Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 65 of 328
Found at i:17947163 original size:26 final size:26
Alignment explanation
Indices: 17947134--17947241 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
17947124 TGAAATGCCC
*
17947134 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
17947160 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
17947186 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
17947212 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
17947238 ATCA
1 ATCA
17947242 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:17947212 original size:52 final size:52
Alignment explanation
Indices: 17947134--17947241 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
17947124 TGAAATGCCC
17947134 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
*
17947186 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
17947238 ATCA
1 ATCA
17947242 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:17948967 original size:12 final size:12
Alignment explanation
Indices: 17948950--17948974 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17948940 GAACTTTTCC
17948950 CATTTTTGTTTT
1 CATTTTTGTTTT
17948962 CATTTTTGTTTT
1 CATTTTTGTTTT
17948974 C
1 C
17948975 TTTATATGAG
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:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (12 bp):
CATTTTTGTTTT
Found at i:17952661 original size:18 final size:19
Alignment explanation
Indices: 17952637--17952686 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
17952627 CATTAAGCCC
17952637 CCCCCAAAAAAAAACCTAA
1 CCCCCAAAAAAAAACCTAA
*
17952656 CCCCAAAAAAAAAACCTAA
1 CCCCCAAAAAAAAACCTAA
17952675 CCCCCAAAAAAA
1 CCCCCAAAAAAA
17952687 CCAAGAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.60, C:0.36, G:0.00, T:0.04
Consensus pattern (19 bp):
CCCCCAAAAAAAAACCTAA
Found at i:17953006 original size:17 final size:16
Alignment explanation
Indices: 17952984--17953024 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
17952974 CCTAAAGGTG
*
17952984 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTT-TT
17953001 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
17953018 ATTTTAT
1 ATTTTAT
17953025 TTTTTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:17953792 original size:11 final size:11
Alignment explanation
Indices: 17953768--17953810 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17953758 TTCTAATACG
*
17953768 TATATATATTA
1 TATATATTTTA
*
17953779 TATGTATTTTA
1 TATATATTTTA
* *
17953790 TATATATTATG
1 TATATATTTTA
17953801 TATATATTTT
1 TATATATTTT
17953811 TTAATGCCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:17954152 original size:16 final size:16
Alignment explanation
Indices: 17954113--17954153 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
17954103 CTAATATTTT
*
17954113 CTTTTATTA-TAGATA
1 CTTTTATTATTACATA
17954128 -TTATTATTATTACATA
1 CTT-TTATTATTACATA
17954144 CTTTTATTAT
1 CTTTTATTAT
17954154 ATGCATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 2 0.09
15 6 0.27
16 12 0.55
17 2 0.09
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (16 bp):
CTTTTATTATTACATA
Found at i:17969299 original size:19 final size:19
Alignment explanation
Indices: 17969268--17969309 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
17969258 TAATTAATAG
17969268 AAAAATTATTAAAAATT-TA
1 AAAAATTATT-AAAATTCTA
17969287 AAAAATTCA-TAAAATTCTA
1 AAAAATT-ATTAAAATTCTA
17969306 AAAA
1 AAAA
17969310 GTTGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 14 0.67
20 1 0.05
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTATTAAAATTCTA
Found at i:17970976 original size:5 final size:5
Alignment explanation
Indices: 17970966--17971004 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
17970956 AGATTTACAC
17970966 AATCA AATCA AATCA AATCA AATCA AATCA AATCA AATC
1 AATCA AATCA AATCA AATCA AATCA AATCA AATCA AATC
17971005 TTATTAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:17973356 original size:44 final size:45
Alignment explanation
Indices: 17973295--17973471 Score: 177
Period size: 45 Copynumber: 4.0 Consensus size: 45
17973285 TAGGATTCTA
*
17973295 ATATGTGTTTTCATGTAAGACCATGTCTGGGACGTT-GCATCAAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAAT
* *
17973339 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAAT
* ** * * * *
17973384 ATATGTGGTTAAGTGTAAGACCATGTCGGGGACATCGGCATC-GT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAAT
* * * *
17973428 AT-T-TG-ATTCGTGTATGACCCTGTCTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCAAT
17973470 AT
1 AT
17973472 GAGATGACAT
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 25 0.23
42 5 0.05
43 1 0.01
44 37 0.34
45 42 0.38
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAAT
Found at i:17973400 original size:45 final size:44
Alignment explanation
Indices: 17973308--17973508 Score: 168
Period size: 45 Copynumber: 4.6 Consensus size: 44
17973298 TGTGTTTTCA
* * *
17973308 TGTAAGACCATGTCTGGGACGTT-GCATCAATATATGTGTTTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTG-ATTCG
* *
17973352 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTAAG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATT-CG
* * * *
17973397 TGTAAGACCATGTCGGGGACATCGGCATCG-TAT-T-TGATTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTCG
* *
17973438 TGTATGACC-CTGTCTGGGACAG-TGGCATCGATATGA-GATGA--CA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATAT-ATG-TGATTCG
* *
17973481 TGTAAGTCCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
17973509 TGTTCGATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
41 24 0.19
42 8 0.06
43 23 0.18
44 28 0.22
45 44 0.35
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTCG
Found at i:17989972 original size:19 final size:21
Alignment explanation
Indices: 17989944--17989992 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
17989934 AAACTCCTCG
*
17989944 AGATTAACCACTCGT-C-TCT
1 AGATTGACCACTCGTCCTTCT
17989963 AGATTGACCACTCGTCCTTCT
1 AGATTGACCACTCGTCCTTCT
17989984 AGAGTTGAC
1 AGA-TTGAC
17989993 AACATGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 1 0.04
21 6 0.23
22 5 0.19
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (21 bp):
AGATTGACCACTCGTCCTTCT
Found at i:17990001 original size:22 final size:21
Alignment explanation
Indices: 17989959--17990006 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
17989949 AACCACTCGT
*
17989959 CTCTAGATTGACCACTCGTCC
1 CTCTAGATTGACAACTCGTCC
*
17989980 TTCTAGAGTTGACAACAT-GTCC
1 CTCTAGA-TTGACAAC-TCGTCC
17990002 CTCTA
1 CTCTA
17990007 ACAACTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 6 0.27
22 15 0.68
23 1 0.05
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (21 bp):
CTCTAGATTGACAACTCGTCC
Found at i:17992612 original size:2 final size:2
Alignment explanation
Indices: 17992605--17992630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17992595 AACTTAAAAA
17992605 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
17992631 ATTTTTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17992815 original size:57 final size:53
Alignment explanation
Indices: 17992748--17992851 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
17992738 CTAATATAAT
*
17992748 ATTTGATATATGAATTTAATTTTTTTTCTTAATTTAATATTTAAATTTTTTTATTTA
1 ATTTGATATATAAATTTAA---TTTTT-TTAATTTAATATTTAAATTTTTTTATTTA
* *
17992805 ATTTGGTATATAAATTTGATTTTTTTAATTTAATATTTAAATTTTTT
1 ATTTGATATATAAATTTAATTTTTTTAATTTAATATTTAAATTTTTT
17992852 ATCTAATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 23 0.52
54 5 0.11
57 16 0.36
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (53 bp):
ATTTGATATATAAATTTAATTTTTTTAATTTAATATTTAAATTTTTTTATTTA
Found at i:17992845 original size:27 final size:25
Alignment explanation
Indices: 17992761--17992851 Score: 112
Period size: 26 Copynumber: 3.5 Consensus size: 25
17992751 TGATATATGA
17992761 ATTT-AATTTTTTTTCTTAATTTAAT
1 ATTTAAATTTTTTTT-TTAATTTAAT
**
17992786 ATTTAAATTTTTTTATTTAATTTGGT
1 ATTTAAATTTTTTT-TTTAATTTAAT
*
17992812 ATATAAATTTGATTTTTTTAATTTAAT
1 ATTTAAATTT--TTTTTTTAATTTAAT
17992839 ATTTAAATTTTTT
1 ATTTAAATTTTTT
17992852 ATCTAATGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.12
26 26 0.46
27 19 0.34
28 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (25 bp):
ATTTAAATTTTTTTTTTAATTTAAT
Found at i:18000113 original size:99 final size:98
Alignment explanation
Indices: 17999940--18000371 Score: 605
Period size: 99 Copynumber: 4.4 Consensus size: 98
17999930 AAAACATATG
* * *
17999940 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGAGCGATAATGTGTCTG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
*
18000005 CATTTATTATGTTGAAAATGAATGAGAATGAATC
66 CATTTA-TATTTTGAAAATGAATGAGAATGAATC
* **
18000039 ATGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTTTG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
18000104 CATTTATTATTTTGAAAATGAATGAGAATGAATC
66 CATTTA-TATTTTGAAAATGAATGAGAATGAATC
* * * * *
18000138 AGGTATGAAAGAATTAACATACCATGTTGCGTACTTTTTATTCTCTGTGATTGATAAAGTCTCCG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
* ***
18000203 TATTTATATACAGAAAATGAATGAGAATGAATC
66 CATTTATATTTTGAAAATGAATGAGAATGAATC
* * * *
18000236 AGGTATGAAAGTATTAACATACCATGTTGTGTACTTGTTGTTCTGTGTGATTGATAAAGTGTCCA
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
*
18000301 CATTTATACTTTTGAAAATGAATGGGAATGAATC
66 CATTTATA-TTTTGAAAATGAATGAGAATGAATC
* * *
18000335 AGTTATGAAAGTGTTAACATATCAT-TTAGCGTACTTG
1 AGGTATGAAAGTATTAACATACCATGTT-GCGTACTTG
18000372 ATATACAATA
Statistics
Matches: 298, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
98 91 0.31
99 207 0.69
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (98 bp):
AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
CATTTATATTTTGAAAATGAATGAGAATGAATC
Found at i:18000282 original size:197 final size:198
Alignment explanation
Indices: 17999940--18000371 Score: 618
Period size: 197 Copynumber: 2.2 Consensus size: 198
17999930 AAAACATATG
* * * *
17999940 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGAGCGATAATGTGTCTG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCGATAAAGTCTCCG
*** *
18000005 CATTTATTATGTTGAAAATGAATGAGAATGAATCATGTATGAAAGTATTAACATACCATGTTGCG
66 CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
***
18000070 TACTTGTTATTCTGTGTGATCGATAAAGTGTTTGCATTTATTA-TTTTGAAAATGAATGAGAATG
131 TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTA-TACTTTTGAAAATGAATGAGAATG
18000134 AATC
195 AATC
* * **
18000138 AGGTATGAAAGAATTAACATACCATGTTGCGTACTTTTTATTCTCTGTGATTGATAAAGTCTCCG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCGATAAAGTCTCCG
* *
18000203 TATTTA-TATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGTG
66 CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
* * *
18000267 TACTTGTTGTTCTGTGTGATTGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGGGAATGA
