Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 91 of 187
Found at i:27253775 original size:20 final size:21
Alignment explanation
Indices: 27253746--27253822 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 21
27253736 TATTTTTAAG
27253746 AAAATGTTAATAA-TATTATTT
1 AAAATGTTAA-AATTATTATTT
27253767 AAAAT-TTAAAATTATTA-TT
1 AAAATGTTAAAATTATTATTT
* **
27253786 --AATGTTAAAATTAATAGAT
1 AAAATGTTAAAATTATTATTT
27253805 -AAAT-TTAAAATTATTATT
1 AAAATGTTAAAATTATTATT
27253823 AATGAGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.06
18 11 0.23
19 16 0.34
20 12 0.26
21 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
AAAATGTTAAAATTATTATTT
Found at i:27256358 original size:32 final size:31
Alignment explanation
Indices: 27256300--27256359 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
27256290 TATATCATAA
*
27256300 TTTTTACTATATTAATAATTATTATATAATT
1 TTTTTACTATATTAATAAATATTATATAATT
*
27256331 TTTTTACTGATATT-ATAAATGTGTATATA
1 TTTTTACT-ATATTAATAAATAT-TATATA
27256360 TGTAGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTTTACTATATTAATAAATATTATATAATT
Found at i:27259446 original size:21 final size:21
Alignment explanation
Indices: 27259421--27259469 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27259411 CAACTTAAAA
*
27259421 CAGAGGCGGCAACGAGGGAAG
1 CAGAGGCGGCAACGAGAGAAG
* * *
27259442 CAGAGGCTGTAGCGAGAGAAG
1 CAGAGGCGGCAACGAGAGAAG
27259463 CAGAGGC
1 CAGAGGC
27259470 CACAGTGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
CAGAGGCGGCAACGAGAGAAG
Found at i:27259971 original size:43 final size:43
Alignment explanation
Indices: 27259933--27260225 Score: 290
Period size: 43 Copynumber: 6.9 Consensus size: 43
27259923 ATTTGTGAAA
* **
27259933 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTGTAGA-
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTTTAC
* * *
27259975 TGAAGCGCCGCTAAAGAACATTACTTTTATCAGCGTTT-TCTAC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTTTAC
* * * *
27260018 CAAGCGCCGCTATAGAACATTACTTTTAGCGGTGTTTTTTTAC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTTTAC
* * * *
27260061 GAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTTTAC
* *
27260104 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTT-TTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTGTTTAC
* * * * * * *
27260146 CAAGTGCCGCTAAAGAACATGA-TCATTAGCGGCATTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTGTTTAC
* * *
27260189 TAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTT
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT
27260226 TCTTCTGTAA
Statistics
Matches: 218, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
42 74 0.34
43 144 0.66
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTTTAC
Found at i:27260123 original size:128 final size:128
Alignment explanation
Indices: 27259934--27260247 Score: 346
Period size: 128 Copynumber: 2.4 Consensus size: 128
27259924 TTTGTGAAAT
* * ** *
27259934 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCG-TTTGTAGATGAAGCGCCGCTAAAGAACATTA
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTTCAT-AAGCGCCGCTAAAGAACATGA
* * * * **
27259998 -CTTTTATCAGCGTTTTCTACCAAGCGCCGCTATAGAACATTA-CTTTTAGCGGTGTTTTTTTAC
65 TC-TTTAGCAGCGTTTTCTACCAAGCGCCGCTAAAGAACATGATC-ATTAGCGGCATTTTTTTAC
27260061 G
128 G
* * *
27260062 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTTCATAAGCGCCGCTAAAGAACATGAT
* * * * * *
27260127 CTTTAGCGGCGTTTTTTCCCAAGTGCCGCTAAAGAACATGATCATTAGCGGCATTTTTTTCCT
66 CTTTAGCAGCGTTTTCTACCAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTTTACG
* * * * *
27260190 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTCTTCTGTAAGCGCCGCAAAAG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTTC-ATAAGCGCCGCTAAAG
27260248 TTAGCGACGT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
128 135 0.87
129 21 0.13
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (128 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTTCATAAGCGCCGCTAAAGAACATGAT
CTTTAGCAGCGTTTTCTACCAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTTTACG
Found at i:27260226 original size:85 final size:85
Alignment explanation
Indices: 27259933--27260226 Score: 306
Period size: 85 Copynumber: 3.4 Consensus size: 85
27259923 ATTTGTGAAA
* ** ** *
27259933 TAAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTGTAGATGAAGCGCCGCTAAAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGACCTTTAGCGGCGTTT-TTTACCAAGCGCCGCTAAAGAACATG
* * * * * *
27259997 ACTTTTATCAGCGTTTTCTACC
64 ACTATTAGCGGCATTTTTTTCC
* * * * * * *
27260019 -AAGCGCCGCTATAGAACATTACTTTTAGCGGTGTTTTTTTACGAAGCGCCGCTATAGAACATTA
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTTTTACCAAGCGCCGCTAAAGAACATGA
* *
27260083 CTTTTAGCGGCGTTTTTTTCC
65 CTATTAGCGGCATTTTTTTCC
* * *
27260104 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGTGCCGCTAAAGAACATGA-
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGAC
27260168 TCATTAGCGGCATTTTTTTCC
66 T-ATTAGCGGCATTTTTTTCC
*
27260189 TAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTT
27260227 CTTCTGTAAG
Statistics
Matches: 180, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
84 2 0.01
85 147 0.82
86 31 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGAC
TATTAGCGGCATTTTTTTCC
Found at i:27263283 original size:4 final size:4
Alignment explanation
Indices: 27263274--27263298 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27263264 ACTGTCACAA
27263274 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
27263299 TTATGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:27265681 original size:2 final size:2
Alignment explanation
Indices: 27265674--27265699 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27265664 GCTTGAAAAT
27265674 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27265700 GGGTTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27270016 original size:21 final size:20
Alignment explanation
Indices: 27269991--27270038 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 20
27269981 AGACAAAAAT
27269991 AACTAAGATAAAAAGATAACA
1 AACTAAGATAAAAAGA-AACA
*
27270012 AACT-AG--AAAATGAAACA
1 AACTAAGATAAAAAGAAACA
27270029 AACTAA-ATAA
1 AACTAAGATAA
27270039 TAAAAAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 2 0.09
20 2 0.09
21 4 0.17
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (20 bp):
AACTAAGATAAAAAGAAACA
Found at i:27277383 original size:17 final size:17
Alignment explanation
Indices: 27277352--27277384 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27277342 ATATCTTTAA
27277352 TTTTTAAAAGTGGATTG
1 TTTTTAAAAGTGGATTG
27277369 TTTTTCAAAAG-GGATT
1 TTTTT-AAAAGTGGATT
27277385 AAATTAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (17 bp):
TTTTTAAAAGTGGATTG
Found at i:27279566 original size:20 final size:20
Alignment explanation
Indices: 27279541--27279589 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
27279531 TCTCACTTTG
27279541 GTATCGATACCACTTCTTGA
1 GTATCGATACCACTTCTTGA
27279561 GTATCGATACCACTTCTTGA
1 GTATCGATACCACTTCTTGA
27279581 GTATCGATA
1 GTATCGATA
27279590 TTCAGGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (20 bp):
GTATCGATACCACTTCTTGA
Found at i:27284046 original size:19 final size:20
Alignment explanation
Indices: 27284022--27284064 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
27284012 ATTACCCTTA
* *
27284022 TTATTTTCCTT-TTTTTATT
1 TTATTTTACTTATTATTATT
27284041 TTA-TTTACTTATTATTATT
1 TTATTTTACTTATTATTATT
27284060 TTATT
1 TTATT
27284065 AAATCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 13 0.65
20 1 0.05
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTACTTATTATTATT
Found at i:27289652 original size:20 final size:21
Alignment explanation
Indices: 27289615--27289655 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27289605 TATGTAATCA
27289615 TTATTTTCATAATATATATAT
1 TTATTTTCATAATATATATAT
27289636 TTATTTT-ATAACT-TATATAT
1 TTATTTTCATAA-TATATATAT
27289656 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATATATATAT
Found at i:27302050 original size:44 final size:43
Alignment explanation
Indices: 27301986--27302545 Score: 284
Period size: 44 Copynumber: 12.8 Consensus size: 43
27301976 GAAGATGGCG
27301986 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * **
27302030 AATCCTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * *
27302073 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * *
27302114 ATTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCAAT
** * * * * * * *
27302158 GGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * *
27302202 AAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * *
27302247 AAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA--T
* * * ** *
27302293 AATCTTATC-CCCTTGAAATTGCAGTTGG-GCAGACTGAATAAACA
1 AATCTTATCTCCC-TGAAGTTGCAG-TGGAGCAGATTAAAGCAA-T
* * * **
27302337 AATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATG--AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-GCAAT
* * * ** * *
27302380 GGATTTTATCTCTCTGAAGTTGCAGTAAAGCAGATCAAATC-A-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * *
27302422 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * * *
27302466 AAGTCTTATC-CCCTTGAAATTGCAATGGGGCAGACTGAATA-AAAA
1 AA-TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAA-AGCAAT
*
27302511 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
27302546 GAGAAAACCA
Statistics
Matches: 401, Mismatches: 85, Indels: 61
0.73 0.16 0.11
Matches are distributed among these distances:
40 22 0.05
41 41 0.10
42 3 0.01
43 17 0.04
44 163 0.41
45 143 0.36
46 9 0.02
47 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:27302164 original size:84 final size:89
Alignment explanation
Indices: 27301904--27302539 Score: 399
Period size: 89 Copynumber: 7.2 Consensus size: 89
27301894 CAAATCCTGA
* ** *
27301904 CTCCCTGAAGTTACAGTGGAGTGGA-TTAGAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGTG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAGA--AAGCAAGTCTTATCTC-CCTGAAGTTGCAGTG
* * *
27301967 G-GACAGACTGAAG-ATGGC-GAATCTTAT
63 GAG-CAGACTAAAGTA-AGCAG-GTCTTAT
* * * *
27301994 CTCCCTGAAGTTGCAGTGGAGCAGA-T--TAAAGCCAATAATCCTATCTCCCTGAAGTTGCGGTG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAGAAAG-C-A-AGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
27302056 GAGCAGATTAAAGTGA-TAGATCTTAT
63 GAGCAGACTAAAGTAAGCAGGTCTTAT
* * * * * *
27302082 CTCTCTGAAGTTGCAG-AGAGCAGA-TC-G-CATCTATTCTTATCTCCCTGAAGTTGCAGTGGAG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
27302143 TAGACT-GAGTAAGCAGGTCTTAT
66 CAGACTAAAGTAAGCAGGTCTTAT
* * * *
27302166 CCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAGGTTGCAGTGGA
1 CTCCCTGAAGTTGCAGTGGAGCAGACTC-AGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGA
* * *
27302231 GCAGACTCAAGAAAGCAAGTCTTAT
65 GCAGACTAAAGTAAGCAGGTCTTAT
* * *
27302256 TTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTATC-CCCTTGAAATTGCAGTTG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTC-AGAAAGCAAGTCTTATCTCCC-TGAAGTTGCAG-TG
* * ** *
27302320 G-GCAGACTGAA-TAAACAAATCCTAT
63 GAGCAGACTAAAGTAAGCAGGTCTTAT
* * ** * * * * * **
27302345 CTCCCTAAAGTTGTAGTGGAGTGGA-TTAGAATG-ATGGATTTTATCTCTCTGAAGTTGCAGTAA
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAGAAAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGG
27302408 AGCAGA-TCAAA-TCAA--A--TCTTAT
64 AGCAGACT-AAAGT-AAGCAGGTCTTAT
* *
27302430 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC-CCCTTGAAATTGCAATGG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTC-AGAAAGCAAGTCTTATCTCCC-TGAAGTTGCAGTGG
* * ** **
27302494 GGCAGACTGAA-TAAAAAAATCTTAT
64 AGCAGACTAAAGTAAGCAGGTCTTAT
27302519 CTCCCTGAAGTTGCAGTGGAG
1 CTCCCTGAAGTTGCAGTGGAG
27302540 TAGATTGAGA
Statistics
Matches: 430, Mismatches: 84, Indels: 65
0.74 0.15 0.11
Matches are distributed among these distances:
83 4 0.01
84 51 0.12
85 36 0.08
86 32 0.07
87 26 0.06
