ATAGATATTTATAACATTTTTATCTTTTAACTTA
124 ATAGATATTAATAATATTTTTATCTTTTAACTTA
* *** * * * * *
1478689 TTTT-TTCAAAGCTAAAGTAATATTTTAGACACAACACATTTTATTATTATAAATATTAATGTTT
1 TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCATTTTATCAATAAAAATATTAATGTTC
* * * *
1478753 TAGATTGCAACCTAA-TTATTAGTGAACTATGACATTCTTGGGCG
66 CAGATTGCAACCTAATTTCTTAGTGAACCATGACATTCTTAGGCG
1478797 CAACTGTATT
Statistics
Matches: 383, Mismatches: 38, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
158 120 0.31
159 127 0.33
160 3 0.01
162 28 0.07
163 67 0.17
164 38 0.10
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (157 bp):
TTTTGTTCAAAACTAAAGTAATATTTTAGGTGCAACCCATTTTATCAATAAAAATATTAATGTTC
CAGATTGCAACCTAATTTCTTAGTGAACCATGACATTCTTAGGCGTAACAGATTTCTTATAGATA
TTAATAATATTTTTATCTTTTAACTTA
Found at i:1479104 original size:188 final size:181
Alignment explanation
Indices: 1478710--1479136 Score: 462
Period size: 182 Copynumber: 2.3 Consensus size: 181
1478700 CTAAAGTAAT
* * * * ** * **
1478710 ATTTTAGACACAACACATTTTATTATTATAAATATTAATGTTTTAGATTGCAACCTAATTATTAG
1 ATTTTAGGCGCAACCCATTTTATTAATA-AAATATTAACATTTCAGATCACAACCTAATTATTAG
* *
1478775 TGAACTATGACATTCTTGGGCGCAACTGTATTCATCATAGATATTCATAACAATTTCTGCTTTTA
65 TGAACTATGAAATTCTTGGGCGCAACTGTATTCATCATAGATATTCATAACAATTTCTACTTTTA
* * ** * * * *
1478840 ATTTTTTTTATCATGTGAACATCTAAGGCTCCACAGCTTAAACTCTGGTAGT
130 ATTTTTTTTATCATGGGAAAATCTAAAACTCCACAACTTAAACTATGATAGC
* * *
1478892 ATTTTAGGCGCAATCCATTTTATTAATAAACATATTAACATTTCAGATCACAACCTATTTTCTTA
1 ATTTTAGGCGCAACCCATTTTATTAATAAA-ATATTAACATTTCAGATCACAACCTA-ATTATTA
* * * * * * *
1478957 GTGAACCT-TGAAATT-TTGGGTGCAACTGTATTTATTATAGATGTTCATAATATTTTTTTACTT
64 GTGAA-CTATGAAATTCTTGGGCGCAACTGTATTCATCATAGATATTCATAACA-ATTTCTAC-T
1479020 TTTAACTTATTTTGTTATCATGGGAAAATCTAAAACTCCATCAACTTAAACTATGATAGC
126 TTTAA-TT-TTTT-TTATCATGGGAAAATCTAAAACTCCA-CAACTTAAACTATGATAGC
* *
1479080 ATTTTAGGCGCAACCCATTTTATTAATAAAAATATTAACATTTCATATCATAACCTA
1 ATTTTAGGCGCAACCCATTTTATTAAT-AAAATATTAACATTTCAGATCACAACCTA
1479137 CTTCCTAAGT
Statistics
Matches: 203, Mismatches: 32, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
181 2 0.01
182 76 0.37
183 21 0.10
184 8 0.04
185 2 0.01
186 4 0.02
187 22 0.11
188 65 0.32
189 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (181 bp):
ATTTTAGGCGCAACCCATTTTATTAATAAAATATTAACATTTCAGATCACAACCTAATTATTAGT
GAACTATGAAATTCTTGGGCGCAACTGTATTCATCATAGATATTCATAACAATTTCTACTTTTAA
TTTTTTTTATCATGGGAAAATCTAAAACTCCACAACTTAAACTATGATAGC
Found at i:1479368 original size:76 final size:76
Alignment explanation
Indices: 1479267--1479443 Score: 228
Period size: 76 Copynumber: 2.3 Consensus size: 76
1479257 CTTTGGTAAT
* ** * * * *
1479267 ATTTTAGGTGCAACCTAAAATGTTAATAAAATTCATGACATTTATCGTCTATAGCTCATTTTCTT
1 ATTTTAGGT-TAACCTATTATGTTAATAAAATTCATGAAATTTATCGTCTATAACTCATTTACCT
*
1479332 ACCTTTCATAAC
65 ACCCTTCATAAC
* *
1479344 ATTTTAGGTTAACCTATTATGTTAATAATATTCATGAAATTTATCGTTTATAACTCATTTACCTA
1 ATTTTAGGTTAACCTATTATGTTAATAAAATTCATGAAATTTATCGTCTATAACTCATTTACCTA
1479409 CCCTTCATAAC
66 CCCTTCATAAC
* * *
1479420 ATTTTAGATTAACTTGTTATGTTA
1 ATTTTAGGTTAACCTATTATGTTA
1479444 CTTCGATTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
76 78 0.90
77 9 0.10
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (76 bp):
ATTTTAGGTTAACCTATTATGTTAATAAAATTCATGAAATTTATCGTCTATAACTCATTTACCTA
CCCTTCATAAC
Found at i:1483631 original size:18 final size:19
Alignment explanation
Indices: 1483608--1483645 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1483598 AACAGTAATC
1483608 TTATTCCC-TGGTAATCTT
1 TTATTCCCATGGTAATCTT
1483626 TTATTCCCATTGGTAATCTT
1 TTATTCCCA-TGGTAATCTT
1483646 ACATTCCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (19 bp):
TTATTCCCATGGTAATCTT
Found at i:1483898 original size:21 final size:20
Alignment explanation
Indices: 1483812--1483969 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1483802 AAATGACCAA
**
1483812 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1483831 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1483851 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1483871 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1483892 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1483913 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
1483933 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1483954 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1483970 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1484011 original size:20 final size:20
Alignment explanation
Indices: 1483937--1484165 Score: 239
Period size: 20 Copynumber: 11.4 Consensus size: 20
1483927 GATTTTCCAG
* ** *
1483937 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1483957 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1483977 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1483997 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1484017 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1484037 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1484057 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1484077 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1484097 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1484117 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1484137 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1484157 AATCACAAC
1 AATCGCAAC
1484166 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 173 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1484897 original size:24 final size:24
Alignment explanation
Indices: 1484858--1484904 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1484848 AAATTTGGTC
1484858 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1484882 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1484905 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1485096 original size:12 final size:12
Alignment explanation
Indices: 1485079--1485103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1485069 ATATAATCCT
1485079 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1485091 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1485103 G
1 G
1485104 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1487438 original size:33 final size:34
Alignment explanation
Indices: 1487387--1487585 Score: 167
Period size: 33 Copynumber: 5.7 Consensus size: 34
1487377 CGGAAATTAC
* *
1487387 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
1487420 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
* * *
1487454 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AATGAAAATCGCAATGCGA-AAT-GAA
*
1487493 AAT-GCGGA-AATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACAATGAAAATCGCAATGCGAAATGAA
* *
1487526 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
1487559 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
1487586 CGAGAGAATC
Statistics
Matches: 133, Mismatches: 15, Indels: 31
0.74 0.08 0.17
Matches are distributed among these distances:
32 2 0.02
33 57 0.43
34 35 0.26
35 1 0.01
36 1 0.01
