Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008113.1 Hibiscus syriacus cultivar Beakdansim tig00110652_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: 992058
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 3 of 5
Found at i:504516 original size:22 final size:23
Alignment explanation
Indices: 504464--504514 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
504454 AGGTTTAATA
504464 TAAAAATAAATATTTAAATTATATT
1 TAAAAATAAAT-TTT-AATTATATT
504489 T-AAAATAAATTTT-A-TATATT
1 TAAAAATAAATTTTAATTATATT
504509 TAAAAA
1 TAAAAA
504515 ATTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.28
21 5 0.20
23 3 0.12
24 9 0.36
25 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAATAAATTTTAATTATATT
Found at i:504753 original size:23 final size:23
Alignment explanation
Indices: 504723--504781 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
504713 GGTCGTTGTC
*
504723 ATCGGTCGAAGCCCGCGCTGTTA
1 ATCGGTCGAAGCCCGCGATGTTA
504746 ATCGGTCGAAGCCCGCGATGTTA
1 ATCGGTCGAAGCCCGCGATGTTA
*
504769 ATCGGTCAAAGCC
1 ATCGGTCGAAGCC
504782 TCAAGTTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (23 bp):
ATCGGTCGAAGCCCGCGATGTTA
Found at i:506750 original size:39 final size:39
Alignment explanation
Indices: 506696--506814 Score: 238
Period size: 39 Copynumber: 3.1 Consensus size: 39
506686 CATGTATCAC
506696 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
506735 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
506774 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
506813 AT
1 AT
506815 TGGCTGTAAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (39 bp):
ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
Found at i:506764 original size:22 final size:22
Alignment explanation
Indices: 506700--506803 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 22
506690 TATCACATCA
506700 TAAATATCCTTAAGAGTTGAAC
1 TAAATATCCTTAAGAGTTGAAC
* *
506722 T-AA-A-GC-T-AGAGTT-ATC
1 TAAATATCCTTAAGAGTTGAAC
506738 ATAAATATCCTTAAGAGTTGAAC
1 -TAAATATCCTTAAGAGTTGAAC
* *
506761 T-AA-A-GC-T-AGAGTT-ATC
1 TAAATATCCTTAAGAGTTGAAC
506777 ATAAATATCCTTAAGAGTTGAAC
1 -TAAATATCCTTAAGAGTTGAAC
506800 TAAA
1 TAAA
506804 GCTAGAGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 28
0.62 0.08 0.29
Matches are distributed among these distances:
16 4 0.07
17 14 0.23
18 6 0.10
19 4 0.07
20 4 0.07
21 6 0.10
22 18 0.30
23 4 0.07
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (22 bp):
TAAATATCCTTAAGAGTTGAAC
Found at i:508395 original size:3 final size:3
Alignment explanation
Indices: 508381--508428 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
508371 AAAACAAAAT
* *
508381 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
508428 T
1 T
508429 CTATTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:508441 original size:14 final size:14
Alignment explanation
Indices: 508379--508434 Score: 66
Period size: 12 Copynumber: 4.3 Consensus size: 14
508369 GTAAAACAAA
*
508379 ATTAATATTAATA-
1 ATTAATAATAATAT
508392 A-TAATAATAATA-
1 ATTAATAATAATAT
508404 A-TAATAATAATAT
1 ATTAATAATAATAT
*
508417 ATTAATAATAATCT
1 ATTAATAATAATAT
508431 ATTA
1 ATTA
508435 TATATAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
12 22 0.56
13 2 0.05
14 15 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAATAATAATAT
Found at i:508481 original size:2 final size:2
Alignment explanation
Indices: 508456--508499 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
508446 TCAAAAAAAT
*
508456 TA TA T- TA TA T- TA CTA TA AA 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
508497 TA T
1 TA T
508500 GGAAAAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 2 0.05
2 33 0.89
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:513923 original size:15 final size:15
Alignment explanation
Indices: 513888--513924 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
513878 ATATTTAGTT
*
513888 GAGCGGGCGGATGTG
1 GAGCGGGCGGATGCG
*
513903 GGGCGGGCGGATGCG
1 GAGCGGGCGGATGCG
513918 GAGCGGG
1 GAGCGGG
513925 TAATGTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.65, T:0.08
Consensus pattern (15 bp):
GAGCGGGCGGATGCG
Found at i:523269 original size:4 final size:4
Alignment explanation
Indices: 523255--523284 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
523245 TATTCTAACC
523255 ATTT A-TT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
523285 GTTTATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:523399 original size:34 final size:33
Alignment explanation
Indices: 523359--523486 Score: 136
Period size: 32 Copynumber: 3.8 Consensus size: 33
523349 CCATTAATCG
*
523359 CTAACATTCTAACTTTTTATTTTTATTGTTTTTA
1 CTAACATTCTAACTTTTTA-TTTTATTGTTCTTA
* *
523393 CAAACATTCTAAC-TTTTATTTTATTGTTCATA
1 CTAACATTCTAACTTTTTATTTTATTGTTCTTA
* *
523425 CTAACATAT-TGACTTGTTTATTTTTATTGTTCTCA
1 CTAACAT-TCTAACTT-TTTA-TTTTATTGTTCTTA
*
523460 CTAAC-TTACTAACATTTTATTTTATTG
1 CTAACATT-CTAACTTTTTATTTTATTG
523487 CACAAACTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
32 21 0.27
33 16 0.20
34 21 0.27
35 21 0.27
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (33 bp):
CTAACATTCTAACTTTTTATTTTATTGTTCTTA
Found at i:523453 original size:35 final size:33
Alignment explanation
Indices: 523359--523486 Score: 131
Period size: 34 Copynumber: 3.8 Consensus size: 33
523349 CCATTAATCG
*
523359 CTAACATTCTAACTTTTTATTTTTATTGTTTTTA
1 CTAACATTCTAACTTTTTATTTTTATTG-TTCTA
*
523393 CAAACATTCTAAC-TTTTA-TTTTATTGTTCATA
1 CTAACATTCTAACTTTTTATTTTTATTGTTC-TA
*
523425 CTAACATAT-TGACTTGTTTATTTTTATTGTTCTCA
1 CTAACAT-TCTAACTT-TTTATTTTTATTGTTCT-A
*
523460 CTAAC-TTACTAACATTTTA-TTTTATTG
1 CTAACATT-CTAACTTTTTATTTTTATTG
523487 CACAAACTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
31 2 0.03
32 19 0.24
33 16 0.20
34 22 0.28
35 21 0.26
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (33 bp):
CTAACATTCTAACTTTTTATTTTTATTGTTCTA
Found at i:523859 original size:2 final size:2
Alignment explanation
Indices: 523854--523883 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
523844 TATGTGTGTG
523854 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
523884 AATCATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:524079 original size:16 final size:16
Alignment explanation
Indices: 524054--524084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
524044 ATTATTTTTT
524054 TACTTCGTTTTATTTC
1 TACTTCGTTTTATTTC
*
524070 TACTTTGTTTTATTT
1 TACTTCGTTTTATTT
524085 TATTTTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (16 bp):
TACTTCGTTTTATTTC
Found at i:524507 original size:21 final size:21
Alignment explanation
Indices: 524452--524501 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
524442 CAGTTCCCAT
*
524452 AATCGCAACACAATTATGAAG
1 AATCGCAACACGATTATGAAG
524473 AATCGCAACACGATTATGAAG
1 AATCGCAACACGATTATGAAG
524494 AATCGCAA
1 AATCGCAA
524502 TGCGATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (21 bp):
AATCGCAACACGATTATGAAG
Found at i:524646 original size:20 final size:20
Alignment explanation
Indices: 524601--524827 Score: 168
Period size: 20 Copynumber: 11.2 Consensus size: 20
524591 CTGACTATCA
*
524601 CAACGAGTATCCGTAAAATCG
1 CAACGCGTATCCGT-AAATCG
* *
524622 TAACGCGTATCCGTAAATCA
1 CAACGCGTATCCGTAAATCG
* *
524642 CAACGAC-AATACGTAAAATCG
1 CAACG-CGTATCCGT-AAATCG
*
524663 TAACGCGTATCCGTAAATCG
1 CAACGCGTATCCGTAAATCG
* * **
524683 CAACGAGAATAGGTAAATCG
1 CAACGCGTATCCGTAAATCG
*
524703 CAACGCGTATCTGTAAATCG
1 CAACGCGTATCCGTAAATCG
* * *
524723 CAACGAGAATACGTAAATCG
1 CAACGCGTATCCGTAAATCG
* *
524743 CAATGAGTATCCGTAAATCG
1 CAACGCGTATCCGTAAATCG
* * * *
524763 CAATGCGAATACGTAAATCT
1 CAACGCGTATCCGTAAATCG
* * * *
524783 CAATGCGAATACATAAATCG
1 CAACGCGTATCCGTAAATCG
* * * *
524803 CAATGCGAATCTGTAAATTG
1 CAACGCGTATCCGTAAATCG
524823 CAACG
1 CAACG
524828 AGATTCTGAC
Statistics
Matches: 166, Mismatches: 37, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
20 139 0.84
21 27 0.16
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
CAACGCGTATCCGTAAATCG
Found at i:524712 original size:40 final size:40
Alignment explanation
Indices: 524601--524827 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
524591 CTGACTATCA
* * * *
524601 CAACGAGTATCCGTAAAATCGTAACGCGTATCCGTAAATCA
1 CAACGAGAATACGT-AAATCGCAACGCGTATCCGTAAATCG
* *
524642 CAACGACAATACGTAAAATCGTAACGCGTATCCGTAAATCG
1 CAACGAGAATACGT-AAATCGCAACGCGTATCCGTAAATCG
* *
524683 CAACGAGAATAGGTAAATCGCAACGCGTATCTGTAAATCG
1 CAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCG
* *
524723 CAACGAGAATACGTAAATCGCAATGAGTATCCGTAAATCG
1 CAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCG
* * * * * * *
524763 CAATGCGAATACGTAAATCTCAATGCGAATACATAAATCG
1 CAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCG
* * *
524803 CAATGCGAAT-CTGTAAATTGCAACG
1 CAACGAGAATAC-GTAAATCGCAACG
524828 AGATTCTGAC
Statistics
Matches: 163, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 113 0.69
41 49 0.30
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
CAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCG
Found at i:524744 original size:60 final size:60
Alignment explanation
Indices: 524536--524827 Score: 173
Period size: 60 Copynumber: 4.8 Consensus size: 60
524526 GATTTTCCAT
* * * * ** *
524536 AATCGCAACGCAG-ATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGA
1 AATCGCAACG-AGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGCGAATACGT-A
* * * * * * * * *
524595 CTATCACAACGAGTATCCGTAAAATCGTAACGCGTATCCGTAAATCACAACGAC-AATACGTAA
1 -AATCGCAACGAGAATACGT-AAATCGCAACGAGAATACGTAAATCGCAACG-CGAATACGT-A
* * * * * *
524658 AATCGTAACGCGTATCCGTAAATCGCAACGAGAATAGGTAAATCGCAACGCGTAT-CTGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGCGAATAC-GTA
* * * *
524718 AATCGCAACGAGAATACGTAAATCGCAATGAGTATCCGTAAATCGCAATGCGAATACGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
* * * * * * *
524778 AATCTCAATGCGAATACATAAATCGCAATGCGAAT-CTGTAAATTGCAACG
1 AATCGCAACGAGAATACGTAAATCGCAACGAGAATAC-GTAAATCGCAACG
524828 AGATTCTGAC
Statistics
Matches: 180, Mismatches: 43, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
59 3 0.02
60 102 0.57
61 54 0.30
62 19 0.11
63 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (60 bp):
AATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
Found at i:528168 original size:20 final size:20
Alignment explanation
Indices: 528143--528197 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
528133 AGACATTCAT
*
528143 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
528163 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
528183 ATGACTATCGCAACG
1 TTGACTATCGCAACG
528198 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:528208 original size:14 final size:14
Alignment explanation
Indices: 528189--528275 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
528179 GGAAATGACT
528189 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
528203 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
528222 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
528236 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
528255 ATCGCAACGAGTGA
1 ATCGCAACGAGAGA
528269 ATCGCAA
1 ATCGCAA
528276 TGCAAAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 26 0.45
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:528219 original size:33 final size:33
Alignment explanation