88 51 0.12
89 129 0.30
90 98 0.23
91 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTCAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACTAAAGTAAGCAGGTCTTAT
Found at i:27302217 original size:45 final size:45
Alignment explanation
Indices: 27301904--27302539 Score: 453
Period size: 45 Copynumber: 14.5 Consensus size: 45
27301894 CAAATCCTGA
* ** * *
27301904 CTCCCTGAAGTTACAGTGGAGTGGA-TTAGAGTAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCA-AGAAAGCAAGTCTTAT
* **
27301949 C-CTCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGCGAA-TCTTAT
1 CTC-CCTGAAGTTGCAGTGGAG-CAGACTCAAGAAAGC-AAGTCTTAT
* * * * *
27301994 CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTAT
* * **
27302038 CTCCCTGAAGTTGCGGTGGAGCAGA-TTAA-AGTG-ATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * * * * *
27302082 CTCTCTGAAGTTGCAG-AGAGCAGA-TC--G-CATCTATTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * *
27302122 CTCCCTGAAGTTGCAGTGGAGTAGACT-GAGTAAGCAGGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * *
27302166 CCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
27302211 CTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* *
27302256 TTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * *
27302301 C-CCCTTGAAATTGCAGTTGG-GCAGACTGAATAAA-CAAATCCTAT
1 CTCCC-TGAAGTTGCAG-TGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * ** * * * *
27302345 CTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATTTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* ** * *
27302389 CTCTCTGAAGTTGCAGTAAAGCAGA-TC---AAATCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
27302430 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * * *
27302475 C-CCCTTGAAATTGCAATGGGGCAGACTGAATAAA-AAAATCTTAT
1 CTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
27302519 CTCCCTGAAGTTGCAGTGGAG
1 CTCCCTGAAGTTGCAGTGGAG
27302540 TAGATTGAGA
Statistics
Matches: 464, Mismatches: 93, Indels: 69
0.74 0.15 0.11
Matches are distributed among these distances:
40 21 0.05
41 35 0.08
42 10 0.02
43 17 0.04
44 155 0.33
45 217 0.47
46 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
Found at i:27302574 original size:307 final size:306
Alignment explanation
Indices: 27301904--27302551 Score: 783
Period size: 307 Copynumber: 2.1 Consensus size: 306
27301894 CAAATCCTGA
* * *
27301904 CTCCCTGAAGTTACAGTGGAGTGGATTAGAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG-
1 CTCCCTGAAGTTGCAGTGGAGTAGATTAGAGAAAGCAAGTCTTAT-CTCCTGAAGTTGCAGTGGA
* ** * * * **
27301968 GACAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAT
65 G-CAGACTCAAGAAAGCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATGAAAAACAATAAT
* *
27302033 CCTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGCAG
129 CCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGCAG
* ** * * * * * *
27302098 AGAGCAGATCGCATCTATTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGCAGGTCT
194 AAAGCAGATCAAATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCT
** * * *
27302163 TATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTAT
259 TATCCCCCTGAAATTGCAATGGGGCAGACTCAAGAAAGAAAATCTTAT
* * * *
27302211 CTCCCTGAGGTTGCAGTGGAGCAGACTCA-AGAAAGCAAGTCTTATTTCCCTGAAGTTGCAGTGG
1 CTCCCTGAAGTTGCAGTGGAGTAGA-TTAGAGAAAGCAAGTCTTATCT-CCTGAAGTTGCAGTGG
27302275 AGCAGACTCAAGAAAGCAAATCTTATC-CCCTTGAAATTGCAGTTGG-GCAGACTGAATAAAC-A
64 AGCAGACTCAAGAAAGCAAATCTTATCTCCC-TGAAATTGCAG-TGGAGCAGA-TGAA-AAACAA
* ** * *
27302337 -AATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAA-TGATGGATTTTATCTCTCTGAAGT
125 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTA-AAGTGATAGATCTTATCTCTCTGAAGT
27302400 TGCAGTAAAGCAGATCAAATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAG
189 TGCAG-AAAGCAGATCAAATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAG
* * *
27302465 CAAGTCTTATCCCCTTGAAATTGCAATGGGGCAGACTGAATAAA-AAAATCTTAT
252 CAAGTCTTATCCCCCTGAAATTGCAATGGGGCAGACTCAAGAAAGAAAATCTTAT
27302519 CTCCCTGAAGTTGCAGTGGAGTAGATT-GAGAAA
1 CTCCCTGAAGTTGCAGTGGAGTAGATTAGAGAAA
27302552 ACCAATCCAA
Statistics
Matches: 288, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
306 4 0.01
307 152 0.53
308 88 0.31
309 44 0.15
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (306 bp):
CTCCCTGAAGTTGCAGTGGAGTAGATTAGAGAAAGCAAGTCTTATCTCCTGAAGTTGCAGTGGAG
CAGACTCAAGAAAGCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATGAAAAACAATAATCC
TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGCAGAA
AGCAGATCAAATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCTTA
TCCCCCTGAAATTGCAATGGGGCAGACTCAAGAAAGAAAATCTTAT
Found at i:27304063 original size:20 final size:21
Alignment explanation
Indices: 27304026--27304066 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27304016 TATGTAATCA
27304026 TTATTTTCATAATATATATAT
1 TTATTTTCATAATATATATAT
27304047 TTATTTT-ATAACT-TATATAT
1 TTATTTTCATAA-TATATATAT
27304067 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATATATATAT
Found at i:27308525 original size:92 final size:92
Alignment explanation
Indices: 27308364--27308716 Score: 299
Period size: 92 Copynumber: 3.8 Consensus size: 92
27308354 ATCATGGTGA
* ** * * *
27308364 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T---CATAGCAAACCTTATTTCCCTAAAGTTG
27308429 CAGTGGAACAGATTAAAGCTATAAATTACAG
62 CAGTGGAACAGATTAAAGCTATAAATTACAG
* * *
27308460 ATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATTATAGCAAACCTTATCTCCCTAAAGTTGCAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTATTTCCCTAAAGTTGCAGT
* *
27308525 GGAGCAGGTTCAAAG-T-T--A-TA-AG
66 GGAACAGATT-AAAGCTATAAATTACAG
* * * * ** * ** *
27308547 -TTTTATCTC-CTTGAAGTAGCAGTGGAGTAGACTGAAGATAGCGAATATTATTTCCCTAAAATT
1 ATCTTATCTCTC-TGAAGTTGCAGT--A-AAG-CAGATCATAGCAAACCTTATTTCCCTAAAGTT
*
27308610 GCAGTGAAACAGATTAAAGCTATAAATTACAG
61 GCAGTGGAACAGATTAAAGCTATAAATTACAG
* * * * * *
27308642 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATATCCTTGAAGTTACAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTATTTCCCTAAAGTTGCAGT
*
27308707 GGAGCAGATT
66 GGAACAGATT
27308717 GAAGATACCA
Statistics
Matches: 201, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
85 1 0.00
86 18 0.09
87 2 0.01
88 3 0.01
89 7 0.03
90 37 0.18
91 2 0.01
92 70 0.35
93 7 0.03
94 3 0.01
95 3 0.01
96 47 0.23
97 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (92 bp):
ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTATTTCCCTAAAGTTGCAGT
GGAACAGATTAAAGCTATAAATTACAG
Found at i:27308674 original size:182 final size:182
Alignment explanation
Indices: 27308367--27308713 Score: 550
Period size: 182 Copynumber: 1.9 Consensus size: 182
27308357 ATGGTGAATC
* * * *
27308367 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTAAAATTGCAG
* *
27308432 TGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATTATA
66 TGAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATA
* *
27308497 GCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAAGTTATAAGTT
131 GCAAACCTTATATCCCTAAAGTTACAGTGGAGCAGGTTCAAAGTTATAAGTT
* * *
27308549 TTATCTCCTTGAAGTAGCAGTGGAGTAGACTGAAGATAGCGAATATTATTTCCCTAAAATTGCAG
1 TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTAAAATTGCAG
* *
27308614 TGAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA
66 TGAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATA
* * *
27308679 TCAAACCTTATATCCTTGAAGTTACAGTGGAGCAG
131 GCAAACCTTATATCCCTAAAGTTACAGTGGAGCAG
27308714 ATTGAAGATA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
182 149 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (182 bp):
TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTAAAATTGCAG
TGAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATA
GCAAACCTTATATCCCTAAAGTTACAGTGGAGCAGGTTCAAAGTTATAAGTT
Found at i:27308742 original size:44 final size:44
Alignment explanation
Indices: 27308685--27308804 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
27308675 CATATCAAAC
* **
27308685 CTTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGATACCAAT
1 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGATACCAAT
* **
27308729 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTATTAAT
1 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGATACCAAT
* * *
27308773 CCTATCTCCCTGAAGTTGTAGTAGAGCAGATT
1 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATT
27308805 AAAACGATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGATACCAAT
Found at i:27308818 original size:44 final size:44
Alignment explanation
Indices: 27308726--27308818 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
27308716 TGAAGATACC
* * * * * * *
27308726 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTATT
1 AATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA
27308770 AATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA
1 AATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA
27308814 AATCC
1 AATCC
27308819 AATACCTCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA
Found at i:27309083 original size:44 final size:45
Alignment explanation
Indices: 27308362--27309117 Score: 234
Period size: 45 Copynumber: 16.6 Consensus size: 45
27308352 TCATCATGGT
27308362 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * *
27308407 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GC
* * ** *
27308458 -AGATCTTATCTCTCTAAAGTTGCAGTAAAGCAGA-T---TATAGC
1 GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * ** * *
27308499 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAAGTTA--
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGC
* * * * *
27308543 TAAGTTTTATCTCCTTGAAGTAGCAGTGGAGTAGACTGAAGATAGC
1 GAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * * * * *
27308589 GAATATTATTTCCCTAAAATTGCAGTGAAACAGATTAAAGCTATAAATTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GC
* * * *
27308640 -AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATC
1 GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * *
27308681 AAACCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGATA-C
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * *
27308725 CAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTA-T
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * *
27308769 TAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA--
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAGC
** * ** * **
27308814 -AATCCAATAC-CTCT-AAGGTTGCAATAGGTCGGATTAAATCT-ATCATAGC
1 GAATCTTAT-CTCCCTGAA-GTTGC---A-GT-GGAGCAGA-CTGAAGATAGC
* * *
27308863 AAACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * *
27308908 GAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GC
* * ** * *
27308959 -AGATCTTATCTCTCTGAAGTTGCAATAAAGCAGA-T---CATATC
1 GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * ** *
27309000 TAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-C
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
*
27309044 -AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 GAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* *
27309089 GAATATTATTTCCCTGAAGTTGCAGTGGA
1 GAATCTTATCTCCCTGAAGTTGCAGTGGA
27309118 ATAGATTAAA
Statistics
Matches: 519, Mismatches: 133, Indels: 118
0.67 0.17 0.15
Matches are distributed among these distances:
41 80 0.15
42 6 0.01
43 7 0.01
44 127 0.24
45 167 0.32
46 11 0.02
47 11 0.02
48 3 0.01
49 8 0.02
50 19 0.04
51 80 0.15
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
Found at i:27309084 original size:181 final size:181
Alignment explanation
Indices: 27308867--27309192 Score: 553
Period size: 181 Copynumber: 1.8 Consensus size: 181
27308857 CATAGCAAAC
* * *
27308867 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAGTTGCA
* *
27308932 GTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAAAGCAGATCAT
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAAAGCAGATCAT
*
27308997 ATCTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
131 ATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