37 1 0.01
38 14 0.11
39 21 0.16
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:1487464 original size:53 final size:52
Alignment explanation
Indices: 1487401--1487623 Score: 376
Period size: 53 Copynumber: 4.2 Consensus size: 52
1487391 GCAACGAGAG
* *
1487401 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
1487454 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1487507 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
1487559 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
1487611 AATCGCATTGCGA
1 AATCGCAATGCGA
1487624 TTCTCTCGTT
Statistics
Matches: 165, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
52 71 0.43
53 93 0.56
54 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:1487470 original size:19 final size:19
Alignment explanation
Indices: 1487401--1487623 Score: 234
Period size: 19 Copynumber: 12.7 Consensus size: 19
1487391 GCAACGAGAG
1487401 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1487420 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1487434 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1487454 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1487473 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1487487 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1487507 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1487526 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1487540 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1487559 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1487578 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1487592 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1487611 AATCGCATTGCGA
1 AATCGCAATGCGA
1487624 TTCTCTCGTT
Statistics
Matches: 172, Mismatches: 10, Indels: 44
0.76 0.04 0.19
Matches are distributed among these distances:
14 42 0.24
15 3 0.02
16 6 0.03
17 8 0.05
18 2 0.01
19 82 0.48
20 29 0.17
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1487544 original size:86 final size:84
Alignment explanation
Indices: 1487387--1487566 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
1487377 CGGAAATTAC
1487387 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAA-GCGG-AATG
1487452 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
1487473 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAAGCGG
*
1487536 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
1487559 AATCGCAA
1 AATCGCAA
1487567 TGCGAAATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 54 0.63
87 16 0.19
89 2 0.02
90 1 0.01
92 13 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:1487596 original size:33 final size:33
Alignment explanation
Indices: 1487454--1487617 Score: 163
Period size: 33 Copynumber: 4.8 Consensus size: 33
1487444 CGGAAATGAA
1487454 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
1487487 AATCGCAATGCGGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* * * *
1487520 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
1487559 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
1487592 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
1487618 TTGCGATTCT
Statistics
Matches: 107, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
31 5 0.05
32 3 0.03
33 52 0.49
34 20 0.19
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:1487726 original size:52 final size:53
Alignment explanation
Indices: 1487613--1487729 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1487603 GAAATTAAAA
1487613 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1487666 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1487718 TCGCATTGCGAT
1 TCGCATTGCGAT
1487730 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:1487737 original size:19 final size:19
Alignment explanation
Indices: 1487632--1487729 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1487622 GATTCTCTCG
1487632 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1487652 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1487671 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1487685 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1487704 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1487723 TTGCGAT
1 TTGCGAT
1487730 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1487855 original size:14 final size:14
Alignment explanation
Indices: 1487836--1487872 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1487826 CATCAATTAC
1487836 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1487850 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1487864 ACAAATCAA
1 ACAAATCAA
1487873 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1489839 original size:19 final size:19
Alignment explanation
Indices: 1489797--1489969 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
1489787 TAGTTTACTT
* *
1489797 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
1489817 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
1489836 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
1489855 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1489874 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1489893 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1489907 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
1489926 GCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
1489940 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1489959 TCGCAATGCGA
1 TCGCAACGCGA
1489970 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1489918 original size:33 final size:33
Alignment explanation
Indices: 1489872--1489964 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1489862 GCGAAACCAA
1489872 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* * *
1489905 AATCGCAATGCGAAATGAAAAGCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1489938 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1489965 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:1489981 original size:19 final size:19
Alignment explanation
Indices: 1489965--1490025 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
1489955 AAAATCGCAA
1489965 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1489984 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1489998 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1490017 TGCGATTTT
1 TGCGATTTT
1490026 TTTGTTGCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 12 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 21 0.57
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1490000 original size:14 final size:14
Alignment explanation
Indices: 1489981--1490039 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
1489971 TTTGGTTTCG
1489981 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
1489995 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
1490012 CGCGTTGCGATTTTTT
1 --CGTTGCGATTTTGT
*
1490028 TGTTGCGATTTT
1 CGTTGCGATTTT
1490040 CATTTCGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
19 12 0.32
ACGTcount: A:0.07, C:0.14, G:0.27, T:0.53
