Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 61 of 284
Found at i:21446432 original size:780 final size:780
Alignment explanation
Indices: 21444932--21446490 Score: 2530
Period size: 780 Copynumber: 2.0 Consensus size: 780
21444922 TCGGTTTAGC
* *
21444932 GGTCCCGAAACCACTTCCCGACTAGGGTTAATTTTGGGCTGTCACAACTCTCCCTCACTTAAGAA
1 GGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAA
*
21444997 ATTTTCGTCCTCGAAAATCTTACCGGTAAATAGGTTTGGATATCGTTCTTTCATCGAGCTCTCGG
66 ATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCGTTCTTTCATCGAGCTCTCGG
* *
21445062 GTTCCCAGGTTGCTTCCTCGATCCCGTGTTTGAGCCACAACACCTTAACCAACGGAACCCTTTTA
131 GTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCTTAACCAACGGAACCCTTTTA
* * * *
21445127 TTTCGTAACTCTTTCACTTCACGAGCTAGGATACGAATCGGTTCTTCTTCATAGCTCAAGTCAGA
196 TTTCGCAACTCCTTCACTTCACGAGCTAGGATACGAATCGGCTCTTCTTCATAACTCAAGTCAGA
* * * * * *
21445192 TTGAATTTCAACTTCTGAGGGATTAATCACATGTGACGGATCGGATCTATAACGTCGAAGCATTG
261 TTGAATTTCAACCTCTGAGGGACTAATCACATGCGACGGATCAGATCGATAACGTCGAAGCATCG
* * * *
21445257 AAACATGGAAGACATCGTGCATCCTTTCAAGTTCAGGGGGCAAAATCAATCTATATGCAACCGGC
326 AAACATGAAAGACATCGTGAATCCTTTCAAGTTCAGGGGGCAAAATCAATCTATACGCAACCGGA
* * * * *
21445322 CCCACTCGTTCGGAAATTTCGTACGGCCCAATGAATCTCGGGCTCAACTTGCCTTTACGGCCAAA
391 CCAACTCGTTCAGAAATTTCGAACGGCCCAATAAATCTCGGGCTCAACTTGCCCTTACGGCCAAA
* * * *
21445387 TCTGAGTACCTTCTTCCAATGTGACACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGT
456 CCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGT
* *
21445452 CCTTTCGTTTTAAATCCGCATACGATTTTTGACGATCTGTGGCTACCTTCAGACTTTCGCGGATT
521 CCTTTCGTTTCAAATCCGCATACGATTTTTGACGATCTGTGGCTACCTTCAGACTTTCACGGATT
* * *
21445517 ACCTTTACTTTTTGTTCGGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTTCACCAAGCTC
586 ACCTTTACTTTCTATTCGGCATCCTTAATCAAATCAACTCCGAAAATTTTACTTTCACCAAGCTC
*
21445582 GGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTCATACGGTGCCATCTTAATAC
651 GGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTCATAAGGTGCCATCTTAATAC
*
21445647 TTGATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACTACTG
716 TTGATTGAAAACTATTGTTGTAAGCGAAGTCAATCAAAGGTAAATACCGTTCCCATGAACTACTG
21445712 GGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAA
1 GGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAA
* *
21445777 ATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATTGTTCTTTCATCGAGCTCTCGG
66 ATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCGTTCTTTCATCGAGCTCTCGG
* * * * *
21445842 TTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACCTTTACTAACGGAACCCTTTTG
131 GTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCTTAACCAACGGAACCCTTTTA
* *
21445907 TTTCGCAACTCCTTCACTTCACGAGCTAGGATACGCATCGGCTCTTCTTCATAACTCATA-TCGG
196 TTTCGCAACTCCTTCACTTCACGAGCTAGGATACGAATCGGCTCTTCTTCATAACTCA-AGTCAG
* * ** * *
21445971 CTTGAATTTCAACCTCTGATGGG-CTAATTATGTGCGATGGATCAGATCGATAGCGTCGAAGCAT
260 ATTGAATTTCAACCTCTGA-GGGACTAATCACATGCGACGGATCAGATCGATAACGTCGAAGCAT
* *
21446035 CGAAACATGAAAGACGTCGTGAATCTTTTCAAGCTT-AGGGGGCAAAATCAATCTATACGCAACC
324 CGAAACATGAAAGACATCGTGAATCCTTTCAAG-TTCAGGGGGCAAAATCAATCTATACGCAACC
*
21446099 GGACCAACTCGTTCAGAGATTTCGAACGGCCCAATAAATCTCGGGCTCAACTTGCCCTTACGGCC
388 GGACCAACTCGTTCAGAAATTTCGAACGGCCCAATAAATCTCGGGCTCAACTTGCCCTTACGGCC
* *
21446164 AAACCTGAGTACCTTTTTCCAAGGCGAAACTTTAAGGAACACTTTATCTCCCACCTGATATTCAA
453 AAACCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAA
* *
21446229 TGTCCTTTCGTTTCAAATCCGCATACGATTTTTGACGATCTGTGGCTGCTTTCAGACTTTCACGG
518 TGTCCTTTCGTTTCAAATCCGCATACGATTTTTGACGATCTGTGGCTACCTTCAGACTTTCACGG
*
21446294 ATTACCTTTACTTTCTATTCGGCATCCTTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAG
583 ATTACCTTTACTTTCTATTCGGCATCCTTAATCAAATCAACTCCGAAAATTTTACTTTCACCAAG
* *
21446359 CTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAA
648 CTCGGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTCATAAGGTGCCATCTTAA
21446424 TACTTGATTGAAAACTATTGTTGTAAGCGAAGTCAATCAAAGGTAAATACCGTTCCCATGAACTA
713 TACTTGATTGAAAACTATTGTTGTAAGCGAAGTCAATCAAAGGTAAATACCGTTCCCATGAACTA
21446489 CT
778 CT
21446491 AAACTCGAGG
Statistics
Matches: 716, Mismatches: 60, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
780 710 0.99
781 6 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (780 bp):
GGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAA
ATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCGTTCTTTCATCGAGCTCTCGG
GTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCTTAACCAACGGAACCCTTTTA
TTTCGCAACTCCTTCACTTCACGAGCTAGGATACGAATCGGCTCTTCTTCATAACTCAAGTCAGA
TTGAATTTCAACCTCTGAGGGACTAATCACATGCGACGGATCAGATCGATAACGTCGAAGCATCG
AAACATGAAAGACATCGTGAATCCTTTCAAGTTCAGGGGGCAAAATCAATCTATACGCAACCGGA
CCAACTCGTTCAGAAATTTCGAACGGCCCAATAAATCTCGGGCTCAACTTGCCCTTACGGCCAAA
CCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGT
CCTTTCGTTTCAAATCCGCATACGATTTTTGACGATCTGTGGCTACCTTCAGACTTTCACGGATT
ACCTTTACTTTCTATTCGGCATCCTTAATCAAATCAACTCCGAAAATTTTACTTTCACCAAGCTC
GGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTCATAAGGTGCCATCTTAATAC
TTGATTGAAAACTATTGTTGTAAGCGAAGTCAATCAAAGGTAAATACCGTTCCCATGAACTACTG
Found at i:21450932 original size:40 final size:38
Alignment explanation
Indices: 21450837--21451232 Score: 167
Period size: 40 Copynumber: 10.6 Consensus size: 38
21450827 GTATTGAATG
* *
21450837 TGAGCCCAGCTCTTGTTGGAT-TAACAACG--AT-ATT
1 TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
* * *
21450871 TGCA-CCCAG-TACCAGTCGGATATACCGACTGTAATAATT
1 TG-AGCCCAGCT-CTAGTTGGATATACCAAC-GTAATAATT
* *
21450910 GTGAGCCCAGCTCTAGTTGGATAAACTAAC--AAT-ATT
1 -TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
** * * *
21450946 TGCA-CCCAATTCTAGTCGGATATACTAATGATAATAATT
1 TG-AGCCCAGCTCTAGTTGGATATACCAACG-TAATAATT
* *
21450985 GTGAGCCCATCTCTAGTTGGATAAACCAAC--AAT-ATT
1 -TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
* *
21451021 TGCA-CCCAG-TGCTAGTCGGATATACCGACGATAATAATT
1 TG-AGCCCAGCT-CTAGTTGGATATACCAACG-TAATAATT
*
21451060 ATGAGCCCAGCTCTAGTTGGATAAACCAAC--AAT-ATT
1 -TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
* * * **
21451096 TGCA-CCCAG-TGCTAATCGGGTATAATAACGATAATAATT
1 TG-AGCCCAGCT-CTAGTTGGATATACCAACG-TAATAATT
* * *
21451135 GTGAGCCCAACTCTAGTTGGATAAACCATC--AAT-ATT
1 -TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
* * **
21451171 TGCA-CCCAGTTATAGTTGGATA-AGCTGACGATAATAATT
1 TG-AGCCCAGCTCTAGTTGGATATA-CCAACG-TAATAATT
* *
21451210 GTAAGCCTAGCTCTAGTTGGATA
1 -TGAGCCCAGCTCTAGTTGGATA
21451233 AAACAATGAT
Statistics
Matches: 267, Mismatches: 52, Indels: 80
0.67 0.13 0.20
Matches are distributed among these distances:
33 1 0.00
34 17 0.06
35 87 0.33
36 17 0.06
37 12 0.04
38 14 0.05
39 20 0.07
40 96 0.36
41 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (38 bp):
TGAGCCCAGCTCTAGTTGGATATACCAACGTAATAATT
Found at i:21450967 original size:35 final size:35
Alignment explanation
Indices: 21450915--21451193 Score: 161
Period size: 35 Copynumber: 7.5 Consensus size: 35
21450905 TAATTGTGAG
* *
21450915 CCCAGCTCTAGTTGGATAAACTAACAATATTTGCA
1 CCCAGTTCTAGTTGGATAAACCAACAATATTTGCA
* * * * *
21450950 CCCAATTCTAGTCGGATATACTAATGATAATAATTGTG-A
1 CCCAGTTCTAGTTGGATAAAC-CA--ACAAT-ATT-TGCA
21450989 GCCCA-TCTCTAGTTGGATAAACCAACAATATTTGCA
1 -CCCAGT-TCTAGTTGGATAAACCAACAATATTTGCA
* * * *
21451025 CCCAGTGCTAGTCGGATATACCGACGATAATAATTATG-A
1 CCCAGTTCTAGTTGGATAAACC-A--ACAAT-ATT-TGCA
*
21451064 GCCCAGCTCTAGTTGGATAAACCAACAATATTTGCA
1 -CCCAGTTCTAGTTGGATAAACCAACAATATTTGCA
* * * * * *
21451100 CCCAGTGCTAATCGGGTATAATAACGATAATAATTGTG-A
1 CCCAGTTCTAGT-TGG-ATAA-ACCAACAAT-ATT-TGCA
** *
21451139 GCCCAACTCTAGTTGGATAAACCATCAATATTTGCA
1 -CCCAGTTCTAGTTGGATAAACCAACAATATTTGCA
*
21451175 CCCAGTTATAGTTGGATAA
1 CCCAGTTCTAGTTGGATAA
21451194 GCTGACGATA
Statistics
Matches: 183, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
35 65 0.36
36 17 0.09
37 17 0.09
38 18 0.10
39 17 0.09
40 49 0.27
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (35 bp):
CCCAGTTCTAGTTGGATAAACCAACAATATTTGCA
Found at i:21450981 original size:75 final size:75
Alignment explanation
Indices: 21450835--21451234 Score: 527
Period size: 75 Copynumber: 5.3 Consensus size: 75
21450825 CGGTATTGAA
* * * * * **
21450835 TGTGAGCCCAGCTCTTGTTGGATTAA-CAACGATATTTGCACCCAGTACCAGTCGGATATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACTAA
21450899 CTG-TAATAAT
66 C-GATAATAAT
* * *
21450909 TGTGAGCCCAGCTCTAGTTGGATAAACTAACAATATTTGCACCCAATTCTAGTCGGATATACTAA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACTAA
*
21450974 TGATAATAAT
66 CGATAATAAT
* **
21450984 TGTGAGCCCATCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACTAA
21451049 CGATAATAAT
66 CGATAATAAT
* * * *
21451059 TATGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAATCGGGTATAATAA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACTAA
21451124 CGATAATAAT
66 CGATAATAAT
* * ** * *
21451134 TGTGAGCCCAACTCTAGTTGGATAAACCATCAATATTTGCACCCAGTTATAGTTGGATA-AGCTG
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATA-CTA
21451198 ACGATAATAAT
65 ACGATAATAAT
* *
21451209 TGTAAGCCTAGCTCTAGTTGGATAAA
1 TGTGAGCCCAGCTCTAGTTGGATAAA
21451235 ACAATGATAA
Statistics
Matches: 286, Mismatches: 37, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
74 26 0.09
75 260 0.91
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGATATACTAA
CGATAATAAT
Found at i:21452729 original size:20 final size:21
Alignment explanation
Indices: 21452701--21452739 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21452691 TAAATTCCAA
21452701 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
21452721 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
21452740 AAACCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:21454355 original size:24 final size:22
Alignment explanation
Indices: 21454298--21454354 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
21454288 AAACAGGGTC
*
21454298 ACACGCCCGTGTGGACATAAGG
1 ACACACCCGTGTGGACATAAGG
*
21454320 ACACACCCGTGTGGACATAGGG
1 ACACACCCGTGTGGACATAAGG
*
21454342 ACACACACGTGTG
1 ACACACCCGTGTG
21454355 TCTTTGACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (22 bp):
ACACACCCGTGTGGACATAAGG
Found at i:21455688 original size:27 final size:27
Alignment explanation
Indices: 21455668--21455798 Score: 137
Period size: 27 Copynumber: 4.9 Consensus size: 27
21455658 CACCTGATAT
*
21455668 AGATATTGTGGCAAAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGAGAC
21455694 AGATATATGTGGCAGAGCCA-C-GAGATC
1 AGATAT-TGTGGCAGAGCCACCAGAGA-C
* *
21455721 AGATAATTGTGGCACAGCTACCAG-GAC
1 AGAT-ATTGTGGCAGAGCCACCAGAGAC
*
21455748 AGATATATGTGGCAGAGCCACCAGA-TC
1 AGATAT-TGTGGCAGAGCCACCAGAGAC
*
21455775 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
21455799 GACGCTTCCT
Statistics
Matches: 89, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.02
26 10 0.11
27 69 0.78
28 7 0.08
29 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGAGAC
Found at i:21455799 original size:54 final size:54
Alignment explanation
Indices: 21455668--21455801 Score: 216
Period size: 54 Copynumber: 2.5 Consensus size: 54
21455658 CACCTGATAT
* *
21455668 AGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACGAGATC
1 AGATAATTGTGGCAAAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATC
* *
21455721 AGATAATTGTGGCACAGCTACCAGGACAGATATATGTGGCAGAGCCACCAGATC
1 AGATAATTGTGGCAAAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATC
*
21455775 AGATAATTGTGGCATAGCCACCAGGAC
1 AGATAATTGTGGCAAAGCCACCAGGAC
21455802 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 4 0.05
54 70 0.95
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
AGATAATTGTGGCAAAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATC
Found at i:21460725 original size:44 final size:44
Alignment explanation
Indices: 21460045--21460719 Score: 848
Period size: 44 Copynumber: 15.3 Consensus size: 44
21460035 AGCAGATAAT
* * *
21460045 AGATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
**
21460089 AGATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
21460133 AGATTTGGCGTCTCTGTAGCAGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
21460177 AGATTTGGCGTCTCTGTAGCGGTGGAGAGTAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
21460221 AGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATTGAAAATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *** *
21460265 AGATTTGGCATCTCTGTAGCGATAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