*
27309048 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAGTTGCA
* * * *
27309113 GTGGAATAGATTAAAGCTATAAATTATAAATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAAAGCAGATCAT
27309178 ATCAAACCTTATCTC
131 ATCAAACCTTATCTC
27309193 TCTGAAGCTG
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 134 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (181 bp):
CTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAGTTGCA
GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAAAGCAGATCAT
ATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
Found at i:27309171 original size:96 final size:96
Alignment explanation
Indices: 27308862--27309173 Score: 324
Period size: 96 Copynumber: 3.4 Consensus size: 96
27308852 TCTATCATAG
* * *
27308862 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
27308927 TTGTAGTGGAACAGATTAAAGCTATAAATTA
66 TTGTAGTGGAACAGATTAAAGCTATAAATTA
* * * * * * * * * *
27308958 CAGATCTTATCTCTCTGAAGTTGCAATAAAGCAGA-T---CATATCTAACCTTATCTCCTTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
27309019 TTGTAGTGGAGCAGGTT---G----AAGTTA
66 TTGTAGTGGAACAGATTAAAGCTATAAATTA
* * * *
27309043 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* *
27309108 TTGCAGTGGAATAGATTAAAGCTATAAATTA
66 TTGTAGTGGAACAGATTAAAGCTATAAATTA
*
27309139 TAAATCTTATC-CCTCTGAAGTTGCAGTAGAGCAGA
1 CAAATCTTATCTCC-CTGAAGTTGCAGTAGAGCAGA
27309174 TCATATCAAA
Statistics
Matches: 165, Mismatches: 39, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
85 33 0.20
86 1 0.01
89 32 0.19
92 35 0.21
95 3 0.02
96 61 0.37
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (96 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTGTAGTGGAACAGATTAAAGCTATAAATTA
Found at i:27324965 original size:44 final size:44
Alignment explanation
Indices: 27324893--27324982 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
27324883 ATTTCTCACT
*
27324893 TAAACTCTTATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
*
27324937 TAAATTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
27324981 TA
1 TA
27324983 GTGTGTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (44 bp):
TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
Found at i:27327442 original size:26 final size:26
Alignment explanation
Indices: 27327419--27327493 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
27327409 ATTTTTTTCC
27327419 CAATTTTACCCCTAGAAAAATTTTGA
1 CAATTTTACCCCTAGAAAAATTTTGA
* * **
27327445 CAATTTTACCCCAATAAATTTTTTGA
1 CAATTTTACCCCTAGAAAAATTTTGA
* *
27327471 CGATTTTACCCCTAGTAAAATTT
1 CAATTTTACCCCTAGAAAAATTT
27327494 CAAGAAAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (26 bp):
CAATTTTACCCCTAGAAAAATTTTGA
Found at i:27327664 original size:19 final size:18
Alignment explanation
Indices: 27327640--27327677 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
27327630 TGCAAATGTA
27327640 TCATTTCTC-TTTCTCATTT
1 TCATTT-TCATTTC-CATTT
27327659 TCATTTTCATTTCCATTT
1 TCATTTTCATTTCCATTT
27327677 T
1 T
27327678 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (18 bp):
TCATTTTCATTTCCATTT
Found at i:27330229 original size:17 final size:16
Alignment explanation
Indices: 27330198--27330230 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
27330188 ATCGTTTGTG
27330198 TTTATTTTATTATTTA
1 TTTATTTTATTATTTA
27330214 TTTATTTTAGTTATTTA
1 TTTATTTTA-TTATTTA
27330231 ATTTCTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTTTATTATTTA
Found at i:27330331 original size:13 final size:13
Alignment explanation
Indices: 27330298--27330332 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27330288 TTTAGGCTTA
27330298 TTACTATTTAGAC
1 TTACTATTTAGAC
**
27330311 TTGTTATTTAGAC
1 TTACTATTTAGAC
27330324 TTACTATTT
1 TTACTATTT
27330333 TACATATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (13 bp):
TTACTATTTAGAC
Found at i:27332079 original size:25 final size:24
Alignment explanation
Indices: 27332045--27332103 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
27332035 AGAAAGCAAC
* * *
27332045 AAAAATAAAATATATTCTAAAAAG
1 AAAAAGAAAACATAATCTAAAAAG
*
27332069 AAAAGAGAAAACCTAATCTAAAAAG
1 AAAA-AGAAAACATAATCTAAAAAG
27332094 AAAAAGAAAA
1 AAAAAGAAAA
27332104 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.15
Consensus pattern (24 bp):
AAAAAGAAAACATAATCTAAAAAG
Found at i:27335255 original size:17 final size:18
Alignment explanation
Indices: 27335235--27335278 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27335225 CCAGAAATAA
27335235 TAATATTAT-AATAAATT
1 TAATATTATAAATAAATT
*
27335252 TAATATT-TAAATTAATT
1 TAATATTATAAATAAATT
27335269 TAATACTTAT
1 TAATA-TTAT
27335279 TCTGATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 2 0.09
19 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTATAAATAAATT
Found at i:27339745 original size:29 final size:29
Alignment explanation
Indices: 27339713--27339771 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
27339703 CAAACAAAAT
27339713 TGAACCAGT-CATCAAAATACAAACATCAA
1 TGAA-CAGTCCATCAAAATACAAACATCAA
** *
27339742 TGAAGTGTCCATCAAAATACAACCATCAA
1 TGAACAGTCCATCAAAATACAAACATCAA
27339771 T
1 T
27339772 TAAATCGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (29 bp):
TGAACAGTCCATCAAAATACAAACATCAA
Found at i:27340351 original size:24 final size:24
Alignment explanation
Indices: 27340324--27340433 Score: 211
Period size: 24 Copynumber: 4.6 Consensus size: 24
27340314 CAGAAGGAGC
27340324 TGGTGGAGCAGGAGCTGCTGCAAT
1 TGGTGGAGCAGGAGCTGCTGCAAT
27340348 TGGTGGAGCAGGAGCTGCTGCAAT
1 TGGTGGAGCAGGAGCTGCTGCAAT
27340372 TGGTGGAGCAGGAGCTGCTGCAAT
1 TGGTGGAGCAGGAGCTGCTGCAAT
27340396 TGGTGGAGCAGGAGCTGCTGCAAT
1 TGGTGGAGCAGGAGCTGCTGCAAT
*
27340420 TGATGGAGCAGGAG
1 TGGTGGAGCAGGAG
27340434 ATGTTGGAGG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 85 1.00
ACGTcount: A:0.22, C:0.15, G:0.43, T:0.20
Consensus pattern (24 bp):
TGGTGGAGCAGGAGCTGCTGCAAT
Found at i:27341420 original size:22 final size:22
Alignment explanation
Indices: 27341395--27341717 Score: 432
Period size: 22 Copynumber: 14.7 Consensus size: 22
27341385 AGCAATTATC
*
27341395 CAAC-ATTCGGACAACATTTAAT
1 CAACAATT-GGACAGCATTTAAT
* *
27341417 CAACAATTGGACAGCAATCAAT
1 CAACAATTGGACAGCATTTAAT
*
27341439 CAACATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341461 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27341483 CAACATTTAGACAACATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341505 CAACAATTGGACAACATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341527 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* *
27341549 CAACATTTAGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341571 CAACAATTGGACAGCATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
27341593 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341615 CAACAATTGGACAGCATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
27341637 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27341659 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27341681 CAACATTTTGATAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
27341703 CAACAATTGGACAGC
1 CAACAATTGGACAGC
27341718 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 41, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
22 256 0.99
23 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (22 bp):
CAACAATTGGACAGCATTTAAT
Found at i:27341851 original size:22 final size:22
Alignment explanation
Indices: 27341821--27341899 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
27341811 NNNNNNNCAA
*
27341821 CATTAAATCAACATTTGGACAG
1 CATTTAATCAACATTTGGACAG
* *
27341843 CATTTAATCAACAATTGGACAA
1 CATTTAATCAACATTTGGACAG
* *
27341865 CATTCAATCAATATTTGGACAG
1 CATTTAATCAACATTTGGACAG
27341887 CATTTAATCAACA
1 CATTTAATCAACA
27341900 ATTTTTACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (22 bp):
CATTTAATCAACATTTGGACAG
Found at i:27341881 original size:44 final size:44
Alignment explanation
Indices: 27341818--27341902 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
27341808 NNNNNNNNNN
27341818 CAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTGGA
1 CAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTGGA
* *
27341862 CAACATTCAATCAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTAAATCAACATTTGGACAGCATTTAATCAACAATT
27341903 TTTACTTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (44 bp):
CAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTGGA
Found at i:27348350 original size:18 final size:19
Alignment explanation
Indices: 27348315--27348353 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
27348305 AACCCCACCA
*
27348315 TTAATTCTCTCATTACAAT
1 TTAATTCTCTCATAACAAT
27348334 TTAATTCT-TCATAACAAT
1 TTAATTCTCTCATAACAAT
27348352 TT
1 TT
27348354 TGTTCCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATTCTCTCATAACAAT
Found at i:27349003 original size:5 final size:5
Alignment explanation
Indices: 27348986--27349044 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
27348976 GCATAACAGC
*
27348986 ACATA ACAT- ACATA ACATA ATAGTAA ACATA ACAT- ACAT- ACATA ACAGT-
1 ACATA ACATA ACATA ACATA ACA-T-A ACATA ACATA ACATA ACATA ACA-TA
27349035 ACATA ACATA
1 ACATA ACATA
27349045 CAAAATATGC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
4 13 0.28
5 27 0.59
6 3 0.07
7 3 0.07
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.22
Consensus pattern (5 bp):
ACATA
Found at i:27352484 original size:27 final size:27
Alignment explanation
Indices: 27352442--27352530 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
27352432 GCCACTGATA
* * *
27352442 GGCGGCACCAAAGGTGTCATTCCCATG
1 GGCGGCACCGATGGTGCCATTCCCATG
*
27352469 GGCGGCACCGGTGGTGCCATTCCCATG
1 GGCGGCACCGATGGTGCCATTCCCATG
27352496 GGCGGCACCGATGGTGCCATTCCCATG
1 GGCGGCACCGATGGTGCCATTCCCATG
27352523 GGCGGCAC
1 GGCGGCAC
27352531 TGCCCTTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.16, C:0.33, G:0.35, T:0.17
Consensus pattern (27 bp):
GGCGGCACCGATGGTGCCATTCCCATG
Found at i:27352602 original size:4 final size:4
Alignment explanation
Indices: 27352585--27352654 Score: 53
Period size: 4 Copynumber: 18.0 Consensus size: 4
27352575 GAAGGAGAGG
*
27352585 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAG GAAA GAAAA TGAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA
27352631 GGAGAA G-AA GAAA -AAA GAAA GAAA
1 -GA-AA GAAA GAAA GAAA GAAA GAAA
27352655 AGGAAAGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 16 0.29
4 27 0.49
5 9 0.16
6 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:27352651 original size:30 final size:30
Alignment explanation
Indices: 27352617--27352720 Score: 120
Period size: 30 Copynumber: 3.4 Consensus size: 30
27352607 GAAAAAGAAG
*
27352617 GAAAGAAAATGAAAGGAGAAGAAGAAAAAA
1 GAAAGAAAAGGAAAGGAGAAGAAGAAAAAA
27352647 GAAAGAAAAGGAAAGGAGAAG-AGAAAAAAA
1 GAAAGAAAAGGAAAGGAGAAGAAG-AAAAAA
* * * *
27352677 GAAGAAGAAGAAGGAGAGGGGAGGAAGGAAAAA
1 G-A-AAGAA-AAGGAAAGGAGAAGAAGAAAAAA
27352710 GAAAGAAAAGG
1 GAAAGAAAAGG
27352721 TAATTTTTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.03
30 31 0.48
31 6 0.09
32 6 0.09
33 17 0.27
34 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (30 bp):
GAAAGAAAAGGAAAGGAGAAGAAGAAAAAA
Found at i:27352672 original size:48 final size:43
Alignment explanation
Indices: 27352587--27352688 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 43
27352577 AGGAGAGGGA
27352587 AAGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAATGAAAG
1 AAGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAA--AAAG
* *
27352632 GAGAAGAAGAAA-AAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAG
1 AAGAAGAAGAAAGAAAGAAAGAAAAAG-AA-G-GAA-AGAAAAAAAG
27352678 AAGAAGAAGAA
1 AAGAAGAAGAA
27352689 GGAGAGGGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 13 0.26
45 13 0.26
46 15 0.30
47 3 0.06
48 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (43 bp):
AAGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAAAAG
Found at i:27352857 original size:28 final size:27
Alignment explanation
Indices: 27352805--27352858 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
27352795 TTTTATTATG
* * *
27352805 TTATTTAGTATATAAATTTTATGAAAT
1 TTATTTAGCATACAAAATTTATGAAAT
27352832 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCAT-ACAAAATTTATGAAA
27352859 AAATTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (27 bp):
TTATTTAGCATACAAAATTTATGAAAT
Found at i:27357742 original size:18 final size:18
Alignment explanation
Indices: 27357719--27357763 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
27357709 ATCCCAATGA
27357719 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
27357737 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
27357755 TCACCACCA
1 TCGCCACCA
27357764 ACCATATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.51, G:0.04, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:27358493 original size:3 final size:3
Alignment explanation
Indices: 27358485--27358543 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
27358475 ATCTAAACCC
27358485 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27358533 TAA TAA TAA TA
1 TAA TAA TAA TA
27358544 CTAACTAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:27362026 original size:22 final size:22
Alignment explanation
Indices: 27361998--27362040 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
27361988 CTTTTGGCTA
27361998 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
27362020 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
27362041 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:27362689 original size:18 final size:18
Alignment explanation
Indices: 27362666--27362709 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27362656 ATGGGAATGA
* *
27362666 GTTGCTTGTTATAGTGAT
1 GTTGCTTGTTACAGTAAT
27362684 GTTGCTTGTTACAGTAAT
1 GTTGCTTGTTACAGTAAT
*
27362702 ATTGCTTG
1 GTTGCTTG
27362710 ACGCACTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.25, T:0.48
Consensus pattern (18 bp):
GTTGCTTGTTACAGTAAT
Found at i:27363241 original size:16 final size:17
Alignment explanation
Indices: 27363220--27363256 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
27363210 CGCCGATATG
27363220 TTATAGTTAGTTA-TTA
1 TTATAGTTAGTTAGTTA
27363236 TTATAGTTAGTTAGTTA
1 TTATAGTTAGTTAGTTA
27363253 TTAT
1 TTAT
27363257 TTTAAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (17 bp):
TTATAGTTAGTTAGTTA
Found at i:27364921 original size:17 final size:17
Alignment explanation
Indices: 27364899--27364932 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27364889 CCATGTGTAT
*
27364899 GGGCATTTCCCCACTGC
1 GGGCATTTCCCAACTGC
27364916 GGGCATTTCCCAACTGC
1 GGGCATTTCCCAACTGC
27364933 AAGCCACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.38, G:0.24, T:0.24
Consensus pattern (17 bp):
GGGCATTTCCCAACTGC
Found at i:27365697 original size:27 final size:27
Alignment explanation
Indices: 27365659--27365719 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
27365649 ATGAGTAGTC
* *
27365659 CCGCCAATCAGTATGGCACCATTGGTG
1 CCGCCAACCAGTATGGCACCATCGGTG
*
27365686 CCGCCAACCAGTATGGCACTATCGGTG
1 CCGCCAACCAGTATGGCACCATCGGTG
27365713 CCGCCAA
1 CCGCCAA
27365720 TCAAAAACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (27 bp):
CCGCCAACCAGTATGGCACCATCGGTG
Found at i:27366906 original size:19 final size:19
Alignment explanation
Indices: 27366884--27366921 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27366874 ATTTATTATT
27366884 TTTAATAAATTA-TTTAATA
1 TTTAA-AAATTATTTTAATA
*
27366903 TTTAAAATTTATTTTAATA
1 TTTAAAAATTATTTTAATA
27366922 GTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAAATTATTTTAATA
Found at i:27374736 original size:13 final size:13
Alignment explanation
Indices: 27374718--27374742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27374708 ACACTTAAAT
27374718 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
27374731 TTCTCAAAAGCA
1 TTCTCAAAAGCA
27374743 ATGAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:27385122 original size:37 final size:37
Alignment explanation
Indices: 27385072--27385149 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
27385062 CGTTCATCCG
*
27385072 CCGCCGCTCCGGCCGCCGGCCGTTGGCGACGGCGCCA
1 CCGCCGCTCCGGCCGCCGGCCGTTGGCGACAGCGCCA
* *
27385109 CCGCCGCTTCGGCCGCCGGCTGTTGGCGACAGCGCCA
1 CCGCCGCTCCGGCCGCCGGCCGTTGGCGACAGCGCCA
27385146 CCGC
1 CCGC
27385150 GCACGGTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.06, C:0.47, G:0.36, T:0.10
Consensus pattern (37 bp):
CCGCCGCTCCGGCCGCCGGCCGTTGGCGACAGCGCCA
Found at i:27386109 original size:44 final size:43
Alignment explanation
Indices: 27386061--27386291 Score: 187
Period size: 44 Copynumber: 5.4 Consensus size: 43
27386051 TTCTTCGCAA
*
27386061 CAACTTCAGAGAGATAGGATTGATTTCTTTCG-TCTGCTCTACTG
1 CAACTTCAGAGAGATAAGATTGA-TT-TTTCGATCTGCTCTACTG
* * * *
27386105 CAACTTCAGGGAGATAAGACTGGA---TACGATCTACTCTACTG
1 CAACTTCAGAGAGATAAGA-TTGATTTTTCGATCTGCTCTACTG
* *
27386146 CAACTTCAGAGAGATAAGATCTG-TGGTTTT-GATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGAT-TGAT--TTTTCGATCTGCTCTACTG
* * *
27386190 CAACTTCAGGGAGATAGGATTGATTTCTTTCG-TCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTGA-TT-TTTCGATCTGCTCTACTG
* *
27386234 CAACTTCAG-GAAGATAAGACTGGA---TGCGATCTGCTCTACTG
1 CAACTTCAGAG-AGATAAGA-TTGATTTTTCGATCTGCTCTACTG
27386275 CAACTTCAGAGAGATAA
1 CAACTTCAGAGAGATAA
27386292 CGTCTGCCAT
Statistics
Matches: 153, Mismatches: 18, Indels: 35
0.74 0.09 0.17
Matches are distributed among these distances:
40 7 0.05
41 56 0.37
42 1 0.01
43 4 0.03
44 76 0.50
45 9 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
CAACTTCAGAGAGATAAGATTGATTTTTCGATCTGCTCTACTG
Found at i:27386491 original size:50 final size:50
Alignment explanation
Indices: 27386336--27387242 Score: 531
Period size: 50 Copynumber: 18.2 Consensus size: 50
27386326 CGGGGAAATT
* * * * *
27386336 AGATTCACCGTCGTAGCTTCAATCTATTTC-ATTACACCGCCAGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCT-GTTCAATTGCATCGCCTGGGAAGTA
* * * * * * *
27386386 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTTGAAAT-G-TTGAGGAAGTG
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAA-TTG-CATCGCCTG-GGAAGTA
* * *** *
27386437 AGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCACCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * * *
27386487 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTGGGAAGTA
* * ** * * *
27386537 AGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * * * *
27386587 AGATTTACCGTTGTGGCTTCAATATTTTAAATTGCAAT-GTCGGGGAAGCA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTGGGAAGTA
* * *** *
27386637 AGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * *
27386687 AGATTCACCGTTGTGGCTTTAATCTTTTAAAATTGCAAT-GTC-GAGGAAGTG
1 AGATTCACCGTTGTAGCTTCAATCTGTT-CAATTGC-ATCGCCTG-GGAAGTA
* * *** *
27386738 AGATTTACCGTCGTAGCTTCAATCTGTTCTGCTGCATCGCCTGGAAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * * *
27386788 AGATTCACCGTTATGGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTGGGAAGTA
* *** **
27386838 AGATCCGTTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * *
27386888 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAAT-G-TTGGGGAAGTG
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCT-GGGAAGTA
* * *** *
27386938 AGATTCACCGTCGTAGCTTCAATTTGTTCCGCTGCATCACCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * *
27386988 AGATTCGCCGTTGTGGCTTTAA-----T-AATTGCAAT-GTC-GAGAAAGTG
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTG-GGAAGTA
* * * *
27387032 AGATTCACCGTTGTAGCTTCAATCTGTTAAATTGCAAT-GTCGGGGAAGCA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTGGGAAGTA
* * * ***
27387082 AGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
* * * * * *
27387132 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGC-ATCGCCTGGGAAGTA
* * * * * *
27387182 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCATCTCCTGGGAAGTA
1 AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
*
27387232 AGATTCGCCGT
1 AGATTCACCGT
27387243 CTTCGATCTG
Statistics
Matches: 624, Mismatches: 200, Indels: 66
0.70 0.22 0.07
Matches are distributed among these distances:
43 1 0.00
44 28 0.04
45 3 0.00
49 21 0.03
50 488 0.78
51 80 0.13
52 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
AGATTCACCGTTGTAGCTTCAATCTGTTCAATTGCATCGCCTGGGAAGTA
Found at i:27386587 original size:100 final size:100
Alignment explanation
Indices: 27386322--27387059 Score: 912
Period size: 100 Copynumber: 7.4 Consensus size: 100
27386312 TTTAACTACG
*** * * ** * * *
27386322 ATGTCGGGGAAATTAGATTCACCGTCGTAGCTTCAATCTATTTCATTACACCGCCAGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* *
27386387 GATTCGCCGTTGTGGCTTCAATCTTTTAAATTTGAA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAA-TTGCA
* * ** * *
27386423 ATGTTGAGGAAGTGAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCACCTGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
*
27386488 GATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
* * ** * * *
27386523 ATGTCGGGGAAGCAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* *
27386588 GATTTACCGTTGTGGCTTCAATATTTTAAATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
* *
27386623 ATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
*
27386688 GATTCACCGTTGTGGCTTTAATCTTTTAAAATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTT-AAATTGCA
* ** * * *
27386724 ATGTCGAGGAAGTGAGATTTACCGTCGTAGCTTCAATCTGTTCTGCTGCATCGCCTGGAAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
*
27386789 GATTCACCGTTATGGCTTCAATCTTTTAAATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
* *** * *
27386824 ATGTCGGGGAAGCAAGATCCGTTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
27386889 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
* ** * *
27386924 ATGTTGGGGAAGTGAGATTCACCGTCGTAGCTTCAATTTGTTCCGCTGCATCACCTGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* *
27386989 GATTCGCCGTTGTGGCTTTAA-----T-AATTGCA
66 GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
* * ** *
27387018 ATGTCGAGAAAGTGAGATTCACCGTTGTAGCTTCAATCTGTT
1 ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTT
27387060 AAATTGCAAT
Statistics
Matches: 555, Mismatches: 81, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
94 44 0.08
95 1 0.00
100 338 0.61
101 172 0.31
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
GATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
Found at i:27386876 original size:301 final size:301
Alignment explanation
Indices: 27386322--27387059 Score: 1094
Period size: 301 Copynumber: 2.5 Consensus size: 301
27386312 TTTAACTACG
* * * * ** * * *
27386322 ATGTCGGGGAAATTAGATTCACCGTCGTAGCTTCAATCTATTTCATTACACCGCCAGGGAAGTAA
1 ATGTCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* * * *
27386387 GATTCGCCGTTGTGGCTTCAATCTTTTAAATTTGAAATGTTGAGGAAGTGAGATTCACCGTCGTA
66 GATTCGCCGTTGTGGCTTTAATCTTTTAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTA
* * * *
27386452 GCTTTAATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAA
131 GCTTCAATCTGTTCCGCTGCATCACCTGGAAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAA
27386517 ATTGCAATGTCGGGGAAGCAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGG
196 ATTGCAATGTCGGGGAAGCAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGG
*
27386582 AAGTAAGATTTACCGTTGTGGCTTCAATATTTTAAATTGCA
261 AAGTAAGATTCACCGTTGTGGCTTCAATATTTTAAATTGCA
* * *
27386623 ATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAA
1 ATGTCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* *
27386688 GATTCACCGTTGTGGCTTTAATCTTTTAAAATTGCAATGTCGAGGAAGTGAGATTTACCGTCGTA
66 GATTCGCCGTTGTGGCTTTAATCTTTTAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTA
* *
27386753 GCTTCAATCTGTTCTGCTGCATCGCCTGGAAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAA
131 GCTTCAATCTGTTCCGCTGCATCACCTGGAAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAA
* * * **
27386818 ATTGCAATGTCGGGGAAGCAAGATCCGTTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGG
196 ATTGCAATGTCGGGGAAGCAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGG
*
27386883 AAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA
261 AAGTAAGATTCACCGTTGTGGCTTCAATATTTTAAATTGCA
* * * *
27386924 ATGTTGGGGAAGTGAGATTCACCGTCGTAGCTTCAATTTGTTCCGCTGCATCACCTGGGAAGTAA
1 ATGTCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
* *
27386989 GATTCGCCGTTGTGGCTTTAA-----T--AATTGCAATGTCGAGAAAGTGAGATTCACCGTTGTA
66 GATTCGCCGTTGTGGCTTTAATCTTTTAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTA
27387047 GCTTCAATCTGTT
131 GCTTCAATCTGTT
27387060 AAATTGCAAT
Statistics
Matches: 395, Mismatches: 42, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
294 46 0.12
296 1 0.00
301 348 0.88
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (301 bp):
ATGTCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAA
GATTCGCCGTTGTGGCTTTAATCTTTTAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTA
GCTTCAATCTGTTCCGCTGCATCACCTGGAAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAA
ATTGCAATGTCGGGGAAGCAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCATCGCCTGGG
AAGTAAGATTCACCGTTGTGGCTTCAATATTTTAAATTGCA
Found at i:27387071 original size:244 final size:244
Alignment explanation
Indices: 27386781--27387242 Score: 780
Period size: 244 Copynumber: 1.9 Consensus size: 244
27386771 GCATCGCCTG
* * *
27386781 GAAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGT
1 GAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTAAATTGCAATGTCGGGGAAGCAAGATCCGC
*
27386846 TGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
66 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
* ** * * *
27386911 CTTTTAAATTGCAATGTTGGGGAAGTGAGATTCACCGTCGTAGCTTCAATTTGTTCCGCTGCATC
131 CTTTTAAATTGCAATGTCGGGGAAGCAAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCATC
27386976 ACCTGGGAAGTAAGATTCGCCGTTGTGGCTTTAATAATTGCAATGTCGA
196 ACCTGGGAAGTAAGATTCGCCGTTGTGGCTTTAATAATTGCAATGTCGA
* *
27387025 GAAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTAAATTGCAATGTCGGGGAAGCAAGATCCGC
1 GAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTAAATTGCAATGTCGGGGAAGCAAGATCCGC
27387090 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
66 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
* * *
27387155 CTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCATC
131 CTTTTAAATTGCAATGTCGGGGAAGCAAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCATC
*
27387220 TCCTGGGAAGTAAGATTCGCCGT
196 ACCTGGGAAGTAAGATTCGCCGT
27387243 CTTCGATCTG
Statistics
Matches: 202, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
244 202 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (244 bp):
GAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTAAATTGCAATGTCGGGGAAGCAAGATCCGC
TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
CTTTTAAATTGCAATGTCGGGGAAGCAAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCATC
ACCTGGGAAGTAAGATTCGCCGTTGTGGCTTTAATAATTGCAATGTCGA
Found at i:27387447 original size:87 final size:87
Alignment explanation
Indices: 27387299--27387505 Score: 306
Period size: 87 Copynumber: 2.4 Consensus size: 87
27387289 TTGACCTGCA
* * * * * *
27387299 CCACTGCAACCAATAGATGCAAGGCTTTGTTTTCGGTCTGCTTCGCTGTTAACGCAGGAAGGCAA
1 CCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAA
**
27387364 TGTCTGCTATCTTTAACCAGCT
66 AATCTGCTATCTTTAACCAGCT
* * * *
27387386 CTACTGCAACCGATGGCGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGTAGGAAGGCAA
1 CCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAA
27387451 AATCTGCTATCTTTAACCAGCT
66 AATCTGCTATCTTTAACCAGCT
27387473 CCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 CCACTACAACCGATGGAGGCAAGGCTTTGTTTT
27387506 TGGGTCTGCT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (87 bp):
CCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAA
AATCTGCTATCTTTAACCAGCT
Found at i:27387540 original size:56 final size:57
Alignment explanation
Indices: 27387453--27387561 Score: 193
Period size: 56 Copynumber: 1.9 Consensus size: 57
27387443 GAAGGCAAAA
*
27387453 TCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTTGGG
1 TCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTGTTTTTGGG
*
27387510 TCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
1 TCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTGTTTT
27387562 CGATTTGCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
56 44 0.88
57 6 0.12
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (57 bp):
TCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTGTTTTTGGG
Found at i:27387561 original size:143 final size:143
Alignment explanation
Indices: 27387365--27387647 Score: 478
Period size: 143 Copynumber: 2.0 Consensus size: 143
27387355 GGAAGGCAAT
* * *
27387365 GTCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGCGGCAAGGCTTTGTTTTCGATCTGCTTC
1 GTCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTC
*
27387430 ACTGTTAACGTAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAA
66 ACTGTTAACGCAGGAAGGCAAAATCTGCT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAA
27387495 GGCTTTGTTTTTGG
130 GGCTTTGTTTTTGG
*
27387509 GTCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATTTGCTTC
1 GTCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTC
* * *
27387573 GCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
66 ACTGTTAACGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
27387638 GCTTTGTTTT
131 GCTTTGTTTT
27387648 CGATCTGCTT
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
142 46 0.35
143 78 0.60
144 7 0.05
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (143 bp):
GTCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTC
ACTGTTAACGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
GCTTTGTTTTTGG
Found at i:27387657 original size:86 final size:87
Alignment explanation
Indices: 27387510--27387998 Score: 813
Period size: 87 Copynumber: 5.7 Consensus size: 87
27387500 TGTTTTTGGG
* *
27387510 TCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATTTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
27387574 CTGTTAATGCAGGAAGGCAAGA
66 CTGTTAATGCAGGAAGGCAAGA
* *
27387596 TCTGCT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCA
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
*
27387660 CTGTTAACGCAGGAAGGCAAGA
66 CTGTTAATGCAGGAAGGCAAGA
* * *
27387682 TCTGCTATCTTTAACCAACTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
27387747 CTGTTAATGCAGGAAGGCAAGA
66 CTGTTAATGCAGGAAGGCAAGA
* *
27387769 TCTGCT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCA
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
*
27387833 CTGTTAACGCAGGAAGGCAAGA
66 CTGTTAATGCAGGAAGGCAAGA
* *
27387855 TCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
*
27387920 TTGTTAATGCAGGAAGGCAAGA
66 CTGTTAATGCAGGAAGGCAAGA
* *
27387942 TCTGATATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGAT
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGAT
27387999 GTTCACAGAT
Statistics
Matches: 374, Mismatches: 27, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
86 167 0.45
87 207 0.55
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCG
CTGTTAATGCAGGAAGGCAAGA
Found at i:27387706 original size:229 final size:229
Alignment explanation
Indices: 27387299--27387745 Score: 718
Period size: 229 Copynumber: 2.0 Consensus size: 229
27387289 TTGACCTGCA
* * *
27387299 CCACTGCAACCAATAGATGCAAGGCTTTGTTTTCGGTCTGCTTCGCTGTTAACGCAGGAAGGCAA
1 CCACTGCAACCAATAGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAA
* * *
27387364 TGTCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGCGGCAAGGCTTTGTTTTCGATCTGCTT
66 TGTCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTT
* * *
27387429 CACTGTTAACGTAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCA
131 CACTGTTAACGCAGGAAGGCAAAATCTGCTATCTTTAACCAACTCCACTACAACCGATAGAGGCA
*
27387494 AGGCTTTGTTTTTGGGTCTGCTTCTTTAACCAGCT
196 AGGCTTTGTTTTT-GATCTGCTTCTTTAACCAGCT
* * * *
27387529 CCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATTTGCTTCGCTGTTAATGCAGGAAGGCAA
1 CCACTGCAACCAATAGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAA
27387594 -GATCTGCT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCT
66 TG-TCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCT
* *
27387657 TCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATAGAGGC
130 TCACTGTTAACGCAGGAAGGCAAAATCTGCTATCTTTAACCAACTCCACTACAACCGATAGAGGC
27387722 AAGGCTTTGTTTTTGATCTGCTTC
195 AAGGCTTTGTTTTTGATCTGCTTC
27387746 GCTGTTAATG
Statistics
Matches: 200, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
228 9 0.05
229 127 0.63
230 64 0.32
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (229 bp):
CCACTGCAACCAATAGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAA
TGTCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTT
CACTGTTAACGCAGGAAGGCAAAATCTGCTATCTTTAACCAACTCCACTACAACCGATAGAGGCA
AGGCTTTGTTTTTGATCTGCTTCTTTAACCAGCT
Found at i:27387805 original size:173 final size:173
Alignment explanation
Indices: 27387510--27387998 Score: 872
Period size: 173 Copynumber: 2.8 Consensus size: 173
27387500 TGTTTTTGGG
* * *
27387510 TCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATTTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
27387574 CTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG
66 CTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG
27387639 CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGA
131 CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGA
* *
27387682 TCTGCTATCTTTAACCAACTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
27387747 CTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG
66 CTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG
27387812 CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGA
131 CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGA
*
27387855 TCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
* * * *
27387920 TTGTTAATGCAGGAAGGCAAGATCTGATATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAA
66 CTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
27387985 GCTTTGTTTTCGAT
130 GCTTTGTTTTCGAT
27387999 GTTCACAGAT
Statistics
Matches: 303, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
172 6 0.02
173 249 0.82
174 48 0.16
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (173 bp):
TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCG
CTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG
CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGA
Found at i:27389069 original size:21 final size:21
Alignment explanation
Indices: 27389043--27389089 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27389033 GGTATAGTAG
27389043 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
27389064 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
27389085 GATCA
1 GATCA
27389090 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:27389195 original size:16 final size:17
Alignment explanation
Indices: 27389174--27389211 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
27389164 AGCCTCTCCA
27389174 TTTTTACTTTTTCAT-T
1 TTTTTACTTTTTCATCT
*
27389190 TTTTTATTTTTTCATCT
1 TTTTTACTTTTTCATCT
27389207 TTTTT
1 TTTTT
27389212 TTTTGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTACTTTTTCATCT
Found at i:27395619 original size:12 final size:12
Alignment explanation
Indices: 27395611--27395636 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27395601 CAAAAAAGAG
27395611 AAGAAAAAAAAA
1 AAGAAAAAAAAA
27395623 AAGAAAAAAAAA
1 AAGAAAAAAAAA
27395635 AA
1 AA
27395637 ACCCTTCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:27395622 original size:15 final size:14
Alignment explanation
Indices: 27395602--27395637 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
27395592 CTCAAAAGTC