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1490007 original size:33 final size:33
Alignment explanation
Indices: 1489965--1490088 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
1489955 AAAATCGCAA
*
1489965 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTCTCGT
* *
1489998 TGCGATTTTGGTTTCGCGTTGCGATTTTTTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTCTCGT
** * *
1490031 TGCGATTTTCATTTCGTGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTCTCGT
* *
1490064 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
1490089 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 67 0.84
34 13 0.16
ACGTcount: A:0.09, C:0.15, G:0.27, T:0.49
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTCTCGT
Found at i:1490052 original size:19 final size:18
Alignment explanation
Indices: 1489996--1490056 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
1489986 CGATTTTGTC
* *
1489996 GTTGCGATTTTGGTTTCGC
1 GTTGCGATTTT-CTTTCGT
1490015 GTTGCGA-TTT-TTT--T
1 GTTGCGATTTTCTTTCGT
1490029 GTTGCGATTTTCATTTCGT
1 GTTGCGATTTTC-TTTCGT
1490048 GTTGCGATT
1 GTTGCGATT
1490057 CTCTCGTTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 7 0.19
15 3 0.08
16 3 0.08
17 3 0.08
18 3 0.08
19 17 0.47
ACGTcount: A:0.08, C:0.13, G:0.26, T:0.52
Consensus pattern (18 bp):
GTTGCGATTTTCTTTCGT
Found at i:1490294 original size:92 final size:93
Alignment explanation
Indices: 1490136--1490602 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
1490126 ATGGATTGCA
1490136 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490200 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1490228 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490292 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1490320 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490385 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1490413 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490478 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1490506 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1490570 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1490598 TTACT
1 TTACT
1490603 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
92 173 0.47
93 199 0.53
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1490452 original size:185 final size:186
Alignment explanation
Indices: 1490136--1490602 Score: 904
Period size: 185 Copynumber: 2.5 Consensus size: 186
1490126 ATGGATTGCA
1490136 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490200 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1490265 A-TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1490320 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1490385 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1490450 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1490506 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1490570 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
1490603 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
184 4 0.01
185 203 0.73
186 73 0.26
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1492342 original size:21 final size:21
Alignment explanation
Indices: 1492286--1492350 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
1492276 TCTTTTGGTT
1492286 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
* ***
1492307 G-AATTACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1492327 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1492348 GAA
1 GAA
1492351 TCGCAACGCG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.48, C:0.15, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:1492354 original size:14 final size:14
Alignment explanation
Indices: 1492335--1492391 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1492325 GAGAAATGAA
1492335 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1492349 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1492368 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1492382 AATCGCAACG
1 AATCGCAACG
1492392 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1492367 original size:33 final size:33
Alignment explanation
Indices: 1492286--1492408 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1492276 TCTTTTGGTT
*
1492286 GAAATGAAAATCGCAACGAGAGAATTACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
1492327 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1492360 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1492393 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1492409 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1492444 original size:14 final size:14
Alignment explanation
Indices: 1492425--1492481 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1492415 TTTGGTTTCG
1492425 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1492439 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1492458 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1492472 CGTTGCGATT
1 CGTTGCGATT
1492482 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:1492457 original size:33 final size:33
Alignment explanation
Indices: 1492409--1492489 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1492399 AAAATCGCAA
**
1492409 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1492442 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1492475 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1492490 TCTCGTTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1492492 original size:21 final size:21
Alignment explanation
Indices: 1492466--1492542 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1492456 CGCGTTGCGA
1492466 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
1492487 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
1492509 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1492529 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1492543 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1492667 original size:33 final size:33
Alignment explanation
Indices: 1492622--1492692 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1492612 AATACTAACT
1492622 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* * *
1492655 TGAAAATTGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1492688 TGAAA
1 TGAAA
1492693 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1493096 original size:20 final size:20
Alignment explanation
Indices: 1493071--1493263 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
1493061 CTTTAAAAAC
1493071 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1493091 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1493111 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
1493132 CGTGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1493152 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1493172 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1493192 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1493212 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1493232 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1493252 CGCGTTGCGATT