131 TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGAGAATGA
18000332 ATC
196 ATC
* * *
18000335 AGTTATGAAAGTGTTAACATATCAT-TTAGCGTACTTG
1 AGGTATGAAAGTATTAACATACCATGTT-GCGTACTTG
18000372 ATATACAATA
Statistics
Matches: 207, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
196 4 0.02
197 141 0.68
198 62 0.30
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (198 bp):
AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCGATAAAGTCTCCG
CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGAGAATGA
ATC
Found at i:18002306 original size:21 final size:22
Alignment explanation
Indices: 18002258--18002306 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
18002248 CACATGTATA
18002258 GATATTAGGGTTTAGGATGCAAT
1 GATATTAGGGTTTA-GATGCAAT
18002281 -A-ATTAGGG-TTA-ATGCAAT
1 GATATTAGGGTTTAGATGCAAT
18002299 GGATATTA
1 -GATATTA
18002307 AATTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
18 7 0.30
20 4 0.17
21 11 0.48
22 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (22 bp):
GATATTAGGGTTTAGATGCAAT
Found at i:18014474 original size:17 final size:18
Alignment explanation
Indices: 18014451--18014504 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
18014441 AAGTCTTAAC
18014451 ATATAATATATATTAT-T
1 ATATAATATATATTATAT
* * *
18014468 TTATAATGTATATCATAT
1 ATATAATATATATTATAT
18014486 ATATATATATATATTATAT
1 ATATA-ATATATATTATAT
18014505 CATAGTGTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATAATATATATTATAT
Found at i:18014496 original size:24 final size:26
Alignment explanation
Indices: 18014451--18014508 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
18014441 AAGTCTTAAC
* *
18014451 ATATAATATATATTATTTTATA-ATGT
1 ATATCATATATATTATTATATATAT-T
18014477 ATATCATATATA-TA-TATATATATT
1 ATATCATATATATTATTATATATATT
18014501 ATATCATA
1 ATATCATA
18014509 GTGTGAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 14 0.48
25 4 0.14
26 11 0.38
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATCATATATATTATTATATATATT
Found at i:18014932 original size:19 final size:19
Alignment explanation
Indices: 18014908--18014947 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
18014898 ATTAATTATA
18014908 TTATAACAATTTTATTTTC
1 TTATAACAATTTTATTTTC
18014927 TTATAACAATTTTATTTTC
1 TTATAACAATTTTATTTTC
18014946 TT
1 TT
18014948 TCTCACTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATAACAATTTTATTTTC
Found at i:18020242 original size:14 final size:14
Alignment explanation
Indices: 18020223--18020252 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18020213 TTATATCGAG
18020223 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
18020237 ACCAATCCAATTCA
1 ACCAATCCAAATCA
18020251 AC
1 AC
18020253 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:18034148 original size:25 final size:24
Alignment explanation
Indices: 18034065--18034149 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 24
18034055 TTATTATTAA
*
18034065 TTTT-AAAAATTTTGAAATATATA-
1 TTTTGAAATATTTT-AAATATATAT
*
18034088 -TTTGAAATGTTTTATAATATATAT
1 TTTTGAAATATTTTA-AATATATAT
**
18034112 TTTTTTAA-ATTTTAAATATATAT
1 TTTTGAAATATTTTAAATATATAT
18034135 TTTTGAAATTATTTT
1 TTTTGAAA-TATTTT
18034150 TTTAAATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.08
23 30 0.61
24 5 0.10
25 10 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (24 bp):
TTTTGAAATATTTTAAATATATAT
Found at i:18034148 original size:35 final size:34
Alignment explanation
Indices: 18034109--18034177 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
18034099 TTATAATATA
18034109 TATTTTTTTAAATTTTAAATATATATTTTTGAAAT
1 TATTTTTTTAAATTTTAAATAT-TATTTTTGAAAT
*
18034144 TATTTTTTTAAATTTTAAATATTATTTTTTAAAT
1 TATTTTTTTAAATTTTAAATATTATTTTTGAAAT
18034178 ATTAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 11 0.33
35 22 0.67
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (34 bp):
TATTTTTTTAAATTTTAAATATTATTTTTGAAAT
Found at i:18034158 original size:22 final size:22
Alignment explanation
Indices: 18034133--18034192 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
18034123 TTAAATATAT
*
18034133 ATTTTTGAA-ATTATTTTTTTAA
1 ATTTTTAAATATTA-TTTTTTAA
18034155 A-TTTTAAATATTATTTTTTAA
1 ATTTTTAAATATTATTTTTTAA
*
18034176 A-TATTAAATA-TATTTTT
1 ATTTTTAAATATTATTTTT
18034193 AATAATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.20
21 23 0.66
22 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTTAAATATTATTTTTTAA
Found at i:18034171 original size:21 final size:21
Alignment explanation
Indices: 18034142--18034192 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
18034132 TATTTTTGAA
*
18034142 ATTATTTTTTTAAATTTTAAAT
1 ATTA-TTTTTTAAATATTAAAT
18034164 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
18034185 A-TATTTTT
1 ATTATTTTT
18034193 AATAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 7 0.25
21 17 0.61
22 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:18034203 original size:20 final size:21
Alignment explanation
Indices: 18034142--18034200 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18034132 TATTTTTGAA
* *
18034142 ATTATTTTTTTAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
18034164 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
18034185 A-TATTTTTAATAATAT
1 ATTATTTTTAA-AATAT
18034201 AAAACATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 8 0.24
21 22 0.65
22 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:18034288 original size:16 final size:16
Alignment explanation
Indices: 18034249--18034297 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18034239 TTATTATTAG
18034249 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
18034266 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
18034279 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
18034295 TTT
1 TTT
18034298 GTTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:18034302 original size:20 final size:21
Alignment explanation
Indices: 18034279--18034317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18034269 ATATTTTAAA
*
18034279 TTTTA-AATATTTTTAATTTG
1 TTTTATAATATTTTAAATTTG
18034299 TTTTATAATATTTTAAATT
1 TTTTATAATATTTTAAATT
18034318 ATGGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTATAATATTTTAAATTTG
Found at i:18034309 original size:21 final size:20
Alignment explanation
Indices: 18034279--18034340 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 20
18034269 ATATTTTAAA
*
18034279 TTTTAAATATTTTTAATTTG
1 TTTTAAATATTTTAAATTTG
18034299 TTTTATAATATTTTAAATTATGG
1 TTTTA-AATATTTTAAATT-T-G
*
18034322 TTTTTAAATTATTTAAAAT
1 -TTTTAAA-TATTTTAAAT
18034341 ATATTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.14
21 12 0.34
22 1 0.03
23 3 0.09
24 14 0.40
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAATATTTTAAATTTG
Found at i:18034419 original size:29 final size:27
Alignment explanation
Indices: 18034387--18034452 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 27
18034377 TTTTTATAAT
*
18034387 ATTTTAAAATTTTTTAAATTTT-AAATATA
1 ATTTTAAAA-TTATT-AATTTTAAAAT-TA
18034416 ATTTTTATAAATTATTAATTTTAAAATTA
1 A-TTTTA-AAATTATTAATTTTAAAATTA
18034445 ATTTTAAA
1 ATTTTAAA
18034453 GATATTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 2 0.06
28 5 0.15
29 10 0.30
30 13 0.39
31 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTAAAATTATTAATTTTAAAATTA
Found at i:18034420 original size:12 final size:13
Alignment explanation
Indices: 18034403--18034452 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
18034393 AAATTTTTTA
18034403 AATTTTAAATA-T
1 AATTTTAAATATT
18034415 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
18034432 AATTTTAAA-ATT
1 AATTTTAAATATT
18034444 AATTTTAAA
1 AATTTTAAA
18034453 GATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:18034422 original size:30 final size:29
Alignment explanation
Indices: 18034381--18034449 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
18034371 TTTATTTTTT
*
18034381 TATAATATTTTA-AAATTTTTTAAATTTTAAA
1 TATAAT-TTTTATAAA-TTATT-AATTTTAAA
18034412 TATAATTTTTATAAATTATTAATTTTAAA
1 TATAATTTTTATAAATTATTAATTTTAAA
18034441 -ATTAATTTT
1 TA-TAATTTT
18034450 AAAGATATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 1 0.03
29 16 0.46
30 9 0.26
31 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TATAATTTTTATAAATTATTAATTTTAAA
Found at i:18034483 original size:32 final size:30
Alignment explanation
Indices: 18034434--18034492 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
18034424 AAATTATTAA
*
18034434 TTTTAAAATTAATTTTAAAGATATTCAAACAT
1 TTTTAAAATTAAATTTAAA-AT-TTCAAACAT
*
18034466 TTTTTAAATTAAATTTAAAATTTCAAA
1 TTTTAAAATTAAATTTAAAATTTCAAA
18034493 AATTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 2 0.08
32 17 0.68
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (30 bp):
TTTTAAAATTAAATTTAAAATTTCAAACAT
Found at i:18034488 original size:21 final size:21
Alignment explanation
Indices: 18034389--18034488 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 21
18034379 TTTATAATAT
18034389 TTTAAAATTTTTTAAATTTTAAA
1 TTTAAAATTTTTTAAA--TTAAA
*
18034412 --TATAATTTTTATAAATTATTAA
1 TTTAAAATTTTT-TAAATTA--AA
* *
18034434 TTTTAAAATTAATTTTAAA-GATA
1 -TTTAAAATT--TTTTAAATTAAA
*
18034457 TTCAAACATTTTTTAAATTAAA
1 TTTAAA-ATTTTTTAAATTAAA
18034479 TTTAAAATTT
1 TTTAAAATTT
18034489 CAAAAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 22
0.66 0.09 0.25
Matches are distributed among these distances:
20 3 0.05
21 20 0.34
22 18 0.31
23 4 0.07
25 7 0.12
26 4 0.07
27 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (21 bp):
TTTAAAATTTTTTAAATTAAA
Found at i:18037382 original size:131 final size:133
Alignment explanation
Indices: 18036930--18037585 Score: 537
Period size: 132 Copynumber: 4.9 Consensus size: 133
18036920 TAGAAAATAC
* * **
18036930 GAGTGAAATTTCAAAGAGACATTCGATTATTTTGAACAAACCG-GGGATTGCAACCCAGCACGAT
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAA-CGAGAAATTGCAACCCAGCACGAT
* * * *
18036994 AGGGCACT-ATTCCCCGAATTGCCAAACATCGAACATT-TCTTCCGTTTTCAA-GAGTTTTT-AG
65 AGGGCA-TGATT-CCCGAATTGCCAAACACCGAACATTGCCTT-CGTTTTAAAGGA-TTTTTAAA
*
18037055 A-AAACGT
126 AGAAACAT
* * ** * * **
18037062 GAGTGAAATTCCAAAGGGATCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* ** * * * * * * *
18037127 GGGCACGATTATCGAATTGCCAAACATCGAACATCGCATTTGCTTTAAAGGGTTTTCTTAAAAAA
66 GGGCATGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAA-GGATTT-TTAAAAGA
18037192 AACAT
129 AACAT
* * ** **
18037197 GAGTGAAAACTT-AAAGGAACGTTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGAT
1 GAGTG-AAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* ** * * *
18037261 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTTGTTTTAAAGGATTTTT-AGAGGA
65 AGGGCATGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAA
*
18037325 TC-T
130 ACAT
* * * *
18037328 GAGTGAAATTTCAAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
** * * * * * **
18037393 GGGCGCGATTCCGCGAATTGCCAAATATCAAACTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGT
66 GGGCATGATTCC-CGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAA
18037458 AC--
130 ACAT
** * * *
18037460 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * * *
18037525 GGGTACT-ATTCCGCGAATTGCCAAATATCGAATC-TCGTCTTCGTTTTAAAGAATTTTTAAA
66 GGGCA-TGATTCC-CGAATTGCCAAACACCGAA-CATTGCCTTCGTTTTAAAGGATTTTTAAA
18037586 TGAATACTTA
Statistics
Matches: 425, Mismatches: 85, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
130 5 0.01
131 89 0.21
132 216 0.51
133 11 0.03
134 7 0.02
135 93 0.22
136 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (133 bp):
GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCATGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAAA
CAT
Found at i:18037443 original size:267 final size:267
Alignment explanation
Indices: 18036951--18037549 Score: 590
Period size: 266 Copynumber: 2.3 Consensus size: 267
18036941 CAAAGAGACA
** **
18036951 TTCGATTATTTTGAACAAACCGGGGATTGCAACCCAGCACGATAGGGCACTATTCCCCGAATTGC
1 TTCGATTATTTTGAACAAACCGGAAATCACAACCCAGCACGATAGGGCACTATTCCCCGAATTGC
* * *
18037016 CAAACATCGAACATTTCTTCCGTTTTCAAGAGTTTTTAGAAAACGTGAGTGAAATTCCAAAGGGA
66 CAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCCAAAGGGA
* * * * *
18037081 TCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTATCGAATTG
131 TATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATTAGCGAATTG
* *
18037146 CCAAACATCGAACATCGCATTTGCTTTAAAGGGTTTTCTTAAAAAAAACATGAGTGAAAACTTAA
196 CCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTTAAAAAAAACATGAGTGAAAACTTAA
18037211 AGGAACG
261 AGGAACG
18037218 TTCGATTATTTTGAACAAA-CGAGAAATCACAACCCAGCACGATAGGGCA-TGATT-CCCGAATT
1 TTCGATTATTTTGAACAAACCG-GAAATCACAACCCAGCACGATAGGGCACT-ATTCCCCGAATT
* ** * * * *
18037280 GTCAAACACCGAGTATTGCCTT-TGTTTTAAAG-GATTTTTAGAGGATC-TGAGTGAAATTTCAA
64 GCCAAACACCGAACATT-CCTTCCGTTTTAAAGAG-TTTTTAGA-AAACGTGAGTGAAATTCCAA
* * * * ** * * *
18037342 AGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCGCGATTCCGC
126 AGGGATATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATT-AGC
* * * * * ** ***
18037407 GAATTGCCAAATATCAAACTTTGCCTTCGTTTTAAA-GAATTT-TTAAAAGGTAC--GAGTGAAA
190 GAATTGCCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTTAAAAAAAACATGAGTGAAA
** * * **
18037468 TTTTGAAGGGATA
255 ACTTAAAGGAACG
** * * * *
18037481 TTCGATTATTTTGAACAAA-CGCGAAATTGCAACCCAACACGTTAGGGTACTATTCCGCGAATTG
1 TTCGATTATTTTGAACAAACCG-GAAATCACAACCCAGCACGATAGGGCACTATTCCCCGAATTG
18037545 CCAAA
65 CCAAA
18037550 TATCGAATCT
Statistics
Matches: 270, Mismatches: 54, Indels: 19
0.79 0.16 0.06
Matches are distributed among these distances:
263 61 0.23
264 13 0.05
265 9 0.03
266 107 0.40
267 80 0.30
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (267 bp):
TTCGATTATTTTGAACAAACCGGAAATCACAACCCAGCACGATAGGGCACTATTCCCCGAATTGC
CAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCCAAAGGGA
TATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATTAGCGAATTG
CCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTTAAAAAAAACATGAGTGAAAACTTAA
AGGAACG
Found at i:18038016 original size:2 final size:2
Alignment explanation
Indices: 18038011--18038042 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18038001 AAAAATAGGG
18038011 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
18038043 TTGAAATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18038792 original size:2 final size:2
Alignment explanation
Indices: 18038785--18038812 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18038775 TATAAGGTTA
18038785 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
18038813 GAAATAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18039839 original size:17 final size:18
Alignment explanation
Indices: 18039806--18039843 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18039796 TTTTTCGTTC
18039806 TTTTTCTTTGCTGTTGTT
1 TTTTTCTTTGCTGTTGTT
*
18039824 TTTTTTTTTGCT-TTGTT
1 TTTTTCTTTGCTGTTGTT
18039841 TTT
1 TTT
18039844 GCTTGTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTGCTGTTGTT
Found at i:18040525 original size:44 final size:44
Alignment explanation
Indices: 18040452--18040538 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
18040442 AGATTCACCG
* * *
18040452 TCTTCGATCTACTCTCTGTCAACACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTACCCTCTGACAACACAGAGACGCCAAATCTGCTA
* * * *
18040496 TCTTCGATCTGCCCTCTGACAATATAGAGACGTCAAATCTGCT
1 TCTTCGATCTACCCTCTGACAACACAGAGACGCCAAATCTGCT
18040539 TGGATTTGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTACCCTCTGACAACACAGAGACGCCAAATCTGCTA
Found at i:18040760 original size:44 final size:44
Alignment explanation
Indices: 18040583--18041811 Score: 482
Period size: 44 Copynumber: 27.1 Consensus size: 44
18040573 ATCAGCTATG
** ** * * *
18040583 TCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATGCTA
1 TCTTCGATCTGCTTTCCG-CTGCTACAGAAACGCCAAATC-TGTTA
* * *
18040629 TCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTG
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * *
18040673 TCTTTGATCTGCTTTCCGC-GCTACA-AAATGCCAAATCTGTTG
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * * *
18040715 TCTTCGACCTGCTTTCTGCTGCTACAAAAATGCCAAATCTGTTG
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* *
18040759 TCTTCGATCTGCTTTCCG-TCGCTACGGAAACGCAAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCT-GCTACAGAAACGCCAAATCTGTTA
* * * *
18040803 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* ** * *
18040847 TCTTCGATCTGCTCTCCGCAACTACAGAGACGCCAAATCTATTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * ** * * *
18040891 TCTTCGATCTACTCTCCGCCACTACAGAGACGTCAAATCTGCTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
*
18040935 TCTTCGATCTGCTCTCTGCCACTGCTCTCCGCTACTATAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCT-T-T--C-C-G--CT--GCTAC---AGAAACGCCAAATCTGTTA
* ** * * *
18040992 TCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATTTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* ** * * *
18041036 TCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATATGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * * ** * **
18041080 TTTTTGATCTGCTCTCTGCAACTACAGAGACGCCAAATCTACTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* ** *
18041124 TCTTCGATCTGCTCTCCGCCACTACA-AAGACGCCAAATCTATTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAA-ACGCCAAATCTGTTA
* * * ** * *** **
18041168 TCTTTGATCTGCTCTCTGCCACTACAGAGACGTCTCCTCTCTGCCA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACG-C-CAAATCTGTTA
* * ** ** * * *** * * **
18041214 -CTACAGAGAC-GCCAAATCTACTATCTTCGATTTGCTCTCCGCCACTAT-AGAGA
1 TCTTC-GA-TCTG-C-TTTCCGCT-GCTAC-A---G--AAACGCCA-AATCTGTTA
** * * * * *** ** *
18041267 -CGCCAAATCT-ATTATCTTCGATATGCTCTCTACCACTACAGA-GACGCCAAATCTGCTA
1 TCTTC-GATCTGCTT-TC--C-----GCT-GCTA-CA-GA-A-ACG-CCAAATCTGT--TA
* * ** * * * *
18041325 TCTTCGATTTGCTCTCCGCCACTATAGAGACACCAAATCTATTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* ** * **
18041369 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* ** * **
18041413 TCTTCGATTTGCTCTT-CGCCACTACAGAGACGCCAAATCTACTA
1 TCTTCGATCTGCT-TTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * ** *
18041457 TCTCCGATCTACTCTCCGCCACTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * ** * *
18041501 TCTTCGATCCGCTCTCCGCCACTACAGAGACGACAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * ** * *
18041545 TATTTGATCTGCTCTCCGCCACTACATAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * *
18041589 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * * *
18041633 TCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTATTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * * *
18041677 TCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * ** * *
18041721 TATTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
* * * *
18041765 TCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
18041809 TCT
1 TCT
18041812 GCTTCAAGGA
Statistics
Matches: 958, Mismatches: 171, Indels: 110
0.77 0.14 0.09
Matches are distributed among these distances:
42 31 0.03
43 15 0.02
44 759 0.79
45 23 0.02
46 31 0.03
47 5 0.01
48 6 0.01
49 6 0.01
50 5 0.01
51 5 0.01
52 3 0.00
53 9 0.01
54 7 0.01
55 5 0.01
56 2 0.00
57 30 0.03
58 12 0.01
59 4 0.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTTTCCGCTGCTACAGAAACGCCAAATCTGTTA
Found at i:18040994 original size:57 final size:57
Alignment explanation
Indices: 18040902--18041014 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
18040892 CTTCGATCTA
* *
18040902 CTCTCCGCCACTACAGAGACGTCAAATCTGCTATCTTCGATCTGCTCTCTGCCACTG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTG
* * *
18040959 CTCTCCGCTACTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACT
1 CTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACT
18041015 ATAGAGACGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.19, C:0.36, G:0.15, T:0.29
Consensus pattern (57 bp):
CTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTG
Found at i:18041119 original size:189 final size:189
Alignment explanation
Indices: 18040788--18041811 Score: 689
Period size: 176 Copynumber: 5.6 Consensus size: 189
18040778 CGCTACGGAA
*
18040788 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCG
1 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCG
* *
18040853 ATCTGCTCTCCGCAACTACAGAGACGCCAAATCTATTATCTTCGATCTACTCTCCGCCACTACAG
66 ATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCTTCGATCTACTCTCCGCAACTACAG
* * *
18040918 AGACGTCAAATCTGCTATCTTCGATCTGCTCTCTGCCACTGCTCTCCGCTACTATAGAG
131 AGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTGCTCTCCGCTACTATAGAG
* * * *
18040977 ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATTTGTTATCTTCG
1 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCG
* * * * * * *
18041042 ATCTGCTCTCCGCCACTACAGAGATGCCAAATATGTTATTTTTGATCTGCTCTCTGCAACTACAG
66 ATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCTTCGATCTACTCTCCGCAACTACAG
18041107 AGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCA----------CTAC-A-A-AG
131 AGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTGCTCTCCGCTACTATAGAG
* * * * *** *
18041153 ACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACGTCTCCTCTCTGCCACTAC
1 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG-C-CAAATCTGCTA-T-C
** * * * * * ** ** *
18041218 AGAGACGCCAAATCTACTATCTTCG-ATTTGCTCTCCGCCACTATAGAGACGCCAAATCTATTAT
62 ---TTCG----ATCTGC--TCTCCGCA---ACT-ACAGAGAC--GC-------CAAATATATTAT
* * ** * *
18041282 CTTCGATATGCTCTCTACCACTACAGAGACGCCAAATCTGCTATCTTCGA-----T-T-------
105 CTTCGATCTACTCTCCGCAACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAC
*
18041334 TGCTCTCCGCCACTATAGAG
170 TGCTCTCCGCTACTATAGAG
* * * *
