Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 77 of 91
Found at i:17635585 original size:25 final size:23
Alignment explanation
Indices: 17635545--17635628 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
17635535 CATCCATTTG
17635545 TTTTATTTTTACTATTATTATTA
1 TTTTATTTTTACTATTATTATTA
17635568 TTTTATTTGTT--TATTATTATTA
1 TTTTATTT-TTACTATTATTATTA
* * *
17635590 TTATTAATATTATTA-TATTATTA
1 TT-TTATTTTTACTATTATTATTA
*
17635613 -TTTATTTTTATTATTA
1 TTTTATTTTTACTATTA
17635629 ATAAATATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.19
22 18 0.35
23 20 0.38
24 4 0.08
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTTATTTTTACTATTATTATTA
Found at i:17635588 original size:37 final size:36
Alignment explanation
Indices: 17635560--17635643 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 36
17635550 TTTTTACTAT
* *
17635560 TATTATTATTTTATTTGTTTATTATTATTATTATTAA
1 TATTATTATTTTA-TTATTTATTATTATTATTAATAA
* *
17635597 TATTATTATATTATTATTTATTTTTATTATTAATAAA
1 TATTATTATTTTATTATTTATTATTATTATTAAT-AA
17635634 TATTATTATT
1 TATTATTATT
17635644 AAAAAACCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 18 0.44
37 23 0.56
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (36 bp):
TATTATTATTTTATTATTTATTATTATTATTAATAA
Found at i:17635612 original size:29 final size:28
Alignment explanation
Indices: 17635578--17635644 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
17635568 TTTTATTTGT
* *
17635578 TTATTATTATTATTATTAATATTATTATA
1 TTATTATTATTATTATTAATAATA-AATA
* *
17635607 TTATTATTTATTTTTATTATTAATAAATA
1 TTATTA-TTATTATTATTAATAATAAATA
17635636 TTATTATTA
1 TTATTATTA
17635645 AAAAACCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 15 0.45
30 15 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATTATTATTATTATTAATAATAAATA
Found at i:17637784 original size:26 final size:27
Alignment explanation
Indices: 17637732--17637787 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
17637722 TAATTCTTTC
*
17637732 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
17637760 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
17637786 TT
1 TT
17637788 AATGTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:17644932 original size:8 final size:9
Alignment explanation
Indices: 17644905--17644935 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17644895 AAATGGCAAT
17644905 CATTCTTTA
1 CATTCTTTA
17644914 CATTCTTTA
1 CATTCTTTA
17644923 CATT-TTTA
1 CATTCTTTA
17644931 CATTC
1 CATTC
17644936 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:17648789 original size:18 final size:18
Alignment explanation
Indices: 17648768--17648806 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
17648758 TTATTCTAAG
17648768 TTTATTTTTGAAATTCAA
1 TTTATTTTTGAAATTCAA
*
17648786 TTTATTTTTTAAATTCAA
1 TTTATTTTTGAAATTCAA
17648804 TTT
1 TTT
17648807 GTTTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTTTTGAAATTCAA
Found at i:17650216 original size:123 final size:123
Alignment explanation
Indices: 17649992--17650511 Score: 656
Period size: 123 Copynumber: 4.3 Consensus size: 123
17649982 CATCATTTCC
* * * * *
17649992 AGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGACTCTATCACAGAAGGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATA
*
17650057 GATCAACATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
66 GATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
*
17650115 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATA
* * * *
17650180 GATCAACATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGA
66 GATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
* * * **
17650238 AAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCT-CGAAT-TCATCAC-----TTGA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG-TATGAATCT-ATCACAGAAAGAGA
* *
17650296 TGGAT---CATC-A--TTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
64 TAGATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
** * *
17650350 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAGTCTTTTGCATGACTCTATCACAGAAAGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATA
* * ** *
17650415 GATCAGCATCAACTTTTCCATA-AGTGTTCATAATAAGAAGAACTTATCTGAAGAAGG-
66 GATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
*
17650472 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
17650512 CTAGATTGCA
Statistics
Matches: 343, Mismatches: 38, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
112 83 0.24
113 1 0.00
114 1 0.00
115 4 0.01
117 6 0.02
118 6 0.02
120 4 0.01
121 1 0.00
122 66 0.19
123 170 0.50
124 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (123 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATA
GATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
Found at i:17650380 original size:20 final size:20
Alignment explanation
Indices: 17650318--17650381 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17650308 TCCAGAAAAA
17650318 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
17650338 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
17650357 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
17650377 GTTCA
1 GTTCA
17650382 GTCTTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:17650419 original size:235 final size:234
Alignment explanation
Indices: 17650071--17650509 Score: 734
Period size: 235 Copynumber: 1.9 Consensus size: 234
17650061 AACATCAATT
*
17650071 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
* *
17650136 GAGCTTGTTCAACCTTTTGTATGAATCTATCACAGAAAGAGATAGATCAACATCAACTTTTCCAG
66 GAACTTGTTCAACCTTTTGCATGAATCTATCACAGAAAGAGATAGATCAACATCAACTTTTCCAG
* *
17650201 AGAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAAAGAAGTTCATAATGAGAAGAACTTG
131 A-AGAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAAAGAAGTTCATAATGAGAAGAACTTA
17650266 TTCAACCTTTCGCTCGAATTCATCACTTGATGGATCATCA
195 TTCAACCTTTCGCTCGAATTCATCACTTGATGGATCATCA
17650306 TTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
** * * *
17650371 GAACTTGTTCAGTCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAGCATCAACTTTTCCAT
66 GAACTTGTTCAACCTTTTGCATGAATCTATCACAGAAAGAGATAGATCAACATCAACTTTTCCAG
* * * * *
17650436 AAGTGTTCATAATAAGAAGAACTTATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTAT
131 AAGAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAAAGAAGTTCATAATGAGAAGAACTTAT
17650501 TCAACCTTT
196 TCAACCTTT
17650510 TGCTAGATTG
Statistics
Matches: 189, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
234 66 0.35
235 123 0.65
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (234 bp):
TTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCATGAATCTATCACAGAAAGAGATAGATCAACATCAACTTTTCCAG
AAGAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAAAGAAGTTCATAATGAGAAGAACTTAT
TCAACCTTTCGCTCGAATTCATCACTTGATGGATCATCA
Found at i:17650756 original size:3 final size:3
Alignment explanation
Indices: 17650738--17650835 Score: 87
Period size: 3 Copynumber: 33.0 Consensus size: 3
17650728 TCCATTTGTT
* *
17650738 TTA TTT TTA CTA TTA TTA TTA TT- TTA TT- TGT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
17650781 TTA TTA ATA TTA TTA -TA TTA TTA TTTA TTT TTA TTA TTAA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA
17650827 TTA TTA TTA
1 TTA TTA TTA
17650836 CAAAACCAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.08
3 66 0.86
4 5 0.06
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:17650776 original size:25 final size:23
Alignment explanation
Indices: 17650736--17650819 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
17650726 CATCCATTTG
17650736 TTTTATTTTTACTATTATTATTA
1 TTTTATTTTTACTATTATTATTA
17650759 TTTTATTTGTT--TATTATTATTA
1 TTTTATTT-TTACTATTATTATTA
* * *
17650781 TTATTAATATTATTA-TATTATTA
1 TT-TTATTTTTACTATTATTATTA
*
17650804 -TTTATTTTTATTATTA
1 TTTTATTTTTACTATTA
17650820 ATAAATATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.19
22 18 0.35
23 20 0.38
24 4 0.08
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTTATTTTTACTATTATTATTA
Found at i:17650779 original size:37 final size:36
Alignment explanation
Indices: 17650751--17650834 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 36
17650741 TTTTTACTAT
* *
17650751 TATTATTATTTTATTTGTTTATTATTATTATTATTAA
1 TATTATTATTTTA-TTATTTATTATTATTATTAATAA
* *
17650788 TATTATTATATTATTATTTATTTTTATTATTAATAAA
1 TATTATTATTTTATTATTTATTATTATTATTAAT-AA
17650825 TATTATTATT
1 TATTATTATT
17650835 ACAAAACCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 18 0.44
37 23 0.56
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (36 bp):
TATTATTATTTTATTATTTATTATTATTATTAATAA
Found at i:17650803 original size:29 final size:28
Alignment explanation
Indices: 17650769--17650835 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
17650759 TTTTATTTGT
* *
17650769 TTATTATTATTATTATTAATATTATTATA
1 TTATTATTATTATTATTAATAATA-AATA
* *
17650798 TTATTATTTATTTTTATTATTAATAAATA
1 TTATTA-TTATTATTATTAATAATAAATA
17650827 TTATTATTA
1 TTATTATTA
17650836 CAAAACCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 15 0.45
30 15 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATTATTATTATTATTAATAATAAATA
Found at i:17651977 original size:19 final size:19
Alignment explanation
Indices: 17651953--17651996 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
17651943 TTAATTAATA
17651953 TTTTAATCTTGAAAGCATG
1 TTTTAATCTTGAAAGCATG
17651972 TTTTAATCTTGAAAGCATG
1 TTTTAATCTTGAAAGCATG
17651991 TTTTAA
1 TTTTAA
17651997 ATTGTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTTAATCTTGAAAGCATG
Found at i:17652210 original size:18 final size:17
Alignment explanation
Indices: 17652183--17652221 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
17652173 TTTTAATTTC
17652183 ATTTATTTTAGATGTTG
1 ATTTATTTTAGATGTTG
* *
17652200 ATTTAATTTTATATGTTT
1 ATTT-ATTTTAGATGTTG
17652218 ATTT
1 ATTT
17652222 GCAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (17 bp):
ATTTATTTTAGATGTTG
Found at i:17657961 original size:20 final size:20
Alignment explanation
Indices: 17657914--17657967 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
17657904 CTGTTCATTT
* *
17657914 CTATTCACACAATATCGATA
1 CTATTCATACAGTATCGATA
* *
17657934 CTATTCATATAGTATCGGTA
1 CTATTCATACAGTATCGATA
17657954 CTATTCATACAGTA
1 CTATTCATACAGTA
17657968 CGACACTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (20 bp):
CTATTCATACAGTATCGATA
Found at i:17659768 original size:20 final size:19