1 CGCGTTGCGATT
1493264 CTGTAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 132 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1493281 original size:21 final size:20
Alignment explanation
Indices: 1493257--1493306 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1493247 ATATTCGCGT
1493257 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
1493278 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
1493299 TGCGATTT
1 TGCGATTT
1493307 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:1495531 original size:35 final size:33
Alignment explanation
Indices: 1495466--1495563 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 33
1495456 ACTTTTCTAA
*
1495466 CTTACTAACATTCTAAC-TTTTATTTTATTGTT
1 CTTACTAACATACTAACATTTTATTTTATTGTT
* *
1495498 -TATACTAACATACTGACCTTTTTATTTTTATTGTT
1 CT-TACTAACATACT-AACATTTTA-TTTTATTGTT
*
1495533 CTTACTAACTTACTAACATTTTATTTTATTG
1 CTTACTAACATACTAACATTTTATTTTATTG
1495564 CACAAACTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.02
32 11 0.20
33 10 0.18
34 12 0.21
35 21 0.38
36 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (33 bp):
CTTACTAACATACTAACATTTTATTTTATTGTT
Found at i:1496324 original size:20 final size:22
Alignment explanation
Indices: 1496301--1496340 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1496291 TATCTTTTTA
1496301 TTTTA-TTTTATTTT-ATCTCG
1 TTTTATTTTTATTTTCATCTCG
1496321 TTTTATTTTTATTTTCATCT
1 TTTTATTTTTATTTTCATCT
1496341 TTGATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTATTTTTATTTTCATCTCG
Found at i:1499649 original size:21 final size:21
Alignment explanation
Indices: 1499611--1499650 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1499601 CTGAAGAACC
* *
1499611 GCATATATGTTCCAAAGGATT
1 GCATATATATCCCAAAGGATT
*
1499632 GCATATATATCCCGAAGGA
1 GCATATATATCCCAAAGGA
1499651 CCACATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (21 bp):
GCATATATATCCCAAAGGATT
Found at i:1499657 original size:21 final size:21
Alignment explanation
Indices: 1499562--1499657 Score: 50
Period size: 21 Copynumber: 4.6 Consensus size: 21
1499552 ACCACTCCTT
*
1499562 AAGGATCACATATATAGT-CCA
1 AAGGACCACATATATA-TCCCA
* * * **
1499583 AAGGACCAAATATGTGTCCTG
1 AAGGACCACATATATATCCCA
* * * *
1499604 AAGAACCGCATATATGTTCCA
1 AAGGACCACATATATATCCCA
*** *
1499625 AAGGATTGCATATATATCCCG
1 AAGGACCACATATATATCCCA
1499646 AAGGACCACATA
1 AAGGACCACATA
1499658 AAACCCTCGA
Statistics
Matches: 52, Mismatches: 22, Indels: 2
0.68 0.29 0.03
Matches are distributed among these distances:
20 1 0.02
21 51 0.98
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (21 bp):
AAGGACCACATATATATCCCA
Found at i:1503781 original size:21 final size:21
Alignment explanation
Indices: 1503755--1503813 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
1503745 CCACGTAGAA
*
1503755 ATGTCCCGAATGACCACATAT
1 ATGTCCCGAATGACCACATAG
1503776 ATGTCCCG-ATGGACCACATAG
1 ATGTCCCGAAT-GACCACATAG
*
1503797 ATGTCCCGAAGGACCAC
1 ATGTCCCGAATGACCAC
1503814 TCCTTAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (21 bp):
ATGTCCCGAATGACCACATAG
Found at i:1506720 original size:22 final size:22
Alignment explanation
Indices: 1506695--1506741 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1506685 CCCGTGTAAA
1506695 AGCTAGGGAAAGGTTCTAGTTT
1 AGCTAGGGAAAGGTTCTAGTTT
1506717 AGCTAGGGAAAGGTTCTAGTTT
1 AGCTAGGGAAAGGTTCTAGTTT
1506739 AGC
1 AGC
1506742 CCGGAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.30
Consensus pattern (22 bp):
AGCTAGGGAAAGGTTCTAGTTT
Found at i:1508247 original size:24 final size:23
Alignment explanation
Indices: 1508220--1508281 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
1508210 AACTGCAAAG
* *
1508220 ATCAAATCAAAGCAAAGAGAAAAA
1 ATCAAATCAAA-AAAAGAAAAAAA
*
1508244 ATCAAATGAAAAAAAGAAAAAAA
1 ATCAAATCAAAAAAAGAAAAAAA
* **
1508267 AACAAAGGAAAAAAA
1 ATCAAATCAAAAAAA
1508282 ACAAAGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.74, C:0.08, G:0.11, T:0.06
Consensus pattern (23 bp):
ATCAAATCAAAAAAAGAAAAAAA
Found at i:1508256 original size:14 final size:12
Alignment explanation
Indices: 1508232--1508293 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 12
1508222 CAAATCAAAG
1508232 CAAAGAGAAAAAA
1 CAAAGA-AAAAAA
1508245 TCAAATGAAAAAAA
1 -CAAA-GAAAAAAA
*
1508259 -GAA-AAAAAAA
1 CAAAGAAAAAAA
1508269 CAAAGGAAAAAAAA
1 CAAA-G-AAAAAAA
1508283 CAAAGAAAAAA
1 CAAAGAAAAAA
1508294 GAATAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 8 0.20
13 1 0.02
14 21 0.51
15 2 0.05
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.03
Consensus pattern (12 bp):
CAAAGAAAAAAA
Found at i:1508265 original size:23 final size:23
Alignment explanation
Indices: 1508233--1508281 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1508223 AAATCAAAGC
* * *
1508233 AAAGAGAAAAAATCAAATGAAAA
1 AAAGAAAAAAAAACAAAGGAAAA
1508256 AAAGAAAAAAAAACAAAGGAAAA
1 AAAGAAAAAAAAACAAAGGAAAA
1508279 AAA
1 AAA
1508282 ACAAAGAAAA
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:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAGAAAAAAAAACAAAGGAAAA
Found at i:1511353 original size:36 final size:36
Alignment explanation
Indices: 1511230--1511353 Score: 92
Period size: 37 Copynumber: 3.4 Consensus size: 36
1511220 TTAGAGATTG
* ** *
1511230 TTTCTCATGAAACAAAGTTTCATCTCATTTGAGACAAA
1 TTTCTCTTGAAACAAA-TTTTGTCTCGTTTGAGAC-AA
* ***
1511268 TTT-TCTTGAAACAAA-ATTGATCTCAG-TTGAGATTGT
1 TTTCTCTTGAAACAAATTTTG-TCTC-GTTTGAGA-CAA
**
1511304 TTTCTCTAAAAACAAATTTTGTCTCGTTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCGTTTGAGACAA
1511340 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1511354 CAAATCCTTG
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
35 1 0.02
36 26 0.41
37 31 0.48
38 6 0.09
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCGTTTGAGACAA
Found at i:1512545 original size:122 final size:123
Alignment explanation
Indices: 1512322--1512672 Score: 451
Period size: 121 Copynumber: 2.9 Consensus size: 123
1512312 ATTATTTCCA
* * ** * * * *
1512322 GATTTCCTCAACAAGAAAGAAC-ATCGTCATCTTCAATAAACAATTTATCTTAAAGTGGCCAGAT
1 GATTTCCTCAACGAGAAGGAACAAAAGTCATCTTCAACAAACAATTTATCTGAAAGAGGTCAGAT
1512386 CTCTTCAACATGGATGAGCAGTGTCGTCTTCAACACCAAATTATTTCCAAATTGACCC
66 CTCTTCAACATGGATGAGCAGTGTCGTCTTCAACACCAAATTATTTCCAAATTGACCC
* * *
1512444 GCTTTTCTCAACGAGAAGGAA-AAAAGTCATCTTCAACAAACAATTTATCTGAAAGAGGTCAAAT
1 GATTTCCTCAACGAGAAGGAACAAAAGTCATCTTCAACAAACAATTTATCTGAAAGAGGTCAGAT
* * * * *
1512508 CTCTTCAAAATGGATGAGCAATGTCGTTTTCAACACCAAATTA-TTCCAGATTGACTC
66 CTCTTCAACATGGATGAGCAGTGTCGTCTTCAACACCAAATTATTTCCAAATTGACCC
* * * * *
1512565 TATTTCCTTAACGAGAAGGAACAACA-TCATCTTCAACAAACATTTTATCTGAAA-ACGTTCAGA
1 GATTTCCTCAACGAGAAGGAACAAAAGTCATCTTCAACAAACAATTTATCTGAAAGA-GGTCAGA
* *
1512628 TCTCTTCAACATGGATGAACAGTGTCGTCTTCAACATCAAATTAT
65 TCTCTTCAACATGGATGAGCAGTGTCGTCTTCAACACCAAATTAT
1512673 ATCTAGATTG
Statistics
Matches: 196, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
120 1 0.01
121 100 0.51
122 95 0.48