21460309 AGATTTGGCGTCTCTGTAGCGACGGAGAACAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
21460353 AGATTTGGCATCTTTGTAGCGGCGGAGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
21460397 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
21460441 AGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
** ** *
21460485 AGATTTGGCGTCTCTGTATTGATGGAGAGTAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
** * *
21460529 AGATTTGGCGTCTCTGTATTGGCGAAGAGCATATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* ** * * *
21460573 AGATTTGGCGTCTTTGTATTGTCAGATG-GCAGATCGAGGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGA-GAGCAGATCGAAGATAGC
* ** *
21460617 AGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* ** * *
21460661 AAATTTGGCGTCTCTGTATTGGCGGAAAGCAGATTGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
21460705 AGATTTGGTGTCTCT
1 AGATTTGGCGTCTCT
21460720 ATATTGTCAG
Statistics
Matches: 563, Mismatches: 66, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
43 1 0.00
44 561 1.00
45 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
Found at i:21463842 original size:132 final size:132
Alignment explanation
Indices: 21463603--21463848 Score: 350
Period size: 132 Copynumber: 1.9 Consensus size: 132
21463593 TGAGTATACA
* * *
21463603 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGCCAATTCGCGAAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCGCGAAATAGTACCCTAAC
* *
21463668 GTGTTGGGTTGCAATATCGCGTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTCATGC
66 GTGTTGGGTTGCAATATCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
21463733 CT
131 CT
* * * * * *
21463735 TTTAAAAATTCTTTAAAATGGAGGCAA-AGTTTGATATTTGACAATTCGCGGAATCGTACCCTAA
1 TTTAAAAATTCTTTAAAACGAAGACAAGA-TTCGATATTTGACAATTCGCGAAATAGTACCCTAA
* * *
21463799 TGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTC
65 CGTGTTGGGTTGCAATATCGCGTTTGCTCAAAATAATCAAATATCCCTTC
21463849 GAGATTCCAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 98 0.99
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCGCGAAATAGTACCCTAAC
GTGTTGGGTTGCAATATCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
CT
Found at i:21463873 original size:132 final size:132
Alignment explanation
Indices: 21463635--21463874 Score: 329
Period size: 132 Copynumber: 1.8 Consensus size: 132
21463625 GACGAGATTC
* * *
21463635 GATATTTGCCAATTCGCGAAATAGTGCCCTAACGTGTTGGGTTGCAATATCGCGTTTGCTCGAAA
1 GATATTTGACAATTCGCGAAATAGTACCCTAACGTGTTGGGTTGCAATATCGCGTTTGCTCAAAA
* * * *
21463700 TAATCGAATATCCCTTCAAACTTTCACTCATGCCTTTTAAAAATTCTTTAAAATGGAGGCAAAGT
66 TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATTCTTTAAAATGGAGGCAAAGT
21463765 TT
131 TT
* * * * *
21463767 GATATTTGACAATTCGCGGAATCGTACCCTAATGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAA
1 GATATTTGACAATTCGCGAAATAGTACCCTAACGTGTTGGGTTGCAATATCGCGTTTGCTCAAAA
* * *
21463832 TAATCAAATATCCCTTCGAGA-TTCCATTCAGGTCTTCTAAAAA
66 TAATCAAATATCCCTTC-AAACTTCCACTCAGGCCTTCTAAAAA
21463875 AATCCTCTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
132 90 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (132 bp):
GATATTTGACAATTCGCGAAATAGTACCCTAACGTGTTGGGTTGCAATATCGCGTTTGCTCAAAA
TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATTCTTTAAAATGGAGGCAAAGT
TT
Found at i:21463975 original size:133 final size:132
Alignment explanation
Indices: 21463771--21464109 Score: 335
Period size: 133 Copynumber: 2.5 Consensus size: 132
21463761 AAGTTTGATA
* * * *
21463771 TTTGACAATTCGCGGAATCGTACCCTAAT-GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAA
1 TTTGACAATT--CGGAATCGTGCCCT-ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAA
* * *
21463835 TCAAATATCCCTTCGA-GATTCCATTCAGGTCTTCTAAAAAAATCCTCTAAAACGAAA-GCAATA
63 TCGAATATCCCTT-GAGGATTCCACTCAGGTCTTCTAAAAAAACCCTCTAAAAC-AAAGGCAAT-
*
21463898 CTT-GGTG
125 CTTCGATG
* ** *
21463905 TTTGACAATTCAGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACGATC
1 TTTGACAATTC-GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATC
* * * * * * * * * *
21463970 GAATATTCCTTTAGGTTTTCACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCG
65 GAATATCCCTTGAGGATTCCACTCAGGTCTTCTAAAAAAACCCTCTAAAACAAAGGCAATCTTCG
21464035 ATG
130 ATG
* * * * *
21464038 TTTGGCAATTCGAGAGTCGTGCCCTATCGCGCTGGGTTGCAATCTCTCATTTGTTCAAAACAATC
1 TTTGACAATTCG-GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATC
21464103 GAATATC
65 GAATATC
21464110 TCTTTGGAAT
Statistics
Matches: 167, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
132 10 0.06
133 147 0.88
134 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (132 bp):
TTTGACAATTCGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCG
AATATCCCTTGAGGATTCCACTCAGGTCTTCTAAAAAAACCCTCTAAAACAAAGGCAATCTTCGA
TG
Found at i:21465379 original size:15 final size:15
Alignment explanation
Indices: 21465356--21465389 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21465346 GTGTTGTAAC
21465356 TTTTAATTAGTTTTA
1 TTTTAATTAGTTTTA
* *
21465371 TTTTCATTATTTTTA
1 TTTTAATTAGTTTTA
21465386 TTTT
1 TTTT
21465390 GTTTAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTAATTAGTTTTA
Found at i:21471015 original size:20 final size:20
Alignment explanation
Indices: 21470987--21471038 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
21470977 CGGGTGAGGG
21470987 ACACGGGCGTGTCCCGAAGC
1 ACACGGGCGTGTCCCGAAGC
* * *
21471007 ACACCGGCGTGCCCCTAAGC
1 ACACGGGCGTGTCCCGAAGC
21471027 ACACGGGCGTGT
1 ACACGGGCGTGT
21471039 GCTTTGCCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCGAAGC
Found at i:21475511 original size:20 final size:20
Alignment explanation
Indices: 21475486--21475524 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21475476 GATTCTAGAT
21475486 GATTGCTACACCGCTGACTC
1 GATTGCTACACCGCTGACTC
*
21475506 GATTGCTACACCGTTGACT
1 GATTGCTACACCGCTGACT
21475525 TAATTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (20 bp):
GATTGCTACACCGCTGACTC
Found at i:21495929 original size:46 final size:48
Alignment explanation
Indices: 21495801--21495939 Score: 124
Period size: 47 Copynumber: 2.9 Consensus size: 48
21495791 TCATAATAAA
*
21495801 AATAGGTTAATTATCACATAAGGACCTCCATTTTAAAGTTCTATAGCT
1 AATAGGTTAATTATCACATAAGGACCTCCATTTTAAACTTCTATAGCT
* ** * * * * * * *
21495849 ATTA-GACACTTTTAAC-TAATAGAACTCAAGTTTTACACTT-T-TAGCT
1 AATAGGTTAATTATCACATAA-GGACCTCCA-TTTTAAACTTCTATAGCT
*
21495895 AATAGGTTAATTATCACATAAGGACCTCCATTTTAAAGTTCTATA
1 AATAGGTTAATTATCACATAAGGACCTCCATTTTAAACTTCTATA
21495940 ATAAAAATCA
Statistics
Matches: 63, Mismatches: 22, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
46 19 0.30
47 28 0.44
48 16 0.25
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (48 bp):
AATAGGTTAATTATCACATAAGGACCTCCATTTTAAACTTCTATAGCT
Found at i:21497297 original size:18 final size:19
Alignment explanation
Indices: 21497274--21497310 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21497264 TTTATTTGCT
*
21497274 TTTGTGAAAGA-AATCAAA
1 TTTGTGAAACATAATCAAA
21497292 TTTGTGAAACATAATCAAA
1 TTTGTGAAACATAATCAAA
21497311 CTCTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (19 bp):
TTTGTGAAACATAATCAAA
Found at i:21499796 original size:45 final size:45
Alignment explanation
Indices: 21499732--21499946 Score: 301
Period size: 45 Copynumber: 4.8 Consensus size: 45
21499722 CATTGGCTTG
21499732 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATATC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATATC
* *
21499777 AAAAATGAGTAAGACCATAGTTGAAAGACATTATGACACTATATC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATATC
* *
21499822 AAAAATGAATAAGACCATAGTTGAAAGACATTATGACA-TCATGTC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACACT-ATATC
* * * * *
21499867 GAAAATGAATAAGACCACAATTGAAAGACACAATAGAAAC-ATGA-C
1 AAAAATGAATAAGACCATAGTTGAAAGACACTAT-GACACTAT-ATC
21499912 AAAAATGAATAAGACCATAGTTGAAAGACACTATG
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATG
21499947 GCAACATGAT
Statistics
Matches: 151, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 146 0.97
46 3 0.02
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (45 bp):
AAAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATATC
Found at i:21499953 original size:45 final size:45
Alignment explanation
Indices: 21499732--21499972 Score: 285
Period size: 45 Copynumber: 5.4 Consensus size: 45
21499722 CATTGGCTTG
21499732 AAAAATGAATAAGACCATAGTTGAAAGACACTATGAC-ACTAT-ATC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAAC-ATGA-C
* *
21499777 AAAAATGAGTAAGACCATAGTTGAAAGACATTATGAC-ACTAT-ATC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAAC-ATGA-C
* * *
21499822 AAAAATGAATAAGACCATAGTTGAAAGACATTATGACATCATGTC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGAC
* * * *
21499867 GAAAATGAATAAGACCACAATTGAAAGACACAATAGA-AACATGAC
1 AAAAATGAATAAGACCATAGTTGAAAGACACTAT-GACAACATGAC
* *
21499912 AAAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGAT
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGAC
**
21499957 GGAAATGAATAAGACC
1 AAAAATGAATAAGACC
21499973 GTGGCTGAAA
Statistics
Matches: 172, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 168 0.98
46 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (45 bp):
AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGAC
Found at i:21499982 original size:90 final size:91
Alignment explanation
Indices: 21499732--21499991 Score: 316
Period size: 90 Copynumber: 2.9 Consensus size: 91
21499722 CATTGGCTTG
* *
21499732 AAAAATGAATAAGACCATAGTTGAAAGACACTATGAC-ACTAT-ATCAAAAATGAGTAAGACCAT
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAAC-ATGATCGAAAATGAATAAGACCAT
** *
21499795 AGTTGAAAGACATTATGACACTATATC
65 AGTTGAAAGACACAATGAAACTATATC
* * *
21499822 AAAAATGAATAAGACCATAGTTGAAAGACATTATGACATCATG-TCGAAAATGAATAAGACCACA
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGATCGAAAATGAATAAGACCATA
*
21499886 ATTGAAAGACACAATAGAAAC-ATGA-C
66 GTTGAAAGACACAAT-GAAACTAT-ATC
* * * *
21499912 AAAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGAT-GGAAATGAATAAGACCGTG
1 AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGATCGAAAATGAATAAGACCATA
* *
21499976 GCTGAAAAACACAATG
66 GTTGAAAGACACAATG
21499992 GCATCCTTGA
Statistics
Matches: 146, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
89 1 0.01
90 138 0.95
91 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (91 bp):
AAAAATGAATAAGACCATAGTTGAAAGACACTATGACAACATGATCGAAAATGAATAAGACCATA
GTTGAAAGACACAATGAAACTATATC
Found at i:21500832 original size:26 final size:26
Alignment explanation
Indices: 21500796--21500857 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
21500786 CTATACTTGA
21500796 GTTTGGTGAAATTTTGAATATTTTGT
1 GTTTGGTGAAATTTTGAATATTTTGT
21500822 GTTTGGTGAAATTTTGAATATTTTGT
1 GTTTGGTGAAATTTTGAATATTTTGT
*
21500848 GTTTTGTGAA
1 GTTTGGTGAA
21500858 CTAAGGACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (26 bp):
GTTTGGTGAAATTTTGAATATTTTGT
Found at i:21503499 original size:40 final size:40
Alignment explanation
Indices: 21503452--21503635 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
21503442 CTCGCACAAG
* *
21503452 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
21503492 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
21503532 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
21503572 GCCTTCAGATCTTAGTCTGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
21503612 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
21503636 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:21506630 original size:612 final size:612
Alignment explanation
Indices: 21505467--21506690 Score: 1726
Period size: 612 Copynumber: 2.0 Consensus size: 612
21505457 CAAATATGAA
* ** **
21505467 ATTTTCACACATGCATATATACATATAATAAGCATCAAATATGACAGTTAATTATTTTTATGACT
1 ATTTTCACACATGCATATATACATATAATAAGCATCAAATATCACAGTTAAACATTTCGATGACT
* * * *
21505532 CGGTTTTGTGGTCTCGAAACCACTTCCTGACTAGGGTCACATTAGGGCTGTCACAACTCTCCCCC
66 CGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCACATTAGGGCTGTCACAACTCTCCCCC
* *
21505597 ACTTGAAAAATTTTCGTCCCCGAAAATCTTATCGGTAAATAGGTTTGGGTATCGTTCTCTCATAG
131 ACTAGAAAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTCTCATAG
* * * *
21505662 AGTTCTCGGTTTCCCAAGTAGCTTCTTCGATTCCGTGTTTGATCCATAACACCTTTACTAACGGA
196 AGCTCTCGGTTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACCTTTACTAACGGA
* * * *