Alignment explanation
Indices: 17659733--17659788 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
17659723 GTTAAATGAC
* *
17659733 TAGGGATATCGGTACCTCTA
1 TAGGGGTATCGATACCT-TA
17659753 -AGGGGGTATCGATACCTTA
1 TA-GGGGTATCGATACCTTA
17659772 TTAGGGGTATCGATACC
1 -TAGGGGTATCGATACC
17659789 CATTTGGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 3 0.10
20 27 0.87
21 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (19 bp):
TAGGGGTATCGATACCTTA
Found at i:17661291 original size:8 final size:9
Alignment explanation
Indices: 17661271--17661311 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
17661261 CTAAGTTTAA
*
17661271 TTTTAAAAT
1 TTTTCAAAT
17661280 TTTTCAAAT
1 TTTTCAAAT
17661289 TTTCTCAAAT
1 TTT-TCAAAT
17661299 TTTCTCAAAT
1 TTT-TCAAAT
17661309 TTT
1 TTT
17661312 ATTCGATTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 11 0.37
10 19 0.63
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTCAAAT
Found at i:17661298 original size:10 final size:10
Alignment explanation
Indices: 17661276--17661311 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
17661266 TTTAATTTTA
17661276 AAATTTT-TC
1 AAATTTTCTC
17661285 AAATTTTCTC
1 AAATTTTCTC
17661295 AAATTTTCTC
1 AAATTTTCTC
17661305 AAATTTT
1 AAATTTT
17661312 ATTCGATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTTTCTC
Found at i:17667851 original size:30 final size:29
Alignment explanation
Indices: 17667786--17667852 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
17667776 AATAAATAAC
* *
17667786 TTTTTG-AAAAACCCCTTTTGTCCCTAAA
1 TTTTTGAAAAAACCCATTTGGTCCCTAAA
* *
17667814 CTTTTGAAAAATACCCATTTGGTCCTTAAA
1 TTTTTGAAAAA-ACCCATTTGGTCCCTAAA
17667844 TTTTTGAAA
1 TTTTTGAAA
17667853 CTTTATACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.16
29 4 0.12
30 23 0.72
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.40
Consensus pattern (29 bp):
TTTTTGAAAAAACCCATTTGGTCCCTAAA
Found at i:17668406 original size:29 final size:30
Alignment explanation
Indices: 17668364--17668429 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
17668354 CAAAATAAAT
17668364 AACTTTTAGAAATTACCCTTTTAGT-ACTA
1 AACTTTTAGAAATTACCCTTTTAGTCACTA
* * * *
17668393 AACTTTT-GAAAATTTCCTTTTTGGTCCCTA
1 AACTTTTAG-AAATTACCCTTTTAGTCACTA
17668423 AACTTTT
1 AACTTTT
17668430 CCAAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 20 0.65
30 10 0.32
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
AACTTTTAGAAATTACCCTTTTAGTCACTA
Found at i:17669419 original size:17 final size:17
Alignment explanation
Indices: 17669378--17669420 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17669368 ATAGTTTGAG
17669378 AAAAT-CTAAAGAAAAT
1 AAAATCCTAAAGAAAAT
17669394 -AAATACCTAAAGAAAAT
1 AAAAT-CCTAAAGAAAAT
17669411 AAAATCCTAA
1 AAAATCCTAA
17669421 TAAAAATCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.65, C:0.12, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAATCCTAAAGAAAAT
Found at i:17672775 original size:19 final size:18
Alignment explanation
Indices: 17672732--17672776 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17672722 AAAAGAAAAG
*
17672732 AAAATAATTAAAATAAAT
1 AAAATAATCAAAATAAAT
17672750 AATAATAATCAAAATCAAAT
1 AA-AATAATCAAAAT-AAAT
*
17672770 TAAATAA
1 AAAATAA
17672777 AGAAAAGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAATCAAAATAAAT
Found at i:17672870 original size:39 final size:39
Alignment explanation
Indices: 17672811--17672903 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
17672801 AACTCTATTT
* * * *
17672811 CCATTACAACTGGAAATCATTGCCGTAGCAATTTGATTG
1 CCATGACAACTAGAAATCATTGCCATAGCAACTTGATTG
*
17672850 CCATGACAACTAGAAATCATTTCCATAGCAACTTGATTG
1 CCATGACAACTAGAAATCATTGCCATAGCAACTTGATTG
17672889 CCATGACAACTAGAA
1 CCATGACAACTAGAA
17672904 GTTATTCCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (39 bp):
CCATGACAACTAGAAATCATTGCCATAGCAACTTGATTG
Found at i:17672930 original size:44 final size:43
Alignment explanation
Indices: 17672836--17672970 Score: 134
Period size: 44 Copynumber: 3.2 Consensus size: 43
17672826 ATCATTGCCG
*
17672836 TAGCAATTTGATTGCCATGACAACTAGAA--A-T-CATTTCCA
1 TAGCAACTTGATTGCCATGACAACTAGAATTATTCCATTTCCA
**
17672875 TAGCAACTTGATTGCCATGACAACTAGAAGTTATTCCATTTCTG
1 TAGCAACTTGATTGCCATGACAACTAGAA-TTATTCCATTTCCA
* * * * * * *
17672919 TAGTAACTTGATTGCCATAACAGCTGGAAATTATTCAATTGCCG
1 TAGCAACTTGATTGCCATGACAACTAG-AATTATTCCATTTCCA
17672963 TAGCAACT
1 TAGCAACT
17672971 GGGTTTACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
39 28 0.35
42 1 0.01
43 1 0.01
44 47 0.59
45 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (43 bp):
TAGCAACTTGATTGCCATGACAACTAGAATTATTCCATTTCCA
Found at i:17683868 original size:2 final size:2
Alignment explanation
Indices: 17683861--17683886 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17683851 GATATTTATG
17683861 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17683887 GCCTTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17684927 original size:13 final size:13
Alignment explanation
Indices: 17684909--17684935 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17684899 GATTTTGATC
17684909 AACATCACTAAAA
1 AACATCACTAAAA
17684922 AACATCACTAAAA
1 AACATCACTAAAA
17684935 A
1 A
17684936 TCAGAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (13 bp):
AACATCACTAAAA
Found at i:17689832 original size:8 final size:8
Alignment explanation
Indices: 17689819--17689846 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17689809 CATGCTTCCC
17689819 CTTTTTCT
1 CTTTTTCT
17689827 CTTTTTCT
1 CTTTTTCT
17689835 CTTTTTCT
1 CTTTTTCT
17689843 CTTT
1 CTTT
17689847 GCATTCCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
CTTTTTCT
Found at i:17692774 original size:21 final size:22
Alignment explanation
Indices: 17692731--17692780 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
17692721 TATTAGTTTT
* *
17692731 AATTAATTTTTAAAACATTTAA
1 AATTGATTTTTAAAACATGTAA
17692753 AATTGATTTTTAAAA-ATGTAA
1 AATTGATTTTTAAAACATGTAA
17692774 AATTGAT
1 AATTGAT
17692781 ACTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (22 bp):
AATTGATTTTTAAAACATGTAA
Found at i:17695490 original size:23 final size:23
Alignment explanation
Indices: 17695458--17695518 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
17695448 ATCTTATATG
17695458 GCACTTCGGTGCATTTCTACGTA
1 GCACTTCGGTGCATTTCTACGTA
* * * *
17695481 GCACTACGGTGTAATTCTACGTG
1 GCACTTCGGTGCATTTCTACGTA
17695504 GCACTTCGGTGCATT
1 GCACTTCGGTGCATT
17695519 CATACGAGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGTA
Found at i:17695524 original size:23 final size:22
Alignment explanation
Indices: 17695456--17695524 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
17695446 ACATCTTATA
17695456 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCA-TTCTACG
* * *
17695479 TAGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTG-CATTCTACG
17695502 TGGCACTTCGGTGCATTCATACG
1 TGGCACTTCGGTGCATTC-TACG
17695525 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 4 0.11
23 33 0.87
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (22 bp):
TGGCACTTCGGTGCATTCTACG
Found at i:17696036 original size:17 final size:17
Alignment explanation
Indices: 17696014--17696047 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17696004 TCATCGACTT
*
17696014 AGCGTGTGAGTTTTTCA
1 AGCGTGTGAGTGTTTCA
17696031 AGCGTGTGAGTGTTTCA
1 AGCGTGTGAGTGTTTCA
17696048 CGCGCAGGGT
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:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (17 bp):
AGCGTGTGAGTGTTTCA
Found at i:17700798 original size:23 final size:23
Alignment explanation
Indices: 17700730--17700798 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
17700720 ACATCTTATA
17700730 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* * * *
17700753 CGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* *
17700776 TGGCACTTTGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
17700799 AACTGTGCTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:17701963 original size:22 final size:23
Alignment explanation
Indices: 17701938--17701984 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
17701928 TTTTATTAAG
17701938 TTTGGAC-TTTAAACGAAATGCT
1 TTTGGACATTTAAACGAAATGCT
** *
17701960 TTTGTTCATTTTAACGAAATGCT
1 TTTGGACATTTAAACGAAATGCT
17701983 TT
1 TT
17701985 CTTTTTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (23 bp):
TTTGGACATTTAAACGAAATGCT
Found at i:17702593 original size:12 final size:12
Alignment explanation
Indices: 17702578--17702607 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17702568 AGAATACAAG
17702578 GATGATGACATT
1 GATGATGACATT
17702590 GATGATGACATT
1 GATGATGACATT
17702602 GATGAT
1 GATGAT
17702608 ATTCACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (12 bp):
GATGATGACATT
Found at i:17702998 original size:39 final size:39
Alignment explanation
Indices: 17702941--17703024 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
17702931 CTCAATGAAC
*
17702941 GTCATAAATGAGCATCATAATTGAGCGTCATAAATGTGT
1 GTCATAAATGAGCATCATAAATGAGCGTCATAAATGTGT
** * *
17702980 GTCATAAATGAGTGTCATAAATGAGTGTTATAAATGTGT
1 GTCATAAATGAGCATCATAAATGAGCGTCATAAATGTGT
17703019 GTCATA
1 GTCATA
17703025 GATTTATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (39 bp):
GTCATAAATGAGCATCATAAATGAGCGTCATAAATGTGT
Found at i:17703020 original size:13 final size:13
Alignment explanation
Indices: 17702941--17703024 Score: 105
Period size: 13 Copynumber: 6.5 Consensus size: 13
17702931 CTCAATGAAC
*
17702941 GTCATAAATGAGC
1 GTCATAAATGAGT
* * *
17702954 ATCATAATTGAGC
1 GTCATAAATGAGT
*
17702967 GTCATAAATGTGT
1 GTCATAAATGAGT
17702980 GTCATAAATGAGT
1 GTCATAAATGAGT
17702993 GTCATAAATGAGT
1 GTCATAAATGAGT
* *
17703006 GTTATAAATGTGT
1 GTCATAAATGAGT
17703019 GTCATA
1 GTCATA
17703025 GATTTATAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 61 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (13 bp):
GTCATAAATGAGT
Found at i:17704990 original size:13 final size:13
Alignment explanation
Indices: 17704968--17705010 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
17704958 AACCCGACCC
17704968 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
17704981 TACCCAACCCGTT
1 GACCCGACCCGTT
17704994 GACCCGACCCGTT
1 GACCCGACCCGTT
17705007 GACC
1 GACC
17705011 GTTGACCGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:17710310 original size:18 final size:18