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (123 bp):
GATTTCCTCAACGAGAAGGAACAAAAGTCATCTTCAACAAACAATTTATCTGAAAGAGGTCAGAT
CTCTTCAACATGGATGAGCAGTGTCGTCTTCAACACCAAATTATTTCCAAATTGACCC
Found at i:1535098 original size:21 final size:21
Alignment explanation
Indices: 1535072--1535115 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1535062 ACATCAAACA
1535072 CCAGTTCCTGCATAACCCACT
1 CCAGTTCCTGCATAACCCACT
1535093 CCAGTTCCTGCATAACCCACT
1 CCAGTTCCTGCATAACCCACT
1535114 CC
1 CC
1535116 CGTTGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.45, G:0.09, T:0.23
Consensus pattern (21 bp):
CCAGTTCCTGCATAACCCACT
Found at i:1544245 original size:22 final size:21
Alignment explanation
Indices: 1544193--1544245 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
1544183 TGTGAGGGGT
1544193 GGTATCGATACTACTAGACTA
1 GGTATCGATACTACTAGACTA
* *
1544214 -GTATCAATACT-CTCAGGCTA
1 GGTATCGATACTACT-AGACTA
1544234 GGGTATCGATAC
1 -GGTATCGATAC
1544246 CAAAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 15 0.58
22 9 0.35
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (21 bp):
GGTATCGATACTACTAGACTA
Found at i:1554685 original size:29 final size:31
Alignment explanation
Indices: 1554624--1554694 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
1554614 AAACTACCAC
1554624 TTTGGTCC-CTAAACTTTTCCAAAATTTACAT
1 TTTGG-CCACTAAACTTTTCCAAAATTTACAT
*
1554655 TTTGGCCACTAAAC-TTT-CAAAATTTATAT
1 TTTGGCCACTAAACTTTTCCAAAATTTACAT
*
1554684 TTTGGTCACTA
1 TTTGGCCACTA
1554695 GCTAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 21 0.57
30 5 0.14
31 11 0.30
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (31 bp):
TTTGGCCACTAAACTTTTCCAAAATTTACAT
Found at i:1554747 original size:75 final size:75
Alignment explanation
Indices: 1554660--1554810 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
1554650 TACATTTTGG
1554660 CCACTAAACTTTCAAAATTTATATTTTGGTCACTAGCTAAAATTTGGGGTATTACAAACTTAAGA
1 CCACTAAACTTTCAAAATTTATATTTTGGTCACTAGCTAAAATTTGGGGTATTACAAACTTAAGA
1554725 CGTACAGTGA
66 CGTACAGTGA
1554735 CCACTAAACTTTCAAAATTTATATTTTGGTCACTAGCTAAAATTTGGGGTATTACAAACTTAAGA
1 CCACTAAACTTTCAAAATTTATATTTTGGTCACTAGCTAAAATTTGGGGTATTACAAACTTAAGA
1554800 CGTACAGTGA
66 CGTACAGTGA
1554810 C
1 C
1554811 TATCGCCTGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (75 bp):
CCACTAAACTTTCAAAATTTATATTTTGGTCACTAGCTAAAATTTGGGGTATTACAAACTTAAGA
CGTACAGTGA
Found at i:1557670 original size:20 final size:20
Alignment explanation
Indices: 1557645--1557696 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1557635 AAGCCCCTCA
* *
1557645 GTATCGGTATTAACCTCTAG
1 GTATCGATACTAACCTCTAG
*
1557665 GTATCGATACTAACCTCTTG
1 GTATCGATACTAACCTCTAG
1557685 GTATCGATACTA
1 GTATCGATACTA
1557697 CTAGCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACTAACCTCTAG
Found at i:1557751 original size:20 final size:23
Alignment explanation
Indices: 1557728--1557797 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 23
1557718 GCAAATACCT
1557728 AGTATCGATAC-TCTAGT-T-TG
1 AGTATCGATACTTCTAGTCTATG
1557748 AGTATCGATACTTCTAGTCTATG
1 AGTATCGATACTTCTAGTCTATG
1557771 -GTATCGATA-TT-T--TCTA-G
1 AGTATCGATACTTCTAGTCTATG
1557788 AGTATCGATA
1 AGTATCGATA
1557798 TCAAATTTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.02
18 13 0.28
20 12 0.26
21 8 0.17
22 10 0.22
23 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (23 bp):
AGTATCGATACTTCTAGTCTATG
Found at i:1557777 original size:22 final size:20
Alignment explanation
Indices: 1557728--1557779 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
1557718 GCAAATACCT
1557728 AGTATCGATACTCTAGTTTG
1 AGTATCGATACTCTAGTTTG
1557748 AGTATCGATACTTCTAGTCTATG
1 AGTATCGATAC-TCTAGT-T-TG
1557771 -GTATCGATA
1 AGTATCGATA
1557780 TTTTCTAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.38
21 6 0.21
22 10 0.34
23 2 0.07
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
AGTATCGATACTCTAGTTTG
Found at i:1561209 original size:21 final size:22
Alignment explanation
Indices: 1561158--1561215 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
1561148 GATTCAATGT
*
1561158 GTATCGATACCATGAAGAGGTG
1 GTATCGATACCATAAAGAGGTG
*
1561180 GTATTGATACCATAAAGAGG-G
1 GTATCGATACCATAAAGAGGTG
1561201 GTATCGATACC-TAAA
1 GTATCGATACCATAAA
1561216 AACATCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 18 0.55
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (22 bp):
GTATCGATACCATAAAGAGGTG
Found at i:1561274 original size:19 final size:19
Alignment explanation
Indices: 1561234--1561275 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1561224 ATCTATTTTC
* *
1561234 GGTATCGATACCGGTAGGG
1 GGTATCGATACCGATAGAG
1561253 GGTATCGATACC-ATAGAAG
1 GGTATCGATACCGATAG-AG
1561272 GGTA
1 GGTA
1561276 GTATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (19 bp):
GGTATCGATACCGATAGAG
Found at i:1561859 original size:47 final size:47
Alignment explanation
Indices: 1561790--1562091 Score: 426
Period size: 47 Copynumber: 6.4 Consensus size: 47
1561780 AAATCACTTT
* **
1561790 CATAATTGAAAATGCTTGAAAGGATGCATAAAGGCATGAACGGATAA
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
*
1561837 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCAT-AACGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* * *
1561883 CATAATTGAAAATGCATGAAAGGATACATAAAGACATGAACGAATGC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* *
1561930 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAGCGGATTC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* * * * *
1561977 CATAATAGAAAATGCATGAAATGATGGATAAAGGCATGAACAGAAGC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* * * *
1562024 CATAATTGAAAATGAATGAAAGAATGCATTAAGGCGTGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
*
1562071 CATAATTGAAAATGCTTGAAA
1 CATAATTGAAAATGCATGAAA
1562092 AGGGTGTATT
Statistics
Matches: 224, Mismatches: 30, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
46 42 0.19
47 182 0.81
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
Found at i:1561907 original size:27 final size:26
Alignment explanation
Indices: 1561790--1561960 Score: 92
Period size: 20 Copynumber: 7.2 Consensus size: 26
1561780 AAATCACTTT
*
1561790 CATAATTGAAAATGCTTGAAAGGATG
1 CATAATTGAAAATGCATGAAAGGATG
* * *
1561816 C---A-T--AAAGGCATGAACGGATAA
1 CATAATTGAAAATGCATGAAAGGAT-G
1561837 CATAATTGAAAATGCATGAAAGGATG
1 CATAATTGAAAATGCATGAAAGGATG
* *
1561863 C---A-T--AAAGGCAT-AACGGATG
1 CATAATTGAAAATGCATGAAAGGATG
*
1561882 TCATAATTGAAAATGCATGAAAGGATA
1 -CATAATTGAAAATGCATGAAAGGATG
* * *
1561909 CAT-A---AAGA--CATGAACGAATG
1 CATAATTGAAAATGCATGAAAGGATG
1561929 CCATAATTGAAAATGCATGAAAGGATG
1 -CATAATTGAAAATGCATGAAAGGATG
1561956 CATAA
1 CATAA
1561961 AGGCATGAGC
Statistics
Matches: 104, Mismatches: 19, Indels: 44
0.62 0.11 0.26
Matches are distributed among these distances:
19 7 0.07
20 30 0.29
21 4 0.04
22 6 0.06
23 3 0.03
24 2 0.02
25 5 0.05
26 17 0.16
27 30 0.29
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (26 bp):
CATAATTGAAAATGCATGAAAGGATG
Found at i:1568319 original size:21 final size:22