*
27395602 AAAAAAGAGAAGAAA
1 AAAAAAAAGAA-AAA
27395617 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
27395631 AAAAAAA
1 AAAAAAA
27395638 CCCTTCGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:27395624 original size:17 final size:15
Alignment explanation
Indices: 27395602--27395637 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27395592 CTCAAAAGTC
* *
27395602 AAAAAAGAGAAGAAA
1 AAAAAAAAGAAAAAA
27395617 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
27395632 AAAAAA
1 AAAAAA
27395638 CCCTTCGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAA
Found at i:27396503 original size:11 final size:10
Alignment explanation
Indices: 27396470--27396505 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
27396460 AAAATCGTAA
27396470 AAAAATAGTT
1 AAAAATAGTT
27396480 AAAAATAGTT
1 AAAAATAGTT
*
27396490 AAAAATTGTGT
1 AAAAATAGT-T
27396501 AAAAA
1 AAAAA
27396506 ACATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (10 bp):
AAAAATAGTT
Found at i:27396620 original size:20 final size:20
Alignment explanation
Indices: 27396595--27396640 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
27396585 ATTTATTTTT
27396595 TAATTATTAAAAACGT-TAAA
1 TAATTATTAAAAA-GTGTAAA
*
27396615 TAATTATTAAAAATTGTAAA
1 TAATTATTAAAAAGTGTAAA
27396635 TAATTA
1 TAATTA
27396641 ACAAATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
TAATTATTAAAAAGTGTAAA
Found at i:27397008 original size:38 final size:38
Alignment explanation
Indices: 27396953--27397027 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 38
27396943 TAATTTTCCC
27396953 AATTTTTAATAACTTTTACAAATTT-AAAT-TTTTTAT
1 AATTTTTAATAACTTTTACAAATTTAAAATATTTTTAT
*
27396989 AATTTTTAATAACTTTTTTACAATTTTAAAATATTTTTA
1 AATTTTTAATAAC--TTTTACAAATTTAAAATATTTTTA
27397028 ACAATACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 13 0.38
38 11 0.32
39 4 0.12
40 6 0.18
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (38 bp):
AATTTTTAATAACTTTTACAAATTTAAAATATTTTTAT
Found at i:27397025 original size:20 final size:20
Alignment explanation
Indices: 27396977--27397032 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
27396967 TTTACAAATT
*
27396977 TAAATTTTTTATAATTTTTAA
1 TAAATTTTTTACAA-TTTTAA
*
27396998 TAACTTTTTTACAATTTTAA
1 TAAATTTTTTACAATTTTAA
*
27397018 -AATATTTTTAACAAT
1 TAA-ATTTTTTACAAT
27397033 ACTTAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 16 0.53
21 12 0.40
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATTTTTTACAATTTTAA
Found at i:27397071 original size:17 final size:17
Alignment explanation
Indices: 27397049--27397083 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27397039 TAATTATTTA
*
27397049 AAATATCTAAAATTTTT
1 AAATATATAAAATTTTT
*
27397066 AAATATATATAATTTTT
1 AAATATATAAAATTTTT
27397083 A
1 A
27397084 TAATTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATATAAAATTTTT
Found at i:27402727 original size:38 final size:38
Alignment explanation
Indices: 27402682--27402758 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27402672 AATGCCATTT
27402682 TTAGCTGTATTATGGCAAAATTTTAGACCCACTTTTTG
1 TTAGCTGTATTATGGCAAAATTTTAGACCCACTTTTTG
27402720 TTAGCTGTATTATGGCAAAATTTTAGACCCACTTTTTG
1 TTAGCTGTATTATGGCAAAATTTTAGACCCACTTTTTG
27402758 T
1 T
27402759 CCTTTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (38 bp):
TTAGCTGTATTATGGCAAAATTTTAGACCCACTTTTTG
Found at i:27406303 original size:29 final size:29
Alignment explanation
Indices: 27406270--27406368 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
27406260 TATTAACATG
*
27406270 AAATATTAAATTAAATTAAATATTTATCT
1 AAATATTAAATTAAATTTAATATTTATCT
* ** * *
27406299 AAATAGTATTTTATTAATTTAATATTAATACG
1 AAATATTAAATTA--AATTTAATATTTAT-CT
* * *
27406331 ATATATTAAATTTAATTTAATATTTTTCT
1 AAATATTAAATTAAATTTAATATTTATCT
*
27406360 AGATATTAA
1 AAATATTAA
27406369 TATGAAATAT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 19 0.37
30 12 0.23
31 12 0.23
32 9 0.17
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATATTAAATTAAATTTAATATTTATCT
Found at i:27406367 original size:42 final size:42
Alignment explanation
Indices: 27406320--27406406 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
27406310 TATTAATTTA
* * * *
27406320 ATATTAATACGATATATTAAATTTAATTTAATATTTTTCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
*
27406362 ATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
27406404 ATA
1 ATA
27406407 GTATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (42 bp):
ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
Found at i:27406375 original size:103 final size:103
Alignment explanation
Indices: 27406241--27406430 Score: 344
Period size: 103 Copynumber: 1.8 Consensus size: 103
27406231 ATTAAAAATA
27406241 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAAATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAAATAGT
27406306 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
66 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
* * *
27406344 AATTTAATATTTTTCTAGATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAAATAGT
*
27406409 ATTTTATTAATTTAATGTTAAT
66 ATTTTATTAATTTAATATTAAT
27406431 GTGATTAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (103 bp):
AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAAATAGT
ATTTTATTAATTTAATATTAATACGATATATTAAATTT
Found at i:27413271 original size:21 final size:22
Alignment explanation
Indices: 27413215--27413271 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
27413205 ATCACTTTAA
27413215 TATTAAAT-GAATA-TAATATT
1 TATTAAATAGAATATTAATATT
27413235 TATTAAGATA-AATATTAA-ATT
1 TATTAA-ATAGAATATTAATATT
*
27413256 TATTTAATAGAATATT
1 TATTAAATAGAATATT
27413272 TATCTACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.28
21 20 0.62
22 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TATTAAATAGAATATTAATATT
Found at i:27417562 original size:3 final size:3
Alignment explanation
Indices: 27417554--27417596 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
27417544 TAATTCTCAG
27417554 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27417597 AAGTCATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27426488 original size:24 final size:22
Alignment explanation
Indices: 27426453--27426497 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
27426443 TTTCTCACCC
27426453 TTTTCAGCATATACCTATAATCCA
1 TTTTCAGCATATA-C-ATAATCCA
27426477 TTTTGCAG-ATATACATAATCC
1 TTTT-CAGCATATACATAATCC
27426498 CTCAAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 9 0.45
25 3 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (22 bp):
TTTTCAGCATATACATAATCCA
Found at i:27430654 original size:20 final size:21
Alignment explanation
Indices: 27430629--27430667 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27430619 GGTGGTCTGG
*
27430629 AGTTGG-TGTTGTAACATCCA
1 AGTTGGATGTTGCAACATCCA
27430649 AGTTGGATGTTGCAACATC
1 AGTTGGATGTTGCAACATC
27430668 GAGGGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
AGTTGGATGTTGCAACATCCA
Found at i:27434748 original size:3 final size:3
Alignment explanation
Indices: 27434740--27434808 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
27434730 TTTTACTTTC
27434740 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27434788 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
27434809 ATAATACATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:27438178 original size:23 final size:25
Alignment explanation
Indices: 27438130--27438176 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
27438120 GAAAAATATT
*
27438130 AAATATATATATTTTTTTATTTTTA
1 AAATATATATAGTTTTTTATTTTTA
27438155 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATAGTTTTTTATTTT
27438177 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AAATATATATAGTTTTTTATTTTTA
Found at i:27438323 original size:68 final size:68
Alignment explanation
Indices: 27438243--27438452 Score: 345
Period size: 68 Copynumber: 3.1 Consensus size: 68
27438233 TCAAATTTGT
* *
27438243 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATATAATTAATACAATTAATAATTTGAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATATAATTAATACAATTAATAATTTGAT
27438308 AAA
66 AAA
27438311 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAAT-TCAATTAATACAATTAATAATTTGA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAT-AATTAATACAATTAATAATTTGA
27438375 TAAA
65 TAAA
* *
27438379 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAGTACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATATAATTAATACAATTAATAATTTGAT
*
27438442 AAT
66 AAA
27438445 TTTACTAA
1 TTTACTAA
27438453 CAATTAATTT
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
66 27 0.20
67 2 0.01
68 106 0.79
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATATAATTAATACAATTAATAATTTGAT
AAA
Found at i:27438462 original size:16 final size:16
Alignment explanation
Indices: 27438441--27438482 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27438431 AATAATTTGA
*
27438441 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
27438457 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
27438473 TAGTTTTAAT
1 TAATTTTAAT
27438483 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:27438466 original size:22 final size:23
Alignment explanation
Indices: 27438456--27438511 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
27438446 TTACTAACAA
* * *
27438456 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
27438478 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
27438501 TTAATTTTAAT
1 TTAATTTTAAT
27438512 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:27438838 original size:27 final size:27
Alignment explanation
Indices: 27438780--27438839 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
27438770 TTGAAAGAAC
* * *
27438780 ACCTTTGTGGAGCAATATGAAAGGAAT
1 ACCTTTGTGGAGCAATATAAAAGAAAA
* *
27438807 GCCTTTGTGGTGCAATATAAAAGAAAA
1 ACCTTTGTGGAGCAATATAAAAGAAAA
27438834 ACCTTT
1 ACCTTT
27438840 ATGGCAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (27 bp):
ACCTTTGTGGAGCAATATAAAAGAAAA
Found at i:27440200 original size:18 final size:17
Alignment explanation
Indices: 27440173--27440206 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27440163 AAATATTATA
27440173 AATATATTTATATATTTC
1 AATATATTTATA-ATTTC
*
27440191 AATATTTTTATAATTT
1 AATATATTTATAATTT
27440207 TTAAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATATATTTATAATTTC
Found at i:27440389 original size:20 final size:20
Alignment explanation
Indices: 27440366--27440403 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27440356 ATAATATATG
*
27440366 ATAATTTATAATAAATATCT
1 ATAATCTATAATAAATATCT
*
27440386 ATAATCTATAATATATAT
1 ATAATCTATAATAAATAT
27440404 AAAAGCACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATCTATAATAAATATCT
Found at i:27443144 original size:22 final size:22
Alignment explanation
Indices: 27443119--27443161 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27443109 TAGTTTAGGG
*
27443119 TTTAAAGTTTAAAGGTTACGGA
1 TTTAAAGTATAAAGGTTACGGA
27443141 TTTAAAGTATAAAGGTTACGG
1 TTTAAAGTATAAAGGTTACGG
27443162 GTTAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (22 bp):
TTTAAAGTATAAAGGTTACGGA
Found at i:27451068 original size:85 final size:86
Alignment explanation
Indices: 27450969--27451217 Score: 253
Period size: 85 Copynumber: 2.9 Consensus size: 86
27450959 TTTGTGAAAT
** * *
27450969 AAGCGCCGCTAAAGAACACT-ATTTTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACATTA
1 AAGCGCCGCTAAAGAACA-TGAACTTTAGCGGCGTTTTTGAACTAAGCGCCGCTAAAGAACATGA
27451032 CT-TTTAGAGGCGTTTTCCTCAA
65 -TATTTAGAGGCGTTTTCCTCAA
***
27451054 AAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGAACTAAGCGCCGCTAAAGAACATGAT
* ***
27451119 ATTTAGCGGCGTTTAT--TTGT
66 ATTTAGAGGCGTTT-TCCTCAA
* * *
27451139 AAGCGCCACTAAAGAACATGATCTTTAGCGGCGCATTTTT--A-TAACCGCCGCTAAAGAACATG
1 AAGCGCCGCTAAAGAACATGAACTTTAGCGGCG--TTTTTGAACTAAGCGCCGCTAAAGAACATG