Alignment explanation
Indices: 17710271--17710312 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17710261 ACGGATACAT
**
17710271 AGAAACTGAATTTACGTC
1 AGAAACTGAATTTAAATC
*
17710289 AGAAACTGAATTTAAATG
1 AGAAACTGAATTTAAATC
17710307 AGAAAC
1 AGAAAC
17710313 CAAATTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (18 bp):
AGAAACTGAATTTAAATC
Found at i:17710518 original size:24 final size:23
Alignment explanation
Indices: 17710478--17710533 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 23
17710468 GACTGATCAA
*
17710478 TCAAAGTCAGT-GGTCAGACCGG
1 TCAAAGTCAATGGGTCAGACCGG
17710500 TCAAAGGTCAATGGGTCAGACCGG
1 TCAAA-GTCAATGGGTCAGACCGG
17710524 TCAAAGTCAA
1 TCAAAGTCAA
17710534 CAAGTCGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 5 0.16
23 10 0.32
24 16 0.52
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (23 bp):
TCAAAGTCAATGGGTCAGACCGG
Found at i:17711429 original size:42 final size:42
Alignment explanation
Indices: 17711365--17711521 Score: 178
Period size: 42 Copynumber: 3.7 Consensus size: 42
17711355 GTGTGATATA
* *
17711365 TCTTATCTTTAGTGGCACTTTTTGCCACAAACGTCTCTATTC
1 TCTTGTCTTTAGTGGCATTTTTTGCCACAAACGTCTCTATTC
* * * *
17711407 TCTTGTCTTTAGTGACATTTTTT-CCACAAACGCCGCTAAATC
1 TCTTGTCTTTAGTGGCATTTTTTGCCACAAACGTCTCT-ATTC
*
17711449 TCTTGTCTTTAGTGGCATTTTTTGCCACAATATTCGT-T-AATTC
1 TCTTGTCTTTAGTGGCATTTTTTGCCACAA-A--CGTCTCTATTC
*
17711492 TCTTGT-TTTAGTGGTATTTTTTGCCACAAA
1 TCTTGTCTTTAGTGGCATTTTTTGCCACAAA
17711522 TGCCACTAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
41 13 0.13
42 67 0.68
43 15 0.15
44 1 0.01
46 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (42 bp):
TCTTGTCTTTAGTGGCATTTTTTGCCACAAACGTCTCTATTC
Found at i:17711511 original size:84 final size:85
Alignment explanation
Indices: 17711365--17711530 Score: 214
Period size: 84 Copynumber: 2.0 Consensus size: 85
17711355 GTGTGATATA
*
17711365 TCTTATCTTTAGTGGCACTTTTTGCCACAAACGTCTCTATTCTCTTGTCTTTAGTGACATTTTTT
1 TCTTATCTTTAGTGGCACTTTTTGCCACAAACGTCTCAATTCTCTTGTCTTTAGTGACATTTTTT
*
17711430 -CCACAAACGCCGCTAAATC
66 GCCACAAACGCCACTAAATC
* * **
17711449 TCTTGTCTTTAGTGGCATTTTTTGCCACAATATTCGT-T-AATTCTCTTGT-TTTAGTGGTATTT
1 TCTTATCTTTAGTGGCACTTTTTGCCACAA-A--CGTCTCAATTCTCTTGTCTTTAGTGACATTT
*
17711511 TTTGCCACAAATGCCACTAA
63 TTTGCCACAAACGCCACTAA
17711531 TGGTAGCTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
84 42 0.59
85 25 0.35
86 1 0.01
87 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (85 bp):
TCTTATCTTTAGTGGCACTTTTTGCCACAAACGTCTCAATTCTCTTGTCTTTAGTGACATTTTTT
GCCACAAACGCCACTAAATC
Found at i:17718843 original size:45 final size:45
Alignment explanation
Indices: 17718764--17719091 Score: 432
Period size: 45 Copynumber: 7.3 Consensus size: 45
17718754 CATCCATTCA
* * *
17718764 TGTTTATAATACA-CCATTATGCACTTTCAACTATAGCATATTCTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGTATATTCTTC
*
17718810 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTCTTC
* * * *
17718855 TGTTAATAATGCACCCATATGCATCTCAACTATAATATACT-TTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTCTTC
*
17718899 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATA-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTC-TTC
* * *
17718944 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTATTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTCTTC
* *
17718989 TGTTGATAATGTACCCATATACATTTCAACTATAGTATACTT-TTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATA-TTCTTC
* *
17719034 TGCTGATAATGCACCCATATGCATTTCAAATATAGTATA-TCATTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTC-TTC
17719079 TGTTGATAATGCA
1 TGTTGATAATGCA
17719092 TGCATTCTTA
Statistics
Matches: 251, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.00
44 39 0.16
45 190 0.76
46 18 0.07
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTCTTC
Found at i:17719028 original size:134 final size:134
Alignment explanation
Indices: 17718764--17719091 Score: 462
Period size: 134 Copynumber: 2.4 Consensus size: 134
17718754 CATCCATTCA
* * * *
17718764 TGTTTATAATACA-CCATTATGCACTTTCAACTATAGCATATTCTTCTGTTGATAATGCACCCAT
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGTATACT-TTCTGTTGATAATGCACCCAT
* * * *
17718828 ATGCATTTCAACTATAGTATATTTTTCTGTTAATAATGCACCCATATGCATCTCAACTATAATAT
63 ATGCATTTCAACTATAGTATACTATTATGTTAATAATGCACCCATATACATCTCAACTATAATAT
17718893 AC-TTTC
128 ACTTTTC
17718899 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACCTTTCTGTTGATAATGCACCCATAT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATA-CTTTCTGTTGATAATGCACCCATAT
* * * *
17718964 GCATTTCAACTATAGTATACTATTATGTTGATAATGTACCCATATACATTTCAACTATAGTATAC
65 GCATTTCAACTATAGTATACTATTATGTTAATAATGCACCCATATACATCTCAACTATAATATAC
17719029 TTTTC
130 TTTTC
* * *
17719034 TGCTGATAATGCACCCATATGCATTTCAAATATAGTATATCATTCTGTTGATAATGCA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATA-CTTTCTGTTGATAATGCA
17719092 TGCATTCTTA
Statistics
Matches: 174, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
134 95 0.55
135 76 0.44
136 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (134 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTCTGTTGATAATGCACCCATATG
CATTTCAACTATAGTATACTATTATGTTAATAATGCACCCATATACATCTCAACTATAATATACT
TTTC
Found at i:17719535 original size:20 final size:20
Alignment explanation
Indices: 17719507--17719563 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
17719497 CTAGTTCCAA
* *
17719507 AGTATCGATACCCCTACCCT
1 AGTACCGATACCCCTACACT
**
17719527 AGTACCGATACTTCTACACT
1 AGTACCGATACCCCTACACT
17719547 AGGGTACCGATACCCCT
1 A--GTACCGATACCCCT
17719564 TCCTGGTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 17 0.59
22 12 0.41
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (20 bp):
AGTACCGATACCCCTACACT
Found at i:17719633 original size:22 final size:21
Alignment explanation
Indices: 17719600--17719640 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
17719590 TCGATGTTTC
17719600 ATGGTATCGATACTACCCTTCT
1 ATGGTATCGATACT-CCCTTCT
17719622 ATGGTA-CTGATACTCCCTT
1 ATGGTATC-GATACTCCCTT
17719641 ACGGTATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGGTATCGATACTCCCTTCT
Found at i:17724829 original size:22 final size:22
Alignment explanation
Indices: 17724801--17724851 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
17724791 TCGGAGATGA
17724801 GCGACGAACGACGAGGAATGGT
1 GCGACGAACGACGAGGAATGGT
17724823 GCGACGAACGACGAGGAATGGT
1 GCGACGAACGACGAGGAATGGT
*
17724845 GCAACGA
1 GCGACGA
17724852 TAAAACGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.39, T:0.08
Consensus pattern (22 bp):
GCGACGAACGACGAGGAATGGT
Found at i:17729584 original size:22 final size:21
Alignment explanation
Indices: 17729551--17729591 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
17729541 AATCGAAACC
17729551 GGTTTTTTCGGTTC-GGTTCG
1 GGTTTTTTCGGTTCAGGTTCG
17729571 GGTTTTTTAACGGTTCAGGTT
1 GGTTTTTT--CGGTTCAGGTT
17729592 TTTCGGTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
22 6 0.33
23 4 0.22
ACGTcount: A:0.07, C:0.12, G:0.32, T:0.49
Consensus pattern (21 bp):
GGTTTTTTCGGTTCAGGTTCG
Found at i:17729968 original size:16 final size:16
Alignment explanation
Indices: 17729947--17729997 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
17729937 GAAAATTCAA
17729947 AAATTAAAACTAAAAT
1 AAATTAAAACTAAAAT
17729963 AAATTAAATACTAAAA-
1 AAATTAAA-ACTAAAAT
*
17729979 AAATCAAAA-TCAAAAT
1 AAATTAAAACT-AAAAT
17729995 AAA
1 AAA
17729998 CCAAAGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 18 0.58
17 7 0.23
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATTAAAACTAAAAT
Found at i:17732759 original size:46 final size:44
Alignment explanation
Indices: 17732650--17732766 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 44
17732640 AATAATTTCA
* * *
17732650 CATTTATGGCATCCTTTCATTCATGTTAAGCACCATTATGCATTT
1 CATTTATGACATCCTTTCATGCCT-TTAAGCACCATTATGCATTT
* *
17732695 CATTTATGACATCTTTTCATGCCTTTAATGCACCGTTATGCATTTT
1 CATTTATGACATCCTTTCATGCCTTTAA-GCACCATTATGCA-TTT
*
17732741 CATTTATGTCATCCTTTCATGCCTTT
1 CATTTATGACATCCTTTCATGCCTTT
17732767 TATGTCAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 4 0.06
45 32 0.51
46 27 0.43
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.45
Consensus pattern (44 bp):
CATTTATGACATCCTTTCATGCCTTTAAGCACCATTATGCATTT
Found at i:17733153 original size:54 final size:54
Alignment explanation
Indices: 17733061--17733749 Score: 565
Period size: 54 Copynumber: 12.8 Consensus size: 54
17733051 TATGGTCATT
* * * * * ** *
17733061 ATCAACCTATGATGAATTTCGTGAGTTGTACACATAGTGTTTG-TACGATTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG-CCGAAACGATTATTC
* * * * * * *
17733115 ATCAATATATGATGAATTCCGTGAGTTGCATACTTAGTGCTGAAAAGGTTGTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * ** * * *
17733169 ATCAACATATGATGGATTCCTTGGGTTGCACACTTAGTTTCGAAATGGTTGTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* *
17733223 ATCAACAAATGATGAATTCCGTGGGTTGCACACTTAGTACCGAAAC-AGTTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGA-TTATTC
* * * *** * * *
17733277 ATCCACTTAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * *
17733331 ATCAATATATGATGAATTCCGTGGGTTGAACACTTACTGCCGAAACGATTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* ** *
17733385 ATCAGCATATGATGAATTATGTGGGTTGCACACTTAGTGTCGAAAC-AGTTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGA-TTATTC
* *** * *
17733439 ATAAACATATGATGAATTTTATGGGTTGCACACTTAGTGTCGAAACGATTGTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * **** * * *
17733493 ATCCACATAGGATGAATTCCGTAAAATGCACACTTAGTGTCGAAACGGTTGTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * *** * * * *
17733547 ATCCACATAGGATGAATTCCGTGAAATGTACACATAGTGCCAAAACGGTTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * *** * *
17733601 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTTTTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * *** * * *
17733655 ATCCACATAGGATGAATTCCGTGAAATACACACTTAGTGCCGAAATGGTTATTC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
* * * ***
17733709 ATCCACATAGGATGAATTCTGTGAAATGCACACTTAGTGCC
1 ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCC
17733750 TATTTGGTAA
Statistics
Matches: 541, Mismatches: 89, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
53 3 0.01
54 537 0.99
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (54 bp):
ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCGAAACGATTATTC
Found at i:17733343 original size:162 final size:162
Alignment explanation
Indices: 17733109--17733749 Score: 672
Period size: 162 Copynumber: 4.0 Consensus size: 162
17733099 GTTTGTACGA
* * * ** * *
17733109 TTATTCATCAATATATGATGAATTCCGTGAGTTGCATACTTAGTGCTGAAAAGGTTGTTCATCAA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTCATCAA
* * * *** ** * * * *
17733174 CATATGATGGATTCCTTGGGTTGCACACTTAGTTTCGAAATGGTTGTTCATCAACAAATGATGAA
66 CATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGAA
*** *
17733239 TTCCGTGGGTTGCACACTTAGTACCGAAACAG
131 TTCCGTGAAATGCACACTTAGTGCCGAAACAG
*
17733271 TTATTCATCCACTTAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTCATCAA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTCATCAA
* * *** * * * * *
17733336 TATATGATGAATTCCGTGGGTTGAACACTTACTGCCGAAACGATTATTCATCAGCATATGATGAA
66 CATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGAA
** *** *
17733401 TTATGTGGGTTGCACACTTAGTGTCGAAACAG
131 TTCCGTGAAATGCACACTTAGTGCCGAAACAG
** * *** *** * *
17733433 TTATTCATAAACATATGATGAATTTTATGGGTTGCACACTTAGTG-TCGAAACGATTGTTCATCC
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCT-GAAACGGTTGTTCATCA
* * * *
17733497 ACATAGGATGAATTCCGTAAAATGCACACTTAGTGTCGAAACGGTTGTTCATCCACATAGGATGA
65 ACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGA
* * * *
17733562 ATTCCGTGAAATGTACACATAGTGCCAAAACGG
130 ATTCCGTGAAATGCACACTTAGTGCCGAAACAG
* * *
17733595 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTTTTCATCCA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTCATCAA
* * *
17733660 CATAGGATGAATTCCGTGAAATACACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAA
66 CATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGAA
*
17733725 TTCTGTGAAATGCACACTTAGTGCC
131 TTCCGTGAAATGCACACTTAGTGCC
17733750 TATTTGGTAA
Statistics
Matches: 397, Mismatches: 80, Indels: 4
0.83 0.17 0.01
Matches are distributed among these distances:
161 1 0.00
162 396 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (162 bp):
TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTGTTCATCAA
CATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGAA
TTCCGTGAAATGCACACTTAGTGCCGAAACAG
Found at i:17733748 original size:108 final size:108
Alignment explanation
Indices: 17733112--17733749 Score: 720
Period size: 108 Copynumber: 5.9 Consensus size: 108
17733102 TGTACGATTA
* * * * * *
17733112 TTCATCAATATATGATGAATTCCGTGAGTTGCATACTTAGTGCTGAAAAGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
* * * *** ** *
17733177 ATGATGGATTCCTTGGGTTGCACACTTAGTTTCGAAATGGTTG
66 AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
* * * * *
17733220 TTCATCAACAAATGATGAATTCCGTGGGTTGCACACTTAGTACCGAAACAGTTATTCATCCACTT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
*
17733285 AGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTG
66 AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
* * * * *
17733328 TTCATCAATATATGATGAATTCCGTGGGTTGAACACTTACTGCCGAAACGATTATTCAT-CAGCA
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCA-CA
* ** *** * * *
17733392 TATGATGAATTATGTGGGTTGCACACTTAGTGTCGAAACAGTTA
65 TAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
* *** * * * *
17733436 TTCATAAACATATGATGAATTTTATGGGTTGCACACTTAGTGTCGAAACGATTGTTCATCCACAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
* *
17733501 AGGATGAATTCCGTAAAATGCACACTTAGTGTCGAAACGGTTG
66 AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
* * ** * * *
17733544 TTCATCCACATAGGATGAATTCCGTGAAATGTACACATAGTGCCAAAACGGTTATTCATCCACAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
*
17733609 AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTT
66 AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
* * ** * *
17733652 TTCATCCACATAGGATGAATTCCGTGAAATACACACTTAGTGCCGAAATGGTTATTCATCCACAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
*
17733717 AGGATGAATTCTGTGAAATGCACACTTAGTGCC
66 AGGATGAATTCCGTGAAATGCACACTTAGTGCC
17733750 TATTTGGTAA
Statistics
Matches: 447, Mismatches: 81, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
107 2 0.00
108 443 0.99
109 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTATTCATCCACAT
AGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTG
Found at i:17734116 original size:22 final size:22
Alignment explanation
Indices: 17734076--17734127 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
17734066 GCTCCTCAGA
17734076 ATCGATAC--CCATACCATGGT
1 ATCGATACTACCATACCATGGT
*
17734096 ATCGATACTACCATACTATGGT
1 ATCGATACTACCATACCATGGT
*
17734118 ACCGATACTA
1 ATCGATACTA
17734128 TACTATCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.29
22 20 0.71
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (22 bp):
ATCGATACTACCATACCATGGT
Found at i:17736919 original size:2 final size:2
Alignment explanation
Indices: 17736912--17736959 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
17736902 CCCAGAAAAG
17736912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17736954 AT AT AT
1 AT AT AT
17736960 TTGACATCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17744225 original size:19 final size:19
Alignment explanation
Indices: 17744182--17744237 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
17744172 ATTCTACAAC
*
17744182 CAATTTCATCAAAAACATAAT
1 CAATTTTATCAAAAA-A-AAT
17744203 --ATTTTATCAAAAAAAAT
1 CAATTTTATCAAAAAAAAT
17744220 CAATTTT-TCAAATAAAAA
1 CAATTTTATCAAA-AAAAA
17744238 ATTTGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.10
18 6 0.19
19 22 0.71
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (19 bp):
CAATTTTATCAAAAAAAAT
Found at i:17751963 original size:45 final size:45
Alignment explanation
Indices: 17751900--17752020 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 45
17751890 ATCAATTTCA
*
17751900 CATTTATGGCATCCTTTCATGCATGTTATGCACCATTATACA-TTT
1 CATTTATGGCATCATTTCATGCAT-TTATGCACCATTATACATTTT
* * **
17751945 CATTTATGGCATCATTTCATTTC-TTTAATGCACCGTTATGTATTTT
1 CATTTATGGCATCATTTCA-TGCATTT-ATGCACCATTATACATTTT
17751991 CATTTATGGCATCATTTCATGCCATTTATG
1 CATTTATGGCATCATTTCATG-CATTTATG
17752021 TCAATTAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 2 0.03
45 32 0.49
46 28 0.43
47 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (45 bp):
CATTTATGGCATCATTTCATGCATTTATGCACCATTATACATTTT
Found at i:17752430 original size:54 final size:54
Alignment explanation
Indices: 17752317--17752946 Score: 374
Period size: 54 Copynumber: 11.7 Consensus size: 54
17752307 CTATACAGTC
* * * * **
17752317 GTTCATCAACCTATGATGAATTCTGTGAGTTGCACACATAGTG-CATGAATGAAT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCA-AAATGGTT
* * * * * *
17752371 ATTCATCAATATATGATGAATTCCATGAGTTGCATACTTAGTGTCGAAATAGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* * *
17752425 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGTCAAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* * * * ** *
17752479 ATTCACCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* ** * ** * * *
17752533 GTTCATCAACATATGATAAATTTTGTGGGTTAAACAC-CAGTG-CTGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTC-AAAATGGTT
* * * * ** *
17752586 ATTCATCAATATATGATGAATTTCGTGGGTTGCACACTTAGTACCGAACAT--TT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTC-AAAATGGTT
* * * * ** *
17752639 ATTTATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTACCAAAATGGCT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* * * * ** * * ** *
17752693 GTTCATCCACATAGGATGAATTTCGTAAAATGCAAACTTAATACCGAAATGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* * * * ** * *
17752747 ATTCATCCACATAGGATGAATTCCCTGAAATGCACACTTAGT-ACTGAAATGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTC-AAAATGGTT
* * * * ** * * **
17752801 ATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCAAAACAGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
* * * * ** * *
17752855 ATTCATCCACATAGGATAAATTCCGTGAAATGCACACTTAGTG-CGGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTC-AAAATGGTT
* * * * **
17752909 ATTCATCCACATAGGATGAATTCCATGAAATGCACACT
1 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACT
17752947 GATAACTCCG
Statistics
Matches: 473, Mismatches: 94, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
52 5 0.01
53 89 0.19
54 374 0.79
55 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (54 bp):
GTTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGTCAAAATGGTT
Found at i:17752457 original size:108 final size:107
Alignment explanation
Indices: 17752317--17752946 Score: 421
Period size: 108 Copynumber: 5.9 Consensus size: 107
17752307 CTATACAGTC
* * * * **
17752317 GTTCATCAACCTATGATGAA-TTCTGTGAGTTGCACACATAGTGCATGAATGAATATTCATCAAT
1 GTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCATGAACGGTTATTCATCAAT
* * *
17752381 ATATGATGAATTCCATGAGTTGCATACTTAGTGTCGAAATAGTT
65 ATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAAT-GTT
* * * *
17752425 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGTCA-AAACGGTTATTCACCCAC
1 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTG-CATGAACGGTTATTCATCAAT
* ** *
17752489 ATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTT
65 ATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAAT-GTT
* * ** *
17752533 GTTCATCAACATATGATAAATTTTGTGGGTTAAACAC-CAGTGC-TGAAACGGTTATTCATCAAT
1 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCATG-AACGGTTATTCATCAAT
* * *
17752596 ATATGATGAATTTCGTGGGTTGCACACTTAGTACCGAACAT-TT
65 ATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAA-ATGTT
* * * * * * * * *
17752639 ATTTATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTACCA-AAATGGCTGTTCATCCAC
1 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGT-GCATGAACGGTTATTCATCAAT
* * * ** * * *
17752703 ATAGGATGAATTTCGTAAAATGCAAACTTAATACCGAAATGGTT
65 ATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAAT-GTT
* * * * * *** * * * *
17752747 ATTCATCCACATAGGATGAATTCCCTGAAATGCACACTTAGTAC-TGAAATGGTTATTCATCCAC
1 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCATG-AACGGTTATTCATCAAT
* * ** * * *
17752811 ATAGGATGAATTCCATGAAATACACACTTAGTGCCAAAACAGTT
65 ATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAA-TGTT
* * * * * *** * * *
17752855 ATTCATCCACATAGGATAAATTCCGTGAAATGCACACTTAGTGC-GGAAACGGTTATTCATCCAC
1 GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCATG-AACGGTTATTCATCAAT
* * **
17752919 ATAGGATGAATTCCATGAAATGCACACT
65 ATATGATGAATTCCGTGAGTTGCACACT