21505727 ACCCTTTTGTTTCGCAACTCTTTCACTTTACGAGCTAGGATACGAATCGGTTCTTCTTCATAACT
261 ACCCTTTTGTTTCGCAACTCCTTCACTTCACGAGCTAGGACACGAATCGGCTCTTCTTCATAACT
* * * * * *
21505792 CAAGTTAGATTGAATTTCAACCTCTGATGGACTAATTATGTGCGAAGGATCAGATCTGTAACGTC
326 CAAGTCAGACTGAATTTCAACCTCCGACGGACTAATTATGTGCGAAGGATCAGATCTATAACGCC
** *
21505857 GAAGCATAGAAACATGGAAAACGTTGTGAATCCTTTCAAGTTCAGGGGGTAAAAGCAACCTATAT
391 GAAGCATAGAAACATGGAAAACGTCCTGAATCCTTTCAAGTTCAGGGGGCAAAAGCAACCTATAT
* * **
21505922 GCAAATGGACCAACTCGTTCGGAGATTTCATACGGCTCAATGAATCTCGGACTCAGTTTGCCCTT
456 GCAAACGGACCAACTCGTTCGGAGATTTCATACGGCCCAATGAATCTCGGACTCAACTTGCCCTT
* * * *
21505987 ACGGCCAAATCTGAGTATCTTTTTCCAAGGTGAAACCTTAAGAAACACTTTGTCTCCTACCTGAT
521 ACGGCCAAATCTGAGTACCTTCTTCCAAGGTGAAACCTTAAGAAACACTTTATCTCCCACCTGAT
21506052 ACTCAATAT-CTCTTCGTTTTAAATCCG
586 ACTCAATATCCT-TTCGTTTTAAATCCG
** *
21506079 ATTTTCACACATGCATATATACATATTCT-AGACAAT-AAATATCACA-TTCAAACATTTCGGTG
1 ATTTTCACACATGCATATATACATATAATAAG-C-ATCAAATATCACAGTT-AAACATTTCGATG
* *
21506141 ACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCA-ATTTTGGGCTGTTACAACTCTC
63 ACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCACA-TTAGGGCTGTCACAACTCTC
* *
21506205 CCCCACTCAG-GAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
127 CCCCACT-AGAAAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTCT
* *
21506269 CATCGAGCTCTCGGTTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACTTTTACTA
191 CATAGAGCTCTCGGTTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACCTTTACTA
** * *
21506334 GGGGAACTCTTTTGTTTCGCAACTCCTTCACTTCACGAGCTAGGACACGCATCGGCTCTTCTTCA
256 ACGGAACCCTTTTGTTTCGCAACTCCTTCACTTCACGAGCTAGGACACGAATCGGCTCTTCTTCA
*
21506399 TAACTCATA-TCAGCCTGAATTTCAACCTCCGACGGACTAATTATGTGCGAAGGATCAGATCTAT
321 TAACTCA-AGTCAGACTGAATTTCAACCTCCGACGGACTAATTATGTGCGAAGGATCAGATCTAT
* * * *
21506463 AGCGCCGAAGCATCGAAACAT-GAAAGACGTCCTGAATCTTTTCAAGTTCAGGGGGCAAAATCAA
385 AACGCCGAAGCATAGAAACATGGAAA-ACGTCCTGAATCCTTTCAAGTTCAGGGGGCAAAAGCAA
* * * * * * *
21506527 TCTATATGCAACCGGACCGACTCGTTCGGATATTTCGTATGGCCCAATGAATCTCGGGCTCAACT
449 CCTATATGCAAACGGACCAACTCGTTCGGAGATTTCATACGGCCCAATGAATCTCGGACTCAACT
* * *
21506592 TGCCTTTACGGCCAAATCTGAGTACCTTCTTCCAAGGTGACACTTTAAGAAACACTTTATCTCCC
514 TGCCCTTACGGCCAAATCTGAGTACCTTCTTCCAAGGTGAAACCTTAAGAAACACTTTATCTCCC
* *
21506657 ACCTGATATTCAATGTCCTTTCGTTTTAAATCCG
579 ACCTGATACTCAATATCCTTTCGTTTTAAATCCG
21506691 CATACGATTT
Statistics
Matches: 538, Mismatches: 66, Indels: 16
0.87 0.11 0.03
Matches are distributed among these distances:
611 9 0.02
612 523 0.97
613 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (612 bp):
ATTTTCACACATGCATATATACATATAATAAGCATCAAATATCACAGTTAAACATTTCGATGACT
CGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCACATTAGGGCTGTCACAACTCTCCCCC
ACTAGAAAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTCTCATAG
AGCTCTCGGTTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACCTTTACTAACGGA
ACCCTTTTGTTTCGCAACTCCTTCACTTCACGAGCTAGGACACGAATCGGCTCTTCTTCATAACT
CAAGTCAGACTGAATTTCAACCTCCGACGGACTAATTATGTGCGAAGGATCAGATCTATAACGCC
GAAGCATAGAAACATGGAAAACGTCCTGAATCCTTTCAAGTTCAGGGGGCAAAAGCAACCTATAT
GCAAACGGACCAACTCGTTCGGAGATTTCATACGGCCCAATGAATCTCGGACTCAACTTGCCCTT
ACGGCCAAATCTGAGTACCTTCTTCCAAGGTGAAACCTTAAGAAACACTTTATCTCCCACCTGAT
ACTCAATATCCTTTCGTTTTAAATCCG
Found at i:21512567 original size:27 final size:27
Alignment explanation
Indices: 21512537--21512714 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21512527 ATATTGAGTC
* * * *
21512537 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21512564 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21512591 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21512619 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21512646 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21512673 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21512700 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21512715 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21512676 original size:82 final size:81
Alignment explanation
Indices: 21512558--21512713 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21512548 TGCTATATAA
* *
21512558 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21512623 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21512640 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21512704 CACTTAGTGC
65 CACTTAGTGC
21512714 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21519450 original size:27 final size:27
Alignment explanation
Indices: 21519420--21519538 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
21519410 TGGATAAGTT
* *
21519420 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
21519447 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
21519474 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
21519501 GTAGAATTACTC-ATATACCCTTGTGGG
1 GTAGAATTAC-CGAAATACCCCTGTAGG
*
21519528 GTAAAATTACC
1 GTAGAATTACC
21519539 TTTTTGCCCC
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:21520279 original size:67 final size:68
Alignment explanation
Indices: 21520170--21520309 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
21520160 GAGGAAGCGT
* * * *
21520170 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCGC-ACATATATGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAACATATATGTTCTGGTGACCTAGCCACA
21520234 ATA
66 ATA
* * *
21520237 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACA-ACATATATGTTCTGGTGACCTAGCCAC
21520302 AATA
65 AATA
21520306 TCTG
1 TCTG
21520310 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 34 0.53
69 30 0.47
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (68 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAACATATATGTTCTGGTGACCTAGCCACA
ATA
Found at i:21520329 original size:27 final size:27
Alignment explanation
Indices: 21520299--21520384 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
21520289 GTGGCCTAGC
*
21520299 CACAATATCTGTATCTGGTGATTTCGT
1 CACAATATCTGTATCTGGTGACTTCGT
** *
21520326 CACAATATCTG-----GCAG-CCTCGT
1 CACAATATCTGTATCTGGTGACTTCGT
21520347 CCACAATATCTGTATCTGGTGACTTCGT
1 -CACAATATCTGTATCTGGTGACTTCGT
21520375 CACAATATCT
1 CACAATATCT
21520385 AGCAGCCTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
21 4 0.09
22 13 0.29
27 23 0.51
28 5 0.11
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (27 bp):
CACAATATCTGTATCTGGTGACTTCGT
Found at i:21520351 original size:49 final size:49
Alignment explanation
Indices: 21520298--21520394 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
21520288 GGTGGCCTAG
* *
21520298 CCACAATATCTGTATCTGGTGATTTCGTCACAATATCTGGCAGCCTCGT
1 CCACAATATCTGTATCTGGTGACTTCGTCACAATATCTAGCAGCCTCGT
21520347 CCACAATATCTGTATCTGGTGACTTCGTCACAATATCTAGCAGCCTCG
1 CCACAATATCTGTATCTGGTGACTTCGTCACAATATCTAGCAGCCTCG
21520395 CTGCAATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (49 bp):
CCACAATATCTGTATCTGGTGACTTCGTCACAATATCTAGCAGCCTCGT
Found at i:21526997 original size:27 final size:27
Alignment explanation
Indices: 21526966--21527084 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
21526956 TGGATAAGTT
* * *
21526966 GTAGAATTACCAAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
21526993 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
21527020 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
21527047 GTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
21527074 GTAAAATTACC
1 GTAGAATTACC
21527085 ATTTTGCCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:21527771 original size:27 final size:27
Alignment explanation
Indices: 21527731--21527814 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
21527721 AGCAGCCTCG
21527731 CTGTAATCTGGTGGCCTCGCCACATATAT
1 CTGT-ATCTGGTGGCCTCGCCACA-ATAT
*
21527760 CTGT-TCTGGTGGCCTAGCCACAATAT
1 CTGTATCTGGTGGCCTCGCCACAATAT
* * *
21527786 CTGTATCTGGTGACTTCGTCACAATAT
1 CTGTATCTGGTGGCCTCGCCACAATAT
21527813 CT
1 CT
21527815 AGCAGCCTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.16
27 37 0.76
29 4 0.08
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (27 bp):
CTGTATCTGGTGGCCTCGCCACAATAT
Found at i:21529978 original size:75 final size:75
Alignment explanation
Indices: 21529885--21530360 Score: 702
Period size: 75 Copynumber: 6.3 Consensus size: 75
21529875 CGTAATTACC
* ** * * *
21529885 GTTGGTTTATCCAACTAGAGCTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
21529950 TGCAAATATT
66 TGCAAATATT
* * *
21529960 GTTGGTTTATCCAACTAGAGTTAGGCTCACAATTATTATCATCGGTATATCCGACTAGCATTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
21530025 TGCAAATATT
66 TGCAAATATT
* *
21530035 GTTGGTTTATCCAACTAGAGCTGGGTTCACAATTATTATCATCGGTATATCCGACTAGCATTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
21530100 TGCAAATATT
66 TGCAAATATT
* * ** * * *
21530110 GTTGGTTTATCCAACTAGAGTTGGGCTCATAATTATTATTGTCGGTATATCTGACTAGCACTAGA
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
*
21530175 TGCAAAAATT
66 TGCAAATATT
* *
21530185 GTTGGTTTATCCAACTAGAGCTGGGTTCACAATTATTATCATCGGTATATTCGACTAGCACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
*
21530250 TGAAAATATT
66 TGCAAATATT
* *
21530260 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTAT-AGTCAGTATATCCGACTAGAACTGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCA-TCGGTATATCCGACTAGCACTGG
*
21530324 GTGCAAATATC
65 GTGCAAATATT
*
21530335 GTTGGTTTATCCAACTAGAGTTGGGC
1 GTTGGTTTATCCAACTAGAGCTGGGC
21530361 AAACATTCAA
Statistics
Matches: 360, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
74 1 0.00
75 359 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCATCGGTATATCCGACTAGCACTGGG
TGCAAATATT
Found at i:21530259 original size:225 final size:225
Alignment explanation
Indices: 21529884--21530360 Score: 776
Period size: 225 Copynumber: 2.1 Consensus size: 225
21529874 GCGTAATTAC
*
21529884 CGTTGGTTTATCCAACTAGAGCTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAG
1 CGTTGGTTTATCCAACTAGAGTTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAG
* * *
21529949 GTGCAAATATTGTTGGTTTATCCAACTAGAGTTAGGCTCACAATTATTATCATCGGTATATCCGA
66 ATGCAAAAATTGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCATCGGTATATCCGA
* * *
21530014 CTAGCATTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGTTCACAATTATTATCA-TC
131 CTAGCACTGGGTGAAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTAT-AGTC
* * *
21530078 GGTATATCCGACTAGCATTGGGTGCAAATAT
195 AGTATATCCGACTAGAACTGGGTGCAAATAT
* * ** *
21530109 TGTTGGTTTATCCAACTAGAGTTGGGCTCATAATTATTATTGTCGGTATATCTGACTAGCACTAG
1 CGTTGGTTTATCCAACTAGAGTTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAG
* * *
21530174 ATGCAAAAATTGTTGGTTTATCCAACTAGAGCTGGGTTCACAATTATTATCATCGGTATATTCGA
66 ATGCAAAAATTGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCATCGGTATATCCGA
21530239 CTAGCACTGGGTGAAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATAGTCA
131 CTAGCACTGGGTGAAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATAGTCA
21530304 GTATATCCGACTAGAACTGGGTGCAAATAT
196 GTATATCCGACTAGAACTGGGTGCAAATAT
21530334 CGTTGGTTTATCCAACTAGAGTTGGGC
1 CGTTGGTTTATCCAACTAGAGTTGGGC
21530361 AAACATTCAA
Statistics
Matches: 232, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
224 1 0.00
225 231 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (225 bp):
CGTTGGTTTATCCAACTAGAGTTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAG
ATGCAAAAATTGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCATCGGTATATCCGA
CTAGCACTGGGTGAAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATAGTCA
GTATATCCGACTAGAACTGGGTGCAAATAT
Found at i:21540237 original size:26 final size:26
Alignment explanation
Indices: 21540207--21540287 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
21540197 TCGATCACCT
21540207 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
*
21540233 GTGTA-T-C-AGATGGTG-AGG-TCACT-T
1 GTGTAGTACTA-A--GTGCAGGCT-ACTAC
*
21540257 GTGTAGCACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
21540283 GTGTA
1 GTGTA
21540288 CCGGATTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
23 1 0.02
24 11 0.26
25 13 0.31
26 16 0.38
27 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:21540270 original size:50 final size:49
Alignment explanation
Indices: 21540101--21540342 Score: 207
Period size: 50 Copynumber: 4.9 Consensus size: 49
21540091 ATTGTGAGTA
* * * * *
21540101 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAGGT
* * * * * * * * *