Indices: 528169--528365 Score: 268
Period size: 33 Copynumber: 5.8 Consensus size: 33
528159 GGAATTGACT
* **
528169 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
528203 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
528236 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
528269 ATCGCAATGCAAAATGAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
528302 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGA
*
528340 ATCGCAATGCGAAATGAAAATTGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
528366 TGCGAAATGA
Statistics
Matches: 147, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
33 107 0.73
34 9 0.06
35 2 0.01
37 1 0.01
38 28 0.19
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:528226 original size:19 final size:19
Alignment explanation
Indices: 528202--528426 Score: 229
Period size: 19 Copynumber: 12.8 Consensus size: 19
528192 GCAACGAGAG
528202 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
528221 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
528235 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
528254 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
528268 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
* *
528287 AATTGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
528301 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
528320 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
528339 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
528358 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
528377 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
528391 AATCGTAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
528411 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
528427 TAGTTTCGCG
Statistics
Matches: 169, Mismatches: 16, Indels: 42
0.74 0.07 0.19
Matches are distributed among these distances:
14 34 0.20
15 2 0.01
16 13 0.08
17 10 0.06
18 5 0.03
19 94 0.56
20 11 0.07
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:528497 original size:19 final size:19
Alignment explanation
Indices: 528473--528544 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
528463 ATTCACTCGT
528473 TGCGATTTTCATTTCGCAG
1 TGCGATTTTCATTTCGCAG
528492 TGCGATTTTCATTTCGCAG
1 TGCGATTTTCATTTCGCAG
*
528511 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAG
528530 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
528545 CGCGTTGCGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAG
Found at i:528677 original size:14 final size:14
Alignment explanation
Indices: 528658--528694 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
528648 CATCAATTAA
528658 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
528672 ACAAATCATCTTTT
1 ACAAATCAACATTT
528686 ACAAATCAA
1 ACAAATCAA
528695 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:530105 original size:21 final size:21
Alignment explanation
Indices: 530039--530105 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
530029 GTGAATCGGG
*
530039 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
530059 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
530081 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
530102 CTCT
1 CTCT
530106 CGTGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:532220 original size:20 final size:20
Alignment explanation
Indices: 532195--532238 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
532185 CGATTCTCTC
*
532195 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCAT
**
532215 GTTGCGATTTTCATTTTCAT
1 GTTGCGATAGTCATTTTCAT
532235 GTTG
1 GTTG
532239 AGATTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCAT
Found at i:532243 original size:20 final size:20
Alignment explanation
Indices: 532205--532245 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
532195 GTTGCGATAG
* *
532205 TCATTTTCGTGTTGCGATTT
1 TCATTTTCATGTTGAGATTT
532225 TCATTTTCATGTTGAGATTT
1 TCATTTTCATGTTGAGATTT
532245 T
1 T
532246 AAGTTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.56
Consensus pattern (20 bp):
TCATTTTCATGTTGAGATTT
Found at i:532831 original size:20 final size:20
Alignment explanation
Indices: 532806--533018 Score: 214
Period size: 20 Copynumber: 10.6 Consensus size: 20
532796 CTTTAAAAAG
532806 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
532826 CGCGTTACGGTTTACGTAT-
1 CGCGTTGCGATTTACGGATA
*
532845 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * * *
532866 CACATTGTGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
532886 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
532906 GGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
532926 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
532946 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
532966 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
532987 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
533008 CTCGTTGCGAT
1 CGCGTTGCGAT
533019 AGTCAGAATC
Statistics
Matches: 153, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.01
20 116 0.76
21 36 0.24
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:532863 original size:40 final size:40
Alignment explanation
Indices: 532808--533018 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
532798 TTAAAAAGCG
* * *
532808 CGTTGCGATTTACGGATACGCGTTACGGTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
532848 CGTTGCGATTTACGGATACACATTGTGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* *
532888 CGTTGCGATTTACAGATAGGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
532928 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
532969 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
533010 CGTTGCGAT
1 CGTTGCGAT
533019 AGTCAGAATC
Statistics
Matches: 153, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 95 0.62
41 58 0.38
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:533050 original size:20 final size:20
Alignment explanation
Indices: 533027--533079 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
533017 ATAGTCAGAA
*
533027 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
533047 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
533067 TCGCGTTGCGATT
1 TCGCGTTGCGATT
533080 ATGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:533052 original size:61 final size:60
Alignment explanation
Indices: 532907--533078 Score: 143
Period size: 61 Copynumber: 2.8 Consensus size: 60
532897 TTACAGATAG
* * * * * * *
532907 GCGTTGCGATTTACGTATTCTCGTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATT
1 GCGTTGCGATTTA-ATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATC
** * *
532967 GTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAATC
1 G-CGTTGCGATTTAATG-TTCGCGTTGCGATTTTACGGATACGCGTTGCGAT-GTCACGAATC
* ** *
533029 GCGTTGCGATTTATATGTTCGCGTTGTGATTTT-CATATTCGCGTTGCGAT
1 GCGTTGCGATTTA-ATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGAT
533079 TATGGAAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
60 14 0.16
61 48 0.54
62 25 0.28
63 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (60 bp):
GCGTTGCGATTTAATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATC
Found at i:533054 original size:81 final size:82
Alignment explanation
Indices: 532808--533079 Score: 245
Period size: 80 Copynumber: 3.4 Consensus size: 82
532798 TTAAAAAGCG
* * * * ** * * * *
532808 CGTTGCGATTTACGGATACGCGTTACG-GTTTACGTATTGTCGTTGCGATTTACGGATACACATT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCGTT
*
532872 GTGA-TTTACGTATTC-T
66 GCGATTTTACGTA-TCGT
* * * * *
532888 CGTTGCGATTTACAGATAGGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCGTT
*
532952 GCGATTTTACGTATTGT
66 GCGATTTTACGTATCGT
*
532969 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTTGCGAT--TCACGAATACGCG
*
533032 TTGCGATTTATATGT-TCG-
64 TTGCGATTT-TACGTATCGT
* * * *
533050 CGTTGTGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACAGATACGCGTTGCGATT
533080 ATGGAAAATC
Statistics
Matches: 164, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
80 61 0.37
81 60 0.37
82 34 0.21
83 7 0.04
84 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (82 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCGTT
GCGATTTTACGTATCGT
Found at i:533704 original size:16 final size:16
Alignment explanation
Indices: 533679--533709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
533669 ATTATTTTTT
533679 TACTTCGTTTTATTTC
1 TACTTCGTTTTATTTC
*
533695 TACTTTGTTTTATTT
1 TACTTCGTTTTATTT
533710 TATTTTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (16 bp):
TACTTCGTTTTATTTC
Found at i:534133 original size:21 final size:21
Alignment explanation
Indices: 534078--534127 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
534068 CAGTTCCCAT
534078 AATCGCAACACGATTATGAAG
1 AATCGCAACACGATTATGAAG
534099 AATCGCAACACGATTATGAAG
1 AATCGCAACACGATTATGAAG
534120 AATCGCAA
1 AATCGCAA
534128 TGCGATAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (21 bp):
AATCGCAACACGATTATGAAG
Found at i:534204 original size:20 final size:20
Alignment explanation
Indices: 534162--534214 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
534152 GATTTTCCAT
* *
534162 AATCGCAACGCGGATATGAA
1 AATCGCAACGCGAACATGAA
534182 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAACATGA-A
*
534202 AATCGCAATGCGA
1 AATCGCAACGCGA
534215 TTCTGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATGAA
Found at i:534272 original size:20 final size:20
Alignment explanation
Indices: 534223--534453 Score: 203
Period size: 20 Copynumber: 11.4 Consensus size: 20
534213 GATTCTGACT
* *
534223 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGAATCCGT-AA
* * *
534244 ATTGTAACGCGTATCCGTAA
1 ATCGCAACGCGAATCCGTAA
*
534264 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAATCCGT-AA
*
534285 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGAATCCGTAA
* *
534305 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATCCGTAA
* **
534325 ATCGCAACGCGTATCTATAA
1 ATCGCAACGCGAATCCGTAA
* *
534345 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATCCGTAA
* * *
534365 ATCGCAATGAGTATCCGTAA
1 ATCGCAACGCGAATCCGTAA
* *
534385 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGAATCCGTAA
* * *
534405 ATCGCAATGCGAATACATAA
1 ATCGCAACGCGAATCCGTAA
* *
534425 ATCGCAATGCGAATCTGTAA
1 ATCGCAACGCGAATCCGTAA
*
534445 ATTGCAACG
1 ATCGCAACG
534454 AGATTCTGAC
Statistics
Matches: 173, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
20 141 0.82
21 32 0.18
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAATCCGTAA
Found at i:534338 original size:40 final size:40
Alignment explanation
Indices: 534223--534453 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
534213 GATTCTGACT
* * * *
534223 ATCGCAACGAGTATCCGTAAAATTGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
534264 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
**
534305 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTATAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
534345 ATCGCAACGAGAATACGTAAATCGCAATGAGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * * * *
534385 ATCGCAATGCGAATACGTAAATCGCAATGCGAATACATAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * *
534425 ATCGCAATGCGAAT-CTGTAAATTGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
534454 AGATTCTGAC
Statistics
Matches: 169, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.68