17752947 GATAACTCCG
Statistics
Matches: 427, Mismatches: 82, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
106 36 0.08
107 96 0.22
108 290 0.68
109 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (107 bp):
GTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCATGAACGGTTATTCATCAATA
TATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAATGTT
Found at i:17752870 original size:162 final size:162
Alignment explanation
Indices: 17752475--17752946 Score: 511
Period size: 162 Copynumber: 2.9 Consensus size: 162
17752465 GTGTCAAAAC
*
17752475 GGTTATTCACCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTGTTCATC
1 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTGTTCATC
* * * *** * ** * * * *
17752540 AACATATGATAAATTTTGTGGGT-TAAACACCAGTGCTGAAACGGTTATTCATCAATATATGATG
66 CACATAGGATAAATTTCGTAAATGCAAAC-TTAGTGCCGAAACGGTTATTCATCCACATAGGATG
* * ***
17752604 AATTTCGTGGGTTGCACACTTAGTACCGAACAT
130 AATTCCATGAAATGCACACTTAGTACCGAACAT
* * * * *** * *
17752637 --TTATTTATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTACCAAAATGGCTGTTCATC
1 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTGTTCATC
* * * *
17752700 CACATAGGATGAATTTCGTAAAATGCAAACTTAATACCGAAATGGTTATTCATCCACATAGGATG
66 CACATAGGATAAATTTCGT-AAATGCAAACTTAGTGCCGAAACGGTTATTCATCCACATAGGATG
* *
17752765 AATTCCCTGAAATGCACACTTAGTACTGAA-AT
130 AATTCCATGAAATGCACACTTAGTACCGAACAT
* * ** *
17752797 GGTTATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCAAAACAGTTATTCATC
1 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTGTTCATC
* * *
17752862 CACATAGGATAAATTCCGTGAAATGCACACTTAGTGCGGAAACGGTTATTCATCCACATAGGATG
66 CACATAGGATAAATTTCGT-AAATGCAAACTTAGTGCCGAAACGGTTATTCATCCACATAGGATG
17752927 AATTCCATGAAATGCACACT
130 AATTCCATGAAATGCACACT
17752947 GATAACTCCG
Statistics
Matches: 250, Mismatches: 56, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
160 70 0.28
161 51 0.20
162 129 0.52
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (162 bp):
GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTGTTCATC
CACATAGGATAAATTTCGTAAATGCAAACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGA
ATTCCATGAAATGCACACTTAGTACCGAACAT
Found at i:17759832 original size:21 final size:24
Alignment explanation
Indices: 17759799--17759842 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
17759789 TGTTTTGGCC
17759799 TTATCTCACTTAAA-T-GAATATT
1 TTATCTCACTTAAAGTGGAATATT
*
17759821 TTAT-TCATTTAAAGTGGAATAT
1 TTATCTCACTTAAAGTGGAATAT
17759843 AATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
TTATCTCACTTAAAGTGGAATATT
Found at i:17761441 original size:40 final size:40
Alignment explanation
Indices: 17761366--17761446 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
17761356 TACGGTGTAC
* * * * *
17761366 TAGGTGGGTAAAGCCCGACCTCATCACTACGGTGCATTAT
1 TAGGTGAGCAAAGCCCGACCTCAGCACTACAGTGCAATAT
* *
17761406 TAGGTGAGCAAAGCTCGACCTCAGCACTTCAGTGCAATAT
1 TAGGTGAGCAAAGCCCGACCTCAGCACTACAGTGCAATAT
17761446 T
1 T
17761447 TGACTCCTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
TAGGTGAGCAAAGCCCGACCTCAGCACTACAGTGCAATAT
Found at i:17761610 original size:45 final size:45
Alignment explanation
Indices: 17761520--17761839 Score: 509
Period size: 45 Copynumber: 7.1 Consensus size: 45
17761510 GGTAATCATG
* *
17761520 AAAATAAGCTTATGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
17761564 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
17761609 AAAATAAGCTTACGTGCTTATGGATTAAATAGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
17761654 AAAATAAGCTTACGAGCTTAT-GAATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGT
* *
17761699 AAAATAAGCTTATGAGATTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
17761744 AAAATAAGCTTACGAGGTTATGGATTAAATTGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
17761789 AAAATAAGCTTAGGAGCTTATGGAATAAATGGTAACTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
17761834 AAAATA
1 AAAATA
17761840 TTGGATATGT
Statistics
Matches: 254, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
44 27 0.11
45 224 0.88
46 3 0.01
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:17764590 original size:9 final size:8
Alignment explanation
Indices: 17764576--17764719 Score: 73
Period size: 9 Copynumber: 17.0 Consensus size: 8
17764566 AATATAATAT
17764576 GAAAAAATA
1 GAAAAAA-A
17764585 GAAAAAGAAA
1 G-AAAA-AAA
17764595 GAAGAAAAA
1 GAA-AAAAA
17764604 G--AAAAA
1 GAAAAAAA
17764610 GAAATAAAA
1 GAAA-AAAA
* *
17764619 TCAGAAAAA
1 -GAAAAAAA
17764628 GAAAAAAA
1 GAAAAAAA
17764636 GAATAAAAA
1 GAA-AAAAA
17764645 GAAAAAATA
1 GAAAAAA-A
*
17764654 -ATAAAAA
1 GAAAAAAA
17764661 GAAAAAGAA
1 GAAAAA-AA
17764670 -AACAAAGAA
1 GAA-AAA-AA
17764679 GAAAAAATA
1 GAAAAAA-A
*
17764688 GAAAGAGAA
1 GAAA-AAAA
*
17764697 -AAGAAAA
1 GAAAAAAA
* *
17764704 GAGAAAGA
1 GAAAAAAA
17764712 GAAAAAAA
1 GAAAAAAA
17764720 ATGAGAGATG
Statistics
Matches: 105, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
6 6 0.06
7 4 0.04
8 38 0.36
9 41 0.39
10 14 0.13
11 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (8 bp):
GAAAAAAA
Found at i:17764605 original size:6 final size:6
Alignment explanation
Indices: 17764579--17764717 Score: 92
Period size: 6 Copynumber: 22.8 Consensus size: 6
17764569 ATAATATGAA
**
17764579 AAAATAG AAAAAG AAAGAAG AAAAAG AAAAAG AAATAA- AATCAG AAAAAG
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
* * * *
17764629 AAAAA- AAGAAT AAAAAG -AAAA- AATAAT AAAAAG AAAAAG AAAACA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG
* *
17764674 AAGAAG AAAAA- ATAGAAAG AGAAAAG AAAAGAG AAAGAG AAAAA
1 AAAAAG AAAAAG A-A-AAAG A-AAAAG AAAA-AG AAAAAG AAAAA
17764718 AAATGAGAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 25
0.72 0.10 0.17
Matches are distributed among these distances:
5 14 0.13
6 63 0.60
7 26 0.25
8 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:17764625 original size:31 final size:31
Alignment explanation
Indices: 17764586--17764698 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 31
17764576 GAAAAAATAG
*
17764586 AAAA-AGAAAGAAGAAAAAGAA-AAAGAA-AT
1 AAAATAGAAA-AAGAAAAAGAACAAAGAAGAA
*
17764615 AAAATCAGAAAAAGAAAAAAAGAATAAA-AAGAA
1 AAAAT-AGAAAAAG--AAAAAGAACAAAGAAGAA
*
17764648 AAAATAATAAAAAGAAAAAGAAAACAAAGAAGAA
1 AAAAT-AGAAAAAGAAAAAG--AACAAAGAAGAA
*
17764682 AAAATAGAAAGAGAAAA
1 AAAATAGAAAAAGAAAA
17764699 GAAAAGAGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
29 4 0.06
30 3 0.04
31 11 0.16
32 10 0.14
33 31 0.45
34 10 0.14
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (31 bp):
AAAATAGAAAAAGAAAAAGAACAAAGAAGAA
Found at i:17764685 original size:41 final size:40
Alignment explanation
Indices: 17764587--17764684 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 40
17764577 AAAAAATAGA
17764587 AAAAGAAAGAAGAAAAAGAAAAAGAAATAAAATCAGAAAAAG
1 AAAA-AAAGAAGAAAAAGAAAAAGAAATAAAA-CAGAAAAAG
*
17764629 AAAAAAAGAATAAAAAGAAAAA-ATAATAAAA-AGAAAAAG
1 AAAAAAAGAAGAAAAAGAAAAAGA-AATAAAACAGAAAAAG
17764668 AAAACAAAGAAGAAAAA
1 AAAA-AAAGAAGAAAAA
17764685 ATAGAAAGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
39 12 0.23
40 12 0.23
41 24 0.46
42 4 0.08
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (40 bp):
AAAAAAAGAAGAAAAAGAAAAAGAAATAAAACAGAAAAAG
Found at i:17767001 original size:21 final size:24
Alignment explanation
Indices: 17766968--17767011 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
17766958 TGTTTTGGTC
17766968 TTATCTCACTTAAA-T-GAATATT
1 TTATCTCACTTAAAGTGGAATATT
*
17766990 TTAT-TCATTTAAAGTGGAATAT
1 TTATCTCACTTAAAGTGGAATAT
17767012 AATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
TTATCTCACTTAAAGTGGAATATT
Found at i:17767890 original size:16 final size:16
Alignment explanation
Indices: 17767869--17767902 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17767859 ACGAAACATA
* *
17767869 ATTTTTATGATATGAT
1 ATTTTTATAATATCAT
17767885 ATTTTTATAATATCAT
1 ATTTTTATAATATCAT
17767901 AT
1 AT
17767903 ACTGTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTTTATAATATCAT
Found at i:17771966 original size:52 final size:54
Alignment explanation
Indices: 17771820--17772023 Score: 324
Period size: 54 Copynumber: 3.8 Consensus size: 54
17771810 TGAGGAAATA
* *
17771820 GTTATTCATCCACATAGGATGAATTCCGTGAAATCCACACTTAGTGCCGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACG
* *
17771874 GTTATTCATCCATATAGGATGAATTCCGTGAAATGTACACTTAGTGCCAAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACG
* *
17771928 GTAATTCAT-C-CATAGGATGAATTCCGTGAAATGCACACTTAGTGTCAAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACG
*
17771980 GTTATTCATCCACATA-GATGAATTCCGTGAAATACACACTTAGT
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGT
17772024 TCCTATTTGG
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
52 47 0.34
53 29 0.21
54 62 0.45
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (54 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACG
Found at i:17771979 original size:106 final size:107
Alignment explanation
Indices: 17771823--17772023 Score: 325
Period size: 106 Copynumber: 1.9 Consensus size: 107
17771813 GGAAATAGTT
* *
17771823 ATTCATCCACATAGGATGAATTCCGTGAAATCCACACTTAGTGCCGAAACGGTTATTCATCCATA
1 ATTCATCCACATAGGATGAATTCCGTGAAATCCACACTTAGTGCCAAAACGGTTATTCATCCACA
**
17771888 TAGGATGAATTCCGTGAAATGTACACTTAGTGCCAAAACGGTA
66 TA-GATGAATTCCGTGAAATACACACTTAGTGCCAAAACGGTA
* *
17771931 ATTCAT-C-CATAGGATGAATTCCGTGAAATGCACACTTAGTGTCAAAACGGTTATTCATCCACA
1 ATTCATCCACATAGGATGAATTCCGTGAAATCCACACTTAGTGCCAAAACGGTTATTCATCCACA
17771994 TAGATGAATTCCGTGAAATACACACTTAGT
66 TAGATGAATTCCGTGAAATACACACTTAGT
17772024 TCCTATTTGG
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 26 0.30
106 54 0.62
107 1 0.01
108 6 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (107 bp):
ATTCATCCACATAGGATGAATTCCGTGAAATCCACACTTAGTGCCAAAACGGTTATTCATCCACA
TAGATGAATTCCGTGAAATACACACTTAGTGCCAAAACGGTA
Found at i:17772393 original size:22 final size:21
Alignment explanation
Indices: 17772351--17772421 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 21
17772341 TAGCTCTTCA
*
17772351 GTATCGATAC-CCATACCATG
1 GTATCGATACTCCATACTATG
17772371 GTATCGATACTACCATACTATG
1 GTATCGATACT-CCATACTATG
* *
17772393 GTACCGATACT--ATGCTATG
1 GTATCGATACTCCATACTATG
17772412 GTATCGATAC
1 GTATCGATAC
17772422 CATTTTTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 16 0.36
20 10 0.22
22 19 0.42
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCGATACTCCATACTATG
Found at i:17782567 original size:32 final size:32
Alignment explanation
Indices: 17782531--17782622 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
17782521 TCGATTACAA
17782531 TCTACAAGGTCCAACCCTTGTAACTTACACAG
1 TCTACAAGGTCCAACCCTTGTAACTTACACAG
*
17782563 TCTACAAGGTCTAACCCTTGTAACTTACACAG
1 TCTACAAGGTCCAACCCTTGTAACTTACACAG
* * *
17782595 CCTACAAGGTGCAACCCTTGGAACTTAC
1 TCTACAAGGTCCAACCCTTGTAACTTAC
17782623 TTTTTTCCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (32 bp):
TCTACAAGGTCCAACCCTTGTAACTTACACAG
Found at i:17793320 original size:29 final size:31
Alignment explanation
Indices: 17793287--17793364 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
17793277 TTTAAGGTTT
*
17793287 TTTTATTTTTTAAAATTTA-AATTTTTA-TA
1 TTTTATTTTTTAAAATTTAGAATTTATATTA
* *
17793316 TTTTATTTTATAAAATTGAGAATTTATATTA
1 TTTTATTTTTTAAAATTTAGAATTTATATTA
*
17793347 TTTT-TTATTTAAATATTT
1 TTTTATTTTTTAAA-ATTT
17793365 TGGTCTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 17 0.43
30 14 0.35
31 9 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTTATTTTTTAAAATTTAGAATTTATATTA
Found at i:17793826 original size:2 final size:2
Alignment explanation
Indices: 17793819--17793849 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17793809 AAAATAAAAT
17793819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17793850 GTGTGTGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17796041 original size:2 final size:2
Alignment explanation
Indices: 17796034--17796089 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
17796024 TACAAGCTAC
17796034 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
17796076 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
17796090 CCTTATTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17796371 original size:25 final size:24
Alignment explanation
Indices: 17796321--17796375 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
17796311 TATTTTATTC
* * **
17796321 ATTTTATTTATTTTTATTTTTTTT
1 ATTTTAGTTATTTTTATATTCATT
17796345 ATCTTTAGTTATTTTTATATTCATT
1 AT-TTTAGTTATTTTTATATTCATT
17796370 ATTTTA
1 ATTTTA
17796376 TTTGTATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTAGTTATTTTTATATTCATT
Found at i:17796446 original size:3 final size:3
Alignment explanation
Indices: 17796438--17796479 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
17796428 TATATATGTT
*
17796438 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
17796480 TTGTATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17796508 original size:15 final size:15
Alignment explanation
Indices: 17796311--17796520 Score: 65
Period size: 15 Copynumber: 13.1 Consensus size: 15
17796301 TTTATATGTA
*
17796311 TATTTTA-TTCATTT
1 TATTTTATTTTATTT
17796325 TA-TTTATTTTTATTT
1 TATTTTA-TTTTATTT
17796340 T-TTTTATCTTTAGTTAT
1 TATTTTAT-TTTA-TT-T
17796357 T-TTTATATTCATTATTT
1 TATTT-TATT--TTATTT
*
17796374 TATTTGTATTTCATTTT
1 TATTT-TATTTTA-TTT
* * *
17796391 TACTATATTGTTA-CT
1 TATTTTATT-TTATTT
*
17796406 CATTTT-TTTTATCTT
1 TATTTTATTTTAT-TT
* *
17796421 TATTGTTTATATATGTTT
1 TA-T-TTTAT-TTTATTT
17796439 TATTATTATTATTATTAT
1 TATT-TTATT-TTATT-T
*
17796457 TATTATTATCATTATTAT
1 TATT-TTAT-TTTATT-T
* * *
17796475 ATATTTT-GTATATTC
1 -TATTTTATTTTATTT
17796490 TATTTTATTTTATTT
1 TATTTTATTTTATTT
*
17796505 TATTTTATTTCATTT
1 TATTTTATTTTATTT
17796520 T
1 T
17796521 TTTCTCTCAT
Statistics
Matches: 147, Mismatches: 25, Indels: 47
0.67 0.11 0.21
Matches are distributed among these distances:
13 7 0.05
14 11 0.07
15 41 0.28
16 15 0.10
17 27 0.18
18 36 0.24
19 10 0.07
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTTTATTTTATTT
Found at i:17801472 original size:13 final size:13
Alignment explanation
Indices: 17801468--17801530 Score: 81
Period size: 13 Copynumber: 4.5 Consensus size: 13
17801458 CCGTTTACCC
17801468 GACCCGACCCGTT
1 GACCCGACCCGTT
17801481 GACCCGACCCGTT
1 GACCCGACCCGTT
17801494 GACCCGACTCGACTCGTT
1 GACCCGA--C--C-CGTT
17801512 GACCCGACCCGTT
1 GACCCGACCCGTT
17801525 GACCCG
1 GACCCG
17801531 TTGACCGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 30 0.67
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.24
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:17801484 original size:8 final size:8
Alignment explanation
Indices: 17801473--17801564 Score: 76
Period size: 8 Copynumber: 12.4 Consensus size: 8
17801463 TACCCGACCC
17801473 GACCCGTT
1 GACCCGTT
17801481 GACCC---
1 GACCCGTT
17801486 GACCCGTT
1 GACCCGTT
*
17801494 GACCCGACTC
1 GACCCG--TT
*
17801504 GACTCGTT
1 GACCCGTT
17801512 GACCC---
1 GACCCGTT
17801517 GACCCGTT
1 GACCCGTT
17801525 GACCCGTT
1 GACCCGTT
17801533 GA-CCGTT
1 GACCCGTT
*
17801540 GA-CTGTT
1 GACCCGTT
17801547 GACCCGTT
1 GACCCGTT
17801555 GA-CCGTT
1 GACCCGTT
17801562 GAC
1 GAC
17801565 TACTGTTGAC
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
5 10 0.15
7 20 0.29
8 32 0.47
10 6 0.09
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:17801485 original size:31 final size:31
Alignment explanation
Indices: 17801450--17801530 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
17801440 GTCACAACCC
* *
17801450 GACCCAACCCGTTTACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
17801481 GACCCGACCCGTTGACCCGACTCGACTCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
17801512 GACCCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
17801531 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:17801491 original size:18 final size:18
Alignment explanation
Indices: 17801446--17801536 Score: 84
Period size: 18 Copynumber: 5.2 Consensus size: 18
17801436 ACCGGTCACA
* *
17801446 ACCCGACCCAACCCGTTT
1 ACCCGACCCGACCCGTTG
17801464 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
17801481 ----GACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
17801495 ACCCGACTCGACTCGTTG
1 ACCCGACCCGACCCGTTG
17801513 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
17801534 ACC
1 ACC
17801537 GTTGACTGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
13 13 0.22
18 36 0.60
21 11 0.18
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:17801540 original size:7 final size:7
Alignment explanation
Indices: 17801520--17801564 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
17801510 TTGACCCGAC
17801520 CCGTTGA
1 CCGTTGA
17801527 CCCGTTGA
1 -CCGTTGA
17801535 CCGTTGA
1 CCGTTGA
*
17801542 CTGTTGA
1 CCGTTGA
17801549 CCCGTTGA
1 -CCGTTGA
17801557 CCGTTGA
1 CCGTTGA
17801564 C
1 C
17801565 TACTGTTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.13, C:0.31, G:0.27, T:0.29
Consensus pattern (7 bp):
CCGTTGA
Found at i:17801540 original size:15 final size:15
Alignment explanation
Indices: 17801517--17801564 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
17801507 TCGTTGACCC
17801517 GACCCGTTGACCCGTT
1 GACCCGTTGA-CCGTT
*
17801533 GA-CCGTTGACTGTT
1 GACCCGTTGACCGTT
17801547 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
17801562 GAC
1 GAC
17801565 TACTGTTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 21 0.72
16 2 0.07
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:17801550 original size:22 final size:22
Alignment explanation
Indices: 17801522--17801565 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17801512 GACCCGACCC
17801522 GTTGACCCGTTGACCGTTGACT
1 GTTGACCCGTTGACCGTTGACT
17801544 GTTGACCCGTTGACCGTTGACT
1 GTTGACCCGTTGACCGTTGACT
17801566 ACTGTTGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (22 bp):
GTTGACCCGTTGACCGTTGACT
Found at i:17802872 original size:18 final size:18
Alignment explanation
Indices: 17802846--17802880 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17802836 TCGAAAGGAC
*
17802846 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
17802864 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
17802881 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:17806548 original size:13 final size:13
Alignment explanation
Indices: 17806544--17806606 Score: 81
Period size: 13 Copynumber: 4.5 Consensus size: 13
17806534 CCGTTTACCC
17806544 GACCCGACCCGTT
1 GACCCGACCCGTT
17806557 GACCCGACCCGTT
1 GACCCGACCCGTT
17806570 GACCCGACTCGACTCGTT
1 GACCCGA--C--C-CGTT
17806588 GACCCGACCCGTT
1 GACCCGACCCGTT
17806601 GACCCG
1 GACCCG
17806607 TTGACCGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 30 0.67
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.24
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:17806560 original size:8 final size:8
Alignment explanation
Indices: 17806549--17806633 Score: 78
Period size: 8 Copynumber: 11.4 Consensus size: 8
17806539 TACCCGACCC
17806549 GACCCGTT
1 GACCCGTT
17806557 GACCC---
1 GACCCGTT
17806562 GACCCGTT
1 GACCCGTT
*
17806570 GACCCGACTC
1 GACCCG--TT
*
17806580 GACTCGTT
1 GACCCGTT
17806588 GACCC---
1 GACCCGTT
17806593 GACCCGTT
1 GACCCGTT
17806601 GACCCGTT
1 GACCCGTT
17806609 GA-CCGTT
1 GACCCGTT
17806616 GACCCGTT
1 GACCCGTT
17806624 GA-CCGTT
1 GACCCGTT
17806631 GAC
1 GAC
17806634 TACTGTTGAC
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
5 10 0.16
7 14 0.22
8 33 0.52
10 6 0.10
ACGTcount: A:0.15, C:0.39, G:0.25, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:17806561 original size:31 final size:31
Alignment explanation
Indices: 17806526--17806606 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
17806516 GTCACAACCC
* *
17806526 GACCCAACCCGTTTACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
17806557 GACCCGACCCGTTGACCCGACTCGACTCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
17806588 GACCCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
17806607 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:17806567 original size:18 final size:18
Alignment explanation
Indices: 17806522--17806612 Score: 84
Period size: 18 Copynumber: 5.2 Consensus size: 18
17806512 ACCGGTCACA
* *
17806522 ACCCGACCCAACCCGTTT
1 ACCCGACCCGACCCGTTG
17806540 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
17806557 ----GACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
17806571 ACCCGACTCGACTCGTTG
1 ACCCGACCCGACCCGTTG
17806589 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
17806610 ACC
1 ACC
17806613 GTTGACCCGT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
13 13 0.22
18 36 0.60
21 11 0.18
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:17806616 original size:7 final size:7
Alignment explanation