Alignment explanation
Indices: 1568267--1568320 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1568257 AATTCAATGT
*
1568267 GTATCGTTACCATGAAGAGGTG
1 GTATCGATACCATGAAGAGGTG
**
1568289 GTATAAATACCATGAAGAGG-G
1 GTATCGATACCATGAAGAGGTG
1568310 GTATCGATACC
1 GTATCGATACC
1568321 TAGAAACATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (22 bp):
GTATCGATACCATGAAGAGGTG
Found at i:1568992 original size:20 final size:21
Alignment explanation
Indices: 1568967--1569098 Score: 65
Period size: 20 Copynumber: 5.9 Consensus size: 21
1568957 ATTGAAAATA
1568967 CATGAAAGGATG-CATAAAGG
1 CATGAAAGGATGCCATAAAGG
*
1568987 CATGAACA-GATGCCATAATTGAAAATG
1 CATGAA-AGGATGCC---A-T--AAAGG
*
1569014 CATGAAATGATG-CATAAAGG
1 CATGAAAGGATGCCATAAAGG
*
1569034 CATGAACGGATGCCATAATAGAAAATG
1 CATGAAAGGATGCCATAA-AG-----G
*
1569061 CATGAAATGATG-CATAAAGG
1 CATGAAAGGATGCCATAAAGG
* *
1569081 CATGAACGGATGTCATAA
1 CATGAAAGGATGCCATAA
1569099 TTGAAAATGC
Statistics
Matches: 87, Mismatches: 8, Indels: 33
0.68 0.06 0.26
Matches are distributed among these distances:
20 35 0.40
21 12 0.14
22 3 0.03
23 1 0.01
24 1 0.01
25 3 0.03
26 7 0.08
27 25 0.29
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (21 bp):
CATGAAAGGATGCCATAAAGG
Found at i:1569118 original size:27 final size:27
Alignment explanation
Indices: 1569080--1569153 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 27
1569070 ATGCATAAAG
1569080 GCATGAACGGATGTCATAATTGAAAAT
1 GCATGAACGGATGTCATAATTGAAAAT
* *
1569107 GCATGAAAGGATG-C---ATT---AAG
1 GCATGAACGGATGTCATAATTGAAAAT
1569127 GCATGAACGGATGTCATAATTGAAAAT
1 GCATGAACGGATGTCATAATTGAAAAT
1569154 ACTTGAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
20 14 0.39
21 1 0.03
23 3 0.08
24 3 0.08
26 1 0.03
27 14 0.39
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (27 bp):
GCATGAACGGATGTCATAATTGAAAAT
Found at i:1569161 original size:47 final size:47
Alignment explanation
Indices: 1568905--1569153 Score: 417
Period size: 47 Copynumber: 5.3 Consensus size: 47
1568895 TAAATCACTT
*
1568905 TCATAATTGAAAATGCATGAAAGGATGCATAAAGACATGAACGGATG
1 TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
* *
1568952 TCATAATTGAAAATACATGAAAGGATGCATAAAGGCATGAACAGATG
1 TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
* *
1568999 CCATAATTGAAAATGCATGAAATGATGCATAAAGGCATGAACGGATG
1 TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
* * *
1569046 CCATAATAGAAAATGCATGAAATGATGCATAAAGGCATGAACGGATG
1 TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
*
1569093 TCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATG
1 TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
1569140 TCATAATTGAAAAT
1 TCATAATTGAAAAT
1569154 ACTTGAAAAG
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (47 bp):
TCATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATG
Found at i:1573885 original size:37 final size:38
Alignment explanation
Indices: 1573740--1573973 Score: 289
Period size: 38 Copynumber: 6.2 Consensus size: 38
1573730 AGATTTTATT
* *
1573740 TAGTCTTGAAAATATTATTTTGAAAA-AGTATATAATATA
1 TAGTTTTGAAAACATT-TTTTGAAAACA-TATATAATATA
* *
1573779 TAGTTTTGAAAACATTTTTTGAAAATATATAGAATATA
1 TAGTTTTGAAAACATTTTTTGAAAACATATATAATATA
* **
1573817 TAGTTTTGAAAACAATTTTTGAAAATGTATATAATATA
1 TAGTTTTGAAAACATTTTTTGAAAACATATATAATATA
*
1573855 TAGTTTTGAAAGCA-TTTTTGAAAACATATATAATATA
1 TAGTTTTGAAAACATTTTTTGAAAACATATATAATATA
1573892 TAGTTTTGAAAACATTTTTTTGAAAACATATATAATATA
1 TAGTTTTGAAAACA-TTTTTTGAAAACATATATAATATA
* * *
1573931 TAGTTTTTAAAA-ATACTTTTCAAAAC--ATATAATATA
1 TAGTTTTGAAAACAT-TTTTTGAAAACATATATAATATA
*
1573967 TAATTTT
1 TAGTTTT
1573974 TTTTAAATGA
Statistics
Matches: 177, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
36 16 0.09
37 35 0.20
38 77 0.44
39 49 0.28
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (38 bp):
TAGTTTTGAAAACATTTTTTGAAAACATATATAATATA
Found at i:1574475 original size:18 final size:17
Alignment explanation
Indices: 1574452--1574490 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
1574442 TTAAATAAAC
1574452 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
1574469 GAAAATAAAAAATAAAAT
1 -AAAATAAAAAATAAAAT
1574487 AAAA
1 AAAA
1574491 CAAGTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:1574475 original size:27 final size:29
Alignment explanation
Indices: 1574444--1574518 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 29
1574434 TAAAAAATTT
1574444 AAATAAACAAAATAAAA-AATAA-AA-TGA
1 AAATAAACAAAATAAAATAA-AACAAGTGA
1574471 AAAT-AA-AAAATAAAATAAAACAAGTGA
1 AAATAAACAAAATAAAATAAAACAAGTGA
1574498 AATGAGTAAACAAAATAAAAT
1 AA--A-TAAACAAAATAAAAT
1574519 GAAATAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
25 11 0.28
26 6 0.15
27 9 0.22
29 1 0.03
30 1 0.03
31 2 0.05
32 10 0.25
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (29 bp):
AAATAAACAAAATAAAATAAAACAAGTGA
Found at i:1574723 original size:2 final size:2
Alignment explanation
Indices: 1574718--1574750 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1574708 AAATAAAGTA
1574718 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
1574751 CGTATAAATA
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:1576080 original size:2 final size:2
Alignment explanation
Indices: 1576068--1576122 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
1576058 TAAATAATAA
* *
1576068 AT AT AT A- AT AT AT GT TT AT -T AT A- 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
1576107 AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT A
1576123 AATGTAACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1576092 original size:16 final size:16
Alignment explanation
Indices: 1576071--1576123 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
1576061 ATAATAAATA
* *
1576071 TATAATATATGTTTAT
1 TATAATATATATATAT
1576087 TATAATATATATATA-
1 TATAATATATATATAT
1576102 TATATATATATATATAT
1 TATA-ATATATATATAT
1576119 TATAA
1 TATAA
1576124 ATGTAACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 4 0.12
16 25 0.76
17 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATAATATATATATAT
Found at i:1577050 original size:63 final size:60
Alignment explanation
Indices: 1576873--1577043 Score: 209
Period size: 63 Copynumber: 2.8 Consensus size: 60
1576863 TCTTTCGTCA
*
1576873 TGAAGTTGAGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTGTT-GTTTCAC
1 TGAA-TTGA-CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA-TCTTGGTTTCAC
** * * *
1576935 CAAATTGGCTCTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGAGTTTCAT
1 TGAATTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTT--G-GTTTCAC
* *
1576998 TGAATTGACTTTGAGTTGGATATCCTTCATTGTGAAGTTGACATCC
1 TGAATTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCC
1577044 CCTCTTGTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.03
60 39 0.42
61 3 0.03
62 2 0.02
63 46 0.49
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (60 bp):
TGAATTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGGTTTCAC
Found at i:1577880 original size:5 final size:6
Alignment explanation