41 53 0.31
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:537791 original size:20 final size:20
Alignment explanation
Indices: 537766--537820 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
537756 AGACATTCAT
*
537766 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
537786 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
* *
537806 ATGACTATAGCAACG
1 TTGACTATCGCAACG
537821 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:537842 original size:33 final size:33
Alignment explanation
Indices: 537792--537986 Score: 266
Period size: 33 Copynumber: 5.8 Consensus size: 33
537782 GGAATTGACT
* ** *
537792 ATCGCAACGCGGAAATGACTATAGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
537826 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
537859 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
537892 ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
537925 ATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CGAGA-G-A
537961 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
537987 TGCGAAATGA
Statistics
Matches: 145, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
32 9 0.06
33 96 0.66
34 13 0.09
35 1 0.01
36 17 0.12
37 9 0.06
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:537849 original size:19 final size:19
Alignment explanation
Indices: 537825--538001 Score: 199
Period size: 19 Copynumber: 10.2 Consensus size: 19
537815 GCAACGAGAG
537825 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
537844 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
537858 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
537877 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
537891 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
537910 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
537924 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
537942 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
537960 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
537979 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
537998 AATC
1 AATC
538002 ACAACAATCA
Statistics
Matches: 134, Mismatches: 8, Indels: 32
0.77 0.05 0.18
Matches are distributed among these distances:
14 29 0.22
15 2 0.01
16 7 0.05
17 7 0.05
18 37 0.28
19 52 0.39
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:538156 original size:12 final size:12
Alignment explanation
Indices: 538139--538163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
538129 TCTTCGGGGA
538139 CTTTTTCTTCTT
1 CTTTTTCTTCTT
538151 CTTTTTCTTCTT
1 CTTTTTCTTCTT
538163 C
1 C
538164 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:538373 original size:24 final size:24
Alignment explanation
Indices: 538339--538392 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
538329 CTGAAACATC
* *
538339 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
538363 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
538387 ATCAAA
1 ATCAAA
538393 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:539476 original size:20 final size:20
Alignment explanation
Indices: 539450--539507 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
539440 ATTCATTTGA
*
539450 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
539470 TTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
539490 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
539508 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:539677 original size:14 final size:14
Alignment explanation
Indices: 539658--539694 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
539648 CATCAATTAA
539658 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
539672 ACAAATCATCTTTT
1 ACAAATCAACATTT
539686 ACAAATCAA
1 ACAAATCAA
539695 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:539723 original size:40 final size:41
Alignment explanation
Indices: 539644--539723 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 41
539634 ACAAATTATG
* * ** *
539644 TACACATCAATTAAACAAATCAACATTTACAAATCATCTTT
1 TACAAATCAATTAAACAAATCAAAAAATACAAATAATCTTT
539685 TACAAATCAATTAAAC-AATCAAAAAATA-ATAATAATCTT
1 TACAAATCAATTAAACAAATCAAAAAATACA-AATAATCTT
539724 ATTTCTTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
39 1 0.03
40 17 0.52
41 15 0.45
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (41 bp):
TACAAATCAATTAAACAAATCAAAAAATACAAATAATCTTT
Found at i:541588 original size:20 final size:19
Alignment explanation
Indices: 541553--541619 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
541543 GAAACTTAAA
541553 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
541572 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
541592 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
541611 ATCGCAACG
1 ATCGCAACG
541620 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:541639 original size:13 final size:14
Alignment explanation
Indices: 541608--541665 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
541598 ATGCGAAATG
541608 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
541622 AAAATCGCAACGCAAA
1 AAAATCGCAACG--AC
541638 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
541654 AAAATCGCAACG
1 AAAATCGCAACG
541666 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:541650 original size:32 final size:33
Alignment explanation
Indices: 541592--541666 Score: 125
Period size: 32 Copynumber: 2.3 Consensus size: 33
541582 GGAAATGGCT
* *
541592 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCAAAATGAAAATCGCAACGACAAA
541625 ATCGCAACGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCAAAATGAAAATCGCAACGACAAA
541657 ATCGCAACGC
1 ATCGCAACGC
541667 GAAACACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 26 0.65
33 14 0.35
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCAAAATGAAAATCGCAACGACAAA
Found at i:541718 original size:14 final size:14
Alignment explanation
Indices: 541699--541756 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
541689 TTTTATTTCG
541699 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
541713 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
**
541729 CGCATTGCGAAATTGT
1 CG--TTGCGATTTTGT
541745 CGTTGCGATTTT
1 CGTTGCGATTTT
541757 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.56
16 8 0.24
18 7 0.21
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:541737 original size:32 final size:33
Alignment explanation
Indices: 541682--541773 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
541672 ACAAATCGCA
* * *
541682 TTGCGATTTTTATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATATTGTCG
*
541715 TTGCGA-TTTCATTTCGCATTGCGAAATTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATATTGTCG
541747 TTGCGATTTTCATTTCGCATTGCGATA
1 TTGCGATTTTCATTTCGCATTGCGATA
541774 GCCATTTCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 28 0.53
33 25 0.47
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATATTGTCG
Found at i:541791 original size:20 final size:19
Alignment explanation
Indices: 541757--541811 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
541747 TTGCGATTTT
*
541757 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
541776 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
541796 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
541812 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:542318 original size:18 final size:18
Alignment explanation
Indices: 542292--542336 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
542282 GTCGATCAGA
*
542292 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
542310 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
542328 TGATGGCTC
1 TGATGGCTC
542337 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:543676 original size:20 final size:20
Alignment explanation
Indices: 543651--543692 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
543641 ATAGTTTCTA
543651 AAAATGAAAATCGCAACACG
1 AAAATGAAAATCGCAACACG
** *
543671 AAAATGACTATCGCAACGCG
1 AAAATGAAAATCGCAACACG
543691 AA
1 AA
543693 TTCGACTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATGAAAATCGCAACACG
Found at i:543979 original size:22 final size:22
Alignment explanation
Indices: 543952--543995 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
543942 GATGGAGATA
543952 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
543974 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
543996 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:560593 original size:20 final size:20
Alignment explanation
Indices: 560568--560609 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
560558 ATATGTGGAG
560568 CAGGTCCATCTGGCCAAGAA
1 CAGGTCCATCTGGCCAAGAA
560588 CAGGTCCATCTGGCCAAGAA
1 CAGGTCCATCTGGCCAAGAA
560608 CA
1 CA
560610 AACTCGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (20 bp):
CAGGTCCATCTGGCCAAGAA
Found at i:563772 original size:23 final size:23
Alignment explanation
Indices: 563683--563764 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 23
563673 TTATTATATA
*
563683 GCACTACGGTGTAATTCTACGTG
1 GCACTACGGTGCAATTCTACGTG
563706 GCACTACGGTGCAATTCTACGTG
1 GCACTACGGTGCAATTCTACGTG
* *
563729 GCACTACAGTGCAATTCTACGCG
1 GCACTACGGTGCAATTCTACGTG
*
563752 GCACTTCGGTGCA
1 GCACTACGGTGCA
563765 TTTATACGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (23 bp):
GCACTACGGTGCAATTCTACGTG
Found at i:564039 original size:18 final size:18
Alignment explanation
Indices: 564018--564052 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
564008 TAAATAATTG
*
564018 ATGATAATGATATAAATA
1 ATGATAATAATATAAATA
564036 ATGATAATAATATAAAT
1 ATGATAATAATATAAAT
564053 GATAATGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATGATAATAATATAAATA
Found at i:564055 original size:15 final size:13
Alignment explanation
Indices: 564021--564058 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
564011 ATAATTGATG
564021 ATAATGAT-ATAA
1 ATAATGATAATAA
564033 ATAATGATAATAA
1 ATAATGATAATAA
564046 TATAAATGATAAT
1 -AT-AATGATAAT
564059 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 2 0.09
15 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:566813 original size:21 final size:21
Alignment explanation
Indices: 566787--566838 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
566777 GATTGTAGTT
566787 TTGTTGATTTATGTTGATGAC
1 TTGTTGATTTATGTTGATGAC
*
566808 TTGTTGATTTATGTTGGTGAC
1 TTGTTGATTTATGTTGATGAC
566829 TTGTTGATTT
1 TTGTTGATTT
566839 CTGGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.04, G:0.25, T:0.56
Consensus pattern (21 bp):
TTGTTGATTTATGTTGATGAC
Found at i:570922 original size:21 final size:21
Alignment explanation
Indices: 570898--570937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
570888 TAGTTTATTT
*
570898 TAAACTTTGTTTCAATTATCG
1 TAAACTTCGTTTCAATTATCG
570919 TAAACTTCGTTTCAATTAT
1 TAAACTTCGTTTCAATTAT
570938 TGAACTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
TAAACTTCGTTTCAATTATCG
Found at i:570981 original size:33 final size:32
Alignment explanation
Indices: 570928--571004 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
570918 GTAAACTTCG
* *
570928 TTTCAATTATTGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
*
570960 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
570993 TTTCAATTATCG
1 TTTCAATTATCG