18041354 ACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCG
1 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCG
* * * * * * *
18041419 ATTTGCTCTTCGCCACTACAGAGACGCCAAATCTACTATCTCCGATCTACTCTCCGCCACTACAG
66 ATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCTTCGATCTACTCTCCGCAACTACAG
** *
18041484 AGACGCCAAATCTGTTATCTTCGATCCGCTCTCCGCCA----------CTAC---AGAG
131 AGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTGCTCTCCGCTACTATAGAG
* * * *
18041530 ACG-ACAAATCTGTTATATTTGATCTGCTCTCCGCCACTACATAGACGCCAAATCTGTTATCTTC
1 ACGCA-AAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTC
** * * * * **
18041594 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACA
65 GATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCTTCGATCTACTCTCCGCAACTACA
* *
18041659 GAGACGCCAAATCTATTATCTTCAATCTGCTCT----C-C-G----CCGCTAC---AGAG
130 GAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTGCTCTCCGCTACTATAGAG
* * * * *
18041706 ATGCCAAATCTGTTATATTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATCTGTTATCTTCG
1 ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCG
* ** * *
18041771 ATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCT
66 ATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCT
18041812 GCTTCAAGGA
Statistics
Matches: 674, Mismatches: 103, Indels: 129
0.74 0.11 0.14
Matches are distributed among these distances:
172 1 0.00
176 352 0.52
177 2 0.00
178 6 0.01
179 8 0.01
180 1 0.00
181 1 0.00
182 1 0.00
183 2 0.00
185 4 0.01
186 2 0.00
187 5 0.01
188 6 0.01
189 156 0.23
190 4 0.01
191 2 0.00
192 3 0.00
194 2 0.00
195 1 0.00
196 1 0.00
197 1 0.00
198 4 0.01
199 7 0.01
200 2 0.00
201 100 0.15
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (189 bp):
ACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGCTATCTTCG
ATCTGCTCTCCGCAACTACAGAGACGCCAAATATATTATCTTCGATCTACTCTCCGCAACTACAG
AGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTGCTCTCCGCTACTATAGAG
Found at i:18041193 original size:132 final size:132
Alignment explanation
Indices: 18040583--18041804 Score: 1072
Period size: 132 Copynumber: 9.0 Consensus size: 132
18040573 ATCAGCTATG
* * * *
18040583 TCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATGCTATCTTCGATCTGCTCTCCGC
1 TCTTCGATCTGCTCTCCGCC-ACTACAGAGACGCCAAATC-TGTTATCTTCGATCTGCTCTCCGC
** * * * * * *
18040648 TGCTACAGAGACGCCAAATCTGTTGTCTTTGATCTGCTTTCCG-CGCTACA-AAATGCCAAATCT
64 CACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCT
** *
18040711 GTTG
129 ACTA
* * * ** * * * * * * *
18040715 TCTTCGACCTGCTTTCTGCTGCTACAAAAATGCCAAATCTGTTGTCTTCGATCTGCTTTCCGTCG
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * * * *
18040780 CTACGGAAACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGC
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTAC
18040845 TA
131 TA
* * *
18040847 TCTTCGATCTGCTCTCCGCAACTACAGAGACGCCAAATCTATTATCTTCGATCTACTCTCCGCCA
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * *
18040912 CTACAGAGACGTCAAATCTGCTATCTTCGATCTGCTCTCTGCCACTGCTCTCCGCTACTATAGAG
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTG--CTCT--C-C-G-----C-C-ACTACAGAG
**
18040977 ACGCCAAATCTGTTA
118 ACGCCAAATCTACTA
* *
18040992 TCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCA
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * * * * *
18041057 CTACAGAGATGCCAAATATGTTATTTTTGATCTGCTCTCTGCAACTACAGAGACGCCAAATCTAC
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTAC
18041122 TA
131 TA
* * * *
18041124 TCTTCGATCTGCTCTCCGCCACTACAAAGACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCA
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
*** ** * * ** * *
18041189 CTACAGAGACGTCTCCTCTCTGCCA-CTACAGAGAC-GC-CAAATCTACTATCTTC-GATTTGCT
66 CTACAGAGACG-C-CAAATCTGTTATCTTC-GA-TCTGCTC---TCCGCCA-CTACAGA---G--
* *** *
18041250 CTCCGCCACTATAGAGACGCCA
118 --ACGCCA--A-ATCTA--CTA
** * ** * *
18041272 -AATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACGCCAAATCTGCTATCTTCGATTTG
1 TCTTC----------GATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTG
* * *
18041336 CTCTCCGCCACTATAGAGACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
56 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
18041401 CCAAATCTACTA
121 CCAAATCTACTA
* * ** * *
18041413 TCTTCGATTTGCTCTTCGCCACTACAGAGACGCCAAATCTACTATCTCCGATCTACTCTCCGCCA
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * **
18041478 CTACAGAGACGCCAAATCTGTTATCTTCGATCCGCTCTCCGCCACTACAGAGACGACAAATCTGT
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTAC
18041543 TA
131 TA
* * * *
18041545 TATTTGATCTGCTCTCCGCCACTACATAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * *
18041610 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTAT
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTAC
18041675 TA
131 TA
* * * *
18041677 TCTTCAATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATATTCGATCTGCTCTCCGCCA
1 TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
* * *
18041742 CTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCT
66 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCT
18041805 GTTATCTGCT
Statistics
Matches: 882, Mismatches: 158, Indels: 100
0.77 0.14 0.09
Matches are distributed among these distances:
130 56 0.06
131 22 0.02
132 546 0.62
133 3 0.00
134 14 0.02
135 1 0.00
136 8 0.01
137 4 0.00
138 1 0.00
139 2 0.00
141 3 0.00
142 2 0.00
143 12 0.01
144 2 0.00
145 110 0.12
146 7 0.01
147 2 0.00
148 2 0.00
150 1 0.00
152 3 0.00
153 6 0.01
154 1 0.00
155 9 0.01
156 5 0.01
157 60 0.07
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCA
CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTAC
TA
Found at i:18041234 original size:113 final size:113
Alignment explanation
Indices: 18041091--18041312 Score: 381
Period size: 113 Copynumber: 2.0 Consensus size: 113
18041081 TTTTGATCTG
18041091 CTCTCTGCAACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAAAGACG
1 CTCTCTGCAACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAAAGACG
* * *
18041156 CCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACGTCTC
66 CCAAATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACGTCTC
* * * *
18041204 CTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTCCGCCACTATAGAGACG
1 CTCTCTGCAACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAAAGACG
18041269 CCAAATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACG
66 CCAAATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACG
18041313 CCAAATCTGC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 102 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (113 bp):
CTCTCTGCAACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAAAGACG
CCAAATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACGTCTC
Found at i:18041250 original size:69 final size:69
Alignment explanation
Indices: 18041135--18041268 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
18041125 CTTCGATCTG
* * *
18041135 CTCTCCGCCACTACAAAGACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACG
1 CTCTCCGCCACTACAAAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
18041200 TCTC
66 TCTC
* * * *
18041204 CTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTCCGCCACTATAGAGACG
1 CTCTCCGCCACTACAAAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
18041269 CCAAATCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (69 bp):
CTCTCCGCCACTACAAAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
TCTC
Found at i:18041338 original size:157 final size:157
Alignment explanation
Indices: 18041047--18041355 Score: 420
Period size: 157 Copynumber: 2.0 Consensus size: 157
18041037 CTTCGATCTG
* ** * * *
18041047 CTCTCCGCCACTACAGAGATGCCAAATATGTTATTTTTGATCTGCTCTCTGCAACTACAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATATACTATCTTCGATCTGCTCTCCGCAACTACAGAGACG
* * * *
18041112 CCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAAAGACGCCAAATCTATTATCTTTGATC
66 CCAAATCTACTATCTTCGATATGCTCTCCACCACTACAAAGACGCCAAATCTACTATCTTCGATC
*
18041177 TGCTCTCTGCCACTACAGAGACGTCTC
131 TGCTCTCCGCCACTACAGAGACGTCTC
* * * * *
18041204 CTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTCCGCCACTATAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATATACTATCTTCGATCTGCTCTCCGCAACTACAGAGACG
* * * * *
18041269 CCAAATCTATTATCTTCGATATGCTCTCTACCACTACAGAGACGCCAAATCTGCTATCTTCGATT
66 CCAAATCTACTATCTTCGATATGCTCTCCACCACTACAAAGACGCCAAATCTACTATCTTCGATC
*
18041334 TGCTCTCCGCCACTATAGAGAC
131 TGCTCTCCGCCACTACAGAGAC
18041356 ACCAAATCTA
Statistics
Matches: 130, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
157 130 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (157 bp):
CTCTCCGCCACTACAGAGACGCCAAATATACTATCTTCGATCTGCTCTCCGCAACTACAGAGACG
CCAAATCTACTATCTTCGATATGCTCTCCACCACTACAAAGACGCCAAATCTACTATCTTCGATC
TGCTCTCCGCCACTACAGAGACGTCTC
Found at i:18041353 original size:88 final size:88
Alignment explanation
Indices: 18041204--18041811 Score: 874
Period size: 88 Copynumber: 6.9 Consensus size: 88
18041194 GAGACGTCTC
* ** * *
18041204 CTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTCCGCCACTATAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
18041269 CCAAATCTATTATCTTCGATATG
66 CCAAATCTGTTATCTTCGATCTG
** * * * *
18041292 CTCTCTACCACTACAGAGACGCCAAATCTGCTATCTTCGATTTGCTCTCCGCCACTATAGAGACA
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
*
18041357 CCAAATCTATTATCTTCGATCTG
66 CCAAATCTGTTATCTTCGATCTG
** * *
18041380 CTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTTCGCCACTACAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
** * *
18041445 CCAAATCTACTATCTCCGATCTA
66 CCAAATCTGTTATCTTCGATCTG
*
18041468 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCCGCTCTCCGCCACTACAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
18041533 ACAAATCTGTTATATTTGATCTG
66 CCAAATCTGTTATCTTCGATCTG
* *
18041556 CTCTCCGCCACTACATAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
18041621 CCAAATCTGTTATCTTCGATCTG
66 CCAAATCTGTTATCTTCGATCTG
* * * * * *
18041644 CTCTCCACCGCTACAGAGACGCCAAATCTATTATCTTCAATCTGCTCTCCGCCGCTACAGAGATG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
*
18041709 CCAAATCTGTTATATTCGATCTG
66 CCAAATCTGTTATCTTCGATCTG
* * *
18041732 CTCTCCGCCACTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACG
1 CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
18041797 CCAAATCTGTTATCT
66 CCAAATCTGTTATCT
18041812 GCTTCAAGGA
Statistics
Matches: 474, Mismatches: 46, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 474 1.00
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (88 bp):
CTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
CCAAATCTGTTATCTTCGATCTG
Found at i:18043085 original size:5 final size:5
Alignment explanation
Indices: 18043075--18043143 Score: 65
Period size: 5 Copynumber: 14.0 Consensus size: 5
18043065 TTGGCCTCTC
* *