21540151 CGCATGTGTAGTACTAAGAGTAGGCTACTATGCGTACTTA-ATGACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTAGGT
*
21540202 CACCTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGGT
* * * * * *
21540252 CACTTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
* * * *
21540301 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
21540343 AGCTTCGGCT
Statistics
Matches: 152, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
49 40 0.26
50 75 0.49
51 37 0.24
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
Found at i:21547616 original size:50 final size:50
Alignment explanation
Indices: 21547556--21547781 Score: 192
Period size: 50 Copynumber: 4.5 Consensus size: 50
21547546 TGAGTACACG
* * *
21547556 TGTGTGGTACTAAGTGCAGGCTTA-TACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGACTGTTAAGTCACA
* ** ** *
21547606 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
21547657 TATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* ** * * *
21547707 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
21547756 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
21547782 TGAGTATCAT
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.24
50 66 0.46
51 33 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:21552451 original size:22 final size:22
Alignment explanation
Indices: 21552409--21552452 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21552399 AATTATTTAC
* *
21552409 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
21552431 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
21552453 ACGCATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:21552740 original size:40 final size:41
Alignment explanation
Indices: 21552695--21552860 Score: 250
Period size: 40 Copynumber: 4.1 Consensus size: 41
21552685 AGATTTAGCT
* * *
21552695 GGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGGCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
21552735 GGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
* *
21552775 GGATATAGT-AAATAGCACAAATGCCTTTGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
*
21552815 GGATATAGTC-ACTAGCACAAAAGCCTTCGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
21552855 GGATAT
1 GGATAT
21552861 CATTCGAATA
Statistics
Matches: 116, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.96
41 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
Found at i:21555513 original size:27 final size:26
Alignment explanation
Indices: 21555478--21555589 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
21555468 AGCATGGCTG
* *
21555478 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
21555504 CCAGATACAGATAGTCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
21555532 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
21555559 CCGGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
21555586 CCAG
1 CCAG
21555590 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:21555569 original size:54 final size:54
Alignment explanation
Indices: 21555478--21555589 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
21555468 AGCATGGCTG
* * *
21555478 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAGTCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
21555532 CCAGAACAGAAATATGTGGCAGAGCCACCGGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
21555586 CCAG
1 CCAG
21555590 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:21556354 original size:40 final size:39
Alignment explanation
Indices: 21556256--21556518 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
21556246 TCCTCGTTCA
* * * *
21556256 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
21556295 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21556334 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21556374 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
21556414 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
21556454 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
21556495 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21556519 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:21556478 original size:120 final size:119
Alignment explanation
Indices: 21556256--21556518 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
21556246 TCCTCGTTCA
* * *
21556256 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
21556321 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
21556374 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
21556439 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
21556495 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21556519 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:21556527 original size:41 final size:41
Alignment explanation
Indices: 21556450--21556527 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21556440 TTTGTATCTC
* * *
21556450 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21556491 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21556528 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:21562940 original size:70 final size:68
Alignment explanation
Indices: 21562827--21562962 Score: 227
Period size: 70 Copynumber: 2.0 Consensus size: 68
21562817 GAACCCGAGA
* *
21562827 CCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGT
1 CCGACACCGGAGTCGAACACGAGATGTTAACAAACTTTGAAAAA--TTTCCAGACACTGCCCAAT
21562892 CTGAT
64 CTGAT
*
21562897 CCGACACCGGAGTCGAACACGAGGTGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCT
1 CCGACACCGGAGTCGAACACGAGATGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCT
21562962 G
66 G
21562963 TGTACTAGTC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 21 0.33
70 42 0.67
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (68 bp):
CCGACACCGGAGTCGAACACGAGATGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCT
GAT
Found at i:21563262 original size:72 final size:72
Alignment explanation
Indices: 21563131--21563269 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
21563121 GTTACAGGGG
* *
21563131 TCGACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGAT
1 TCGACTACACTGACCTTTGCCCATTACGACTGGGATATCTCTCTGCACAGAGCTCCAATACTGAT
21563196 GCAGGAA
66 GCAGGAA
* * * * *
21563203 TCGACTACCCTGACCTTTGCGCATTACGACTTGGATATCTC-CTTGTACAGGGCTCCAATACTGA
1 TCGACTACACTGACCTTTGCCCATTACGACTGGGATATCTCTC-TGCACAGAGCTCCAATACTGA
21563267 TGC
65 TGC
21563270 CGTTTATTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 58 0.98
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (72 bp):
TCGACTACACTGACCTTTGCCCATTACGACTGGGATATCTCTCTGCACAGAGCTCCAATACTGAT
GCAGGAA
Found at i:21564050 original size:66 final size:65
Alignment explanation
Indices: 21563932--21564064 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 65
21563922 ATGTAACGAG
*
21563932 TAAGCAATTTATGCTTAGTAAGTTTGAGCAAGGAATTCCAGCATGCACAAAGAATAGCACACATT
1 TAAGCAATTTATGCTTAGTAAGTTTGAGCAAGGAATTCCAGCATGAACAAAGAATAGCACACATT
21563997 TAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCAT-AACGAAAGAATAGCACACA
1 TAAGCAATTTATGCTTAGTAAG-TTTGAGCAAGGAATTCCAGCATGAAC-AAAGAATAGCACACA
21564061 TT
64 TT
21564063 TA
1 TA
21564065 GCTAAACGGA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
65 24 0.37
66 41 0.63
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (65 bp):
TAAGCAATTTATGCTTAGTAAGTTTGAGCAAGGAATTCCAGCATGAACAAAGAATAGCACACATT
Found at i:21564445 original size:83 final size:83
Alignment explanation
Indices: 21564328--21564493 Score: 296
Period size: 83 Copynumber: 2.0 Consensus size: 83
21564318 GATTTAACCG
*
21564328 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTT
1 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAATGCCTT
21564393 CGGGACATAACCCGGATT
66 CGGGACATAACCCGGATT
* *
21564411 GATATAGCTCCTCGTTCAAGTGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATGCCTT
1 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAATGCCTT
*
21564476 CGGGACTTAACCCGGATT
66 CGGGACATAACCCGGATT
21564494 TTAAAACTCG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (83 bp):
GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAATGCCTT
CGGGACATAACCCGGATT
Found at i:21564451 original size:44 final size:42
Alignment explanation
Indices: 21564328--21564453 Score: 143
Period size: 39 Copynumber: 3.0 Consensus size: 42
21564318 GATTTAACCG
21564328 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTT
1 GATATAGCTCCTCGTTC-AATGCCTTCGGGACATAGCCCGGTT
* *** *
21564371 --T-TAG-TAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 GATATAGCT-CCTCGTTCAATGCCTTCGGGACATAGCCCGG-TT
21564411 GATATAGCTCCTCGTTCAAGTGCCTTCGGGACATAGCCCGGTT
1 GATATAGCTCCTCGTTCAA-TGCCTTCGGGACATAGCCCGGTT
21564454 ATAGTAACTC
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
39 23 0.35
40 9 0.14
41 1 0.02
42 1 0.02
43 11 0.17
44 21 0.32
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (42 bp):
GATATAGCTCCTCGTTCAATGCCTTCGGGACATAGCCCGGTT
Found at i:21564523 original size:40 final size:40
Alignment explanation
Indices: 21564346--21564598 Score: 230
Period size: 40 Copynumber: 6.3 Consensus size: 40
21564336 TCCTCGTTCA
* *
21564346 AATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
* **
21564385 AATGCCTTCGGGACATAACCCGGATTGATATAGCT-CCTCGTTC
1 AATGCCTTCGGGACATAACCCGGATT--T-TAG-TAACTCGCAC
* * **
21564428 AAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC
1 AA-TGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
* *
21564468 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
* * *
21564507 GAATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
* * * *
21564547 AAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
21564587 AAATGCCTTCGG
1 -AATGCCTTCGG
21564599 ATCTTAGTCC
Statistics
Matches: 180, Mismatches: 24, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
39 52 0.29
40 95 0.53
42 1 0.01
43 11 0.06
44 21 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTTAGTAACTCGCAC
Found at i:21564611 original size:80 final size:80
Alignment explanation
Indices: 21564344--21564651 Score: 236
Period size: 80 Copynumber: 3.8 Consensus size: 80
21564334 GCTCCTCGTT
* * * * * * * *
21564344 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
*** **
21564408 ATTGATATAGCTCCTCGTT
66 A-T-AT-TA-AAACTCGCA
* * * * * * * *
21564427 CAAGTGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
*
21564491 ATTTTAAAACTCGCA
66 ATATTAAAACTCGCA
* *
21564506 CGAATGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACC
1 CAAATGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACC
21564568 CGGA-ATTAATAACTCGCA
63 CGGATATTAA-AACTCGCA
**
21564586 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGAC-TAAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAA-CCC
21564649 GGA
64 GGA
21564652 CAGCATTCAA
Statistics
Matches: 191, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 2 0.01
79 43 0.23
80 71 0.37
81 11 0.06
82 2 0.01
83 61 0.32
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
ATATTAAAACTCGCA
Found at i:21564651 original size:40 final size:40
Alignment explanation
Indices: 21564471--21564651 Score: 160
Period size: 40 Copynumber: 4.5 Consensus size: 40
21564461 CTCATACAAT
* ** * *
21564471 GCCTTCGGGACTTAACCCGGATTTTAAAAC-TCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAGTACTTCGCACAAAG
21564511 GCCTTCGGGACTTAACCCGGAATTAGTA-TCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTACT-TCGCACAAAG
* *
21564551 GCCTTCGGGACTTAACCCGGAATTAATAAC-TCGCACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAGT-ACTTCGCACAAAG
** *
21564591 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TAGT-ACTTCGCACAAAG
21564631 GCCTTCGGGAC-TAAGCCCGGA
1 GCCTTCGGGACTTAA-CCCGGA
21564652 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
39 11 0.09
40 94 0.80
41 12 0.10
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAGTACTTCGCACAAAG
Found at i:21566058 original size:32 final size:32
Alignment explanation
Indices: 21566022--21566117 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
21566012 TTTTGTATTA
21566022 CCATACTCCTTTTCATTATTTAATTTCCATGC
1 CCATACTCCTTTTCATTATTTAATTTCCATGC
** ** *
21566054 CCATA-T--TTTTC-TT-TTTTTTTTGTATTC
1 CCATACTCCTTTTCATTATTTAATTTCCATGC
21566081 ACCATACTCCTTTTCATTATTTAATTTCCATGC
1 -CCATACTCCTTTTCATTATTTAATTTCCATGC
21566114 CCAT
1 CCAT
21566118 TATTTTATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 9 0.19
28 7 0.15
29 6 0.12
31 6 0.12
32 11 0.23