* *
27451201 ATCTTTAGCGGCGTTTT
64 ATATTTAGAGGCGTTTT
27451218 TTTATGTAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
83 1 0.01
84 36 0.25
85 68 0.48
86 31 0.22
87 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (86 bp):
AAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGAACTAAGCGCCGCTAAAGAACATGAT
ATTTAGAGGCGTTTTCCTCAA
Found at i:27451220 original size:42 final size:42
Alignment explanation
Indices: 27450967--27451222 Score: 291
Period size: 42 Copynumber: 6.0 Consensus size: 42
27450957 CATTTGTGAA
* **
27450967 ATAAGCGCCGCTAAAGAACACT-ATTTTTAGCGGCGTTTTTGA
1 ATAAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTTTT
* * * * * *
27451009 ACAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCCTC
1 ATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTT
* *
27451052 AAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* * *
27451094 CCTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTATTT
1 -ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* * **
27451137 GTAAGCGCCACTAAAGAACATGATCTTTAGCGGCGCATTTTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
*
27451179 ATAACCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
27451221 AT
1 AT
27451223 GTAAACGCCA
Statistics
Matches: 180, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 108 0.60
43 70 0.39
44 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:27452641 original size:7 final size:7
Alignment explanation
Indices: 27452629--27452659 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27452619 AAAAAATTAA
*
27452629 ATCTTTT
1 ATCTTTC
27452636 ATCTTTC
1 ATCTTTC
27452643 ATCTTTC
1 ATCTTTC
27452650 ATCTTTC
1 ATCTTTC
27452657 ATC
1 ATC
27452660 CTTCTTCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (7 bp):
ATCTTTC
Found at i:27463549 original size:13 final size:11
Alignment explanation
Indices: 27463517--27463557 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
27463507 GATGTGCTGC
27463517 GAAAAAAGAGA
1 GAAAAAAGAGA
27463528 GAAAAAAGAGA
1 GAAAAAAGAGA
27463539 GAAAGAGAAGAG-
1 GAAA-A-AAGAGA
27463551 GAAAAAA
1 GAAAAAA
27463558 ATGTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 5 0.18
13 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAGA
Found at i:27464171 original size:14 final size:15
Alignment explanation
Indices: 27464138--27464188 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
27464128 CACAAATTAG
27464138 AAATAAAACTAGAAT
1 AAATAAAACTAGAAT
* *
27464153 AAATAAAATTAG-TT
1 AAATAAAACTAGAAT
27464167 AAATAATAA-TA-AAT
1 AAATAA-AACTAGAAT
27464181 AAATAAAA
1 AAATAAAA
27464189 AGAAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.06
14 16 0.52
15 13 0.42
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (15 bp):
AAATAAAACTAGAAT
Found at i:27466523 original size:158 final size:157
Alignment explanation
Indices: 27466067--27466768 Score: 604
Period size: 162 Copynumber: 4.4 Consensus size: 157
27466057 NNNNATTTTC
27466067 AAAAAA-ATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
1 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
* * * * *
27466131 TTAATTTAGTG-TG-TTTTTTAAATTAATTTAGTGTAAAAAAACCCTTA-TTCCTGCC-TTTGCT
66 TTAA-TTATTGCTGAATTTTTAAA-TAAGTTAGT-AAAAAAAACTCTTACTT-CTGCCATTTGCT
27466192 CGTATTATTTTCCCGAATTTTATTACTTCCA
127 CGTATTATTTTCCCGAATTTTATTACTTCCA
* * * * * * *
27466223 AATAAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACATTTTGTTAGAAATA
1 AAAAAATATCA-TAATTTC-TAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA-A
* ***** *
27466286 TTTGTATTAATTATTTCTGAATTTTTAAA-AAGTTAGTAAGCGTTCACTCTTTACTTCGGCCATT
62 -TT-TATTAATTATTGCTGAATTTTTAAATAAGTTAGTAA-AAAAAACTC-TTACTTCTGCCATT
* * * * *
27466350 TGTTCGTATTTTTTTCTCGGCATTTTATTACTT-TA
123 TGCTCGTATTATTTTC-CCGAATTTTATTACTTCCA
27466385 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
1 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
* * *
27466450 TTAATT-TGGTGC-G-TTTTTTAAATTAATTTAGTGTAAAAAAAAC-CTTA-TTCCTGCCCTTTG
66 TTAATTAT--TGCTGAATTTTTAAA-TAAGTTA--GTAAAAAAAACTCTTACTT-CTGCCATTTG
27466510 CTCGTATTATTTTCCCGAATTTTATTACTTCCA
125 CTCGTATTATTTTCCCGAATTTTATTACTTCCA
* * * * *
27466543 ATAAAAATAT-ATTATTTTCGT-ATTTTATAATTTTATATTATTTCAGTACATTTTGTTAGAAAT
1 A-AAAAATATCA-TAATTTC-TAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA-
* * * *
27466606 ATTTGTATTAATTATTTCTGAATTTTTAAAAAAGTTAGT--AAAACACTCTTACTT-TGACTATT
61 A-TT-TATTAATTATTGCTGAATTTTTAAATAAGTTAGTAAAAAAAACTCTTACTTCTG-CCATT
* * * * * *
27466668 TGTTTGTCTTTTTTTCTCCGTATTTTATTACTT--T
123 TGCTCGTATTATTTTC-CCGAATTTTATTACTTCCA
*
27466702 AAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGC--TATGTTTGAAATTTA
1 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
27466765 TTAA
66 TTAA
27466769 ATATACCATT
Statistics
Matches: 436, Mismatches: 70, Indels: 84
0.74 0.12 0.14
Matches are distributed among these distances:
152 6 0.01
153 2 0.00
154 1 0.00
155 2 0.00
156 12 0.03
157 67 0.15
158 77 0.18
159 70 0.16
160 41 0.09
161 42 0.10
162 78 0.18
163 29 0.07
164 9 0.02
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (157 bp):
AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
TTAATTATTGCTGAATTTTTAAATAAGTTAGTAAAAAAAACTCTTACTTCTGCCATTTGCTCGTA
TTATTTTCCCGAATTTTATTACTTCCA
Found at i:27466655 original size:319 final size:315
Alignment explanation
Indices: 27466067--27466768 Score: 1178
Period size: 319 Copynumber: 2.2 Consensus size: 315
27466057 NNNNATTTTC
27466067 AAAAAA-ATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
1 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
* *
27466131 TTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAACCCTTATTCCTGCCTTTGCTCGTA
66 TTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCTTATTCCTGCCTTTGCTCGTA
* *
27466196 TTATTTTCCCGAATTTTATTACTTCCAAATAAATATATTATTTTCGTATTTTATTATTTTATATT
131 TTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTATAATTTTATATT
27466261 ATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAGTTAGTAAG
196 ATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAGTTAGTAA-
** * *
27466326 CGTTCACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTT
260 -GAACACTC-TTACTTCGACCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT
27466384 AAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTT
1 -AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTT
*
27466449 ATTAATTTGGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCTTATTCCTGCCCTTTGCTCG
65 ATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCTTATTCCTG-CCTTTGCTCG
27466514 TATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTATAATTTTAT
129 TATTATTTTCCCGAATTTTATTACTTCCAA-AAAAATATATTATTTTCGTATTTTATAATTTTAT
27466579 ATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAAGTTAG
193 ATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT-AAAAAGTTAG
* * * * *
27466644 TAA-AACACTCTTACTTTGACTATTTGTTTGTCTTTTTTTCTCCGTATTTTATTACTTT
257 TAAGAACACTCTTACTTCGACCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT
*
27466702 AAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGC--TATGTTTGAAATTTA
1 AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
27466765 TTAA
66 TTAA
27466769 ATATACCATT
Statistics
Matches: 365, Mismatches: 15, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
315 19 0.05
317 47 0.13
318 47 0.13
319 113 0.31
320 40 0.11
321 86 0.24
322 13 0.04
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (315 bp):
AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTA
TTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCTTATTCCTGCCTTTGCTCGTA
TTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTATAATTTTATATT
ATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAGTTAGTAAG
AACACTCTTACTTCGACCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT
Found at i:27466791 original size:158 final size:153
Alignment explanation
Indices: 27466067--27466791 Score: 421
Period size: 157 Copynumber: 4.6 Consensus size: 153
27466057 NNNNATTTTC
*
27466067 AAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTAT
1 AAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCA-TATGTTTGAAATTTAT
** * * *** * *
27466132 TAATTTAGTGTGTTTTTTA-A-ATTAATTTAGTGTAAAAAAACCCTTATTCCTGCC-TTTGCTCG
65 TAA-TTA-CAT-TTTTTCAGATTTTAAAAAAGTGTAAAAAAAACCTTATT-CTGCCATTTGTTCG
* *
27466194 TATTATTTTC-CCGAATTTTATTACTTCCA
126 TATTTTTTTCTCCGAATTTTATTACTT--T
* * * * * *
27466223 AATAAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACATTTTGTTAGAAATA
1 AA-AAATATCA-TAATTTC-TAATTTTATAATTTTACATTATTTCAGTGCA-TATGTTTGAAAT-
* * * ***** *
27466286 TT-TGT-ATTA-ATTATTTCTGAATTTTTAAAAAGTTAGTAAGCGTTCACTCTTTACTTCGGCCA
61 TTAT-TAATTACATTTTTTCAG-ATTTTAAAAAAG-T-GTAA-AAAAAAC-C-TTA-TTCTGCCA
* *
27466348 TTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTT
118 TTTGTTCGTATTTTTTTCTCCGAATTTTATTACTTT
27466384 AAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTT
1 --AAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCA-TATGTTTGAAATTT
* * * *** * *
27466449 ATTAATTTGGTGCGTTTTTT-A-A-ATTAATTTAGTGTAAAAAAAACCTTATTCCTGCCCTTTGC
63 ATTAA--T--TACATTTTTTCAGATTTTAAAAAAGTGTAAAAAAAACCTTATT-CTGCCATTTGT
*
27466511 TCGTATTATTTTC-CCGAATTTTATTACTTCCAAT
123 TCGTATTTTTTTCTCCGAATTTTATTACTT----T
* * * * *
27466545 AAAAATAT-ATTATTTTCGT-ATTTTATAATTTTATATTATTTCAGTACATTTTGTTAGAAATAT
1 AAAAATATCA-TAATTTC-TAATTTTATAATTTTACATTATTTCAGTGCA-TATGTTTGAAAT-T
* * * * *
27466608 T-TGT-ATTA-ATTATTTCTGAATTTTTAAAAAAGT-TAGTAAAACACTCTTACTT-TGACTATT
62 TAT-TAATTACATTTTTTCAG-A-TTTTAAAAAAGTGTA-AAAAAAAC-CTTA-TTCTG-CCATT
* * *
27466668 TGTTTGTCTTTTTTTCTCCGTATTTTATTACTTT
120 TGTTCGTATTTTTTTCTCCGAATTTTATTACTTT
27466702 AAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGC-TATGTTTGAAATTTAT
1 AAAA-ATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATATGTTTGAAATTTAT
27466766 TAAATATACCATTTTTTCAGATTTTA
65 T-AAT-TA-CATTTTTTCAGATTTTA
27466792 TTATTTTCAA
Statistics
Matches: 431, Mismatches: 83, Indels: 108
0.69 0.13 0.17
Matches are distributed among these distances:
153 4 0.01
154 6 0.01
155 5 0.01
156 22 0.05
157 77 0.18
158 77 0.18
159 73 0.17
160 34 0.08
161 33 0.08
162 70 0.16
163 22 0.05
164 2 0.00
166 1 0.00
167 5 0.01
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (153 bp):
AAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATATGTTTGAAATTTATT
AATTACATTTTTTCAGATTTTAAAAAAGTGTAAAAAAAACCTTATTCTGCCATTTGTTCGTATTT
TTTTCTCCGAATTTTATTACTTT
Found at i:27467120 original size:24 final size:24
Alignment explanation
Indices: 27467092--27467240 Score: 94
Period size: 24 Copynumber: 6.1 Consensus size: 24
27467082 AAATTACCTT
27467092 TTTTTCTTTCCCTCTTCTCCTTTC
1 TTTTTCTTTCCCTCTTCTCCTTTC
* **
27467116 TTTTTTTTTTTCTCTTCTCCTTT-
1 TTTTTCTTTCCCTCTTCTCCTTTC
27467139 TCTTTTCTTTCCTTTTTCTTCTTCTCCTTTC
1 T-TTTTCTTTCC-----C-TCTTCTCCTTTC
* * * *
27467170 CTTTTCTTTCCTTCTTTTTCTTTCC
1 TTTTTCTTTCCCTCTTCTCCTTT-C
27467195 TTTTTC--T---TCTTCTCCTTTC
1 TTTTTCTTTCCCTCTTCTCCTTTC
* * *
27467214 CTTTTCTTTCCTTCTTTTCCTTTC
1 TTTTTCTTTCCCTCTTCTCCTTTC
27467238 TTT
1 TTT
27467241 CCTCTCCTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
19 6 0.06
20 9 0.09
21 1 0.01
23 2 0.02
24 49 0.52
25 6 0.06
29 1 0.01
30 21 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTCCCTCTTCTCCTTTC
Found at i:27467126 original size:30 final size:30
Alignment explanation
Indices: 27467090--27467241 Score: 95
Period size: 30 Copynumber: 5.0 Consensus size: 30
27467080 AAAAATTACC
27467090 TTTTTTTCTTTCCCTCTTCTCCTTTCTTT-T
1 TTTTTTTCTTTCCCT-TTCTCCTTTCTTTCT
*
27467120 TTTTTTTCTCTTCTCCTTT-TCTTTTCTTTCCT
1 TTTTTTTCT-TTC-CCTTTCTCCTTTCTTT-CT
* *
27467152 TTTTCTTC-TTCTCCTTTC-CTTTTCTTTCCT
1 TTTTTTTCTTTC-CCTTTCTCCTTTCTTT-CT
* *
27467182 TCTTTTTCTTT-CCTTT-TTC-TTCTTCTCCT
1 TTTTTTTCTTTCCCTTTCTCCTTTCTT-T-CT
*
27467211 TTCCTTTTCTTTCCTTCTTT-TCCTTTCTTTC
1 TT-TTTTTCTTTCC--CTTTCTCCTTTCTTTC
27467242 CTCTCCTTTC
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.05
29 10 0.10