18043075 CTTTT CTTTT CTTTT CTTCT -TTTT CTTTT -TCTT CTTTAAT -TATTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTT--T CT-TTT
18043120 CTTTT CTTTT CTTTT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
18043144 ATTGATCTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
4 10 0.19
5 39 0.72
6 2 0.04
7 3 0.06
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:18047770 original size:131 final size:132
Alignment explanation
Indices: 18047304--18047959 Score: 554
Period size: 132 Copynumber: 4.9 Consensus size: 132
18047294 TAGAAAATAC
** * **
18047304 GAGTGAAATTTCAAAGAAACATTCGATTATTTTGAACAAACTG-GGGATTGCAACCCAGCACGAT
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAAC-GAGAAATTGCAACCCAGCACGAT
* * * * *
18047368 AGGGCACTATTCCCCGAATTGCCAAACATCGAACATT-TCTTCCGTTTTCAA-GAGTTTTTAGAA
65 AGGGCACGATT-CCCGAATTGCCAAACACCGAACATTGCCTT-CGTTTTAAAGGA-TTTTTAAAA
*
18047431 -AACGT
127 GAACAT
* * ** * * **
18047436 GAGTGAAATTCCAAAGGGATCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * * * * *
18047501 GGGCACGATTCTCGAATTGCCAAACATCGAACATCGCATTTGCTTTAAAGGGTTTTCTAAAAAAA
66 GGGCACGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTT-T--AAAAG
18047566 AACAT
128 AACAT
* * ** **
18047571 GAGTGAAAACTT-AAAGGAACGTTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGAT
1 GAGTG-AAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* * ** * * *
18047635 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTTGTTTTAAAGGATTTTTAGAAGAT
65 AGGGCACGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAA
18047700 C-T
130 CAT
* * * * *
18047702 GAGTAAAATTTCAAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * * * * *
18047767 GGGCGCGATTCCGCAAATTGCCAAATATCAAACTTTGCCTTCGTTTTAAAGAATTTTTAAAAG-G
66 GGGCACGATTCC-CGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAA
*
18047831 CAC
130 CAT
** * * *
18047834 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * * * * *
18047899 GGGTACTATTCCGCAAATTGCCAAATATCGAATC-TCGTCTTCGTTTTAAAGAATTTTTAAA
66 GGGCACGATTCC-CGAATTGCCAAACACCGAA-CATTGCCTTCGTTTTAAAGGATTTTTAAA
18047960 TGAATACTTA
Statistics
Matches: 426, Mismatches: 86, Indels: 24
0.79 0.16 0.04
Matches are distributed among these distances:
130 5 0.01
131 94 0.22
132 219 0.51
133 1 0.00
134 4 0.01
135 99 0.23
136 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCCGAATTGCCAAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAAGAAC
AT
Found at i:18047817 original size:267 final size:267
Alignment explanation
Indices: 18047316--18047923 Score: 583
Period size: 266 Copynumber: 2.3 Consensus size: 267
18047306 GTGAAATTTC
** **
18047316 AAAGAAACATTCGATTATTTTGAACAAACTGGGGATTGCAACCCAGCACGATAGGGCACTATTCC
1 AAAGAAACATTCGATTATTTTGAACAAACTGGAAATCACAACCCAGCACGATAGGGCACTATTCC
* * * *
18047381 CCGAATTGCCAAACATCGAACATTTCTTCCGTTTTCAAGAGTTTTTAGAAAACGTGAGTGAAATT
66 CCGAATTGCCAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACGTGAGTAAAATT
* * * *
18047446 CCAAAGGGATCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATT
131 CCAAAGGGATATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATT
* *
18047511 CTCGAATTGCCAAACATCGAACATCGCATTTGCTTTAAAGGGTTTTCTAAAAAAAAACATGAGTG
196 CTCGAATTGCCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTAAAAAAAAACATGAGTG
18047576 AAAACTT
261 AAAACTT
* *
18047583 AAAGGAACGTTCGATTATTTTGAACAAAC-GAGAAATCACAACCCAGCACGATAGGGCA-TGATT
1 AAAGAAACATTCGATTATTTTGAACAAACTG-GAAATCACAACCCAGCACGATAGGGCACT-ATT
* ** * *
18047646 -CCCGAATTGTCAAACACCGAGTATTGCCTT-TGTTTTAAAG-GATTTTTAGAAGATC-TGAGTA
64 CCCCGAATTGCCAAACACCGAACATT-CCTTCCGTTTTAAAGAG-TTTTTAGAA-AACGTGAGTA
* * * * * ** * *
18047707 AAATTTCAAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCG
126 AAATTCCAAAGGGATATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCA
* * * * * ** **
18047772 CGATTC-CGCAAATTGCCAAATATCAAACTTTGCCTTCGTTTTAAAGAATTTT-T---AAAAGGC
191 CGATTCTCG--AATTGCCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTAAAAAAAAAC
* **
18047832 ACGAGTGAAATTTT
254 ATGAGTGAAAACTT
* ** * ** * * *
18047846 GAAGGGATATTCGATTATTTTGAACAAAC-GCGAAATTGCAACCCAACACGTTAGGGTACTATTC
1 AAAGAAACATTCGATTATTTTGAACAAACTG-GAAATCACAACCCAGCACGATAGGGCACTATTC
* *
18047910 CGCAAATTGCCAAA
65 CCCGAATTGCCAAA
18047924 TATCGAATCT
Statistics
Matches: 277, Mismatches: 55, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
263 67 0.24
264 12 0.04
265 3 0.01
266 104 0.38
267 91 0.33
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (267 bp):
AAAGAAACATTCGATTATTTTGAACAAACTGGAAATCACAACCCAGCACGATAGGGCACTATTCC
CCGAATTGCCAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACGTGAGTAAAATT
CCAAAGGGATATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATT
CTCGAATTGCCAAACATCAAACATCGCATTCGCTTTAAAGGGTTTTCTAAAAAAAAACATGAGTG
AAAACTT
Found at i:18048389 original size:2 final size:2
Alignment explanation
Indices: 18048384--18048417 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18048374 AAAAATAGGG
18048384 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
18048418 TTGAAATGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18049098 original size:20 final size:20
Alignment explanation
Indices: 18049073--18049128 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
18049063 AAAAAATTAT
18049073 TTTATTTTAATTAAATAATA
1 TTTATTTTAATTAAATAATA
* *
18049093 TTTATTTCTATTTTAAATATTA
1 TTTATTT-TA-ATTAAATAATA
18049115 TATTATGTTTAATT
1 T-TTAT-TTTAATT
18049129 CTTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTTTAATTAAATAATA
Found at i:18052337 original size:34 final size:34
Alignment explanation
Indices: 18052294--18052361 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18052284 CAACATTTTT
18052294 TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
1 TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
*
18052328 TATGTAAGACAACTAAATAGAAGAGGATTGCAAG
1 TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
18052362 AATCTTGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.24, T:0.19
Consensus pattern (34 bp):
TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
Found at i:18053369 original size:52 final size:52
Alignment explanation
Indices: 18053286--18053394 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
18053276 TGCCAATAGA
* * *
18053286 CAGAACCCCACCTTCAACGCCGGCGTCTGGTTCACTGCCATCTCTTCTATCT
1 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
18053338 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
1 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
18053390 CAGAG
1 CAGAG
18053395 TCTAACTGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.18, C:0.40, G:0.16, T:0.26
Consensus pattern (52 bp):
CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
Found at i:18053728 original size:12 final size:12
Alignment explanation
Indices: 18053713--18053769 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
18053703 AATTATTAGT
*
18053713 TAAATAATTTTA
1 TAAATATTTTTA
18053725 TAAAATATTTTTA
1 T-AAATATTTTTA
* *
18053738 TTACTATTTTTA
1 TAAATATTTTTA
*
18053750 TAAATTGGTTTTTA
1 TAAA-T-ATTTTTA
18053764 TAAATA
1 TAAATA
18053770 AAAAATTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
12 12 0.34
13 13 0.37
14 10 0.29
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:18054443 original size:7 final size:7
Alignment explanation
Indices: 18054403--18054552 Score: 86
Period size: 7 Copynumber: 21.1 Consensus size: 7
18054393 ACTAATTAAT
18054403 CTAAACC
1 CTAAACC
18054410 CTAAATCC
1 CTAAA-CC
**
18054418 CTAGCCC
1 CTAAACC
*
18054425 CTAACCC
1 CTAAACC
18054432 CTAAACC
1 CTAAACC
18054439 CTAAACC
1 CTAAACC
*
18054446 TTAAACC
1 CTAAACC
* *
18054453 ATAAAAC
1 CTAAACC
*
18054460 ATAAACC
1 CTAAACC
* *
18054467 TTAACCC
1 CTAAACC
18054474 CTAAACC
1 CTAAACC
*
18054481 TTAAACC
1 CTAAACC
* *
18054488 CCAACCC
1 CTAAACC
*
18054495 CTTAAAAC
1 C-TAAACC
*
18054503 TTAAACC
1 CTAAACC
18054510 CT-AACC
1 CTAAACC
* *
18054516 TTTAACC
1 CTAAACC
*
18054523 CATAAAAC
1 C-TAAACC
*
18054531 ATAAACC
1 CTAAACC
* *
18054538 ATAATCC
1 CTAAACC
18054545 CTAAACC
1 CTAAACC
18054552 C
1 C
18054553 ATAATCCATA
Statistics
Matches: 108, Mismatches: 31, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
6 5 0.05
7 91 0.84
8 12 0.11
ACGTcount: A:0.42, C:0.38, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:18054505 original size:22 final size:21
Alignment explanation
Indices: 18054423--18054515 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
18054413 AATCCCTAGC
* *
18054423 CCCTAACCCCTAAACCCTAAA
1 CCCTAACCCCTAAAACTTAAA
* * * *
18054444 CCTTAAACCATAAAACATAAA
1 CCCTAACCCCTAAAACTTAAA
* *
18054465 CCTTAACCCCTAAACCTTAAA
1 CCCTAACCCCTAAAACTTAAA
*
18054486 CCCCAACCCCTTAAAACTTAAA
1 CCCTAACCCC-TAAAACTTAAA
18054508 CCCTAACC
1 CCCTAACC
18054516 TTTAACCCAT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
21 41 0.71
22 17 0.29
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (21 bp):
CCCTAACCCCTAAAACTTAAA
Found at i:18054529 original size:28 final size:29
Alignment explanation
Indices: 18054497--18054565 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
18054487 CCCAACCCCT
* * * *
18054497 TAAAACTTAAACCCTAA-CCTTTAACCCA
1 TAAAACATAAACCATAATCCCTAAACCCA
18054525 TAAAACATAAACCATAATCCCTAAACCCA
1 TAAAACATAAACCATAATCCCTAAACCCA
**
18054554 TAATCCATAAAC
1 TAAAACATAAAC
18054566 TTTACAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAAACATAAACCATAATCCCTAAACCCA
Found at i:18054554 original size:15 final size:15
Alignment explanation
Indices: 18054519--18054565 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
18054509 CCTAACCTTT
**
18054519 AACCCATAAAACATA
1 AACCCATAATCCATA
*
18054534 AA-CCATAATCCCTA
1 AACCCATAATCCATA
18054548 AACCCATAATCCATA
1 AACCCATAATCCATA
18054563 AAC
1 AAC
18054566 TTTACAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:18054656 original size:19 final size:18
Alignment explanation
Indices: 18054632--18054674 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
18054622 CTATAATGAT
18054632 AATTAATTCAATATTTTAA
1 AATTAATT-AATATTTTAA
18054651 AATTAA-TAATATTTTAA
1 AATTAATTAATATTTTAA
18054668 AATTAAT
1 AATTAAT
18054675 ACTATCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.70
18 1 0.04
19 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAATTAATATTTTAA
Found at i:18054876 original size:40 final size:40
Alignment explanation
Indices: 18054797--18054943 Score: 124
Period size: 39 Copynumber: 3.7 Consensus size: 40
18054787 TCATATTTGT
* * * * **
18054797 GGCGTTTTTCAAAAAACGCCGCTAAAGATC-AGCACTAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGATCTTTAGC
*
18054836 GGCGTTTTTTAAAAAGCGCCGCTAAAGGT-G-TACTTATAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGAT-CTT-TAGC
* *
18054876 GGCATTTCTTAAAAAAGCGCCGCTAATA-CTCGATCTTTAGC
1 GGCGTTT-TTTAAAAAGCGCCGCTAA-AGCTCGATCTTTAGC
* *
18054917 GGCG-ATTTTAAAAAGCGACGCTAAAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAAAGC
18054944 CACTAAATTC