571005 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:571863 original size:23 final size:23
Alignment explanation
Indices: 571820--571864 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
571810 ACATATTAGG
**
571820 TAACGCTTATATAATGTAATAGA
1 TAACGCTTATATAATAAAATAGA
571843 TAACGCTTATATAATAAAATAG
1 TAACGCTTATATAATAAAATAG
571865 GTATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TAACGCTTATATAATAAAATAGA
Found at i:571925 original size:87 final size:87
Alignment explanation
Indices: 571779--571941 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
571769 TTATGTTATA
*
571779 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAACGCTTATATAATGTAATAGAT
571844 AACGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
* * *
571866 TATTTAACTGGAAATATTATCAAGTACAATAACATATTAGATAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAACGCTTATATAATGTAATAGAT
*
571931 AGCGCTTATAT
66 AACGCTTATAT
571942 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAACGCTTATATAATGTAATAGAT
AACGCTTATATAATAAAATAGG
Found at i:572427 original size:182 final size:182
Alignment explanation
Indices: 572114--573812 Score: 2957
Period size: 182 Copynumber: 9.4 Consensus size: 182
572104 ATATTTTTAC
* *
572114 TTATGGATCAATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTATCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TT
* * *
572179 -AATTCCAAAAGTGTCGATACTTATAATAAATTATCTACACTTTCAACATATCCGGTAGCACTTT
65 AAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTT
* *
572243 ACCTGCTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTG
130 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
*
572296 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
*
572361 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
*
572426 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
572478 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
*
572543 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
*
572608 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
*
572660 TTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TT
* * *
572725 -AATTTCAAAA--GTCGATACTTATAATAAATTATCGATATTTTCAACATAACCGGTAGCGCTTT
65 AAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTT
* *
572787 ACATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTG
130 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
572840 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
*
572904 AATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
572969 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
*
573021 TTATGGGTCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
* *
573086 AATTCCAAAAGTGTCGTTACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
* * *
573151 CATGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACCTATTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
*
573203 TTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
*
573268 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
* * *
573333 CCTGTTTTGTGATTTCGTGACCGGTTTTGTCATATTTTTACATGTTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
* *
573385 TTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGTGCTATAACTTCTTCTCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TT
573450 -AATTCCAAAA--GTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTT
65 AAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTT
*
573512 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTG
130 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
573565 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
* *
573629 AATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
* *
573694 CCTGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTGCCTGTTATATTG
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
* *
573746 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
573811 AA
66 AA
573813 AAAGGTAAAA
Statistics
Matches: 1445, Mismatches: 61, Indels: 22
0.95 0.04 0.01
Matches are distributed among these distances:
178 4 0.00
179 37 0.03
180 304 0.21
181 303 0.21
182 793 0.55
183 4 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTA
AATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
Found at i:573568 original size:725 final size:725
Alignment explanation
Indices: 572114--573812 Score: 3085
Period size: 725 Copynumber: 2.3 Consensus size: 725
572104 ATATTTTTAC
* *
572114 TTATGGATCAATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTATCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTT-TT
* * * *
572179 -AATTCCAAAAGTGTCGATACTTATAATAAATTATCTACACTTTCAACATATCCGGTAGCACTTT
64 AAATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTT
* *
572243 ACCTGCTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
129 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
572308 ACATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGT
194 ACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGT
*
572373 GTCGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTACCTGTTTTGTCA
259 GTCGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTACATGTTTTGTCA
* *
572438 TTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAA
324 TTTCAAGACCGGTTTTGTCATATTATTACCTATTATATTGTTATGGATCGATACATTTTTATAAA
*
572503 GTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
389 ATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
572568 ATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGT
454 ATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGT
572633 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTT
519 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTT
* * *
572698 ATTGGCGCTATAACTTCTTCTCTTATTAATTTCAAAAGTCGATACTTATAATAAATTATCGATAT
584 ATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACAC
572763 TTTCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA
649 TTTCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA
572828 CATGTTATATTG
714 CATGTTATATTG
572840 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAA
572905 ATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTAC
66 ATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTAC
*
572970 CTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGGTCGATAC
131 CTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
573035 ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
196 ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
* * *
573100 CGTTACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACATGTTTTGTCATT
261 CGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTACATGTTTTGTCATT
*
573165 TCAAGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAAT
326 TCAAGACCGGTTTTGTCATATTATTACCTATTATATTGTTATGGATCGATACATTTTTATAAAAT
573230 ATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
391 ATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
* * * *
573295 AAATTATCGATACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTGATTTCGTGACCGGTTT
456 AAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTT
573360 TGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTAT
521 TGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTAT
*
573425 TGGTGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTT
586 TGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTT
*
573490 TCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACA
651 TCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACA
573555 TGTTATATTG
716 TGTTATATTG
573565 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAA
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAA
*
573630 ATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTAC
66 ATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTAC
* *
573695 CTGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTGCCTGTTATATTGTTATGGATCGATAC
131 CTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* *
573760 ATTTTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
196 ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
573813 AAAGGTAAAA
Statistics
Matches: 939, Mismatches: 33, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
724 2 0.00
725 886 0.94
726 51 0.05
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (725 bp):
TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTCTTCTCTTTTAA
ATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTAC
CTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
CGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTACATGTTTTGTCATT
TCAAGACCGGTTTTGTCATATTATTACCTATTATATTGTTATGGATCGATACATTTTTATAAAAT
ATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
AAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTT
TGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTAT
TGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTT
TCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACA
TGTTATATTG
Found at i:573812 original size:543 final size:545
Alignment explanation
Indices: 572114--573811 Score: 2989
Period size: 543 Copynumber: 3.1 Consensus size: 545
572104 ATATTTTTAC
* *
572114 TTATGGATCAATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTATCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT
* * * *
572179 AATTCCAAAAGTGTCGATACTTATAATAAATTATCTACACTTTCAACATATCCGGTAGCACTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTTA
* * *
572244 CCTGCTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATA
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA
572309 CATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTG
196 CATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-G
*
572374 TCGATACTTATAATAAATTATCGACACTTTCAAAATAACCGGTAGCGCTTTACCTGTTTTGTCAT
260 TCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCAT
*
572439 TTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
325 TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
572504 TATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAA
390 TATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAA
572569 TAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTT
455 TAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTT
*
572634 TTGTCATATTTTTACATGTTATATTG
520 TTGTCATATTTTTACCTGTTATATTG
*
572660 TTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT
* *
572725 AATTTCAAAA--GTCGATACTTATAATAAATTATCGATATTTTCAACATAACCGGTAGCGCTTTA
66 AATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTTA
*
572788 CATGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA
131 CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA
*
572853 CATTTTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTG
196 CATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-G
*
572917 TCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCAT
260 TCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCAT
*
572982 TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGGTCGATACATTTTTATAAAG
325 TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
*
573047 TATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGTTACTTATAA
390 TATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAA
* * * *
573112 TAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACATGTTTTGTCATTTCAAGACCGGTT
455 TAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTT
*
573177 TTGTCATATTTTTACCTATTATATTG
520 TTGTCATATTTTTACCTGTTATATTG
*
573203 TTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT
573267 AAATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTT
66 -AATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTT
* *
573332 ACCTGTTTTGTGATTTCGTGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGAT
130 ACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGAT
*
573397 ACATTTTTATAAAGTATCGACACGTTATTGGTGCTATAACTTCTTCTCTTATT-AATTCCAAAA-
195 ACATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTT-TTAAATTCCAAAAG
573460 GTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCA
259 GTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCA
*
573525 TTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAA
324 TTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAA
*
573590 GTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATA
389 GTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
573654 ATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGT
454 ATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGT
* *
573719 TTTATCATATTTTTGCCTGTTATATTG
519 TTTGTCATATTTTTACCTGTTATATTG
* *
573746 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTT-TT
1 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT
573810 AA
66 AA
573812 AAAAGGTAAA
Statistics
Matches: 1098, Mismatches: 49, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
542 4 0.00
543 550 0.50
544 301 0.27
545 151 0.14
546 90 0.08
547 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (545 bp):
TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT
AATTCCAAAAGTGTCGATACTTATAATAAATTATCGATACTTTCAACATAACCGGTAGCGCTTTA
CCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA
CATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGGT
CGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATT
TCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGT
ATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
AAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTT
TGTCATATTTTTACCTGTTATATTG
Found at i:576751 original size:33 final size:33
Alignment explanation
Indices: 576712--576777 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
576702 CATCTTAAGA
*
576712 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
576745 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
576778 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:576841 original size:21 final size:21
Alignment explanation
Indices: 576815--576855 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
576805 TTATGCCTTT
576815 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* * *
576836 TCAAGTTTCTCTTTGACTCT
1 TCAAGTGTATCTTCGACTCT
576856 TGATTGTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:576958 original size:15 final size:15
Alignment explanation
Indices: 576938--576970 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
576928 ACTCTATTTT
*
576938 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
576953 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
576968 CCC
1 CCC
576971 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:579111 original size:17 final size:18
Alignment explanation
Indices: 579089--579131 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
579079 ATATATCCAG
579089 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
579106 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
579126 TATCAT
1 TATCAT
579132 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:579149 original size:20 final size:19
Alignment explanation
Indices: 579094--579140 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
579084 TCCAGTATCA
579094 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
579113 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
579134 TTTTACC
1 TTTTACC
579141 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:579418 original size:181 final size:180
Alignment explanation
Indices: 579061--579534 Score: 662
Period size: 182 Copynumber: 2.6 Consensus size: 180
579051 CGTACTTACG
* * *
579061 AAAGTATCGACACTTTTAATATATCCAGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTA-CGTTTTACCGGTTTTATCATTTTGATA-CGGTTT
* *
579126 TATCATATTTTTACCTGTTATATCGTTGTTTGATCAATACATTTTTTTAAAGTATCGACACTTTA
64 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTGAAAGTATCGACACTTTA
* *
579191 TAGGCATTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
128 TAGGCACTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
579243 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTATCGGTTTCATCATTTTGATAGCAGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTA-CGTTTTACCGGTTTTATCATTTTGATA-CGGTTT
*
579308 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTAT
64 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
* *
579373 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
129 AGGCACTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * **
579425 AAAGTACCGACACTTTAAATATATTCGGTACTGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAC-GTTTTACCGGTTTTATCATTTTGATAC-GGTTT
* * * *
579490 TGTCATAGTTTTACCTGTTATATCTTTGTGGATCGATACATTTTT
64 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
579535 AATTTGGATC
Statistics
Matches: 258, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
181 82 0.32
182 176 0.68
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTACGTTTTACCGGTTTTATCATTTTGATACGGTTTTA
TCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTATAG
GCACTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:579804 original size:29 final size:29
Alignment explanation
Indices: 579760--579818 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
579750 ACATATCACT
*
579760 AATATTTTTTAAGATAAAATTCATAAATG
1 AATATTGTTTAAGATAAAATTCATAAATG
*
579789 AATATTGTTTAGGATAAAATTCATAAATG
1 AATATTGTTTAAGATAAAATTCATAAATG
579818 A
1 A
579819 TCATTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (29 bp):
AATATTGTTTAAGATAAAATTCATAAATG
Found at i:583774 original size:9 final size:8
Alignment explanation
Indices: 583760--583819 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
583750 AAATGTTTAA
583760 TAATATATT
1 TAATAT-TT
583769 TAATATTTTT
1 TAATA--TTT
*
583779 TAGTATTT
1 TAATATTT
583787 TAAT-TTT
1 TAATATTT
*
583794 TAATTTTT
1 TAATATTT
583802 TAAATATTT
1 T-AATATTT
*
583811 GAATATTT
1 TAATATTT
583819 T
1 T
583820 TTTAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
7 7 0.17
8 17 0.40
9 11 0.26
10 6 0.14
11 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (8 bp):
TAATATTT
Found at i:583809 original size:24 final size:26
Alignment explanation
Indices: 583761--583819 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
583751 AATGTTTAAT
* * *
583761 AATATATTTAATATTTTTTAGTATTTT
1 AATAT-TTTAATATTTTTAAATATTTG
583788 AAT-TTTTAAT-TTTTTAAATATTTG
1 AATATTTTAATATTTTTAAATATTTG
583812 AATATTTT
1 AATATTTT
583820 TTTAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.50
25 10 0.36
26 1 0.04
27 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (26 bp):
AATATTTTAATATTTTTAAATATTTG
Found at i:584103 original size:23 final size:24
Alignment explanation
Indices: 584073--584120 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
584063 ACTACTAATC
584073 CGATCTAAAAA-AATAACCGAAAA
1 CGATCTAAAAACAATAACCGAAAA
*
584096 CGATCTAAAAACCGATAACCGAAAA
1 CGATCTAAAAA-CAATAACCGAAAA
584121 AAACCGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.50
25 11 0.50
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.12
Consensus pattern (24 bp):
CGATCTAAAAACAATAACCGAAAA
Found at i:584593 original size:21 final size:21
Alignment explanation
Indices: 584567--584614 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
584557 GTTTCCAGAT
584567 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
584588 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
584609 TCGCAA
1 TCGCAA
584615 TGAGAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:584658 original size:21 final size:21
Alignment explanation
Indices: 584629--584762 Score: 141
Period size: 21 Copynumber: 6.6 Consensus size: 21
584619 AATATGTAAA
*
584629 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
584650 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
** *
584671 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCCAAGT
*
584692 T--CGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
** *
584711 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCCAAGT
* *
584732 T--TGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
584751 TCGCGTTGCGAT
1 TCGCGTTGCGAT
584763 TTATTCCAAA
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
19 29 0.33
21 60 0.67
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:584698 original size:19 final size:19
Alignment explanation
Indices: 584674--584783 Score: 76
Period size: 19 Copynumber: 5.5 Consensus size: 19
584664 TCGAAGTTCG
584674 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** * *
584693 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
584712 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
* ** * *
584733 TGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
584752 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
*
584775 CGTTACGAT
1 CGTTGCGAT
584784 AGTCGAAGTT
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 29 0.44
20 1 0.02
21 29 0.44
22 1 0.02
23 6 0.09
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:584704 original size:40 final size:40
Alignment explanation
Indices: 584653--584795 Score: 250
Period size: 40 Copynumber: 3.5 Consensus size: 40
584643 TCCAAGTTCG
584653 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
584693 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
584733 TGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
*
584775 CGTTACGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
584796 ATAGTCCAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 68 0.69
41 2 0.02
42 28 0.29
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:584778 original size:21 final size:20
Alignment explanation
Indices: 584674--584783 Score: 75
Period size: 21 Copynumber: 5.5 Consensus size: 20
584664 TCGAAGTTCG
584674 CGTTGCGATT-TTCCAAATT
1 CGTTGCGATTATTCCAAATT
* * *
584693 CGTTGCGA-TAGTCGAAGTT
1 CGTTGCGATTATTCCAAATT
584712 CGCGTTGCGATT-TTCCAAATT
1 --CGTTGCGATTATTCCAAATT
* * * *
584733 TGTTGCGA-TAGTCGAAGTT
1 CGTTGCGATTATTCCAAATT
584752 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TTATTCCAAATT
*
584775 CGTTACGAT
1 CGTTGCGAT
584784 AGTCGAAGTT
Statistics
Matches: 67, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
18 2 0.03
19 27 0.40
20 1 0.01
21 28 0.42
22 1 0.01
23 8 0.12
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTATTCCAAATT
Found at i:584904 original size:6 final size:6
Alignment explanation
Indices: 584893--584933 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
584883 AGACACGTAT
584893 GACCAC GACCAC GACCAC GA-C-C -ACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GA
584934 GACGAGACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 2 0.06
6 27 0.84
ACGTcount: A:0.34, C:0.49, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:584920 original size:15 final size:15
Alignment explanation
Indices: 584900--584931 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
584890 TATGACCACG
584900 ACCACGACCACGACC
1 ACCACGACCACGACC
584915 ACCACGACCACGACC
1 ACCACGACCACGACC