Indices: 1577861--1577895 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
1577851 ACCCACCTTA
1577861 TTTCTT TTTCTT TTTCTT TTTCTCT TTCTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCT-T TT-TCTT TTT
1577896 TCAATTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 18 0.67
7 6 0.22
8 3 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:1577971 original size:64 final size:65
Alignment explanation
Indices: 1577871--1578025 Score: 203
Period size: 64 Copynumber: 2.4 Consensus size: 65
1577861 TTTCTTTTTC
*
1577871 TTTT-TCTTTTTCTCTTTCTCTTTTTTCAATTTAGGGCGC-CTTTTTGGGTTTTCACCCT-AA-A
1 TTTTCTCTTTTTCTCTTT-TC-TTTTTCAATTTAGGGCGCTC-TTTCGGGTTTTCACCCTAAACA
1577932 TGTT
63 T-TT
1577936 TTTTCTCTTTTTCCTCTTTTCTTTTT-AATTTAGGGCGCTCTTTCGGGTTTTCACCCTAAACATT
1 TTTTCTCTTTTT-CTCTTTTCTTTTTCAATTTAGGGCGCTCTTTCGGGTTTTCACCCTAAACATT
1578000 T
65 T
* *
1578001 TTTTCTTTTTTTATCTTTTCTTTTT
1 TTTTCTCTTTTTCTCTTTTCTTTTT
1578026 TCTTTTTCTT
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
64 40 0.49
65 25 0.30
66 11 0.13
67 6 0.07
ACGTcount: A:0.10, C:0.20, G:0.10, T:0.60
Consensus pattern (65 bp):
TTTTCTCTTTTTCTCTTTTCTTTTTCAATTTAGGGCGCTCTTTCGGGTTTTCACCCTAAACATTT
Found at i:1580448 original size:38 final size:38
Alignment explanation
Indices: 1580397--1580469 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
1580387 ATTGGGTCAC
1580397 ATTTGTCGGTTAACTGAGATATGAACCGTGATATGCAT
1 ATTTGTCGGTTAACTGAGATATGAACCGTGATATGCAT
* *
1580435 ATTTGTCGGTTAACTGAGTTATGAACCGTGCTATG
1 ATTTGTCGGTTAACTGAGATATGAACCGTGATATG
1580470 TAGTTCAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (38 bp):
ATTTGTCGGTTAACTGAGATATGAACCGTGATATGCAT
Found at i:1588529 original size:2 final size:2
Alignment explanation
Indices: 1588524--1588578 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
1588514 AAATAAAGTA
1588524 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
*
1588566 AT AT AA AT AT AT A
1 AT AT AT AT AT AT A
1588579 AATAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1588583 original size:4 final size:4
Alignment explanation
Indices: 1588494--1588639 Score: 52
Period size: 4 Copynumber: 37.0 Consensus size: 4
1588484 ACATAAAAAT
* * * * *
1588494 TAAA TAAA CAAAA TAAA -AAA -AAA TAAA GT-AA TATA TATA TATA TATA
1 TAAA TAAA -TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA
* * * * * * * * *
1588541 TATA TATA TATA TATA TATA TATA TATA TAAA TATA TAAA TAAA AAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * *
1588589 TTAG GAAA -AAA TAAA T-AA TAAAA TAAAA CAAA TAAA TAAA TAAA T-AA
1 TAAA TAAA TAAA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAAA
1588636 TAAA
1 TAAA
1588640 AACCAAAAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
3 16 0.13
4 92 0.77
5 11 0.09
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:1588583 original size:12 final size:12
Alignment explanation
Indices: 1588523--1588639 Score: 62
Period size: 12 Copynumber: 9.8 Consensus size: 12
1588513 AAAATAAAGT
*
1588523 AATATATATATA
1 AATATATAAATA
* *
1588535 TATATATATATA
1 AATATATAAATA
* *
1588547 TATATATATATA
1 AATATATAAATA
* *
1588559 TATATATATATA
1 AATATATAAATA
1588571 AATATATAAATA
1 AATATATAAATA
* * *
1588583 AAAAAATTAGGAAAA
1 AATATA-TA--AATA
*
1588598 AATAAAT-AATA
1 AATATATAAATA
*
1588609 AA-ATA-AAACA
1 AATATATAAATA
*
1588619 AATAAATAAATA
1 AATATATAAATA
1588631 AATA-ATAAA
1 AATATATAAA
1588640 AACCAAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
10 7 0.08
11 12 0.14
12 57 0.66
13 2 0.02
14 1 0.01
15 8 0.09
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (12 bp):
AATATATAAATA
Found at i:1589894 original size:2 final size:2
Alignment explanation
Indices: 1589822--1589875 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
1589812 TAAATAATAA
* *
1589822 AT AT AT A- AT AT AT GT TT AT -T AT A- 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
1589861 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1589876 GATGTAACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1589941 original size:5 final size:5
Alignment explanation
Indices: 1589931--1590531 Score: 943
Period size: 5 Copynumber: 121.2 Consensus size: 5
1589921 AAGTTTTTAT
1589931 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1589981 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATATA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA TATTA
1590032 TATTA TA-TA TA-TA TTATTA TATTA TATTA TATTA TATTA TATTA TA-T-
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1590079 TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TATTA TATTA TATTATA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA
1590130 TATTA TATTA TATTA TA-TA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1590179 T-TTA TATTA TATTA TATTA TATTA TATTA TA-TA TATTA TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
1590228 TA-TA TATATA TATTA TATTA TATTA TATTA TATTA TATTATA TATTA
1 TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA
1590275 TATTA TATTA TA-T- TATTA TATTA TA-TA TA-TA TATTA TATTA TATTATA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA
1590323 TATTA TATTA TATTA TA-T- TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1590371 TATTA TATTA TATATA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1590422 TA-TA TATTA TATTA TATTA T-TATA TTATTA TATATA TATTA TATTA
1 TATTA TATTA TATTA TATTA TAT-TA -TATTA TAT-TA TATTA TATTA
1590468 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T- TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1590516 TATTA TATTA TATTA T
1 TATTA TATTA TATTA T
1590532 TTTTGATTTA
Statistics
Matches: 565, Mismatches: 0, Indels: 62
0.90 0.00 0.10
Matches are distributed among these distances:
3 8 0.01
4 47 0.08
5 461 0.82
6 36 0.06
7 13 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:1590556 original size:13 final size:13
Alignment explanation
Indices: 1590538--1590569 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1590528 TTATTTTTGA
*
1590538 TTTATTCTTTATT
1 TTTATTCATTATT
1590551 TTTATTCATTATT
1 TTTATTCATTATT
1590564 TTTATT
1 TTTATT
1590570 TTTCTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTCATTATT
Found at i:1590572 original size:20 final size:19
Alignment explanation
Indices: 1590539--1590585 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1590529 TATTTTTGAT
1590539 TTATTCTTTATTTT-TATTCA
1 TTATT-TTTATTTTCTATT-A
*
1590559 TTATTTTTATTTTTCTGTTA
1 TTATTTTTA-TTTTCTATTA
1590579 TTATTTT
1 TTATTTT
1590586 AGGCCCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 17 0.71
21 3 0.12
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTTTATTTTCTATTA
Found at i:1592279 original size:19 final size:18
Alignment explanation
Indices: 1592247--1592282 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
1592237 AAATTTTAAT
1592247 TTATTTATTTGATTATTC
1 TTATTTATTTGATTATTC
1592265 TTATTTATCTTGATTATT
1 TTATTTAT-TTGATTATT
1592283 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATTTATTTGATTATTC
Found at i:1603717 original size:38 final size:38
Alignment explanation