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 44 0.51
40 11 0.13
41 25 0.29
42 5 0.06
43 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (40 bp):
GGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGATCTTTAGC
Found at i:18056654 original size:22 final size:21
Alignment explanation
Indices: 18056628--18056669 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18056618 TTTTTCGTTC
18056628 TTTTTCTTTGCTGCTGTTTTTT
1 TTTTTCTTTGCT-CTGTTTTTT
* *
18056650 TTTTTTTTTGCTTTGTTTTT
1 TTTTTCTTTGCTCTGTTTTT
18056670 GCTTGTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.79
Consensus pattern (21 bp):
TTTTTCTTTGCTCTGTTTTTT
Found at i:18058515 original size:30 final size:30
Alignment explanation
Indices: 18058479--18058566 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
18058469 AATAAACTCA
18058479 AACCGCCTATGTCCGAGTGATATGAACTTG
1 AACCGCCTATGTCCGAGTGATATGAACTTG
* *
18058509 AACCGCCTATGTCCGGGTGATATGAATTTG
1 AACCGCCTATGTCCGAGTGATATGAACTTG
*
18058539 AACCGCCAATGTCCGAGTGATATGAACT
1 AACCGCCTATGTCCGAGTGATATGAACT
18058567 GCTCTGCGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (30 bp):
AACCGCCTATGTCCGAGTGATATGAACTTG
Found at i:18060431 original size:18 final size:19
Alignment explanation
Indices: 18060410--18060448 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
18060400 AAATAAGTAA
18060410 TAATATATTAA-TATATTT
1 TAATATATTAAGTATATTT
18060428 TAATATATTAAGTATATTT
1 TAATATATTAAGTATATTT
18060447 TA
1 TA
18060449 TACTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAATATATTAAGTATATTT
Found at i:18060500 original size:17 final size:17
Alignment explanation
Indices: 18060462--18060494 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18060452 TCAACATTTT
18060462 ATTTTAACATATTTAAA
1 ATTTTAACATATTTAAA
*
18060479 ATTTTAATATATTTAA
1 ATTTTAACATATTTAA
18060495 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAACATATTTAAA
Found at i:18060503 original size:36 final size:38
Alignment explanation
Indices: 18060457--18060528 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
18060447 TATACTCAAC
18060457 ATTTTATTTTAACATATTTAAAATTTT-AATATATTTA
1 ATTTTATTTTAACATATTTAAAATTTTAAATATATTTA
** *
18060494 ATTTT-TTTTAAGTTTTTTAAAATTTTAAATATATT
1 ATTTTATTTTAACATATTTAAAATTTTAAATATATT
18060529 AAAAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (38 bp):
ATTTTATTTTAACATATTTAAAATTTTAAATATATTTA
Found at i:18060733 original size:63 final size:63
Alignment explanation
Indices: 18060612--18060731 Score: 215
Period size: 63 Copynumber: 1.9 Consensus size: 63
18060602 ATATATTGAG
*
18060612 TATATTAAAATTTTAAAATTGATTATACTTAACTTTTTTTTAATATATTTAATTTTTTAGAAA
1 TATATTAAAATTTTAAAATTGATTATACTTAACTGTTTTTTAATATATTTAATTTTTTAGAAA
*
18060675 TATATTAAAATTTTAAAATTGGTTATACTTAAC-GTTTTTTAATATATTTAATTTTTT
1 TATATTAAAATTTTAAAATTGATTATACTTAACTGTTTTTTAATATATTTAATTTTTT
18060732 TAAGTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 23 0.42
63 32 0.58
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (63 bp):
TATATTAAAATTTTAAAATTGATTATACTTAACTGTTTTTTAATATATTTAATTTTTTAGAAA
Found at i:18061316 original size:20 final size:20
Alignment explanation
Indices: 18061293--18061348 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
18061283 TGACCAATTA
18061293 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
18061313 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
18061333 TAATATATATTTTTAA
1 TAATATATATTTTTAA
18061349 ATAAATTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:18061639 original size:20 final size:20
Alignment explanation
Indices: 18061600--18061659 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
18061590 ATTTAAATGT
*
18061600 TTTATTATTAAAAAAT-ATA
1 TTTAATATTAAAAAATAATA
18061619 TTTAATATTAAAAAATAATA
1 TTTAATATTAAAAAATAATA
*
18061639 TTTAAAATTTAAAAAAATAAT
1 TTTAATA-TT-AAAAAATAAT
18061660 TTCAAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 15 0.42
20 9 0.25
21 2 0.06
22 10 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAATATTAAAAAATAATA
Found at i:18061661 original size:20 final size:20
Alignment explanation
Indices: 18061609--18061666 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
18061599 TTTTATTATT
*
18061609 AAAAAATATATTTAATATTAA
1 AAAAAATA-ATTTAAAATTAA
*
18061630 AAAATAAT-ATTTAAAATTTA
1 AAAA-AATAATTTAAAATTAA
*
18061650 AAAAAATAATTTCAAAT
1 AAAAAATAATTTAAAAT
18061667 ATATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.09
20 22 0.69
21 4 0.12
22 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATAATTTAAAATTAA
Found at i:18066035 original size:24 final size:24
Alignment explanation
Indices: 18066008--18066064 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
18065998 CTATTCGGAG
*
18066008 CTTCCCGATATGATTCTTTGTGAA
1 CTTCCCGATAAGATTCTTTGTGAA
* *
18066032 CTTCCCGACAAGGTTCTTTGTGAA
1 CTTCCCGATAAGATTCTTTGTGAA
18066056 CTTCCCGAT
1 CTTCCCGAT
18066065 TATGGCTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (24 bp):
CTTCCCGATAAGATTCTTTGTGAA
Found at i:18066083 original size:24 final size:24
Alignment explanation
Indices: 18065924--18066090 Score: 80
Period size: 24 Copynumber: 7.0 Consensus size: 24
18065914 ACACACCTTA
*
18065924 GCTCTTATGAGCTTCCCG-TTAATTG
1 GCTCTTGTGAGCTTCCCGATT-A-TG
* *
18065949 GCTATTTGTGAGCTTCCCGATAAT-
1 GCT-CTTGTGAGCTTCCCGATTATG
* *
18065973 GCTCGCT-TGAACTTCCCGA-TATTG
1 GCTC-TTGTGAGCTTCCCGATTA-TG
*
18065997 GCTATTCG-GAGCTTCCCGA-TATG
1 GCTCTT-GTGAGCTTCCCGATTATG
** * * *
18066020 ATTCTTTGTGAACTTCCCGA-CAAG
1 GCTC-TTGTGAGCTTCCCGATTATG
* *
18066044 GTTCTTTGTGAACTTCCCGATTATG
1 GCTC-TTGTGAGCTTCCCGATTATG
*
18066069 GCTCTTATGAGCTTCCCG-TTAT
1 GCTCTTGTGAGCTTCCCGATTAT
18066091 ATAGCCCGGA
Statistics
Matches: 110, Mismatches: 22, Indels: 22
0.71 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 21 0.19
24 64 0.58
25 9 0.08
26 14 0.13
27 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (24 bp):
GCTCTTGTGAGCTTCCCGATTATG
Found at i:18068394 original size:63 final size:63
Alignment explanation
Indices: 18068322--18068448 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
18068312 CTGTTAGTAA
18068322 TTCTTGTATTATAGTAGATGATTGTGTTCTTACATTATCTTTTTGGTAGTTCTAATAAATGGT
1 TTCTTGTATTATAGTAGATGATTGTGTTCTTACATTATCTTTTTGGTAGTTCTAATAAATGGT
18068385 TTCTTGTATTATAGTAGATGATTGTGTTCTTACATTATCTTTTTGGTAGTTCTAATAAATGGT
1 TTCTTGTATTATAGTAGATGATTGTGTTCTTACATTATCTTTTTGGTAGTTCTAATAAATGGT
18068448 T
1 T
18068449 GCCTTGTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (63 bp):
TTCTTGTATTATAGTAGATGATTGTGTTCTTACATTATCTTTTTGGTAGTTCTAATAAATGGT
Found at i:18070117 original size:28 final size:28
Alignment explanation
Indices: 18070077--18070133 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18070067 ATATTGAACT
18070077 ATCAAAATATTCGAATATTGTTTATAGA
1 ATCAAAATATTCGAATATTGTTTATAGA
18070105 ATCAAAATATTCGAATATTGTTTATAGA
1 ATCAAAATATTCGAATATTGTTTATAGA
18070133 A
1 A
18070134 GTAAGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (28 bp):
ATCAAAATATTCGAATATTGTTTATAGA
Found at i:18071523 original size:21 final size:21
Alignment explanation
Indices: 18071499--18071539 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18071489 ACCTTTTCTA
18071499 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
18071520 AAGTTAAAAGGTAAAACTAT
1 AAGTTAAAAGGTAAAACTAT
18071540 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:18073423 original size:10 final size:10
Alignment explanation
Indices: 18073380--18073440 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
18073370 AAGAACATAA
18073380 AAAAAATTAT
1 AAAAAATTAT
18073390 --AAAATTAT
1 AAAAAATTAT
* *
18073398 TAGAAATTGAT
1 AAAAAATT-AT
* *
18073409 TAAAAATCAT
1 AAAAAATTAT
*
18073419 AAAAAATTAA
1 AAAAAATTAT
18073429 AAAAAATTAT
1 AAAAAATTAT
18073439 AA
1 AA
18073441 TAATAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 8 0.20
10 25 0.61
11 8 0.20
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:18074096 original size:18 final size:18
Alignment explanation
Indices: 18074045--18074101 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
18074035 TATTGAAATT
* *
18074045 ATATTTATATTAAATAAA
1 ATATTTATGTTAAATATA
18074063 ATA-TTATGAATT-AATATA
1 ATATTTATG--TTAAATATA
18074081 ATATTTATGTTAAATAGTA
1 ATATTTATGTTAAATA-TA
18074100 AT
1 AT
18074102 TGCAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 6 0.19
18 15 0.47
19 11 0.34
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATTTATGTTAAATATA
Found at i:18074719 original size:16 final size:13
Alignment explanation
Indices: 18074688--18074747 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 13
18074678 GTGAAAAAAT
18074688 AATAATAATTTAA
1 AATAATAATTTAA
18074701 AATAATAAATTTATTA
1 AATAAT-AATTTA--A
18074717 AATATATTATATTTAA
1 AATA-A-TA-ATTTAA
*
18074733 AA-AATAATTAAA
1 AATAATAATTTAA
18074745 AAT
1 AAT
18074748 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
12 7 0.18
13 8 0.21
14 7 0.18
15 1 0.03
16 8 0.21
17 2 0.05
18 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAATAATTTAA
Found at i:18076315 original size:15 final size:14
Alignment explanation
Indices: 18076256--18076337 Score: 94
Period size: 14 Copynumber: 5.8 Consensus size: 14
18076246 GTGAACCCTC
*
18076256 ATGCGAACCCCTAT
1 ATGCGAACCCCTGT
* *
18076270 AGGC-AAGCCCTTGT
1 ATGCGAA-CCCCTGT
* *
18076284 ATGCGAGCCCTTGT
1 ATGCGAACCCCTGT
18076298 ATGCGAACACCCTGT
1 ATGCGAAC-CCCTGT
18076313 ATGCGAACCCCTGT
1 ATGCGAACCCCTGT
18076327 ATGCGAACCCC
1 ATGCGAACCCC
18076338 CTACATGTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
13 2 0.03
14 42 0.72
15 14 0.24
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (14 bp):
ATGCGAACCCCTGT
Found at i:18076315 original size:29 final size:29
Alignment explanation
Indices: 18076256--18076339 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
18076246 GTGAACCCTC
* * *
18076256 ATGCGAACCCCTATAGGC-AAGC-CCTTGT
1 ATGCGAACCCCTGTATGCGAA-CACCCTGT
* *
18076284 ATGCGAGCCCTTGTATGCGAACACCCTGT
1 ATGCGAACCCCTGTATGCGAACACCCTGT
*
18076313 ATGCGAACCCCTGTATGCGAACCCCCT
1 ATGCGAACCCCTGTATGCGAACACCCT
18076340 ACATGTGCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 15 0.33
29 31 0.67
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (29 bp):
ATGCGAACCCCTGTATGCGAACACCCTGT
Found at i:18076597 original size:23 final size:23
Alignment explanation
Indices: 18076527--18076673 Score: 130
Period size: 23 Copynumber: 6.6 Consensus size: 23
18076517 ATGAATATCT
18076527 TGCGAACCCT--ATA-TGTTAATTA
1 TGCGAACCCTACATATTG-TAA-TA
*
18076549 TGCAAACCCTACATA-TGT-ATA
1 TGCGAACCCTACATATTGTAATA
*
18076570 TGCGAACACTACATATTGTAATA
1 TGCGAACCCTACATATTGTAATA
18076593 TGCGAACCCTACATATTGTAATA
1 TGCGAACCCTACATATTGTAATA
* * *
18076616 TGTGAACCCTATATGTT-T-ATCA
1 TGCGAACCCTACATATTGTAAT-A
* * *
18076638 TGCGAGCCCTATATA-TGTATTTA
1 TGCGAACCCTACATATTGTA-ATA
18076661 TGCGAACCCTACA
1 TGCGAACCCTACA