30 53 0.53
31 8 0.08
32 12 0.12
33 7 0.07
34 5 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTTTCTTTCCCTTTCTCCTTTCTTTCT
Found at i:27467191 original size:44 final size:44
Alignment explanation
Indices: 27467141--27467286 Score: 195
Period size: 44 Copynumber: 3.5 Consensus size: 44
27467131 TCTCCTTTTC
27467141 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
27467185 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
*
27467229 TTTCCTTT-C--TTTC--C-TCTCCTTTCC-TTT-TTT--TTCT
1 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
*
27467263 TTTTCTTTCTTTCTTTCTTCTTCT
1 TTTTCTTTCCTT-TTTCTTCTTCT
27467287 TTCCCTCTCC
Statistics
Matches: 92, Mismatches: 3, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
34 11 0.12
36 3 0.03
37 3 0.03
38 14 0.15
39 1 0.01
40 1 0.01
41 7 0.08
43 1 0.01
44 51 0.55
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:27467247 original size:38 final size:38
Alignment explanation
Indices: 27467146--27467290 Score: 139
Period size: 38 Copynumber: 3.6 Consensus size: 38
27467136 TTTTCTTTTC
* *
27467146 TTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTCCTTTCT-TTCCTCTCCTTTCCTTTTCTTTCCTTCT
*
27467185 TTTTCTTTCCTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTCCTTT-C--TTTC--C-TCTCCTTTCCTTTTCTTTCCTTCT
* *
27467229 TTTCCTTTCTTTCCTCTCCTTTCCTTTT-TTTTCTTTT
1 TTTCCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCT
* * *
27467266 TCTTTCTTTCTTTCTTCTTCTTTCC
1 T-TTCCTTTCTTTCCTCTCCTTTCC
27467291 CTCTCCTTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
37 8 0.09
38 34 0.38
39 8 0.09
41 7 0.08
42 1 0.01
43 1 0.01
44 31 0.34
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (38 bp):
TTTCCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:27467275 original size:14 final size:14
Alignment explanation
Indices: 27467137--27467289 Score: 89
Period size: 14 Copynumber: 10.3 Consensus size: 14
27467127 CTCTTCTCCT
27467137 TTTC-TTTTCTTTCC
1 TTTCTTTTTCTTT-C
*
27467151 TTT-TTCTTCTTCTCC
1 TTTCTTTTTCTT-T-C
*
27467166 TTTCCTTTTCTTTC
1 TTTCTTTTTCTTTC
*
27467180 CTTCTTTTTCTTTCC
1 TTTCTTTTTCTTT-C
*
27467195 TTT-TTCTTCTTCTCC
1 TTTCTTTTTCTT-T-C
*
27467210 TTTCCTTTTCTTTC
1 TTTCTTTTTCTTTC
* *
27467224 CTTCTTTTCCTTTC
1 TTTCTTTTTCTTTC
*
27467238 TTTCCTCTCCTTTCCTTTTT
1 TTT-CT-T--TTT-C-TTTC
27467258 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
27467272 TTTCTTTCTTC-TTC
1 TTTCTTT-TTCTTTC
27467286 TTTC
1 TTTC
27467290 CCTCTCCTTC
Statistics
Matches: 110, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
14 59 0.54
15 23 0.21
16 16 0.15
18 3 0.03
19 3 0.03
20 6 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:27467300 original size:24 final size:22
Alignment explanation
Indices: 27467222--27467300 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 22
27467212 TCCTTTTCTT
*
27467222 TCCTTCTTTTCCTTTCTTTCCTC
1 TCCTTCTTTTTC-TTCTTTCCTC
* * *
27467245 TCCTTTCCTTTTTTTTCTTTTTCTT
1 TCC-TT-CTTTTTCTTC-TTTCCTC
*
27467270 TCTTTCTTTCTTCTTCTTTCCCTC
1 TCCTTCTTT-TTCTTCTTT-CCTC
27467294 TCCTTCT
1 TCCTTCT
27467301 CTTCCCCCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
23 10 0.24
24 20 0.48
25 12 0.29
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TCCTTCTTTTTCTTCTTTCCTC
Found at i:27468034 original size:2 final size:2
Alignment explanation
Indices: 27468027--27468067 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27468017 GCCTTACAAC
27468027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27468068 ACTAAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27468499 original size:9 final size:9
Alignment explanation
Indices: 27468485--27468510 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27468475 TTTATTTTTA
27468485 AAAATATTT
1 AAAATATTT
27468494 AAAATATTT
1 AAAATATTT
27468503 AAAATATT
1 AAAATATT
27468511 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:27468624 original size:16 final size:19
Alignment explanation
Indices: 27468576--27468635 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
27468566 TTTAGTCATA
27468576 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
27468596 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
27468614 TAATAAATTATTTAATAT-T
1 TAATAAATTA-TTAATATAT
27468633 TAA
1 TAA
27468636 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 8 0.23
19 5 0.14
20 6 0.17
21 4 0.11
22 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:27470348 original size:21 final size:21
Alignment explanation
Indices: 27470324--27470375 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
27470314 AGAGCTTAGA
*
27470324 TCGTGTGGCTCAGGGAGATGG
1 TCGTGTGGCTCAGGGACATGG
**
27470345 TCGTGACGCTCAGGGACATGG
1 TCGTGTGGCTCAGGGACATGG
27470366 TCGTGTGGCT
1 TCGTGTGGCT
27470376 ACCCCATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.19, G:0.42, T:0.25
Consensus pattern (21 bp):
TCGTGTGGCTCAGGGACATGG
Found at i:27480681 original size:21 final size:21
Alignment explanation
Indices: 27480657--27480797 Score: 133
Period size: 21 Copynumber: 6.8 Consensus size: 21
27480647 CGTGTTTGCT
*
27480657 TTCAGTTTAGCTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
* *
27480678 TTCAG-TTAACTCATATGAGT
1 TTCAGTTTAACTCTTATGAGC
* * * *
27480698 TTCAGTTTAACCCTTCTGGGT
1 TTCAGTTTAACTCTTATGAGC
* *
27480719 TTCAGTTTAGCTCTTTTGAGC
1 TTCAGTTTAACTCTTATGAGC
* *
27480740 TTCAGTTTAACTCTTATGGGT
1 TTCAGTTTAACTCTTATGAGC
* *
27480761 TTCCGTTTAGCTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
*
27480782 TTCTA-TTTAACCCTTA
1 TTC-AGTTTAACTCTTA
27480798 CGGGTTTCTG
Statistics
Matches: 95, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
20 17 0.18
21 78 0.82
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (21 bp):
TTCAGTTTAACTCTTATGAGC
Found at i:27480696 original size:20 final size:20
Alignment explanation
Indices: 27480657--27480704 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27480647 CGTGTTTGCT
* *
27480657 TTCAGTTTAGCTCTTATGAGC
1 TTCAG-TTAACTCATATGAGC
*
27480678 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGC
27480698 TTCAGTT
1 TTCAGTT
27480705 TAACCCTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGC
Found at i:27480747 original size:42 final size:42
Alignment explanation
Indices: 27480678--27480826 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
27480668 TCTTATGAGC
* * *
27480678 TTCAG-TTAACTCATATGAGTTTCAGTTTAACCCTTCTGGGT
1 TTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
* * *
27480719 TTCAGTTTAGCTCTTTTGAGCTTCAGTTTAACTCTTATGGGT
1 TTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
*
27480761 TTCCGTTTAGCTCTTATGAGCTTCTA-TTTAACCCTTAC-GGGT
1 TTCAGTTTAGCTCTTATGAGCTTC-AGTTTAACCCTT-CTGGGT
* * *
27480803 TTCTGTTTAGCACTTATGTGCTTC
1 TTCAGTTTAGCTCTTATGAGCTTC
27480827 TGTATAGCCT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
41 5 0.05
42 86 0.93
43 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
Found at i:27480818 original size:21 final size:21
Alignment explanation
Indices: 27480691--27480848 Score: 77
Period size: 21 Copynumber: 7.6 Consensus size: 21
27480681 AGTTAACTCA
* * * *
27480691 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCTGTTTAGCACT
* * *
27480712 TCTGGGTTTCAGTTTAGCTCT
1 TATGGGTTTCTGTTTAGCACT
* * * * * *
27480733 TTTGAGCTTCAGTTTAACTCT
1 TATGGGTTTCTGTTTAGCACT
* *
27480754 TATGGGTTTCCGTTTAGCTCT
1 TATGGGTTTCTGTTTAGCACT
* * * * *
27480775 TATGAGCTTCTATTTAACCCT
1 TATGGGTTTCTGTTTAGCACT
*
27480796 TACGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTTAGCACT
* * *
27480817 TATGTGCTTCTGTATAGC-CT
1 TATGGGTTTCTGTTTAGCACT
*
27480837 T-TGGGCTTCTGT
1 TATGGGTTTCTGT
27480849 ATATGATGTA
Statistics
Matches: 107, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
19 10 0.09
20 3 0.03
21 94 0.88
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGGGTTTCTGTTTAGCACT
Found at i:27485486 original size:46 final size:46
Alignment explanation
Indices: 27485419--27485506 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
27485409 AAAAGTGTAC
* * *
27485419 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAACCCAATACAGTGA-CAGAATCAGAAATAGAATACA
*
27485465 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAA
27485507 ATGCAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAATACA
Found at i:27485687 original size:22 final size:22
Alignment explanation
Indices: 27485658--27485709 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
27485648 AATGGGTAAG
* *
27485658 AGCCATAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
27485680 AGCTATAAACAGAATGGCTACA
1 AGCCATAAACAGAATAGCTACA
27485702 AGCCATAA
1 AGCCATAA
27485710 GTACAGTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:27485803 original size:32 final size:32
Alignment explanation
Indices: 27485712--27485804 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 32
27485702 AGCCATAAGT
* * * *
27485712 ACAGTAACATGATTGACACAAAGCCATTAGTA
1 ACAGTAATATGATCGACACAAAGCCATCAATA
* * * * * *
27485744 GCAGTGATATGACCGGCACACATCCATCAATA
1 ACAGTAATATGATCGACACAAAGCCATCAATA
*
27485776 ACGGTAATATGATCGACACAAAGCCATCA
1 ACAGTAATATGATCGACACAAAGCCATCA
27485805 GTAGCATCGC
Statistics
Matches: 44, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (32 bp):
ACAGTAATATGATCGACACAAAGCCATCAATA
Found at i:27486006 original size:24 final size:24
Alignment explanation
Indices: 27485979--27486084 Score: 131
Period size: 24 Copynumber: 4.4 Consensus size: 24
27485969 CCATGCTTAG
*
27485979 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATACAAATCACAGACA
*
27486003 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
**
27486027 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** * *
27486051 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATACAAATCACAGACA
*
27486075 AATCAATCAT
1 AATCAGTCAT
27486085 TTACACTCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:27486150 original size:27 final size:27
Alignment explanation
Indices: 27486106--27486345 Score: 202
Period size: 27 Copynumber: 8.9 Consensus size: 27
27486096 GGGCAAAATA
*
27486106 GTCA-TTTACCCT-CTAGGGGAATTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
** *
27486132 GTCATTTTACTTTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
27486159 ATCATTTAACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
27486186 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
** **
27486213 GTCATTTTACCCTATGGGGGGT-TTTTG
1 GTCATTTTACCCTA-CAGGGGTATTACG
* *
27486240 ATTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
27486267 GTTATTTTACCCTACGGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
27486294 GAT-ATTTTACCCTATAGGAGGTTTTTCG
1 G-TCATTTTACCCTACAGG-GGTATTACG
* *
27486322 ATCATTTTACCCTATA-GGGTATTA
1 GTCATTTTACCCTACAGGGGTATTA
27486346 TGATTATTTT
Statistics
Matches: 169, Mismatches: 38, Indels: 14
0.76 0.17 0.06
Matches are distributed among these distances:
26 14 0.08
27 131 0.78
28 24 0.14
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:27486185 original size:54 final size:54
Alignment explanation
Indices: 27486110--27486345 Score: 226
Period size: 54 Copynumber: 4.4 Consensus size: 54
27486100 AAAATAGTCA
* * ** *
27486110 TTTACCCTCTAGGGGAATTACGGTCATTTTACTTTACAGGGGTATTTCGATCAT
1 TTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGATCAT
* * *
27486164 TTAACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGATCAT
* ** * * * *
27486218 TTTACCCTATGGGGGGT-TTTTGATTATTTTACCCTACAGGGGTATTACGGTTAT
1 TTTACCCTAT-AGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGATCAT
** * * * * *
27486272 TTTACCCTACGGGGGCATTATGGAT-ATTTTACCCTATAGGAGGTTTTTCGATCAT
1 TTTACCCTATAGGGGTATTACGG-TCATTTTACCCTACAGG-GGTATTACGATCAT
27486327 TTTACCCTATA-GGGTATTA
1 TTTACCCTATAGGGGTATTA
27486346 TGATTATTTT
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
53 5 0.03
54 120 0.80
55 25 0.17
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (54 bp):
TTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGATCAT
Done.