Indices: 17806596--17806633 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
17806586 TTGACCCGAC
17806596 CCGTTGA
1 CCGTTGA
17806603 CCCGTTGA
1 -CCGTTGA
17806611 CCGTTGA
1 CCGTTGA
17806618 CCCGTTGA
1 -CCGTTGA
17806626 CCGTTGA
1 CCGTTGA
17806633 C
1 C
17806634 TACTGTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:17806616 original size:15 final size:15
Alignment explanation
Indices: 17806596--17806633 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
17806586 TTGACCCGAC
17806596 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
17806611 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
17806626 CCGTTGAC
1 CCGTTGAC
17806634 TACTGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:17807941 original size:18 final size:18
Alignment explanation
Indices: 17807915--17807949 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17807905 TCGAAAGGAC
*
17807915 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
17807933 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
17807950 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:17810499 original size:90 final size:89
Alignment explanation
Indices: 17810384--17810558 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 89
17810374 TCCTGAATAT
*
17810384 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATA-AAATCCCTAATATGATTA
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAA-CCCTAATATGATTA
17810448 GGGTAACTTGGATATAAAAGGATTA
65 GGGTAACTTGGATATAAAAGGATTA
17810473 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTA
* *
17810538 TGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
17810559 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
89 7 0.09
90 71 0.88
91 3 0.04
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:17811271 original size:25 final size:24
Alignment explanation
Indices: 17811221--17811275 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
17811211 TATTTTATTC
* * **
17811221 ATTTTATTTATTTTTATTTTTTTT
1 ATTTTAGTTATTTTTATATTCATT
17811245 ATCTTTAGTTATTTTTATATTCATT
1 AT-TTTAGTTATTTTTATATTCATT
17811270 ATTTTA
1 ATTTTA
17811276 TTTGTATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTAGTTATTTTTATATTCATT
Found at i:17811360 original size:21 final size:22
Alignment explanation
Indices: 17811336--17811392 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
17811326 TATATAGGTT
17811336 TTATTATTATTATTATATTC-A
1 TTATTATTATTATTATATTCTA
*
17811357 TTATTATATATTTTGTATATTCTA
1 TTATTAT-TATTAT-TATATTCTA
17811381 TT-TTATT-TTATT
1 TTATTATTATTATT
17811393 TCATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 10 0.32
22 6 0.19
23 11 0.35
24 3 0.10
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTATATTCTA
Found at i:17812544 original size:14 final size:13
Alignment explanation
Indices: 17812523--17812553 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
17812513 TTCCTTTACC
17812523 ATTTTTTTTATTT
1 ATTTTTTTTATTT
17812536 ATTTATTTTTATTT
1 ATTT-TTTTTATTT
17812550 ATTT
1 ATTT
17812554 CCATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:17823000 original size:106 final size:104
Alignment explanation
Indices: 17822808--17823350 Score: 702
Period size: 106 Copynumber: 5.3 Consensus size: 104
17822798 AGGTTTTACC
*
17822808 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
17822873 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACA-TTCTCAATTT
* * *
17822913 CAGAGCCAAATTTCAACATCACAACGAAGGATATTGGACTCTAGACAACGCATGTTCAACTTCAC
1 CAGAGCC-AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
17822978 GACGAAGGGACCGCTGGTTGTCAA-TAA-A----CAATTT
65 GACGAAGGGACCGCTGGTTGTCAACAAACATTCTCAATTT
* * ***
17823012 C----CCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* **
17823073 ACGAAGGGACCGATGACTGT---C-AAC-TTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTCTCAATTT
17823107 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
17823172 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-A-TTCTCAATTT
* * *
17823213 CAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
17823278 ACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAA-CA-TTCTCAATTT
* ** * *
17823319 TAGAGCTCGTTTTCAACTTCACGACGAGGGAT
1 CAGAGC-CAATTTCAACTTCACAACGAAGGAT
17823351 TTCGTGCTCG
Statistics
Matches: 380, Mismatches: 38, Indels: 38
0.83 0.08 0.08
Matches are distributed among these distances:
91 2 0.01
94 68 0.18
95 9 0.02
99 79 0.21
103 3 0.01
104 1 0.00
105 9 0.02
106 190 0.50
107 19 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (104 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTCTCAATTT
Found at i:17823184 original size:193 final size:197
Alignment explanation
Indices: 17822813--17823214 Score: 632
Period size: 193 Copynumber: 2.0 Consensus size: 197
17822803 TTACCCAGAG
* *
17822813 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTCCACGACGAA
* **
17822878 GGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAATTTCAACATCACAACGAAGG
66 GGGACCGATGACTGT--ACAAACA-TTCTCAATTTCAGAGCCAAATTTCAACATCACAACGAAGG
* *
17822943 ATATTGGACTCTAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
128 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
*
17823008 ATTTC
193 ACTTC
* ** *
17823013 CCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTCCACGACGAA
*
17823078 GGGACCGATGACTGT-C-AAC-TTCTCAATTTCAGAGCC-AATTTCAACTTCACAACGAAGGATA
66 GGGACCGATGACTGTACAAACATTCTCAATTTCAGAGCCAAATTTCAACATCACAACGAAGGATA
17823139 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
17823204 TC
196 TC
17823206 CCAATTTCA
1 CCAATTTCA
17823215 GAGCCAATTT
Statistics
Matches: 189, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
193 97 0.51
194 17 0.09
196 3 0.02
197 1 0.01
200 71 0.38
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (197 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTCCACGACGAA
GGGACCGATGACTGTACAAACATTCTCAATTTCAGAGCCAAATTTCAACATCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
TC
Found at i:17824765 original size:2 final size:2
Alignment explanation
Indices: 17824758--17824801 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17824748 TTACAAGCTA
17824758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17824800 AT
1 AT
17824802 TGATATAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17824956 original size:2 final size:2
Alignment explanation
Indices: 17824943--17824976 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
17824933 TCACAAATCT
17824943 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17824977 CGGGCCCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17825207 original size:71 final size:71
Alignment explanation
Indices: 17825095--17825229 Score: 170
Period size: 71 Copynumber: 1.9 Consensus size: 71
17825085 TTATTTTTTT
* *
17825095 ATTTTTTTTATCTTTAGTTATTTTTATATTCATTATTTTATT-TGTATT-TCATTTTTACTATAT
1 ATTTTTTTTATCTTTAGTTATTTATATATTCATTATTTTATTAT-TATTATCATTATTA-TATAT
17825158 TGTTACTC
64 TGTTACTC
* *
17825166 ATTTTTTTTATCTTTA-TTGTTTATATATGT-TTTATTATTATTATTATTATCATTATTATATAT
1 ATTTTTTTTATCTTTAGTTATTTATATAT-TCATTATT-TTATTATTATTATCATTATTATATAT
17825229 T
64 T
17825230 TTGTATATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
70 15 0.27
71 32 0.57
72 9 0.16
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (71 bp):
ATTTTTTTTATCTTTAGTTATTTATATATTCATTATTTTATTATTATTATCATTATTATATATTG
TTACTC
Found at i:17825369 original size:26 final size:24
Alignment explanation
Indices: 17825280--17825369 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 24
17825270 TCTCATTTTA
*
17825280 TATTTTCATTTTATTTATTTATTAT
1 TATTTTC-TTTTATTTATTTCTTAT
* *
17825305 TATTAGTCTCTTTATTTTATTTC-TAGG
1 TATT-TTCT-TTTA-TTTATTTCTTA-T
*
17825332 TATATTTATTTTATTTATTTGCTTACT
1 TAT-TTTCTTTTATTTATTT-CTTA-T
17825359 TATTTTCTTTT
1 TATTTTCTTTT
17825370 TATATATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
25 12 0.24
26 20 0.40
27 17 0.34
28 1 0.02
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (24 bp):
TATTTTCTTTTATTTATTTCTTAT
Found at i:17829703 original size:89 final size:89
Alignment explanation
Indices: 17829590--17829765 Score: 286
Period size: 89 Copynumber: 2.0 Consensus size: 89
17829580 TCCCGAATAT
*
17829590 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATA-AAATCCCTAATATGATTA
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAA-CCCTAATATGATTA
17829654 -GGGAACTTGGA-TATAAAAGGATTA
65 TGGGAACTT-GACTATAAAAGGATTA
17829678 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTA
*
17829743 TGGTAACTTGACTATAAAAGGAT
65 TGGGAACTTGACTATAAAAGGAT
17829766 GTGTTAGGTC
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
88 7 0.09
89 54 0.66
90 21 0.26
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGATTAT
GGGAACTTGACTATAAAAGGATTA
Found at i:17837853 original size:16 final size:16
Alignment explanation
Indices: 17837832--17837867 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
17837822 CGGATATCTG
17837832 ATCCAAAATTTCGGAT
1 ATCCAAAATTTCGGAT
*
17837848 ATCCAAAATTTTGGAT
1 ATCCAAAATTTCGGAT
17837864 ATCC
1 ATCC
17837868 GATTTTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (16 bp):
ATCCAAAATTTCGGAT
Found at i:17837936 original size:16 final size:17
Alignment explanation
Indices: 17837904--17837937 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17837894 TTACTTAAGG
*
17837904 TATCCGAAATTTTCGGA
1 TATCCGAAATATTCGGA
17837921 TATCCGAAA-ATTCGGA
1 TATCCGAAATATTCGGA
17837937 T
1 T
17837938 CAGATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (17 bp):
TATCCGAAATATTCGGA
Found at i:17846793 original size:154 final size:152
Alignment explanation
Indices: 17846513--17846808 Score: 538
Period size: 154 Copynumber: 1.9 Consensus size: 152
17846503 AGATGGAGGG
* *
17846513 AATCTCTTGCGGCATTAGCCCCTTTTCTGGAATGATGTGCTAACATCATTTTCCGCTTACTTCAC
1 AATCTCTTGCGGCATTAGCCCCTTTTCTGGAATGATGTACTAACATCATTTTCCACTTACTTCAC
*
17846578 TCATATGCAACCTTCTTCTTCTCAACATTTTCCAATACTAATATTGACATTAAAACACTTTTTTA
66 TCATACGCAACCTTCTTCTTCTCAACATTTTCCAATACTAATATTGACATTAAAACACTTTTTT-
17846643 GTCCTTCCAGCTCGATCATATGAA
130 -TCCTTCCAGCTCGATCATATGAA
17846667 AATCTCTTGCGGCATTAGCCCCTTTTCTGGAATGATGTACTAACATCATTTTCCACTTACTTCAC
1 AATCTCTTGCGGCATTAGCCCCTTTTCTGGAATGATGTACTAACATCATTTTCCACTTACTTCAC
*
17846732 TCATACGCAACCTTCTTCTTCTCAACATTTTCTAATACTAATATTGACATTAAAACACTTTTTTT
66 TCATACGCAACCTTCTTCTTCTCAACATTTTCCAATACTAATATTGACATTAAAACACTTTTTTT
17846797 CCTTCCAGCTCG
131 CCTTCCAGCTCG