584930 AC
1 AC
584932 GAGACGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.53, G:0.12, T:0.00
Consensus pattern (15 bp):
ACCACGACCACGACC
Found at i:584920 original size:21 final size:21
Alignment explanation
Indices: 584894--584933 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
584884 GACACGTATG
584894 ACCACGACCACGACCACGACC
1 ACCACGACCACGACCACGACC
584915 ACCACGACCACGACCACGA
1 ACCACGACCACGACCACGA
584934 GACGAGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (21 bp):
ACCACGACCACGACCACGACC
Found at i:584940 original size:5 final size:5
Alignment explanation
Indices: 584930--584957 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
584920 GACCACGACC
584930 ACGAG ACGAG ACGAG ACGAG ACGAG ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACG
584958 GCGGCGGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.39, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:585583 original size:21 final size:21
Alignment explanation
Indices: 585559--585731 Score: 119
Period size: 21 Copynumber: 8.3 Consensus size: 21
585549 TTTGGAATAA
585559 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
585580 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
585601 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
* *
585620 AAATCACAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTCGACT
*
585643 ATCGCAA--CGAACTT-GAAAT
1 ATCGCAACGCGAACTTCG-ACT
*
585662 AAATCGCAACGCGAACTTCAACT
1 --ATCGCAACGCGAACTTCGACT
* * **
585685 ATCG-AA-ACGAA-TTTGAAAA
1 ATCGCAACGCGAACTTCG-ACT
*
585704 ATAGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
585725 ATCGCAA
1 ATCGCAA
585732 TCTGGAAACT
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.03
19 26 0.22
20 4 0.03
21 61 0.53
22 3 0.03
23 19 0.16
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:585635 original size:42 final size:42
Alignment explanation
Indices: 585584--585731 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
585574 TCGACTATCG
*
585584 CAACACGAACTTCGACTATCGCAACGAATTTGGAATAAATCA
1 CAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCA
* * * *
585626 CAACGCGAACTTGGACTATCGCAACGAACTTGAAATAAATCG
1 CAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCA
* *
585668 CAACGCGAACTTCAACTATCGAAACGAATTT-GAA-AAAT-A
1 CAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCA
585707 GCAACGCGAACTTCGACTATCGCAA
1 -CAACGCGAACTTCGACTATCGCAA
585732 TCTGGAAACT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 26 0.28
41 2 0.02
42 64 0.70
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (42 bp):
CAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCA
Found at i:587331 original size:53 final size:53
Alignment explanation
Indices: 587264--587368 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
587254 ATGATATCAA
* *
587264 TACCATTTTAGCATTTTGTTTTGACAGTATCAGTACTGCCTCATAAGTATCGG
1 TACCATTTTAGCATTCTATTTTGACAGTATCAGTACTGCCTCATAAGTATCGG
*
587317 TACCATTTTAGCATTCTATTTTGACAGTATCAGTACTGCCTCATCAGTATCG
1 TACCATTTTAGCATTCTATTTTGACAGTATCAGTACTGCCTCATAAGTATCG
587369 ATACTACTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (53 bp):
TACCATTTTAGCATTCTATTTTGACAGTATCAGTACTGCCTCATAAGTATCGG
Found at i:589536 original size:20 final size:20
Alignment explanation
Indices: 589481--589536 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
589471 TACTGATCAA
*
589481 GAACAATATCGGCACTGGAT
1 GAACAATATCGGTACTGGAT
*
589501 GAACAATATCGATACTGGAT
1 GAACAATATCGGTACTGGAT
* *
589521 GAATAGTATCGGTACT
1 GAACAATATCGGTACT
589537 AAGTGCACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (20 bp):
GAACAATATCGGTACTGGAT
Found at i:593171 original size:2 final size:2
Alignment explanation
Indices: 593164--593191 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
593154 CTAAATTTAC
593164 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
593192 TTATTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:593873 original size:121 final size:122
Alignment explanation
Indices: 593653--593895 Score: 479
Period size: 121 Copynumber: 2.0 Consensus size: 122
593643 AGCATGCATA
593653 AAAACTATCTTTCCCCTCCCGTCAGAGTCTTCTCTCTAATGGAGATGAGTACTCCCTCGTTTTAG
1 AAAACTATCTTTCCCCTCCCGTCAGAGTCTTCTCTCTAATGGAGATGAGTACTCCCTCGTTTTAG
593718 CTTTCGAAAACTTAGCTGAATCTGCCTTCGAATCAGAGCCTTCAAGTTTGAAAACGC
66 CTTTCGAAAACTTAGCTGAATCTGCCTTCGAATCAGAGCCTTCAAGTTTGAAAACGC
593775 AAAAC-ATCTTTCCCCTCCCGTCAGAGTCTTCTCTCTAATGGAGATGAGTACTCCCTCGTTTTAG
1 AAAACTATCTTTCCCCTCCCGTCAGAGTCTTCTCTCTAATGGAGATGAGTACTCCCTCGTTTTAG
593839 CTTTCGAAAACTTAGCTGAATCTGCCTTCGAATCAGAGCCTTCAAGTTTGAAAACGC
66 CTTTCGAAAACTTAGCTGAATCTGCCTTCGAATCAGAGCCTTCAAGTTTGAAAACGC
593896 TGCGGTTTAG
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 116 0.96
122 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (122 bp):
AAAACTATCTTTCCCCTCCCGTCAGAGTCTTCTCTCTAATGGAGATGAGTACTCCCTCGTTTTAG
CTTTCGAAAACTTAGCTGAATCTGCCTTCGAATCAGAGCCTTCAAGTTTGAAAACGC
Found at i:596989 original size:20 final size:20
Alignment explanation
Indices: 596960--596998 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
596950 AGAGCTCATA
*
596960 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
596980 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
596999 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:603409 original size:20 final size:20
Alignment explanation
Indices: 603380--603418 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
603370 AGAGCTCATA
*
603380 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
603400 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
603419 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:612429 original size:2 final size:2
Alignment explanation
Indices: 612424--612450 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
612414 TTTTTTTGAA
612424 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
612451 GTACCATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:620484 original size:182 final size:182
Alignment explanation
Indices: 619994--620852 Score: 1141
Period size: 182 Copynumber: 4.7 Consensus size: 182
619984 TGTCAATTTA
* * * * * *
619994 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAATAGGAAAAAAATATGATAAAACC
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGG-TAAAAATATGACAAAACC
* *
620059 GGTCA-CGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
65 AGT-ATCGAAAGGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
* * * *
620123 TAAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAA
129 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCATATAAAG
* *
620177 TGTCGATTCTTTATAA-ATATATACATCGATCCACAACGATATAACAGGTAAAAATATGACAAAA
1 TGTCGATACTTTATAACA-ATGT--ATCGATCCACAACGATATAACAGGTAAAAATATGACAAAA
* * * * * * *
620241 CCGGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTAAAAGTATCAATACTTTAAT
63 CCAGTATCGAAAGGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAAT
**
620306 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCTTATATAAAG
128 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCATATAAAG
* * **
620361 TGTCAATATTTTATAACAATGTATTAATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* ** * * * * *
620426 ATATATAAAGGACAAAACCGTTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTATCGAAAGGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
620491 AGTACCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCATATAAAG
* * * *
620543 TGTTGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* * *
620608 GTATCTAAAGGACAAAACCGGTATAAAGCG--ACCAGATATATTTAAAGTGTCGATACATTAATA
66 GTATCGAAAGGACAAAACCGG--TAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
** *
620671 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTACCTATAAAG
129 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCATATAAAG
* * *
620725 TGACGATACTTTATAACAATGTATCGGTCCACAACGATATAACAAGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* * * *
620790 GTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGATATAATGAAAGTGTCCATACTTTAATA
66 GTATCGAAAGGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
620853 AGTACGCGTA
Statistics
Matches: 593, Mismatches: 74, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
180 7 0.01
182 403 0.68
183 18 0.03
184 143 0.24
185 22 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
GTATCGAAAGGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCATATAAAG
Found at i:624115 original size:46 final size:46
Alignment explanation
Indices: 624064--624214 Score: 277
Period size: 46 Copynumber: 3.3 Consensus size: 46
624054 CTATGTGACT
* *
624064 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
624110 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
624156 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
624202 ATATGAAAT-ACAT
1 ATATGAAATGACAT
624215 GGTTACACAT
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 4 0.04
46 99 0.96
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
Found at i:624458 original size:38 final size:38
Alignment explanation
Indices: 624363--624458 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
624353 TATAAGACAT
* *
624363 ATGATAGGTCATACGGGACACAGATTACATCCTTAGGG
1 ATGATAGGTCCTACGGGACACAGATGACATCCTTAGGG
* * *** *
624401 ATGACAAGTCCTTTAGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTACGGGACACAGATGACATCCTTAGGG
*
624439 ATGATAGGTCCTCCGGGACA
1 ATGATAGGTCCTACGGGACA
624459 TTTGTACGAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTACGGGACACAGATGACATCCTTAGGG
Found at i:629769 original size:15 final size:15
Alignment explanation
Indices: 629749--629805 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
629739 GGGGGGTATC
629749 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
*
629764 GATTCCCCCTGGGGGTATC-
1 GATT-CCCC---GGG-AACA
629783 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
629798 GATTCCCC
1 GATTCCCC
629806 CTGGGGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 15 0.44
16 4 0.12
18 4 0.12
19 7 0.21
20 2 0.06
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGAACA
Found at i:629783 original size:34 final size:35
Alignment explanation
Indices: 629722--629825 Score: 201
Period size: 34 Copynumber: 3.0 Consensus size: 35
629712 TATGTGCAGG
629722 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
629757 GGGAACAGATTCCCCCT-GGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
629791 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
629826 CTAATGATAA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
34 34 0.50
35 34 0.50
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
Found at i:630294 original size:46 final size:46
Alignment explanation
Indices: 630232--630382 Score: 277
Period size: 46 Copynumber: 3.3 Consensus size: 46
630222 CTATGTGACT
* *
630232 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
630278 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
630324 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
630370 ATATGAAAT-ACAT
1 ATATGAAATGACAT
630383 GGTTACACAT
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 4 0.04
46 99 0.96
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
Found at i:630592 original size:38 final size:37
Alignment explanation
Indices: 630531--630626 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 37
630521 TATAAGACAT
* *
630531 ATGATAGGTCCTACGGGAAACAGATTACATCCTTCGGG