18076674 AGTAGTAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
21 18 0.17
22 28 0.27
23 52 0.50
24 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (23 bp):
TGCGAACCCTACATATTGTAATA
Found at i:18076668 original size:45 final size:42
Alignment explanation
Indices: 18076527--18076671 Score: 146
Period size: 45 Copynumber: 3.3 Consensus size: 42
18076517 ATGAATATCT
* *
18076527 TGCGAACCCTATATGTTAATTATGCAAACCCTACATATGTATA
1 TGCGAACCCTATATGTTTA-TATGCGAACCCTACATATGTATA
* * *
18076570 TGCGAACACTACATATTGTAATATGCGAACCCTACATATTGTAATA
1 TGCGAACCCTATATGTT-T-ATATGCGAACCCTACATA-TGT-ATA
* * *
18076616 TGTGAACCCTATATGTTTATCATGCGAGCCCTATATATGTATTTA
1 TGCGAACCCTATATGTTTAT-ATGCGAACCCTACATATGTA--TA
18076661 TGCGAACCCTA
1 TGCGAACCCTA
18076672 CAAGTAGTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
43 15 0.18
44 21 0.25
45 31 0.37
46 16 0.19
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (42 bp):
TGCGAACCCTATATGTTTATATGCGAACCCTACATATGTATA
Found at i:18076729 original size:15 final size:15
Alignment explanation
Indices: 18076705--18076760 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
18076695 TGTATTTAAT
18076705 TGTGCGAACCCTGTA
1 TGTGCGAACCCTGTA
*
18076720 TGTGCAAACCCTAG-A
1 TGTGCGAACCCT-GTA
18076735 TGTGCGAACCCTGTA
1 TGTGCGAACCCTGTA
*
18076750 TGTGTGAACCC
1 TGTGCGAACCC
18076761 AACATGTGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (15 bp):
TGTGCGAACCCTGTA
Found at i:18076760 original size:30 final size:30
Alignment explanation
Indices: 18076705--18076769 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
18076695 TGTATTTAAT
* *
18076705 TGTGCGAACCCTGTATGTGCAAACCCTAGA
1 TGTGCGAACCCTGTATGTGCAAACCCAACA
**
18076735 TGTGCGAACCCTGTATGTGTGAACCCAACA
1 TGTGCGAACCCTGTATGTGCAAACCCAACA
18076765 TGTGC
1 TGTGC
18076770 TGTGAACCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (30 bp):
TGTGCGAACCCTGTATGTGCAAACCCAACA
Found at i:18078520 original size:25 final size:25
Alignment explanation
Indices: 18078486--18078534 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18078476 AGATGACACC
18078486 TAGTTGAAAGATGGAAGTTAGAACG
1 TAGTTGAAAGATGGAAGTTAGAACG
* *
18078511 TAGTTGAAAGGTGGAAGTTGGAAC
1 TAGTTGAAAGATGGAAGTTAGAAC
18078535 ATGAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (25 bp):
TAGTTGAAAGATGGAAGTTAGAACG
Found at i:18081855 original size:90 final size:90
Alignment explanation
Indices: 18081697--18081929 Score: 267
Period size: 90 Copynumber: 2.6 Consensus size: 90
18081687 ACTACTATTC
* * * ** *
18081697 AAAATATTTGTATTATTTTGGTATCCATAAATCAATTTTAGTCTGTTTTATTTATTGCTCAAAAT
1 AAAATGTTTGTATTATTTTGGTATCCATAAATAAATTTTAGTCTGTATTATTTACCGATCAAAAT
18081762 TTATATTTTCATATATC-AATTTTGT
66 TTATATTTTCATATATCAAATTTT-T
*
18081787 AAAATGTTTGTATTATTTTTGG-ATCCGTAAA-AATATTTTAGTCTGTATTATTTACCGATCAAA
1 AAAATGTTTGTATTA-TTTTGGTATCCATAAATAA-ATTTTAGTCTGTATTATTTACCGATCAAA
*
18081850 TTTTATATTTTCATATATCAAATTTTT
64 ATTTATATTTTCATATATCAAATTTTT
* *** ** *
18081877 AAAATGTTCGTATTAATTTT-GTATATGTAAATAAAAATTAGTCGGTATTATTT
1 AAAATGTTTGTATT-ATTTTGGTATCCATAAATAAATTTTAGTCTGTATTATTT
18081930 GTTAGTCAAT
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
89 2 0.02
90 106 0.86
91 15 0.12
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (90 bp):
AAAATGTTTGTATTATTTTGGTATCCATAAATAAATTTTAGTCTGTATTATTTACCGATCAAAAT
TTATATTTTCATATATCAAATTTTT
Found at i:18084741 original size:19 final size:19
Alignment explanation
Indices: 18084694--18084735 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
18084684 AAGAAATTCA
* *
18084694 TTTAATTTTTAATTTAAAC
1 TTTAATTATTAAGTTAAAC
18084713 TTTAATTATTAAGTTAAAC
1 TTTAATTATTAAGTTAAAC
18084732 TTTA
1 TTTA
18084736 TGTATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATTATTAAGTTAAAC
Found at i:18088714 original size:81 final size:81
Alignment explanation
Indices: 18088579--18088744 Score: 260
Period size: 81 Copynumber: 2.0 Consensus size: 81
18088569 CGTTACCTCC
* * * *
18088579 TTAACATCGGTCCTACGTGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAAATGATG
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTAGGATATCCAAATGATA
18088644 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
* * * *
18088660 TTAACAGCGGTCCTACATGGCCGTCTAAATGAGTTTTAAATGCCAACTAGGATATCCAGATGCTA
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTAGGATATCCAAATGATA
18088725 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
18088741 TTAA
1 TTAA
18088745 TTAAATAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (81 bp):
TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTAGGATATCCAAATGATA
GGATGAAAATAGGTTT
Found at i:18095866 original size:23 final size:23
Alignment explanation
Indices: 18095836--18095882 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18095826 TTAATTTGGT
*
18095836 AAAAATAAGGTTAAATAATTATA
1 AAAAATAAAGTTAAATAATTATA
18095859 AAAAATAAAGTTAAATAATTATA
1 AAAAATAAAGTTAAATAATTATA
18095882 A
1 A
18095883 TATTTAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAAATAAAGTTAAATAATTATA
Found at i:18105617 original size:10 final size:9
Alignment explanation
Indices: 18105577--18105688 Score: 64
Period size: 10 Copynumber: 11.6 Consensus size: 9
18105567 TTTTAGAAAA
18105577 TTTTTAAA-
1 TTTTTAAAT
*
18105585 ATTTTAAAT
1 TTTTTAAAT
18105594 TTGTTTATATAT
1 TT-TTTA-A-AT
18105606 TTTTTAGAAT
1 TTTTTA-AAT
18105616 TTTTTAAAAT
1 TTTTT-AAAT
* * *
18105626 ATATATATAT
1 -TTTTTAAAT
*
18105636 ATTTTAAAT
1 TTTTTAAAT
18105645 TTTTATAAAT
1 TTTT-TAAAT
*
18105655 ATTTTAAAT
1 TTTTTAAAT
*
18105664 TTTTGAAAAT
1 TTTT-TAAAT
*
18105674 TGTTTTGAAT
1 T-TTTTAAAT
18105684 TTTTT
1 TTTTT
18105689 TGTAATTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
8 7 0.09
9 21 0.27
10 34 0.43
11 13 0.16
12 4 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:18105679 original size:20 final size:19
Alignment explanation
Indices: 18105629--18105667 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18105619 TTAAAATATA
*
18105629 TATATATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
18105648 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
18105667 T
1 T
18105668 GAAAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:18107765 original size:12 final size:13
Alignment explanation
Indices: 18107748--18107779 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18107738 ATCATCATCC
18107748 TCCTCTTCC-TCT
1 TCCTCTTCCGTCT
18107760 TCCTC-TCCGTCT
1 TCCTCTTCCGTCT
18107772 TCCTCTTC
1 TCCTCTTC
18107780 ATCGACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (13 bp):
TCCTCTTCCGTCT
Found at i:18112795 original size:17 final size:17
Alignment explanation
Indices: 18112775--18112828 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
18112765 ATTTTATCTT
18112775 AATTTTAAATTTTTAAA
1 AATTTTAAATTTTTAAA
**
18112792 AATTTTAAA-AATTAAA
1 AATTTTAAATTTTTAAA
*
18112808 AATTATTAAATGTTTGAAA
1 AATT-TTAAAT-TTTTAAA
18112827 AA
1 AA
18112829 AAAAACATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 9 0.31
17 14 0.48
19 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTTAAATTTTTAAA
Found at i:18113656 original size:121 final size:122
Alignment explanation
Indices: 18113441--18113659 Score: 314
Period size: 121 Copynumber: 1.8 Consensus size: 122
18113431 GTTAGATGTC
* ** *
18113441 ATGTTGATTCTTCAAAATTGCAAAAGTGATGGAGTTTTATGGTGATTTAATTATTAGTATTCGTT
1 ATGTTGATTCTTCAAAATTGCAAAAGTAATGGAGTTTTATGGTGATTTAAACATTAATATTCGTT
**
18113506 ATTTTTAGACCACAATATTTGCTGAGGAGTCTTTGTACTTATAGCACATGATTATGA
66 ACATTTAGACCACAATATTTGCTGAGGAGTCTTTGTACTTATAGCACATGATTATGA
* * * * *
18113563 ATGTTGGTTCTTCAAGATTGGAGAAGTAATGGAGTTTTATGGTG-TTTAAACATTAATTTTCGTT
1 ATGTTGATTCTTCAAAATTGCAAAAGTAATGGAGTTTTATGGTGATTTAAACATTAATATTCGTT
* *
18113627 GCATTTGGACCACAATATTTGCTGAGGAGTCTT
66 ACATTTAGACCACAATATTTGCTGAGGAGTCTT
18113660 GAGCTTCAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
121 45 0.54
122 39 0.46
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (122 bp):
ATGTTGATTCTTCAAAATTGCAAAAGTAATGGAGTTTTATGGTGATTTAAACATTAATATTCGTT
ACATTTAGACCACAATATTTGCTGAGGAGTCTTTGTACTTATAGCACATGATTATGA
Found at i:18115246 original size:12 final size:12
Alignment explanation
Indices: 18115231--18115280 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
18115221 ATCATCATCC
*
18115231 TCTTCGTCTTCA
1 TCTTCCTCTTCA
* *
18115243 TCTTCGTCTTCG
1 TCTTCCTCTTCA
*
18115255 TCTTCCTCTCCA
1 TCTTCCTCTTCA
18115267 TCTTCCTCTTCA
1 TCTTCCTCTTCA
18115279 TC
1 TC
18115281 AACAACTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.06, C:0.40, G:0.06, T:0.48
Consensus pattern (12 bp):
TCTTCCTCTTCA
Found at i:18115252 original size:18 final size:18
Alignment explanation
Indices: 18115222--18115280 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
18115212 AACATCATCA
18115222 TCATCATCC-TCTTCGTCT
1 TCATC-TCCATCTTCGTCT
* *
18115240 TCATCTTCGTCTTCGTCT
1 TCATCTCCATCTTCGTCT
* *
18115258 TCCTCTCCATCTTCCTCT
1 TCATCTCCATCTTCGTCT
18115276 TCATC
1 TCATC
18115281 AACAACTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.08, C:0.41, G:0.05, T:0.46
Consensus pattern (18 bp):
TCATCTCCATCTTCGTCT
Found at i:18124735 original size:73 final size:73
Alignment explanation
Indices: 18124647--18124790 Score: 243
Period size: 73 Copynumber: 2.0 Consensus size: 73
18124637 TGTTTATGGA
* *
18124647 AAGTATGATTTCAAATGTGCTATATACATGAAATTTATCTTACCATGTGATAATTTTGTTAAATT
1 AAGTATGAATTCAAATGTGCTATATACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
18124712 ATGTGTGT
66 ATGTGTGT
* * *
18124720 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATGATTTTGTTAAGTT
1 AAGTATGAATTCAAATGTGCTATATACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
18124785 ATGTGT
66 ATGTGT
18124791 TTAAAGACTA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (73 bp):
AAGTATGAATTCAAATGTGCTATATACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
ATGTGTGT
Found at i:18126732 original size:44 final size:44
Alignment explanation
Indices: 18126678--18126769 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
18126668 CCGATGTAAC
*
18126678 AGTAGCAGTACGACACACATAGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
18126722 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
18126766 AGTA
1 AGTA
18126770 TCCCTGAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:18134051 original size:26 final size:26
Alignment explanation
Indices: 18134015--18134068 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
18134005 TACACTAGCA
*
18134015 CACATATCAACGTCAATGCCATGTCC
1 CACATATCAACGCCAATGCCATGTCC
* *
18134041 CACATGTCAACGCCGATGCCATGTCC
1 CACATATCAACGCCAATGCCATGTCC
18134067 CA
1 CA
18134069 GACATGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (26 bp):
CACATATCAACGCCAATGCCATGTCC
Found at i:18134112 original size:48 final size:48
Alignment explanation
Indices: 18134041--18134185 Score: 186
Period size: 48 Copynumber: 3.0 Consensus size: 48
18134031 TGCCATGTCC