Indices: 1603634--1603961 Score: 377
Period size: 38 Copynumber: 8.7 Consensus size: 38
1603624 TAGTATATAT
* * *
1603634 AACATATAT-A-ATATAGTCTTGCAAACCTTTTTTTGAA
1 AACATATATAATATATAGTTTTG-AAAACATTTTTTGAA
*
1603671 AACGTATATAATATATAGTTTTGAAAACATTTTTTGAA
1 AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
*
1603709 AATATATATAATATATAGTTTTGAAAACATTTTTTGAA
1 AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
* *
1603747 AACGTATTTAATATATAGTTTTGAAAACA-TTTTTGAA
1 AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
1603784 AACATATATAATATATAGTTTTGAAAACATTTTTTTTTTGAA
1 AACATATATAATATATAGTTTTGAAAACA----TTTTTTGAA
* * *
1603826 AACGTATATAACATATAGTTTTTAAAACA-TTTTT-AA
1 AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
* * *
1603862 AAAACATATAATATATAGTTTTGAAAACA-TTTTTGCA
1 AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
* * *
1603899 AACGTATATAATATATAGTTTTTAAAA-ATACTTTTGAA
1 AACATATATAATATATAGTTTTGAAAACAT-TTTTTGAA
* *
1603937 AAC--ATATAATATATAATTTTTAAAA
1 AACATATATAATATATAGTTTTGAAAA
1603962 AAACAATTTT
Statistics
Matches: 254, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
36 53 0.21
37 72 0.28
38 85 0.33
39 10 0.04
42 34 0.13
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (38 bp):
AACATATATAATATATAGTTTTGAAAACATTTTTTGAA
Found at i:1603782 original size:12 final size:12
Alignment explanation
Indices: 1603727--1603788 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
1603717 TAATATATAG
1603727 TTTTGAAAACATT
1 TTTTGAAAACA-T
*
1603740 TTTTGAAAACGT
1 TTTTGAAAACAT
* * *
1603752 ATTT-AATATATAG
1 TTTTGAA-A-ACAT
1603765 TTTTGAAAACAT
1 TTTTGAAAACAT
1603777 TTTTGAAAACAT
1 TTTTGAAAACAT
1603789 ATATAATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
11 2 0.05
12 19 0.50
13 15 0.39
14 2 0.05
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:1603910 original size:115 final size:112
Alignment explanation
Indices: 1603663--1603944 Score: 397
Period size: 115 Copynumber: 2.5 Consensus size: 112
1603653 TGCAAACCTT
* *
1603663 TTTTTGAAAACGTATATAATATATAGTTTTGAAAACATTTTTTGAAAATATATATAATATATAGT
1 TTTTTGAAAACGTATATAATATATAGTTTTGAAAACATTTTTTGAAAACATATATAACATATAGT
** *
1603728 TTTGAAAACATTTTTTGAAAACGTATTTAATATATAGTTTTGAAAACA
66 TTTGAAAACATTTTTAAAAAACG-ATATAATATATAGTTTTGAAAACA
* *
1603776 TTTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTTTTTGAAAACGTATATAACATA
1 TTTTTGAAAACGTATATAATATATAGTTTTGAAAACA----TTTTTTGAAAACATATATAACATA
*
1603841 TAGTTTTTAAAACATTTTTAAAAAAC-ATATAATATATAGTTTTGAAAACA
62 TAGTTTTGAAAACATTTTTAAAAAACGATATAATATATAGTTTTGAAAACA
* * *
1603891 TTTTTGCAAACGTATATAATATATAGTTTTTAAAA-ATACTTTTGAAAACATATA
1 TTTTTGAAAACGTATATAATATATAGTTTTGAAAACAT-TTTTTGAAAACATATA
1603945 ATATATAATT
Statistics
Matches: 151, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
110 1 0.01
111 14 0.09
113 36 0.24
114 1 0.01
115 55 0.36
117 44 0.29
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (112 bp):
TTTTTGAAAACGTATATAATATATAGTTTTGAAAACATTTTTTGAAAACATATATAACATATAGT
TTTGAAAACATTTTTAAAAAACGATATAATATATAGTTTTGAAAACA
Found at i:1604032 original size:10 final size:10
Alignment explanation
Indices: 1604017--1604062 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
1604007 TATAGTTATA
1604017 TTATTTATTT
1 TTATTTATTT
1604027 TTATTTATTT
1 TTATTTATTT
*
1604037 AT-TTTATTT
1 TTATTTATTT
*
1604046 TATTTTTATTT
1 T-TATTTATTT
1604057 TTATTT
1 TTATTT
1604063 TTCTGTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTATTTATTT
Found at i:1604034 original size:14 final size:14
Alignment explanation
Indices: 1603982--1604062 Score: 60
Period size: 14 Copynumber: 5.6 Consensus size: 14
1603972 TGAAAACTCA
*
1603982 TTTTATATTATATAGT
1 TTTTAT-TTATTTA-T
1603998 TTTTA-TTA-TTAT
1 TTTTATTTATTTAT
**
1604010 AGTTATATTATTTAT
1 TTTTAT-TTATTTAT
1604025 TTTTATTTATTTA-
1 TTTTATTTATTTAT
1604038 TTTTATTTTATTTTTAT
1 TTTTA-TTTA--TTTAT
1604055 TTTTATTT
1 TTTTATTT
1604063 TTCTGTTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
12 4 0.08
13 7 0.13
14 17 0.32
15 8 0.15
16 12 0.23
17 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:1604034 original size:28 final size:27
Alignment explanation
Indices: 1603984--1604060 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
1603974 AAAACTCATT
*
1603984 TTATATTATATAGTTTTTA-TTATTATA
1 TTATATTATTTA-TTTTTATTTATTATA
1604011 GTTATATTATTTATTTTTATTTATT-TA
1 -TTATATTATTTATTTTTATTTATTATA
*
1604038 TTTTA-T-TTTATTTTTATTT-TTAT
1 TTATATTATTTATTTTTATTTATTAT
1604061 TTTTCTGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
23 2 0.04
24 14 0.31
25 1 0.02
26 4 0.09
27 8 0.18
28 16 0.36
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (27 bp):
TTATATTATTTATTTTTATTTATTATA
Found at i:1604044 original size:37 final size:36
Alignment explanation
Indices: 1604003--1604078 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
1603993 ATAGTTTTTA
1604003 TTATTATAGTTATATTATTTATTTTTAT-TTATTTATT
1 TTATTATAGTTATATT-TTTATTTTTATGTTA-TTATT
* * * *
1604040 TTATTTTATTTTTATTTTTATTTTTCTGTTATTATT
1 TTATTATAGTTATATTTTTATTTTTATGTTATTATT
1604076 TTA
1 TTA
1604079 AGCCCAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 18 0.53
37 16 0.47
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (36 bp):
TTATTATAGTTATATTTTTATTTTTATGTTATTATT
Found at i:1604054 original size:6 final size:6
Alignment explanation
Indices: 1604015--1604064 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
1604005 ATTATAGTTA
1604015 TATTATT TATTTT TATTTAT T-TATTT TA-TTT TATTTT TATTTT TATTTT
1 TATT-TT TATTTT TATTT-T TAT-TTT TATTTT TATTTT TATTTT TATTTT
1604064 T
1 T
1604065 CTGTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.13
6 26 0.67
7 8 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:1606406 original size:30 final size:30
Alignment explanation
Indices: 1606343--1606407 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
1606333 ATTATGGTTT
***
1606343 TTTGGCCCAATAGGACACCCGCTTTAATTA
1 TTTGGCCCAATAGGACACCCGCAAAAATTA
*
1606373 TTTGGCCCAATAGGACA-CCTCAAAAATTAA
1 TTTGGCCCAATAGGACACCCGCAAAAATT-A
1606403 TTTGG
1 TTTGG
1606408 GATCGATGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (30 bp):
TTTGGCCCAATAGGACACCCGCAAAAATTA
Found at i:1609984 original size:15 final size:15
Alignment explanation
Indices: 1609966--1609996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1609956 AGTTTGTTGT
1609966 TATCTGGTCTACTGA
1 TATCTGGTCTACTGA
*
1609981 TATCTGGTCTATTGA
1 TATCTGGTCTACTGA
1609996 T
1 T
1609997 CTGTTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (15 bp):
TATCTGGTCTACTGA
Found at i:1612207 original size:18 final size:17
Alignment explanation
Indices: 1612181--1612237 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
1612171 TTTCAAATTT
1612181 TATTATAATTTTAAGAAA
1 TATT-TAATTTTAAGAAA
1612199 TATATTAATTTATAA-AAA
1 TAT-TTAATTT-TAAGAAA
* *
1612217 TATTTATTTATTTAGAAA
1 TATTTAATT-TTAAGAAA
1612235 TAT
1 TAT
1612238 CAGAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 7 0.21
18 22 0.67
19 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATTTAATTTTAAGAAA
Done.