33 9 0.19
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.52
Consensus pattern (32 bp):
CCATACTCCTTTTCATTATTTAATTTCCATGC
Found at i:21566091 original size:60 final size:59
Alignment explanation
Indices: 21566009--21566131 Score: 212
Period size: 60 Copynumber: 2.1 Consensus size: 59
21565999 TTTCTTTTTC
*
21566009 TTTTTTTGTATTACCATACTCCTTTTCATTATTTAATTTCCATGCCCA-TATTTTTCTTT
1 TTTTTTTGTATTACCATACTCCTTTTCATTATTTAATTTCCATGCCCATTA-TTTTATTT
21566068 TTTTTTTGTATTCACCATACTCCTTTTCATTATTTAATTTCCATGCCCATTATTTTATTT
1 TTTTTTTGTATT-ACCATACTCCTTTTCATTATTTAATTTCCATGCCCATTATTTTATTT
21566128 TTTT
1 TTTT
21566132 CCACCCATGA
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
59 12 0.20
60 47 0.77
61 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.03, T:0.59
Consensus pattern (59 bp):
TTTTTTTGTATTACCATACTCCTTTTCATTATTTAATTTCCATGCCCATTATTTTATTT
Found at i:21574633 original size:41 final size:41
Alignment explanation
Indices: 21574588--21574785 Score: 238
Period size: 41 Copynumber: 4.8 Consensus size: 41
21574578 AAATTGTTCA
21574588 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
*
21574629 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * * *
21574670 GATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-G
* * ** **
21574712 GA-TATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAATTA
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * *
21574752 GACTATAAGTCTATCAGG-TGAAGTGCCAGTGAAT
1 GACTATACGTCTAGCAGGCT-AAGTGCCGGTGAAT
21574786 CTGTTTAAAT
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.02
41 133 0.96
42 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
Found at i:21580836 original size:25 final size:25
Alignment explanation
Indices: 21580774--21580882 Score: 101
Period size: 25 Copynumber: 4.4 Consensus size: 25
21580764 CGCTCTTATG
* *
21580774 AGCTTCCCGATATTTAACTCACATG
1 AGCTTCCCGATATTTAGCTCACATA
* * **
21580799 AGATTTCTAATATTTAGCTCACATA
1 AGCTTCCCGATATTTAGCTCACATA
*
21580824 AGCTTCCCGATATTTAGCTCATATA
1 AGCTTCCCGATATTTAGCTCACATA
** * * *
21580849 AGCTTTTCGATACTTAGCTCGCATG
1 AGCTTCCCGATATTTAGCTCACATA
*
21580874 AGTTTCCCG
1 AGCTTCCCG
21580883 TTATACAACT
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (25 bp):
AGCTTCCCGATATTTAGCTCACATA
Found at i:21580866 original size:50 final size:50
Alignment explanation
Indices: 21580774--21580882 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
21580764 CGCTCTTATG
* *
21580774 AGCTTCCCGATATTTAACTCACATGAGATTTCTAATATTTAGCTCACATA
1 AGCTTCCCGATATTTAACTCACATAAGATTTCTAATACTTAGCTCACATA
* * * * * *
21580824 AGCTTCCCGATATTTAGCTCATATAAGCTTT-TCGATACTTAGCTCGCATG
1 AGCTTCCCGATATTTAACTCACATAAGATTTCT-AATACTTAGCTCACATA
*
21580874 AGTTTCCCG
1 AGCTTCCCG
21580883 TTATACAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
AGCTTCCCGATATTTAACTCACATAAGATTTCTAATACTTAGCTCACATA
Found at i:21583706 original size:23 final size:22
Alignment explanation
Indices: 21583663--21583706 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21583653 TTTCAAGTCA
21583663 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
21583686 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21583707 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:21586097 original size:23 final size:22
Alignment explanation
Indices: 21586046--21586097 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
21586036 CCTCGTCTTT
*
21586046 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
21586068 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
21586091 TTCTTTT
1 TTCTTTT
21586098 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:21586112 original size:18 final size:18
Alignment explanation
Indices: 21586091--21586129 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21586081 TTTCTTCAAC
* *
21586091 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
21586109 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
21586127 TTC
1 TTC
21586130 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:21588101 original size:35 final size:36
Alignment explanation
Indices: 21588053--21588123 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
21588043 TCTGCTCAAT
21588053 TGACCACCACGAAAGTTTCCCCTAAGTTTCAACAAC
1 TGACCACCACGAAAGTTTCCCCTAAGTTTCAACAAC
*
21588089 TGACCA-CACGAAAGTTTCCCCTAAGTTTCTACAAC
1 TGACCACCACGAAAGTTTCCCCTAAGTTTCAACAAC
21588124 CAAATTCACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.82
36 6 0.18
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.24
Consensus pattern (36 bp):
TGACCACCACGAAAGTTTCCCCTAAGTTTCAACAAC
Found at i:21592048 original size:39 final size:40
Alignment explanation
Indices: 21592003--21592187 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
21591993 GCTCCTCGTT
*
21592003 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * ** *
21592043 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * *
21592082 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * * ** *
21592122 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CA
21592163 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21592188 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 38 0.31
40 75 0.61
41 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:21592103 original size:40 final size:39
Alignment explanation
Indices: 21592005--21592134 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
21591995 TCCTCGTTCA
* *
21592005 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
**
21592044 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* *
21592083 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
*
21592123 AAAGGCCTTCGG
1 -AATGCCTTCGG
21592135 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 35 0.44
40 45 0.56
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:21592967 original size:55 final size:55
Alignment explanation
Indices: 21592902--21593012 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
21592892 CTCCACCTAG
* *
21592902 GCCGAATCTTAACTCATCCTCATGCCTCATCACCACGACATTAAACATCAACCAA
1 GCCGAATCTTAACTCATCCTCATGCCTCATCACCACAACATCAAACATCAACCAA
21592957 GCCGAATCTTAACTCATCCTCATGCCTCATCACCACAACATCAAACATCAACCAA
1 GCCGAATCTTAACTCATCCTCATGCCTCATCACCACAACATCAAACATCAACCAA
21593012 G
1 G
21593013 AATGATTCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.37, G:0.07, T:0.21
Consensus pattern (55 bp):
GCCGAATCTTAACTCATCCTCATGCCTCATCACCACAACATCAAACATCAACCAA
Found at i:21594826 original size:265 final size:265
Alignment explanation
Indices: 21594340--21594869 Score: 927
Period size: 265 Copynumber: 2.0 Consensus size: 265
21594330 TTTACTTTCT
*
21594340 GTTCAGCATCTCTAATCAAATCAACTCCGAAAATTTTGCTTTCACCGAGCTCGGTCCAAAACAAT
1 GTTCAGCATCTCTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTCCAAAACAAT
21594405 GGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACT
66 GGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACT
*
21594470 ATTGTTGTAAGCGAATTCAATCAAAGGTACATACCGTTCCCATGAACCACTAAACTCAAGGATGC
131 ATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGC
* * * *
21594535 AGCATCTCAGCATATCCTCGAGTATCTGAATTATCCGCTCGGATTGACC-TTCGGTTTGGGGATG
196 AACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCGGATTGACCATT-AGTTTGGGGATG
21594599 AAAAGC
260 AAAAGC
* * *
21594605 GTTCGGCATCTTTAATCAAATCAACTCTGAAAATTTTACTTTCACCGAGCTCGGTCCAAAACAAT
1 GTTCAGCATCTCTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTCCAAAACAAT
21594670 GGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACT
66 GGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACT
* * *
21594735 ATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGC
131 ATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGC
*
21594800 AACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCGGATTGACCATTAGTTTGGGGGTGA
196 AACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCGGATTGACCATTAGTTTGGGGATGA
21594865 AAAGC
261 AAAGC
21594870 AGTGCTAAAA
Statistics
Matches: 251, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
265 249 0.99
266 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (265 bp):
GTTCAGCATCTCTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTCCAAAACAAT
GGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACT
ATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGC
AACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCGGATTGACCATTAGTTTGGGGATGA
AAAGC
Found at i:21596418 original size:273 final size:273
Alignment explanation
Indices: 21595931--21596476 Score: 1092
Period size: 273 Copynumber: 2.0 Consensus size: 273
21595921 AACCCGAGTA
21595931 GGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCA
1 GGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCA
21595996 GTCAAATGAGATTTCAATTGATCGAAGCCTTTTTGACATTTCTCCGTCCATTCGAACTTAGCATC
66 GTCAAATGAGATTTCAATTGATCGAAGCCTTTTTGACATTTCTCCGTCCATTCGAACTTAGCATC
21596061 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
131 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
21596126 AACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATG
196 AACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATG
21596191 GCTGAGATTTTGT
261 GCTGAGATTTTGT
21596204 GGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCA
1 GGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCA
21596269 GTCAAATGAGATTTCAATTGATCGAAGCCTTTTTGACATTTCTCCGTCCATTCGAACTTAGCATC
66 GTCAAATGAGATTTCAATTGATCGAAGCCTTTTTGACATTTCTCCGTCCATTCGAACTTAGCATC
21596334 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
131 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
21596399 AACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATG
196 AACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATG
21596464 GCTGAGATTTTGT
261 GCTGAGATTTTGT
21596477 TCGGGTCAAC
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
273 273 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (273 bp):
GGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCA
GTCAAATGAGATTTCAATTGATCGAAGCCTTTTTGACATTTCTCCGTCCATTCGAACTTAGCATC
CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
AACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATG
GCTGAGATTTTGT
Found at i:21599143 original size:35 final size:35
Alignment explanation
Indices: 21599095--21599166 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
21599085 GCTATGGTAG
21599095 TCCTAGAACCGACTAAACCATAGCTCTGATACCAA
1 TCCTAGAACCGACTAAACCATAGCTCTGATACCAA
* * *
21599130 TCCTAGAATCGACTAAACCGTAGCTTTGATACCAA
1 TCCTAGAACCGACTAAACCATAGCTCTGATACCAA
21599165 TC
1 TC
21599167 AAATGTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (35 bp):
TCCTAGAACCGACTAAACCATAGCTCTGATACCAA
Found at i:21599579 original size:102 final size:102
Alignment explanation
Indices: 21599403--21599611 Score: 393
Period size: 102 Copynumber: 2.1 Consensus size: 102
21599393 CCAATTAGTA
*
21599403 CAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGAC
1 CAGTTTATTAGTCAAAGTCTCCCATGTTACAGAGATCGACTACACTGACCTTTGCGCATTACGAC
21599468 CTGGATATCTCCCTGCACAGAGCTTCAATACTGATGC
66 CTGGATATCTCCCTGCACAGAGCTTCAATACTGATGC
21599505 CAGTTTATTAGTCAAAGTCTCCCATGTTACAGAGATCGACTACACTGACCTTTGCGCATTACGAC
1 CAGTTTATTAGTCAAAGTCTCCCATGTTACAGAGATCGACTACACTGACCTTTGCGCATTACGAC
*
21599570 CTGGATATCTCCCTTCACAGAGCTTCAATACTGATGC
66 CTGGATATCTCCCTGCACAGAGCTTCAATACTGATGC
21599607 C-GTTT
1 CAGTTT
21599612 GTTTCTATAG
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 4 0.04
102 101 0.96
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (102 bp):
CAGTTTATTAGTCAAAGTCTCCCATGTTACAGAGATCGACTACACTGACCTTTGCGCATTACGAC
CTGGATATCTCCCTGCACAGAGCTTCAATACTGATGC
Found at i:21600867 original size:29 final size:29
Alignment explanation
Indices: 21600804--21600871 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21600794 TAATCAACCG
21600804 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21600833 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21600862 CGCACACTTA
1 CGCACACTTA
21600872 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21600984 original size:174 final size:174
Alignment explanation
Indices: 21600693--21601020 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
21600683 AACTCAAGGT
* * *
21600693 ACTTACCTTTTCCGCTGTCTAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
21600758 GAAAATATATATCGGGTTCGCGCACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATCGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