* * *
18134041 CACATGTCAACGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCT
1 CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* *
18134089 CACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * *
18134137 -ATCATATCAAC-ACTGATGCCATGTTCAAGACATGGTCTTACATTGGCT
1 CA-CATATCAACGAC-GATGCCATGTCCCAGACATGGTCTTACACTGGCT
18134185 C
1 C
18134186 TCATTAATTG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
47 2 0.02
48 83 0.98
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
Found at i:18135907 original size:17 final size:17
Alignment explanation
Indices: 18135890--18135922 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18135880 ATAACATTAT
18135890 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
18135906 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
18135923 CTTATCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:18137615 original size:11 final size:10
Alignment explanation
Indices: 18137593--18137626 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
18137583 ATGAGATATT
18137593 TTATTATTTA
1 TTATTATTTA
18137603 TTATTATTTTA
1 TTATTA-TTTA
18137614 TTATTAATTTA
1 TTATT-ATTTA
18137625 TT
1 TT
18137627 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 15 0.68
12 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:18139329 original size:40 final size:40
Alignment explanation
Indices: 18139246--18139368 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
18139236 CTCGAGAATA
* ** *
18139246 TAAAGTGGATAGGATTCGTTCTTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAACT
*
18139286 TAAAGTGGATA-GAGTTTGTTCTTGATTCACTATGGTAATT
1 TAAAGTGGATAGGA-TTTGTTCTTGATTCACTATGGTAACT
* * * *
18139326 TAAAGTGAATAGGATTTATTCCTGATTCACTAAGGTAACT
1 TAAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAACT
18139366 TAA
1 TAA
18139369 GGCGGAAAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 67 0.94
41 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAACT
Found at i:18139479 original size:79 final size:78
Alignment explanation
Indices: 18139348--18139577 Score: 320
Period size: 79 Copynumber: 2.9 Consensus size: 78
18139338 GATTTATTCC
* * * *
18139348 TGATTCACTAAGGTAACTTAAGGCGGAAAAGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
1 TGATTCATTATGGTAACTTAAGG-GGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
*
18139413 GGTTACATGATATA
65 GGTTACATGATACA
* *
18139427 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGG-GGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
*
18139492 GGTTACACGATACA
65 GGTTACATGATACA
* * **
18139506 TGATTCCTTATGATAACTTAAGGGG-TAGGATTTGACCTGAAAA-GGTAATCCTGATTCACTATA
1 TGATTCATTATGGTAACTTAAGGGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTACG
18139569 GTTACATGA
66 GTTACATGA
18139578 GATGTGACTC
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
76 25 0.19
77 18 0.13
78 2 0.01
79 90 0.67
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTACG
GTTACATGATACA
Found at i:18142348 original size:25 final size:25
Alignment explanation
Indices: 18142320--18142408 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
18142310 AACAGCTCGT
18142320 ATAAGCTTCCCGTTATTCAGCTCAC
1 ATAAGCTTCCCGTTATTCAGCTCAC
* *
18142345 ATAAGCTTCCCGTTATTCCGCTCGC
1 ATAAGCTTCCCGTTATTCAGCTCAC
* * *
18142370 ATGAGCTTCTCGTTATTCAGCTCTC
1 ATAAGCTTCCCGTTATTCAGCTCAC
* *
18142395 ATGAGCTTCTCGTT
1 ATAAGCTTCCCGTT
18142409 TACAACTCGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (25 bp):
ATAAGCTTCCCGTTATTCAGCTCAC
Found at i:18142389 original size:50 final size:50
Alignment explanation
Indices: 18142314--18142408 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
18142304 ACACACAACA
*
18142314 GCTCGTATAAGCTTCCCGTTATTCAGCTCACATAAGCTTCCCGTTATTCC
1 GCTCGCATAAGCTTCCCGTTATTCAGCTCACATAAGCTTCCCGTTATTCC
* * * * *
18142364 GCTCGCATGAGCTTCTCGTTATTCAGCTCTCATGAGCTTCTCGTT
1 GCTCGCATAAGCTTCCCGTTATTCAGCTCACATAAGCTTCCCGTT
18142409 TACAACTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (50 bp):
GCTCGCATAAGCTTCCCGTTATTCAGCTCACATAAGCTTCCCGTTATTCC
Found at i:18146608 original size:2 final size:2
Alignment explanation
Indices: 18146601--18146625 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18146591 AACATGACAT
18146601 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18146626 TAACATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18155241 original size:49 final size:49
Alignment explanation
Indices: 18155133--18155242 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 49
18155123 GATTCGAATG
* * *
18155133 TTCTACCATC-CTAAATGGCCCGTCAATGATGGCTTTTACGAACTGCTTA
1 TTCTACCATCTC-GAATGGCCCGTCAAGGATGGCTTTTACCAACTGCTTA
*
18155182 TTCTACCATCTCGAATGGCCCAG-CAAGGATGGCTTTTACCAACTGCTTT
1 TTCTACCATCTCGAATGGCCC-GTCAAGGATGGCTTTTACCAACTGCTTA
*
18155231 TTCTATCATCTC
1 TTCTACCATCTC
18155243 AGATAATCTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 52 0.96
50 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (49 bp):
TTCTACCATCTCGAATGGCCCGTCAAGGATGGCTTTTACCAACTGCTTA
Found at i:18156257 original size:20 final size:22
Alignment explanation
Indices: 18156220--18156261 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
18156210 ATCGTGATCT
18156220 AAACTTAATATCTATCAATTTC
1 AAACTTAATATCTATCAATTTC
18156242 AAACTTAAT-T-TATCAATTTC
1 AAACTTAATATCTATCAATTTC
18156262 TCTTTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
AAACTTAATATCTATCAATTTC
Found at i:18156914 original size:3 final size:3
Alignment explanation
Indices: 18156906--18156949 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18156896 AGTCGTTACA
18156906 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18156950 AATAGACTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18157940 original size:15 final size:15
Alignment explanation
Indices: 18157920--18157965 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
18157910 ATAACTTAAA
18157920 TTTAATACTTAATTT
1 TTTAATACTTAATTT
18157935 TTTAATACTTAATTT
1 TTTAATACTTAATTT
*
18157950 TTTAATA-TTTATTT
1 TTTAATACTTAATTT
18157964 TT
1 TT
18157966 CCAACATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:18157950 original size:13 final size:13
Alignment explanation
Indices: 18157904--18157950 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
18157894 TTACTTAACA
18157904 AATTTT-ATAACTT
1 AATTTTAAT-ACTT
*
18157917 AAATTTAATACTT
1 AATTTTAATACTT
18157930 AATTTTTTAATACTT
1 AA--TTTTAATACTT
18157945 AATTTT
1 AATTTT
18157951 TTAATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 15 0.52
14 2 0.07
15 12 0.41
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTAATACTT
Found at i:18159440 original size:20 final size:19
Alignment explanation
Indices: 18159394--18159445 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
18159384 CTAATGTATG
*
18159394 ATATATTAAATATTATTTTTT
1 ATATATT-AAT-TTATTATTT
18159415 AT-TATTAATTTATATATTT
1 ATATATTAATTTAT-TATTT
*
18159434 ATATATTTATTT
1 ATATATTAATTT
18159446 TAAGTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 12 0.44
21 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATATTAATTTATTATTT
Found at i:18159520 original size:22 final size:23
Alignment explanation
Indices: 18159495--18159552 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
18159485 ACTAATTCAA
18159495 TTATAAAATTATTAAA-ATATTT
1 TTATAAAATTATTAAATATATTT
18159517 TTATATACAA--ATTAAATTATATTT
1 TTATA-A-AATTATTAAA-TATATTT
18159541 TT-TAAAATTATT
1 TTATAAAATTATT
18159553 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 6 0.20
24 10 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATAAAATTATTAAATATATTT
Found at i:18159550 original size:20 final size:19
Alignment explanation
Indices: 18159525--18159563 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18159515 TTTTATATAC
18159525 AAATTAAATTATATTTTTTA
1 AAATT-AATTATATTTTTTA
* *
18159545 AAATTATTTTTATTTTTTA
1 AAATTAATTATATTTTTTA
18159564 CATACTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AAATTAATTATATTTTTTA
Found at i:18159608 original size:17 final size:17
Alignment explanation
Indices: 18159569--18159612 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
18159559 TTTTACATAC
*
18159569 TAAATTAATAA-AAATT
1 TAAATTCATAATAAATT
18159585 T-AA-TCATAATAAATT
1 TAAATTCATAATAAATT
18159600 TAAATTCATAATA
1 TAAATTCATAATA
18159613 CCATACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 3 0.12
17 8 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTCATAATAAATT
Found at i:18164108 original size:81 final size:81
Alignment explanation
Indices: 18164006--18164859 Score: 1060
Period size: 81 Copynumber: 10.5 Consensus size: 81
18163996 GGCAATGCAG
* * * *
18164006 GAAGGGATTTGGAAGAAAAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAA-TCA
1 GAAGGG-TTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAAGCCA
** * ** *
18164070 CT-TTG-ATGGAGGTGATGT
64 -TGGCGAAGGGA-AAGAAGT
** * * * * * * *
18164088 GAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCTTTTGATGCTGAAA---ATC
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
** * *
18164150 TTGATAGAGAAAAGGAGGT
66 GCGA-AG-GGAAA-GAAGT
* * *
18164169 GACGAGTTTGGAAGACAAGTATGCTACGGCTTACTTTTACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
18164234 GCGAAGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
* * **** *
18164250 GAAGGGTTTGGAAGATAAATATGCTAATATTTACTTCCACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
*
18164315 GCGACGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
* * ** *
18164331 GAAGGGTTTGGAAGATAAATATGCTA-ATCTTTACTTCCACAAAACTTCTGATTCTGAAAGCCAT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGC-TTACTTTCACAAAACTTCTGATTCTGAAAGCCAT
*
18164395 TGCGAAGGGAAAGAAGT
65 GGCGAAGGGAAAGAAGT
*
18164412 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
18164477 GCGAAGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
*
18164493 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
18164558 GCGAAGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
*
18164574 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
18164639 GCGAAGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
*
18164655 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
18164720 GCGAAGGGAAAGAAGT
66 GCGAAGGGAAAGAAGT
* * * *
18164736 GAAGGGTTTGGAAGACAAATATGCTACTGCTTATTTTCATC-AAACTTCTAATTCTGAAAGCCAT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAAAGCCAT
* *
18164800 GGTGAAAGGAAAGCAA-T
65 GGCGAAGGGAAAG-AAGT
* * * * *
18164817 GAAGAGTTTGGAAGACAAATATTCCACAGCTTACTTTCACAAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA
18164860 GCGTTTGATT
Statistics
Matches: 694, Mismatches: 65, Indels: 27
0.88 0.08 0.03
Matches are distributed among these distances:
77 1 0.00
78 4 0.01
80 5 0.01
81 666 0.96
82 12 0.02
83 2 0.00
84 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (81 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
GCGAAGGGAAAGAAGT
Done.