1 ATGATAGGTCCT-CGGGACACAGATGACATCCTTCGGG
*
630569 ATGACAGGTCCATCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCC-TCGGGACACAGATGACATCCTTCGGG
630607 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCC-TCGGGACA
630627 TTTGTACGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
38 51 0.98
39 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (37 bp):
ATGATAGGTCCTCGGGACACAGATGACATCCTTCGGG
Found at i:631558 original size:15 final size:15
Alignment explanation
Indices: 631538--631566 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
631528 GGTTGTATTG
631538 GGGGATGACGGTGAA
1 GGGGATGACGGTGAA
631553 GGGGATGACGGTGA
1 GGGGATGACGGTGA
631567 GGGAAAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.55, T:0.14
Consensus pattern (15 bp):
GGGGATGACGGTGAA
Found at i:631766 original size:33 final size:33
Alignment explanation
Indices: 631729--631795 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
631719 AAATAGATGG
631729 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
631762 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
631795 A
1 A
631796 CTTAAGATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:632266 original size:19 final size:19
Alignment explanation
Indices: 632242--632290 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
632232 AATGTATAGT
632242 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
632261 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
632280 TAATTTTGTAT
1 TAATTTTGTAT
632291 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:633007 original size:200 final size:200
Alignment explanation
Indices: 632641--633228 Score: 729
Period size: 202 Copynumber: 2.9 Consensus size: 200
632631 GTATGCATAT
* * * * * *
632641 GTGTCGATACAGTTATAAAAAGTGTCGATCCCAAAAATATTGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *** * * **
632706 TGTAATTTTGTTATATAACCGGTATAAATATACCGG-TTTATGTGAGAATAGGTCTACATAATAT
66 GGTAATTTTACAATGTAACCGGTATAACTATACCGGTTTTATGAAAGAATAGGTCTACATAATAT
* * * * *
632770 ATCGACACTTTTTCATTATCTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGA-TGAACG
131 ATCGACACTTTGTAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGAACG
632834 CATA-AA
195 CA-ACAA
** **
632840 GTGTCGATACATTTATTGAAAGTATCGATCCCAGAAACATCGAAACCCATAAACATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
632905 GGTAAATTTACAATGTAACCGGTATAACTAAATCGGTTTTATGAAAGAATAGGTCTACATAATAT
66 GGTAATTTTACAATGTAACCGGTATAACTATACCGGTTTTATGAAAGAATAGGTCTACATAATAT
* * *
632970 ATTGACACTTATGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCAC
131 ATCGACACTT-TGTAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGAGTGAAC
633034 GCAACAA
194 GCAACAA
* *
633041 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACTCATCATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * *
633106 AGGTAATTTTTCAATGTAACTGGTAT-ACATATACCAGTTTTATGATAGAATAGGTCTACA-ATA
65 AGGTAATTTTACAATGTAACCGGTATAAC-TATACCGGTTTTATGAAAGAATAGGTCTACATA-A
* *
633169 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAG
128 TATATCGACACTT-TGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAG
633229 GGTGCACCAT
Statistics
Matches: 333, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
199 84 0.25
200 70 0.21
201 33 0.10
202 144 0.43
203 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTACAATGTAACCGGTATAACTATACCGGTTTTATGAAAGAATAGGTCTACATAATAT
ATCGACACTTTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGAACGC
AACAA
Found at i:633149 original size:202 final size:196
Alignment explanation
Indices: 632641--633726 Score: 972
Period size: 200 Copynumber: 5.5 Consensus size: 196
632631 GTATGCATAT
* * * * *
632641 GTGTCGATACAGTTATAAAAAGTGTCGATCCCAAAAATATTGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACC-ATAATTATAATGTAATA
* * * * **
632706 TGTAATTTTGT-TATATAACCGGTATAAATATACCGGTTTATGTGAGAATAGGTCTACATAATAT
65 GGTAATTTT-TCAATGTAACCGGTAT-AATATACCGTTTTATGAAAGAATAGGTCTACATAATAT
* * * * * *
632770 ATCGACACTTTTTCATTATCTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGA-TGAACG
128 ATCGACACTTTGTAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCACG
632834 CATAAA
192 CA-AAA
** **
632840 GTGTCGATACATTTATTGAAAGTATCGATCCCAGAAACATCGAAACCCATAAACATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATA
* * * *
632905 GGTAAATTTACAATGTAACCGGTATAACTAAATCGGTTTTATGAAAGAATAGGTCTACATAATAT
65 GGTAATTTTTCAATGTAACCGGTATAA-TATA-CCGTTTTATGAAAGAATAGGTCTACATAATAT
* *
632970 ATTGACACTTATGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCAC
128 ATCGACACTT-TGTAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGAGTGCAC
633034 GCAACAA
191 GCAA-AA
*
633041 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACTCATCATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTATCGATCCCAGAAACATCGAAAC-CATAATTATAATGTAAT
* *
633106 AGGTAATTTTTCAATGTAACTGGTATACATATACCAGTTTTATGATAGAATAGGTCTACA-ATAT
64 AGGTAATTTTTCAATGTAACCGGTATA-ATATACC-GTTTTATGAAAGAATAGGTCTACATA-AT
* * *
633170 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCA
126 ATATCGACACTT-TGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCA
*
633235 C-CATTAA
190 CGCA-AAA
* *
633242 GTGTCGAT-C-----TCAAAA--A-C-AT--C--TAA-A-C----CCATAATTATAATGTAATAG
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAG
* * ** *
633287 GTAATTTTGT-AATATAACCGGTATAAATATACCAATTTTATGTGAGAATAGGTCTACATAATGT
66 GTAATTTT-TCAATGTAACCGGTAT-AATATACC-GTTTTATGAAAGAATAGGTCTACATAATAT
* * * * * * * *
633351 ATCGACGCTTTTTTATTTTGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAAGGA-TGAATG
128 ATCGACAC-TTTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCACG
633415 CATAAA
192 CA-AAA
* * * * *
633421 GTGTCGATATATTTATAAAAAGTGTCGATACTAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATA
* ** * * * *
633486 GGTAAATTTAAAATGTAACCGGTATAACTATATCGGTTTTATGAGAGAATAGGTTTACA-ACATG
65 GGTAATTTTTCAATGTAACCGGTATAA-TATA-CCGTTTTATGAAAGAATAGGTCTACATA-ATA
* * * * *
633550 TATCGTCACTTATGTAATTTGTGTCGATTCTTTTTTTCCATAAGGAATG-CC-AAAAGGGTTGCA
127 TATCGACACTT-TGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAG-TGCA
633613 CGCATAAA
190 CGCA-AAA
* * * * * * *
633621 GTGTCAATACATTTTTAAAAAGTGTTGATGCCAAAAACATCGAAATCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATA
* * * *
633686 GGTAAATTTCCAACGTAACCGATATAAATATACCGATTTTA
65 GGTAATTTTTCAATGTAACCGGTAT-AATATACCG-TTTTA
633727 AGATAAAATA
Statistics
Matches: 734, Mismatches: 103, Indels: 99
0.78 0.11 0.11
Matches are distributed among these distances:
178 3 0.00
179 131 0.18
180 6 0.01
184 1 0.00
185 6 0.01
186 2 0.00
188 2 0.00
189 2 0.00
190 2 0.00
191 1 0.00
192 1 0.00
193 2 0.00
194 3 0.00
195 4 0.01
198 6 0.01
199 86 0.12
200 276 0.38
201 48 0.07
202 149 0.20
203 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (196 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAG
GTAATTTTTCAATGTAACCGGTATAATATACCGTTTTATGAAAGAATAGGTCTACATAATATATC
GACACTTTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGAGTGCACGCAAA
A
Found at i:633376 original size:179 final size:179
Alignment explanation
Indices: 633061--633405 Score: 489
Period size: 179 Copynumber: 1.9 Consensus size: 179
633051 ATTTATAAAC
* * * *
633061 AAGTATCGATCCCAGAAACATCGAAACTCATCATTATAATGTAATAGGTAATTTTTCAATGTAAC
1 AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAAC
* * *
633126 TGGTATACATATACCAGTTTTATGATAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
66 CGGTATAAATATACCAATTTTATGATAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
633191 GTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCATT
131 GTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCATT
* * *
633240 AAGTGTCGATCTCAAAAACATCTAAACCCATAATTATAATGTAATAGGTAATTTTGT-AATATAA
1 AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-TCAATATAA
* * * *
633304 CCGGTATAAATATACCAATTTTATG-TGAGAATAGGTCTAC-ATAATGTATCGACGCTTTTTTAT
65 CCGGTATAAATATACCAATTTTATGAT-AGAATAGGTCTACAAT-ATGTATCGACACTTGTGTAA
* * *
633367 TTTGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAA
128 TTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAA
633406 GGATGAATGC
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
178 3 0.02
179 142 0.97
180 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (179 bp):
AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAAC
CGGTATAAATATACCAATTTTATGATAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
GTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCATT
Found at i:636790 original size:15 final size:15
Alignment explanation
Indices: 636770--636808 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
636760 TCTTCACAAC
* *
636770 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
636785 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
636800 AAAGTTTCC
1 AAAGTTTCC
636809 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:637346 original size:200 final size:199
Alignment explanation
Indices: 636809--637975 Score: 1303
Period size: 201 Copynumber: 5.8 Consensus size: 199
636799 TAAAGTTTCC
* * *
636809 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCTAAAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACAATTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * * * * * *
636873 TGTAATAGTTAAATTTATAATGTAACCAGTATAACTA-AACTAATTTTATGAGAGAATAGGTCTA
65 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATC-GATTTTATGAGAAAATAGGTATA
*
636937 CATAATGTATCGACACTTTTGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAA
129 CATAATGTATCGACACTTTT-GAATTTGTGTCGATACTT-TTTGTCCAGAATGAATGCCCAAAAA
* *
637001 GGGTGCACC
192 -GGTGAACG
* ** * * * * *
637010 CATAAAGTCTCGATACTTTTTTTAAAAAATATCGATCCCAAAATCGTCGAAACCCATAATTATAG
1 CATAAAGTGTCGATAC-AATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * * * * * * *
637075 TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAT
65 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTATAC
* *
637140 ATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAAAAGG
130 ATAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAGG
637205 TGAACG
194 TGAACG
* *
637211 CATAAAGTGTCGATA-AATTTATAAAAAGTATCGATCCCAAAAACACCAAAACCGATAATTATAA
1 CATAAAGTGTCGATACAATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * * *
637275 TATAATAGGTAAATTTATAATGTAATCGGTATAAATAAATCGATTTTTTGAGAAAATAGATATAC
65 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTATAC
* * * ** ***
637340 ATAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCACACGGAAAATCCAAAAAGG
130 ATAATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAA-G
*
637405 GTGAACC
193 GTGAACG
** * *
637412 CATAAAGTGTCGATAC-ATGTTTAAACAA-TATCGATCCTTAAAACATCGAAACCCATAAATATA
1 CATAAAGTGTCGATACAAT-TTTAAA-AAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* * * * * ** * *
637475 ATGTAATAGGTAATTTTGTAATATAACCGATATAAATATATCGGTTTTATGTCAGAATAGGTCTA
64 ATGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTATA
* * * * *
637540 CATAATGTGTCGACACTTTTGAATGATGTGTCGATACGTTTTGTCCAGAATGAAAGCCCAAAAGG
129 CATAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAG
637605 GTGAACG
193 GTGAACG
* * *
637612 AATAAAGTGTCAATAC-ATTTATAAAAAGTATCGATCCCAAAAACGTCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACAATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * ** *
637676 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTAAAC
65 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTATAC
* * *