17846809 TCACCATGAT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
152 13 0.09
154 125 0.91
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (152 bp):
AATCTCTTGCGGCATTAGCCCCTTTTCTGGAATGATGTACTAACATCATTTTCCACTTACTTCAC
TCATACGCAACCTTCTTCTTCTCAACATTTTCCAATACTAATATTGACATTAAAACACTTTTTTT
CCTTCCAGCTCGATCATATGAA
Found at i:17848333 original size:4 final size:4
Alignment explanation
Indices: 17848324--17848371 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
17848314 CTATCCAATG
17848324 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
17848372 CATCCATCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:17848376 original size:4 final size:4
Alignment explanation
Indices: 17848369--17848427 Score: 109
Period size: 4 Copynumber: 14.8 Consensus size: 4
17848359 CTATCTATCT
*
17848369 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATAC ATCC ATCC ATCC ATCC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
17848417 ATCC ATCC ATC
1 ATCC ATCC ATC
17848428 TATCAACATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.25
Consensus pattern (4 bp):
ATCC
Found at i:17853557 original size:21 final size:21
Alignment explanation
Indices: 17853533--17853574 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17853523 TGTTTATTTT
17853533 TAAACTTTATTTCAATTATCA
1 TAAACTTTATTTCAATTATCA
*
17853554 TAAACTTTGTTTCAATTATCA
1 TAAACTTTATTTCAATTATCA
17853575 AACTTGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCA
Found at i:17853612 original size:33 final size:32
Alignment explanation
Indices: 17853569--17853672 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 32
17853559 TTTGTTTCAA
*
17853569 TTATCAAACTTGAAAGATTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAG-TTTTAAGTATTTGAAT
17853602 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAG-TTTTAAGTATTTGAAT
* * *
17853635 TTATCGAACTTGGAAGTATTTAAATATTTCAA-
1 TTATCGAACTTGAAAGT-TTTAAGTATTTGAAT
17853667 TTATCG
1 TTATCG
17853673 TAAACTTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
32 7 0.11
33 58 0.89
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (32 bp):
TTATCGAACTTGAAAGTTTTAAGTATTTGAAT
Found at i:17856974 original size:12 final size:11
Alignment explanation
Indices: 17856944--17857000 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 11
17856934 TTTACTATTC
*
17856944 ACTGCTACAAT
1 ACTGCTACAGT
17856955 AC-GCTACAGT
1 ACTGCTACAGT
17856965 ACCTGCTACAGT
1 A-CTGCTACAGT
*
17856977 A--GCTATAGT
1 ACTGCTACAGT
17856986 AACTGCTACAGT
1 -ACTGCTACAGT
17856998 ACT
1 ACT
17857001 TCCGAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 7 0.18
10 9 0.24
11 6 0.16
12 16 0.42
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (11 bp):
ACTGCTACAGT
Found at i:17856986 original size:21 final size:22
Alignment explanation
Indices: 17856944--17856999 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
17856934 TTTACTATTC
*
17856944 ACTGCTACAATACGCTACAGTA
1 ACTGCTACAGTACGCTACAGTA
* *
17856966 CCTGCTACAGTA-GCTATAGTA
1 ACTGCTACAGTACGCTACAGTA
17856987 ACTGCTACAGTAC
1 ACTGCTACAGTAC
17857000 TTCCGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (22 bp):
ACTGCTACAGTACGCTACAGTA
Found at i:17857451 original size:44 final size:44
Alignment explanation
Indices: 17857338--17857525 Score: 281
Period size: 44 Copynumber: 4.3 Consensus size: 44
17857328 TTTACCATTT
* *
17857338 ATTTA-CCATAAGCTCATAAGCTTATTTTACCAAAATACTTACC
1 ATTTATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
*
17857381 ATTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
1 ATTTAT-CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
*
17857426 ATTTATCCATAAGCTCGTAAGCTTATTTTACCATTATACTTACC
1 ATTTATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* * *
17857470 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATATTTGCC
1 ATTTATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
17857514 A-TTATACCATAA
1 ATTTAT-CCATAA
17857526 CAATGTACCA
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
43 7 0.05
44 84 0.64
45 41 0.31
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.37
Consensus pattern (44 bp):
ATTTATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
Found at i:17857682 original size:40 final size:40
Alignment explanation
Indices: 17857622--17857731 Score: 193
Period size: 40 Copynumber: 2.8 Consensus size: 40
17857612 ACTGTAGTGC
17857622 TACACATAAGGTCGTGCCCACCATATACAGCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACAGCGAAGTGTAT
* *
17857662 TACAGATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACAGCGAAGTGTAT
*
17857702 TACACATAAGGTCGTGCCCACCATGTACAG
1 TACACATAAGGTCGTGCCCACCATATACAG
17857732 TTAGTGTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACAGCGAAGTGTAT
Found at i:17859472 original size:30 final size:30
Alignment explanation
Indices: 17859438--17859505 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
17859428 AAAATTACAT
* *
17859438 TTTGGTC-CCTAAAATTT-TCAAAGTTTATAC
1 TTTGGTCACC-AAAATTTACCAAA-TTTATAA
*
17859468 TTTGGTCACCAAACTTTACCAAATTTATAA
1 TTTGGTCACCAAAATTTACCAAATTTATAA
17859498 TTTGGTCA
1 TTTGGTCA
17859506 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTGGTCACCAAAATTTACCAAATTTATAA
Found at i:17865052 original size:42 final size:42
Alignment explanation
Indices: 17864946--17865621 Score: 418
Period size: 42 Copynumber: 15.9 Consensus size: 42
17864936 TAGAGTCCTA
* * * *
17864946 AATTATAAAAGTAAAAAAGTTAGATTGGAAAAATTAGGGGTTTC
1 AATTATAAAGGT-AAAAAGTGAGATTGAAAAAATTA-GGGCTTC
*
17864990 AATTATAAAGGTAAAAAAGTGAGATT-AAAAAATTAGGAGCTTT
1 AATTATAAAGGT-AAAAAGTGAGATTGAAAAAATTAGG-GCTTC
* * * * *
17865033 AATTATACAGGTAGAAAGTGTGATTGAAAAAA-TAGGAACCTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGG-GCTTC
* * * * *
17865075 AATTATAAAGATAAAAACTGATATT-AAAATAATAAGGGCCTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAA-AATTAGGGCTTC
* * * * *
17865117 AATTATAAATGTAAAAAGTTAGATT-AAAAAGTAATGAGCTTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTA-GGGCTTC
* * * *
17865159 AATTATAAAGATAAAATGTGGGATTGAAAAAACTAGGG-TCTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGCT-TC
* * * *
17865201 AATTGTAAAAGTAAAAAAGTGAAATT-AAAAAAGTTAGGGGTTTC
1 AATTATAAAGGT-AAAAAGTGAGATTGAAAAAA-TTA-GGGCTTC
*
17865245 AATTATAAAGGTAAAAAGTGA-ATTGAAAAAATTAGGGATTTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGG-CTTC
17865287 AATTATAAAGGTAAAAAGTGAGATTGAAAACAATTAGGAG-TCTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAA-AATTAGG-GCT-TC
** * * *
17865331 GGTTATAAATGTAAAAA-TGAGATT-AAAAAATTAAAGACTTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATT-AGGGCTTC
* * * *
17865372 GATTATAGAA-CTACAAAGTGAGATTGAAAAAAGTATA-GGCCTC
1 AATTATA-AAGGTAAAAAGTGAGATTGAAAAAA-T-TAGGGCTTC
* * * ** *
17865415 AATTGTAAATGTAAAAAGTGAAATTGAAAAAAAATTAAACGCCTC
1 AATTATAAAGGTAAAAAGTGAGATTG--AAAAAATT-AGGGCTTC
* * * *
17865460 AATTATAAAGGTAAAAGGTGAAATT-AAAATATTAGGAACTTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGG-GCTTC
* * * *
17865502 AATTATAGAA-TTAGAAAGTTAAATTGAAAAAATTAGGG-TCTC
1 AATTATA-AAGGTAAAAAGTGAGATTGAAAAAATTAGGGCT-TC
* * * * *
17865544 AATTAT-AAGATAAAAAATAATATT-AAAAAGTCTAGGAG-TCTC
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAAT-TAGG-GCT-TC
** *
17865586 AATTATAAATATAAAAAGTGAAGA-TAAAAAAATTAG
1 AATTATAAAGGTAAAAAGTG-AGATTGAAAAAATTAG
17865622 AAGTCTTACT
Statistics
Matches: 507, Mismatches: 86, Indels: 79
0.75 0.13 0.12
Matches are distributed among these distances:
40 8 0.02
41 45 0.09
42 209 0.41
43 135 0.27
44 74 0.15
45 36 0.07
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (42 bp):
AATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGCTTC
Found at i:17865398 original size:128 final size:127
Alignment explanation
Indices: 17864946--17865620 Score: 500
Period size: 128 Copynumber: 5.3 Consensus size: 127
17864936 TAGAGTCCTA
* * * * * **
17864946 AATTATAAAAGTAAAAAAGTTAGATTGGAAAAATTAGGGGTTTCAATTATAAAGGTAAAAAAGTG
1 AATTATAAATGT-AAAAAGTGAAATT-AAAAAATTAAGGACTTCAATTATAAAGGT-AAAAAGTG
* * * **
17865011 AGATT-AAAAAATTAGGAGCTTT-AATTATACAGGTAGAAAGTGTGATTGAAAAAA-TAGGAACC
63 AGATTGAAAAAATTAGG-G-TTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGAGTC
17865073 TC
126 TC
* * * * * *
17865075 AATTATAAA-GATAAAAACTGATATTAAAATAA-TAAGGGCCTCAATTATAAATGTAAAAAGTTA
1 AATTATAAATG-TAAAAAGTGAAATTAAAA-AATTAAGGACTTCAATTATAAAGGTAAAAAGTGA
* * * * * * * *
17865138 GATT-AAAAAGTAATGAGCTTCAATTATAAAGATAAAATGTGGGATTGAAAAAACTAGG-GTCTC
64 GATTGAAAAAATTA-GGGTTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGAGTCTC
* * * **
17865201 AATTGTAAAAGTAAAAAAGTGAAATTAAAAAAGTTAGGGGTTTCAATTATAAAGGTAAAAAGTGA
1 AATTATAAATGT-AAAAAGTGAAATTAAAAAA-TTAAGGACTTCAATTATAAAGGTAAAAAGTGA
17865266 -ATTGAAAAAATTAGGGATTTCAATTATAAAGGTAAAAAGTGAGATTGAAAACAATTAGGAGTCT
64 GATTGAAAAAATTAGGG-TTTCAATTATAAAGGTAAAAAGTGAGATTGAAAA-AATTAGGAGTCT
17865330 C
127 C
** * * * * *
17865331 GGTTATAAATGTAAAAA-TGAGATTAAAAAATTAAAGACTTCGATTATAGAA-CTACAAAGTGAG
1 AATTATAAATGTAAAAAGTGAAATTAAAAAATTAAGGACTTCAATTATA-AAGGTAAAAAGTGAG
** * * * * *
17865394 ATTGAAAAAAGTATA-GGCCTCAATTGTAAATGTAAAAAGTGAAATTGAAAAAAAATTA-AACGC
65 ATTGAAAAAA-T-TAGGGTTTCAATTATAAAGGTAAAAAGTGAGATTG--AAAAAATTAGGA-GT
17865457 CTC
125 CTC
* * * * * *
17865460 AATTATAAAGGTAAAAGGTGAAATTAAAATATT-AGGAACTTCAATTATAGAA-TTAGAAAGTTA
1 AATTATAAATGTAAAAAGTGAAATTAAAAAATTAAGG-ACTTCAATTATA-AAGGTAAAAAGTGA
* * * * * * *
17865523 AATTGAAAAAATTAGGGTCTCAATTAT-AAGATAAAAAATAATATT-AAAAAGTCTAGGAGTCTC
64 GATTGAAAAAATTAGGGTTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAT-TAGGAGTCTC
* *
17865586 AATTATAAATATAAAAAGTGAAGATAAAAAAATTA
1 AATTATAAATGTAAAAAGTGAA-ATTAAAAAATTA
17865621 GAAGTCTTAC
Statistics
Matches: 437, Mismatches: 82, Indels: 55
0.76 0.14 0.10
Matches are distributed among these distances:
125 8 0.02
126 86 0.20
127 79 0.18
128 141 0.32
129 59 0.14
130 64 0.15
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (127 bp):
AATTATAAATGTAAAAAGTGAAATTAAAAAATTAAGGACTTCAATTATAAAGGTAAAAAGTGAGA
TTGAAAAAATTAGGGTTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGAGTCTC
Found at i:17865765 original size:20 final size:21
Alignment explanation
Indices: 17865728--17865766 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17865718 AAATAAAATT
*
17865728 AAAAAAATTAGTGTCCTTGTA
1 AAAAAAATTAGAGTCCTTGTA
*
17865749 AAAAAAATTGGAG-CCTTG
1 AAAAAAATTAGAGTCCTTG
17865767 AACAATGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (21 bp):
AAAAAAATTAGAGTCCTTGTA
Done.