21600823 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
21600867 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
21600932 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATCGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
21600997 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
21601021 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATCGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:21601012 original size:29 final size:30
Alignment explanation
Indices: 21600973--21601051 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
21600963 CTTAATAATC
21600973 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
21601003 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
21601032 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21601052 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:21603479 original size:40 final size:40
Alignment explanation
Indices: 21603447--21603638 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
21603437 CCAGCATGAT
* * *
21603447 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
21603487 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
21603527 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
21603567 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
21603607 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
21603639 CTCAATTCTC
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:21604923 original size:27 final size:27
Alignment explanation
Indices: 21604858--21605070 Score: 184
Period size: 27 Copynumber: 7.9 Consensus size: 27
21604848 AAACCCTCGA
* * *
21604858 TTTGTAAAATTACCGAAATACCTCTCGG
1 TTTGTAAAATTACTGAAATACCCCT-AG
21604886 TTTGTAAAATTACTGAAATACCCCTAG
1 TTTGTAAAATTACTGAAATACCCCTAG
* **
21604913 TTTGTAAAATTACTAAAATACCCCCGG
1 TTTGTAAAATTACTGAAATACCCCTAG
* * * *
21604940 TTTGTAAAACTACCGAAACACCCC-CG
1 TTTGTAAAATTACTGAAATACCCCTAG
* **
21604966 ATTTGTAAAATTACTAAAATACCCCCGG
1 -TTTGTAAAATTACTGAAATACCCCTAG
** * *
21604994 TTTAAAAAATTA-TCAAAATACCTCTAG
1 TTTGTAAAATTACT-GAAATACCCCTAG
*
21605021 TTTGTAAAATTA-TCG-AATACCCC-AA
1 TTTGTAAAATTACT-GAAATACCCCTAG
*
21605046 TTTGTAAAATTACCGAAATACCCCT
1 TTTGTAAAATTACTGAAATACCCCT
21605071 GTAGGGTAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
25 14 0.09
26 17 0.11
27 97 0.64
28 24 0.16
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCCTAG
Found at i:21605003 original size:81 final size:81
Alignment explanation
Indices: 21604858--21605069 Score: 250
Period size: 81 Copynumber: 2.6 Consensus size: 81
21604848 AAACCCTCGA
* * * **
21604858 TTTGTAAAATTACCGAAATACCTCTCGGTTTGTAAAATTACTGAAATACCCCTAGTTTGTAAAAT
1 TTTGTAAAATTACCGAAATACC-CCCGATTTGTAAAATTACTGAAATACCCCCAGTTTAAAAAAT
*
21604923 TA-CTAAAATACCCCCGG
65 TATC-AAAATACCCCCAG
* * * *
21604940 TTTGTAAAACTACCGAAACACCCCCGATTTGTAAAATTACTAAAATACCCCCGGTTTAAAAAATT
1 TTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAAATACCCCCAGTTTAAAAAATT
* *
21605005 ATCAAAATACCTCTAG
66 ATCAAAATACCCCCAG
* * *
21605021 TTTGTAAAATTATCG-AATA-CCCCAATTTGTAAAATTACCGAAATACCCC
1 TTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAAATACCCC
21605070 TGTAGGGTAA
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 27 0.24
80 3 0.03
81 60 0.54
82 21 0.19
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
TTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAAATACCCCCAGTTTAAAAAATT
ATCAAAATACCCCCAG
Found at i:21605025 original size:54 final size:52
Alignment explanation
Indices: 21604858--21605068 Score: 210
Period size: 54 Copynumber: 3.9 Consensus size: 52
21604848 AAACCCTCGA
** *
21604858 TTTGTAAAATTACCGAAATACCTCTCGGTTTGTAAAATTACTGAAATACCCCTAG
1 TTTGTAAAATTACTAAAATACC-CCCGGTTTGTAAAATTAC-GAAATA-CCCTAG
* * **
21604913 TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAACTACCGAAACACCCCCG
1 TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAATTA-CGAAATACCCTAG
** *
21604966 ATTTGTAAAATTACTAAAATACCCCCGGTTTAAAAAATTATCAAAATACCTCTAG
1 -TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAATTA-CGAAATACC-CTAG
** **
21605021 TTTGTAAAATTA-TCGAATA-CCCCAATTTGTAAAATTACCGAAATACCC
1 TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAATTA-CGAAATACCC
21605069 CTGTAGGGTA
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
51 1 0.01
52 22 0.17
53 9 0.07
54 75 0.58
55 23 0.18
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (52 bp):
TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAATTACGAAATACCCTAG
Found at i:21618424 original size:16 final size:18
Alignment explanation
Indices: 21618403--21618439 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21618393 CTCATTCATA
21618403 CATTTAG-GTA-AAATTG
1 CATTTAGAGTAGAAATTG
*
21618419 CATTTAGATTAGAAATTG
1 CATTTAGAGTAGAAATTG
21618437 CAT
1 CAT
21618440 AGGGATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (18 bp):
CATTTAGAGTAGAAATTG
Found at i:21621295 original size:7 final size:7
Alignment explanation
Indices: 21621275--21621364 Score: 81
Period size: 7 Copynumber: 12.3 Consensus size: 7
21621265 ACTTCTGTCT
21621275 CTAAACC
1 CTAAACC
*
21621282 TTAAAACC
1 CT-AAACC
21621290 CTAAACC
1 CTAAACC
* *
21621297 TTAAAAC
1 CTAAACC
21621304 CTAAACC
1 CTAAACC
*
21621311 CTAAAAAC
1 CT-AAACC
*
21621319 TTAAACC
1 CTAAACC
*
21621326 CTAAACA
1 CTAAACC
*
21621333 CTAAAACA
1 CT-AAACC
21621341 CTAAAACC
1 CT-AAACC
21621349 CTAAACC
1 CTAAACC
21621356 CTAAACC
1 CTAAACC
21621363 CT
1 CT
21621365 CACTTAAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
7 43 0.63
8 25 0.37
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:21621295 original size:15 final size:15
Alignment explanation
Indices: 21621275--21621364 Score: 96
Period size: 15 Copynumber: 6.1 Consensus size: 15
21621265 ACTTCTGTCT
*
21621275 CTAAACCTTAAAACC
1 CTAAACCCTAAAACC
*
21621290 CTAAACCTTAAAA-C
1 CTAAACCCTAAAACC
*
21621304 CTAAACCCTAAAAAC
1 CTAAACCCTAAAACC
* *
21621319 TTAAACCCT-AAACA
1 CTAAACCCTAAAACC
*
21621333 CTAAAACACTAAAACC
1 CT-AAACCCTAAAACC
21621349 CTAAACCCT-AAACC
1 CTAAACCCTAAAACC
21621363 CT
1 CT
21621365 CACTTAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
14 24 0.38
15 34 0.53
16 6 0.09
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (15 bp):
CTAAACCCTAAAACC
Found at i:21623196 original size:34 final size:34
Alignment explanation
Indices: 21623149--21623238 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
21623139 TCTGGGCTTA
21623149 AGCCCA-TATCAGTAGCAATATCAATGTAGGCCTT
1 AGCCCATTA-CAGTAGCAATATCAATGTAGGCCTT
* * *
21623183 AGCCCATTACAGTAGCAATAACAGTGTGGGCCTT
1 AGCCCATTACAGTAGCAATATCAATGTAGGCCTT
*
21623217 AGCCCAATT-CAGTA-CCATATCA
1 AGCCC-ATTACAGTAGCAATATCA
21623239 GAAATGCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 6 0.12
34 38 0.78
35 5 0.10
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (34 bp):
AGCCCATTACAGTAGCAATATCAATGTAGGCCTT
Found at i:21627241 original size:19 final size:19
Alignment explanation
Indices: 21627217--21627259 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
21627207 ACCATTTTAT
21627217 ACCTTTATAATTTTCGCAA
1 ACCTTTATAATTTTCGCAA
21627236 ACCTTTATAATTTTCGCAA
1 ACCTTTATAATTTTCGCAA
*
21627255 GCCTT
1 ACCTT
21627260 CAAGCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (19 bp):
ACCTTTATAATTTTCGCAA
Found at i:21628364 original size:27 final size:27
Alignment explanation
Indices: 21628328--21628423 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
21628318 CAGCAACGGT
* *
21628328 AATATAATCGGCACATAGCCATGGGTA
1 AATATGATCGGCACATAGCCATAGGTA
* * * *
21628355 AATATGATCGACACAAAGTCATCA-ATA
1 AATATGATCGGCACATAGCCAT-AGGTA
* *
21628382 AATATGATAGGCACATAGCCACAGGTA
1 AATATGATCGGCACATAGCCATAGGTA
*
21628409 AATATGATTGGCACA
1 AATATGATCGGCACA
21628424 AAGGCATAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.22
Consensus pattern (27 bp):
AATATGATCGGCACATAGCCATAGGTA
Found at i:21633323 original size:22 final size:22
Alignment explanation
Indices: 21633297--21633339 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21633287 GAAAATAATC
*
21633297 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
21633319 AAAATTAATTAAAATTCATTA
1 AAAATTAATCAAAATTCATTA
21633340 AAATTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:21633333 original size:32 final size:31
Alignment explanation
Indices: 21633288--21633350 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
21633278 AAATCTGTCG
*
21633288 AAAATAATCAAAATTAATCAAAATTTATTAT
1 AAAATAATCAAAATTAATCAAAATTCATTAT
* * *
21633319 AAAATTAATTAAAATTCATTAAAATTCATTAT
1 AAAA-TAATCAAAATTAATCAAAATTCATTAT
21633351 GTTAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAATAATCAAAATTAATCAAAATTCATTAT
Found at i:21633345 original size:10 final size:10
Alignment explanation
Indices: 21633318--21633349 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
21633308 AAATTTATTA
*
21633318 TAAAATTAAT
1 TAAAATTCAT
21633328 TAAAATTCAT
1 TAAAATTCAT
21633338 TAAAATTCAT
1 TAAAATTCAT
21633348 TA
1 TA
21633350 TGTTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAATTCAT
Found at i:21651007 original size:10 final size:10
Alignment explanation
Indices: 21650961--21651008 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
21650951 TAACATAGTG
*
21650961 AATTTTAATT
1 AATTTTGATT
*
21650971 AATTTTAATT
1 AATTTTGATT
21650981 AATTTTGATT
1 AATTTTGATT
21650991 AATTTTGATT
1 AATTTTGATT
21651001 AATTTTGA
1 AATTTTGA
21651009 CAGATTTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
AATTTTGATT
Found at i:21659115 original size:29 final size:28
Alignment explanation
Indices: 21659079--21659156 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
21659069 TCATGAGATT
21659079 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
21659109 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
21659136 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
21659157 GATTATTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:21659374 original size:174 final size:174
Alignment explanation
Indices: 21659109--21659436 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
21659099 AAATTGTACA
*
21659109 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
21659174 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
21659239 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
21659283 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
21659348 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
21659413 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
21659437 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:21662611 original size:22 final size:21
Alignment explanation
Indices: 21662581--21662627 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
21662571 TACAAATTAA
21662581 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
21662603 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
21662624 ATCT
1 ATCT
21662628 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:21662633 original size:19 final size:19
Alignment explanation
Indices: 21662598--21662674 Score: 115
Period size: 17 Copynumber: 4.1 Consensus size: 19
21662588 AGATTACAAG
21662598 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
21662619 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
21662636 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21662655 ATCATAT-TAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21662673 AT
1 AT
21662675 GCTTAAAGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.31
18 13 0.24
19 15 0.28
20 1 0.02
21 8 0.15
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:21662653 original size:36 final size:37
Alignment explanation
Indices: 21662598--21662669 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
21662588 AGATTACAAG
21662598 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATAT-TAAGATTGT
21662636 ATCATATC-T-AAGATTGCATATCATATTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATTAAGATTG
21662670 CATATGCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 8 0.24
36 17 0.50
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (37 bp):
ATCATATCTTCAAGATTGCATATCATATTAAGATTGT
Found at i:21663296 original size:44 final size:44
Alignment explanation
Indices: 21663248--21664403 Score: 1179
Period size: 44 Copynumber: 26.3 Consensus size: 44
21663238 TCGAAATGGA
* * * * **
21663248 GATGCCAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAAC
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
*
21663292 GATGCCAAATTTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663336 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663380 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663424 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663468 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663512 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663556 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21663600 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
* *
21663644 GATGCCAAATCTACTATCTTCAACTTGTTCCCCATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * * * *
21663688 GATGCC--ATGCTGAAATCTTCGACCTGTTTCGCTGTAATCACAGG
1 GATGCCAAAT-CTGCTATCTTCAACTTG-TTCCCTATAAACACAGG
* * * * * *
21663732 AATGTCAGATCTGCTATCTTCGATTTGTTCCTTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
*
21663776 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** ** * * *
21663820 GATGCC--ATGCTGAAATCTTTGA-TCTGCTTCGCTGTAATCACAGG
1 GATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAACACAGG
* * * * * * *
21663864 AATGTCAGACCTGCTATCTTCGATTTATTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
*
21663908 GATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * *
21663952 GATGCC--ATGCTGAAATCTTCGA-TCTGTTTCCCTGTAATA-ACA-A
1 GATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAA-ACACAGG
** * ** * *
21663995 GAGTGTTAGATCTGCTATCTTTGATTTTTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * *
21664040 GATGCC--ATGCTGAAATCTTCGA-TCTGTTTCCCTGTAATA-ACA-A
1 GATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAA-ACACAGG
** * ** * *
21664083 GAGTGTTAGATCTGCTATCTTTGATTTTTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
*
21664128 GATGCCAAATCTGCTATCTTCAACTTGTTCCCCATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * * *
21664172 GATGCC--ATGCTGAAATCTTCGA-TCTGCTTCGCTGTAATCACAGG
1 GATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAACACAGG
* * * * * *
21664216 AATGTCAGATCTGCTATCTTCGATTTGTTCCTTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
21664260 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
* ** * * * *
21664304 GATG-C-TATGCTGAAATCTTCGA-TCTGCTTCGCTTTAAGCACA-G
1 GATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAACACAGG
* * *
21664347 GAGTGTCAGATCTGCTATCTTCGA-TCTGTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAGG
21664392 GATGCCAAATCT
1 GATGCCAAATCT
21664404 TATTTCTCTG
Statistics
Matches: 933, Mismatches: 136, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
42 17 0.02
43 78 0.08
44 739 0.79
45 84 0.09
46 15 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
Found at i:21670981 original size:19 final size:19
Alignment explanation
Indices: 21670946--21671767 Score: 1594
Period size: 19 Copynumber: 43.2 Consensus size: 19
21670936 AGATTACAAG
21670946 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
21670967 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21670986 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671005 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671024 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671043 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671062 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671081 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671100 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671119 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671138 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671157 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671176 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671195 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671214 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671233 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671252 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671271 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671290 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671309 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671328 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671347 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671366 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671385 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671404 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671423 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671442 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671461 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671480 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671499 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671518 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671537 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671556 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671575 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671594 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671613 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671632 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671651 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671670 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671689 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671708 ATCATATCTCTAAGATTG--T
1 ATCATA--TCTAAGATTGCAT
21671727 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671746 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21671765 ATC
1 ATC
21671768 CTTAAAGATT
Statistics
Matches: 797, Mismatches: 0, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
17 10 0.01
19 768 0.96
20 1 0.00
21 18 0.02
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:21672654 original size:30 final size:30
Alignment explanation
Indices: 21672615--21672673 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21672605 GAAGGTGAGA
*
21672615 TGGGAAGGGAATAAAAGTTTTAGGGGGAAAT
1 TGGGAAGGGAATAAAAATTTT-GGGGGAAAT
*
21672646 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGGAATAAAAATTTTGGGGGAAA
21672674 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 14 0.54
31 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTTGGGGGAAAT
Found at i:21672871 original size:23 final size:23
Alignment explanation
Indices: 21672845--21672897 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
21672835 TATTTGAATT
* *
21672845 ATTCGAGTT-ATTCGAATTCAAAA
1 ATTCGAATTAATTCGAACTC-AAA
21672868 ATTC-AATTCAATTCGAACTCAAA
1 ATTCGAATT-AATTCGAACTCAAA
21672891 ATTCGAA
1 ATTCGAA
21672898 AAAAAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 11 0.44
24 11 0.44
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (23 bp):
ATTCGAATTAATTCGAACTCAAA
Found at i:21678040 original size:30 final size:31
Alignment explanation
Indices: 21677999--21678065 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
21677989 GAGTCCCACT
21677999 TTGCCTCTATTATTTGCAAAATCAAACCAA-
1 TTGCCTCTATTATTTGCAAAATCAAACCAAG
* *
21678029 TTGCCTTTATTATTTGCAAAGTCAAACCAAG
1 TTGCCTCTATTATTTGCAAAATCAAACCAAG
21678060 TTGCCT
1 TTGCCT
21678066 ACTCTAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.82
31 6 0.18
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (31 bp):
TTGCCTCTATTATTTGCAAAATCAAACCAAG
Found at i:21681214 original size:23 final size:25
Alignment explanation
Indices: 21681188--21681234 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21681178 TATCATTCAT
*
21681188 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
21681211 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
21681235 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:21681555 original size:46 final size:46
Alignment explanation
Indices: 21681495--21681661 Score: 246
Period size: 46 Copynumber: 3.6 Consensus size: 46
21681485 TTTGACGTGA
* * * * * *
21681495 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
21681541 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
21681587 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21681633 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
21681662 TGCACAGGTT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.03
46 107 0.97
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:21681679 original size:38 final size:41
Alignment explanation
Indices: 21681539--21681745 Score: 197
Period size: 46 Copynumber: 4.8 Consensus size: 41
21681529 TTTCTGTCAT
21681539 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCT-CATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTT----AT-TGCA-ATCAG
* *
21681585 GTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTT----ATTGCA-ATCAG
21681631 GTTGCCATGGTATCTTTCAACCATGGTCTTA-TGC-A-CAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTGCAATCAG
* * *
21681669 GTTGTCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTT----ATTGCA-ATCAG
21681715 GTTGCCATGGTATCTTTCAACCATGGTCTTA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA
21681746 CACATTTCAT
Statistics
Matches: 144, Mismatches: 8, Indels: 22
0.83 0.05 0.13
Matches are distributed among these distances:
38 31 0.22
39 1 0.01
41 2 0.01
42 3 0.02
43 2 0.01
45 2 0.01
46 103 0.72
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (41 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTGCAATCAG
Found at i:21681723 original size:84 final size:84
Alignment explanation
Indices: 21681582--21681745 Score: 301
Period size: 84 Copynumber: 2.0 Consensus size: 84
21681572 CATCTCATAT
*
21681582 CAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
21681647 TCAACCATGGTCTTATGCA
66 TCAACCATGGTCTTATGCA
* *
21681666 CAGGTTGTCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
21681731 TCAACCATGGTCTTA
66 TCAACCATGGTCTTA
21681746 CACATTTCAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTATGCA
Found at i:21681733 original size:46 final size:46
Alignment explanation
Indices: 21681666--21681760 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
21681656 GTCTTATGCA
* *
21681666 CAGGTTGTCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
21681712 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
21681758 CAG
1 CAG
21681761 AGAGCACACT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (46 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:21689081 original size:9 final size:9
Alignment explanation
Indices: 21689067--21689101 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
21689057 TAATTAAAAG
21689067 ATAAAATAA
1 ATAAAATAA
21689076 ATAAAATAA
1 ATAAAATAA
21689085 ATAAAACATAA
1 AT-AAA-ATAA
21689096 ATAAAA
1 ATAAAA
21689102 ATAAGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.50
10 6 0.25
11 6 0.25
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAAATAA
Found at i:21689881 original size:28 final size:28
Alignment explanation
Indices: 21689812--21689888 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
21689802 ATTATGGAAT
21689812 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * *
21689839 T-AAGTATTGATATTGAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
21689867 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
21689889 TCGTAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:21694089 original size:18 final size:19
Alignment explanation
Indices: 21694041--21694099 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
21694031 ACAATATATA
* *
21694041 ATATATAATAACAAAAATT
1 ATATATAAGAATAAAAATT
* *
21694060 -TATAAAAGAATAATAATT
1 ATATATAAGAATAAAAATT
*
21694078 ATATATAA-AATAAAAAAT
1 ATATATAAGAATAAAAATT
21694096 ATAT
1 ATAT
21694100 TGGTTTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATATAAGAATAAAAATT
Found at i:21694210 original size:21 final size:23
Alignment explanation
Indices: 21694152--21694210 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
21694142 AATTTATATT
*
21694152 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
21694173 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
21694196 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
21694211 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:21694389 original size:18 final size:17
Alignment explanation
Indices: 21694349--21694517 Score: 65
Period size: 17 Copynumber: 9.9 Consensus size: 17
21694339 ACCTTTAATG
* *
21694349 ATAATAATATAT-AGAT
1 ATAAAAATATATAATAT
21694365 A-AAAAATATATAATAGT
1 ATAAAAATATATAATA-T
*
21694382 ATAAAAATAACATAATAT
1 ATAAAAAT-ATATAATAT
21694400 A-AAATAAT-TATAATAT
1 ATAAA-AATATATAATAT
*
21694416 ATAATATGAA-AGTATATATGT
1 ATAA-A--AATA-TATA-ATAT
*
21694437 AAAAATAATATATAATAT
1 ATAAA-AATATATAATAT
*
21694455 ATATAAATA-AT--TA-
1 ATAAAAATATATAATAT
*
21694468 ATAAATATATTATACA-A-
1 ATAAAAATA-TATA-ATAT
21694485 ATAAAAATATAATAATAAT
1 ATAAAAATAT-ATAAT-AT
*
21694504 ATATAAATA-ATAAT
1 ATAAAAATATATAAT
21694518 GTAAAATAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 41
0.68 0.09 0.24
Matches are distributed among these distances:
13 7 0.06
14 2 0.02
15 11 0.09
16 15 0.13
17 28 0.24
18 19 0.16
19 23 0.20
20 6 0.05
21 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAAAAATATATAATAT
Found at i:21694402 original size:16 final size:17
Alignment explanation
Indices: 21694366--21694416 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
21694356 TATATAGATA
* *
21694366 AAAAATATATAATAGTAT
1 AAAAATA-ATCATAATAT
21694384 AAAAATAA-CATAATAT
1 AAAAATAATCATAATAT
*
21694400 -AAAATAATTATAATAT
1 AAAAATAATCATAATAT
21694416 A
1 A
21694417 TAATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
16 13 0.46
17 1 0.04
18 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATAATCATAATAT
Found at i:21694530 original size:30 final size:31
Alignment explanation
Indices: 21694367--21694615 Score: 130
Period size: 32 Copynumber: 8.0 Consensus size: 31
21694357 ATATAGATAA
* *
21694367 AAAAT-ATATAATAGTATAAAAATAACATAATAT
1 AAAATAAT-TAATAATATATAAAT-A-ATAATAT
*
21694400 AAAATAATT-ATAATATATAATATGAA-AGTAT
1 AAAATAATTAATAATATATAA-AT-AATAATAT
** *
21694431 ATATGTAA-AAATAATATAT-AAT-AT-ATAT
1 A-AAATAATTAATAATATATAAATAATAATAT
*
21694459 -AAATAATTAATAA-ATATATTATACA-AATA-
1 AAAATAATTAATAATATATA-AATA-ATAATAT
* *
21694488 AAAATATAATAATAATATATAAATAATAATGT
1 AAAATA-ATTAATAATATATAAATAATAATAT
* * *
21694520 AAAATAA-TAAT-ATTTCGTGAAA-AGTAATAT
1 AAAATAATTAATAATAT-AT-AAATAATAATAT
*
21694550 ATAATAATTAATAATAATATAAATAATATATAAT
1 AAAATAATTAATAAT-ATATAAATAATA-AT-AT
*
21694584 AAAATAATTATATAATATATAATATAAAAATA
1 AAAATAATTA-ATAATATATAA-ATAATAATA
21694616 AGGTTAAAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 52
0.68 0.10 0.21
Matches are distributed among these distances:
26 8 0.05
27 5 0.03
28 6 0.04
29 3 0.02
30 29 0.18
31 30 0.18
32 40 0.24
33 13 0.08
34 21 0.13
35 10 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATAATTAATAATATATAAATAATAATAT
Found at i:21694531 original size:19 final size:19
Alignment explanation
Indices: 21694509--21694591 Score: 50
Period size: 19 Copynumber: 4.3 Consensus size: 19
21694499 ATAATATATA
21694509 AATAATAATGTAAAATAAT
1 AATAATAATGTAAAATAAT
*
21694528 AAT-AT-TTCGTGAAAAGTAAT
1 AATAATAAT-GT-AAAA-TAAT
21694548 ATATAATAAT-TAATAATAAT
1 A-ATAATAATGTAA-AATAAT
* *
21694568 -ATAAATAATATATAATAA-
1 AAT-AATAATGTAAAATAAT
21694586 AATAAT
1 AATAAT
21694592 TATATAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 21
0.68 0.04 0.28
Matches are distributed among these distances:
17 1 0.02
18 9 0.18
19 20 0.39
20 13 0.25
21 5 0.10
22 2 0.04
23 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAATAATGTAAAATAAT
Found at i:21694576 original size:12 final size:12
Alignment explanation
Indices: 21694550--21694672 Score: 73
Period size: 12 Copynumber: 10.3 Consensus size: 12
21694540 AAAGTAATAT
21694550 ATAATAAT-T-A
1 ATAATAATATAA
21694560 ATAATAATATAA
1 ATAATAATATAA
21694572 ATAAT-ATATAA
1 ATAATAATATAA
*
21694583 TAAAATAATTATATA
1 -ATAATAA-TATA-A
21694598 ATATATAATATAA
1 ATA-ATAATATAA
21694611 A-AATAAGGT-TAA
1 ATAATAA--TATAA
* *
21694623 A-AATAAAACAA
1 ATAATAATATAA
21694634 ATAATAATA-ATA
1 ATAATAATATA-A
* *
21694646 A-AATTATATAT
1 ATAATAATATAA
*
21694657 ATAATAATAGAA
1 ATAATAATATAA
21694669 ATAA
1 ATAA
21694673 ATATATAGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
10 8 0.09
11 22 0.25
12 40 0.45
13 4 0.04
14 10 0.11
15 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:21696645 original size:206 final size:206
Alignment explanation
Indices: 21696165--21696757 Score: 812
Period size: 206 Copynumber: 2.8 Consensus size: 206
21696155 GATATCTTCG
* * *
21696165 ATCTGCTCTCCGTCGAACATAGAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGACAACACAG
1 ATCTGCTCTCCGTCGAATATAGAGACGCCAAA-------CTTCGATTTGTTCTCTGACAATACAG
*
21696230 AGATGCCAAGTCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTC
59 AGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTC
* * * * *
21696295 GATTTGTTCCTTGT-AA-GCATGGATACCAAACCATCTTGGATTTGCTTCAGTCTAATCATCAGA
124 GATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATTTGCTTCAGTATAAGCATCAGA
** *
21696358 AGGTTAGATTTGCTATGT
189 AGGCCAGATCTGCTATGT
* * * * * * *
21696376 GTTTGCCCCCCGTCGAATATGGTGACGCAAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC
1 ATCTGCTCTCCGTCGAATATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC
* * * * * *
21696441 AAATCATCTTAGACTTGCTTCAGCGTAAGCATGCGAAAACCAAATCAGCTATGTCTTTGATTTGT
66 AAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGT
** * *
21696506 TCCTTGTAAACACAAGGATGCCAAATTATCTTGGATTTGCTTCAGTATAAGGATCTGAAGGCCAG
131 TCCTTGTAAACACAAGGATGCCAAACCATCTTGGATTTGCTTCAGTATAAGCATCAGAAGGCCAG
21696571 ATCTGCTATGT
196 ATCTGCTATGT
21696582 ATCTGCTCTCCGTCGAATATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC
1 ATCTGCTCTCCGTCGAATATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC
* *
21696647 AAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGT
66 AAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGT
*
21696712 TCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
131 TCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT-TTGCTTCAG
21696758 CCAGATCTGC
Statistics
Matches: 332, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
204 96 0.29
205 2 0.01
206 201 0.61
207 9 0.03
211 24 0.07
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
ATCTGCTCTCCGTCGAATATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC
AAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGT
TCCTTGTAAACACAAGGATGCCAAACCATCTTGGATTTGCTTCAGTATAAGCATCAGAAGGCCAG
ATCTGCTATGT
Found at i:21704824 original size:15 final size:15
Alignment explanation
Indices: 21704794--21704824 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21704784 ATTCTGATTC
21704794 AATTTCATTTAGAAA
1 AATTTCATTTAGAAA
21704809 AATTT-ATTTAGAAA
1 AATTTCATTTAGAAA
21704823 AA
1 AA
21704825 GAATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTTCATTTAGAAA
Found at i:21708724 original size:21 final size:23
Alignment explanation
Indices: 21708666--21708724 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
21708656 AATTTATATT
*
21708666 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
21708687 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
21708710 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
21708725 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:21708865 original size:3 final size:3
Alignment explanation
Indices: 21708857--21708934 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
21708847 GTTAAAACCT
*
21708857 ATA ATA ATA ATA ATA ATA ATA TATA GATA A-A A-A ATA TATA ATA GT-
1 ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA
* * *
21708902 ATA AAA ATA A-C ATA AT- ATA A-A ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21708935 TATGATATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
2 10 0.17
3 40 0.68
4 9 0.15
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21708922 original size:16 final size:17
Alignment explanation
Indices: 21708857--21708936 Score: 53
Period size: 16 Copynumber: 4.8 Consensus size: 17
21708847 GTTAAAACCT
* *
21708857 ATAATAATAATAATAATA
1 ATAATCATAAT-ATAAAA
21708875 AT-AT-ATAGATA-AAAA
1 ATAATCATA-ATATAAAA
* *
21708890 ATATATAATAGTATAAAA
1 ATA-ATCATAATATAAAA
21708908 ATAA-CATAATAT-AAA
1 ATAATCATAATATAAAA
*
21708923 ATAATTATAATATA
1 ATAATCATAATATA
21708937 TGATATGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
15 12 0.24
16 17 0.34
17 9 0.18
18 12 0.24
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAATCATAATATAAAA
Found at i:21708991 original size:11 final size:12
Alignment explanation
Indices: 21708961--21709035 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 12
21708951 ATATGTAAAA
*
21708961 ATAATATATAAT
1 ATAATAAATAAT
21708973 ATATATAAATAAT
1 ATA-ATAAATAAT
21708986 -TAATAAAT-AT
1 ATAATAAATAAT
21708996 ATAATACAAGTAA-
1 ATAATA-AA-TAAT
21709009 A-AATATAATAAT
1 ATAATA-AATAAT
21709021 GATATATAAATAAT
1 -ATA-ATAAATAAT
21709035 A
1 A
21709036 ATGTAAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 2 0.04
11 14 0.27
12 13 0.25
13 12 0.23
14 8 0.15
15 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:21709009 original size:28 final size:28
Alignment explanation
Indices: 21708963--21709029 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 28
21708953 ATGTAAAAAT
*
21708963 AATATATAATATATATAAATAAT-TAATA
1 AATATATAATACATATAAA-AATATAATA
21708991 AATATATAATACA-AGTAAAAATATAATA
1 AATATATAATACATA-TAAAAATATAATA
21709019 ATGATATATAA
1 A--ATATATAA
21709030 ATAATAATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 4 0.12
28 22 0.65
30 8 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
AATATATAATACATATAAAAATATAATA
Found at i:21709096 original size:29 final size:29
Alignment explanation
Indices: 21709061--21709120 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
21709051 ATTTTGTGAA
21709061 AAGTAATATATAATAAA-TAATAATAATAT
1 AAGTAATATATAATAAATTAATAAT-ATAT
*
21709090 AAGTAATATATAATAAATTAATTATATAT
1 AAGTAATATATAATAAATTAATAATATAT
21709119 AA
1 AA
21709121 TATAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AAGTAATATATAATAAATTAATAATATAT
Found at i:21709115 original size:25 final size:22
Alignment explanation
Indices: 21708856--21709131 Score: 70
Period size: 22 Copynumber: 12.5 Consensus size: 22
21708846 AGTTAAAACC
21708856 TATAATAATAATA-ATAATAATA
1 TATAATAATAATATAT-ATAATA
*
21708878 TATAGATAA-AAAATATATAATA
1 TATA-ATAATAATATATATAATA
* *
21708900 GTATAAAAATAACATAATATAA-A
1 -TATAATAATAATAT-ATATAATA
*
21708923 -ATAATTATAATATATGAT-ATGA
1 TATAATAATAATATAT-ATAAT-A
* * *
21708945 AAGTGTATATGTAA-A-A-ATAATA
1 TA-T-AATA-ATAATATATATAATA
*
21708967 TATAAT-AT-ATATAAATAATTA
1 TATAATAATAATATATATAA-TA
* *
21708988 -ATAAATATATAATACA-AGTAAAAA
1 TAT-AATA-ATAATATATA-T-AATA
*
21709012 TATAATAATGATATATA-AATA
1 TATAATAATAATATATATAATA
* *
21709033 -ATAAT-GTAAAATA-ATAATA
1 TATAATAATAATATATATAATA
* **
21709052 TTTTGTGAA-AAGTAATATATAATA
1 TATAAT-AATAA-T-ATATATAATA
*
21709076 AATAATAATAATATA-AGTAATA
1 TATAATAATAATATATA-TAATA
21709098 TATAATAAATTAATTATATATAATA
1 TATAAT-AA-TAA-TATATATAATA
21709123 TA-AA-AATAA
1 TATAATAATAA
21709132 GGTTAAAAAA
Statistics
Matches: 186, Mismatches: 30, Indels: 77
0.63 0.10 0.26
Matches are distributed among these distances:
17 1 0.01
18 3 0.02
19 10 0.05
20 18 0.10
21 27 0.15
22 36 0.19
23 35 0.19
24 34 0.18
25 18 0.10
26 4 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (22 bp):
TATAATAATAATATATATAATA
Found at i:21709120 original size:15 final size:15
Alignment explanation
Indices: 21709067--21709117 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
21709057 TGAAAAGTAA
21709067 TATATAATAAATAA-
1 TATATAATAAATAAT
21709081 TA-ATAATATAAGTAA-
1 TATATAATA-AA-TAAT
21709096 TATATAATAAATTAAT
1 TATATAATAAA-TAAT
21709112 TATATA
1 TATATA
21709118 TAATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.19
14 4 0.12
15 10 0.31
16 12 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
TATATAATAAATAAT
Found at i:21714286 original size:31 final size:31
Alignment explanation
Indices: 21714248--21714308 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
21714238 ATTCATATTT
21714248 CATATTTCATAATACTGGGCCGAAGCCTTTC
1 CATATTTCATAATACTGGGCCGAAGCCTTTC
* * *
21714279 CATATTTCATATTATTGGGCCGCAGCCTTT
1 CATATTTCATAATACTGGGCCGAAGCCTTT
21714309 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
CATATTTCATAATACTGGGCCGAAGCCTTTC
Found at i:21714567 original size:26 final size:26
Alignment explanation
Indices: 21714534--21714606 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
21714524 TCTTTTTAAT
21714534 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
21714560 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21714586 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21714607 GCACTTCATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Done.