637741 ATAATGTATCGATACGTTTT-AGATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGG
130 ATAATGTATCGACAC-TTTTGA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAG
*
637804 GTTGCACG
193 G-TGAACG
* *
637812 CATAAAGTTTCGATACATTTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACA-ATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * *
637877 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATGTATCGATTTTATGAGAAAATATGTGA-A
65 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGT-ATA
637941 CATAATGTATCGACACGTTTT-AGATTTGTGTCGAT
129 CATAATGTATCGACAC-TTTTGA-ATTTGTGTCGAT
637976 GCTTGTAAAT
Statistics
Matches: 817, Mismatches: 129, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
199 16 0.02
200 311 0.38
201 338 0.41
202 148 0.18
203 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
CATAAAGTGTCGATACAATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTATAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTATACA
TAATGTATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAGGTG
AACG
Found at i:637973 original size:401 final size:400
Alignment explanation
Indices: 636810--637975 Score: 1531
Period size: 401 Copynumber: 2.9 Consensus size: 400
636800 AAAGTTTCCC
* *
636810 ATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATCCTAAAAACATCGAAATCC-ATAAATATAA
1 ATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * * ** * *
636873 TGTAATAGTTAAATTTATAATGTAACCAGTATAACTAAACTAATTTTATGAGAGAATAGGTCTAC
64 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTATAC
*
636938 ATAATGTATCGACACTTTTGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAG
129 ATAATGTATCGACACTTTTGGAATTTGTGTCGATACTT-TTTGTCCAAAAGGAATG-CCAAAAAG
* * *
637002 GGTGCACCCATAAAGTCTCGATACTTTTTTTAAAAAATATCGATCCCAAAATCGTCGAAACCCAT
192 GGTGCACCCATAAAGTCTCGATACATTTTTT-AAAAATATCGATCCCAAAAACATCGAAACCCAT
* *
637067 AATTATAGTGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAAT
256 AATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTGAGAAT
* * * *
637132 AGGTCTATATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGTCTAGAATGAATGCC
321 AGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACGTTTTGTCCAGAATGAAAGCC
*
637197 CAAAAAGGTGAACGC
386 CAAAAAGGTGAACGA
* * * *
637212 ATAAAGTGTCGATAAATTTATAAAAAGTATCGATCCCAAAAACACCAAAACCGATAATTATAATA
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
637277 TAATAGGTAAATTTATAATGTAATCGGTATAAATAAATCGATTTTTTGAGAAAATAGATATACAT
66 TAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTATACAT
* * * *
637342 AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCACACGGAAAAT-CCAAAAAGGG
131 AATGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGG--AATGCCAAAAAGGG
* * * **
637406 TGAACCCATAAAGTGTCGATACA-TGTTTAAACAATATCGATCCTTAAAACATCGAAACCCATAA
194 TGCACCCATAAAGTCTCGATACATTTTTTAAA-AATATCGATCCCAAAAACATCGAAACCCATAA
* * *
637470 ATATAATGTAATAGGTAATTTTGTAATATAACCGATATAAATATATCGGTTTTATGTCAGAATAG
258 TTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTGAGAATAG
*
637535 GTCTACATAATGTGTCGACACTTTTGAATGATGTGTCGATACGTTTTGTCCAGAATGAAAGCCCA
323 GTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACGTTTTGTCCAGAATGAAAGCCCA
*
637600 AAAGGGTGAACGA
388 AAAAGGTGAACGA
* *
637613 ATAAAGTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACGTCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * ** *
637678 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTAAACAT
66 TAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTATACAT
* * *
637743 AATGTATCGATACGTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCC-AAAAGGGT
131 AATGTATCGACAC-TTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAAGGG-
* * *
637806 TGCACGCATAAAGTTTCGATACATTTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
194 TGCACCCATAAAGTCTCGATACATTTTTTAAAAA-TATCGATCCCAAAAACATCGAAACCCATAA
* ** * * * * * * *
637871 TTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATGTATCGATTTTATGAGAAAATAT
258 TTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTGAGAATAG
** *
637936 GTGAACATAATGTATCGACACGTTTT-AGAT-TTGTGTCGAT
323 GTCTACATAATGTGTCGACAC-TTTTGA-ATGTTGTGTCGAT
637976 GCTTGTAAAT
Statistics
Matches: 663, Mismatches: 88, Indels: 27
0.85 0.11 0.03
Matches are distributed among these distances:
399 10 0.02
400 27 0.04
401 433 0.65
402 188 0.28
403 2 0.00
404 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (400 bp):
ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTATACAT
AATGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAAGGGTG
CACCCATAAAGTCTCGATACATTTTTTAAAAATATCGATCCCAAAAACATCGAAACCCATAATTA
TAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTGAGAATAGGTC
TACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACGTTTTGTCCAGAATGAAAGCCCAAAA
AGGTGAACGA
Found at i:642375 original size:199 final size:198
Alignment explanation
Indices: 641923--642627 Score: 822
Period size: 199 Copynumber: 3.5 Consensus size: 198
641913 ACCTAAATAT
* * *
641923 GTGTCGATAC-TTTTTCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * *
641986 TAGGTAAATTAACAATGTAACCGGTATAAATATATCGG-TTAATTAGAAAACATGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATA-CGGTTTTATGAGAAAATAGGTCATCATAAT
*
642050 GTATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAATGAGGTGT
128 GTATCGACACTT-T-TAAATTTGTGTCGATACTTATTGTCCAGAATGAATG-CCAAACGAGGTGT
*
642114 ACACATAAA
190 ACGCATAAA
* **
642123 GTGTCGATACAATTATTAAAAGTATCGATCTCAATAAA-ATCGAAATAGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCTCAA-AAACATCGAAACCGATAATTATAATGTAAT
* **
642187 ATGTAAATTTACAATGTAACCGATATAAATATACGGGTTTTATGAGAAAATAGGTCATCATAAAA
65 AGGTAAATTTACAATGTAACCGATATAAATATAC-GGTTTTATGAGAAAATAGGTCATCATAATG
* *
642252 TATCGACACTTATTAAATTTGTGTCGATACATT-TTGTCCATAATGAATGTCAAACG-GGTGTAC
129 TATCGACACTT-TTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCAAACGAGGTGTAC
642315 GCATAAA
192 GCATAAA
* * * *
642322 GTATCGATACATTTATTAAAAATATCGATCTCAAAAACATCGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
642387 GGTAAATTTACAATGTACCCGATAGAAATATACCGATTTTATGAAAAAAAAAATAGGT-ATAAAT
66 GGTAAATTTACAATGTAACCGATATAAATATA-CGGTTTTATG----AGAAAATAGGTCAT-CAT
* * *
642451 AATGTATCGACACTCTTTAAGTTTGTGTCGATACTTGTT-TCCAGAATGAATGCCCAACGAGGTG
125 AATGTATCGACACT-TTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGAGGTG
*
642515 CACGCATAAA
189 TACGCATAAA
*
642525 GTGTCGATACATTTA--AAATTGTATCGATC-CAAAAAACATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTTATTAAA-AGTATCGATCTC-AAAAACATCGAAACCGATAATTATAATGTAA
* *
642587 TAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTT
64 TAGGTAAATTTACAATGTAACCGATATAAATATA-CGGTTT
642628 ACTTATAAAA
Statistics
Matches: 434, Mismatches: 52, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
198 3 0.01
199 105 0.24
200 86 0.20
201 74 0.17
202 95 0.22
203 70 0.16
204 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACGGTTTTATGAGAAAATAGGTCATCATAATGTA
TCGACACTTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGAGGTGTACGCAT
AAA
Found at i:642733 original size:64 final size:64
Alignment explanation
Indices: 642665--642784 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
642655 TACCTATTAC
* *
642665 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTT-AAGTTAAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATATTATTATACTTGATAATATTTTCAA-TTAAATGCCTATTTT
* *
642729 ATTATATAATCGCTACTTAATATATTATTATACTTGATAATATTTTCAATTAAATG
1 ATTATATAAGCGCTACCTAATATATTATTATACTTGATAATATTTTCAATTAAATG
642785 ATATAACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
64 49 0.96
65 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATATTATTATACTTGATAATATTTTCAATTAAATGCCTATTTT
Found at i:647450 original size:128 final size:128
Alignment explanation
Indices: 647222--647455 Score: 450
Period size: 128 Copynumber: 1.8 Consensus size: 128
647212 TCCCATACAA
*
647222 GAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTAT
1 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTAT
647287 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACAT
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACAT
*
647350 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
1 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTAT
647415 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
647456 AATCAGGTAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 104 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (128 bp):
GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACAT
Found at i:647894 original size:34 final size:34
Alignment explanation
Indices: 647856--647956 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 34
647846 AAATTTAATG
*
647856 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * * *
647890 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
**
647924 TTAAATTTCGAATAATATAATTTGCATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
647957 AACATTTATC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:648508 original size:21 final size:21
Alignment explanation
Indices: 648475--648568 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
648465 TATGGTATAA
* *
648475 AACCCTGCAGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
648496 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
648517 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
648538 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
648559 AACCCTGCGG
1 AACCCTGCGG
648569 AGATGGCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.91
22 3 0.04
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:648592 original size:42 final size:42
Alignment explanation
Indices: 648475--648592 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
648465 TATGGTATAA
* * *
648475 AACCCTGCAGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGATCGGCATGTAACCTGGCGGGCTAGGAATGT
* * *
648517 AACCCTGCGGGCTCGGAATGTAACCCT-GCGGGCTCGGAATGT
1 AACCCTGCGGGATCGGCATGTAA-CCTGGCGGGCTAGGAATGT
* * *
648559 AACCCTGCGGAGAT-GGCATATAAACTGGTGGGCT
1 AACCCTGCGG-GATCGGCATGTAACCTGGCGGGCT
648593 TCGCATATGA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 57 0.89
43 5 0.08
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (42 bp):
AACCCTGCGGGATCGGCATGTAACCTGGCGGGCTAGGAATGT
Found at i:648612 original size:21 final size:21
Alignment explanation
Indices: 648574--648613 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
648564 TGCGGAGATG
*
648574 GCATATAAACTGGTGGGCTTC
1 GCATATAAACTGGAGGGCTTC
* *
648595 GCATATGAAGTGGAGGGCT
1 GCATATAAACTGGAGGGCT
648614 GGGCATGTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (21 bp):
GCATATAAACTGGAGGGCTTC
Found at i:663813 original size:76 final size:76
Alignment explanation
Indices: 663728--663876 Score: 244
Period size: 76 Copynumber: 2.0 Consensus size: 76
663718 CTTTATGCTT
* * **
663728 TATTTTATGTAGGTATAACTAAAAGTTTTATGTTAAAAAGTTGATATTTTTCAAAAGATATTTTG
1 TATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAAGATATTTCA
663793 ATTTTAGGTTA
66 ATTTTAGGTTA
* *
663804 TATTTTATGTAGGTACAATTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAGGATATTTCA
1 TATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAAGATATTTCA
663869 ATTTTAGG
66 ATTTTAGG
663877 GGATTTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.46
Consensus pattern (76 bp):
TATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAAGATATTTCA
ATTTTAGGTTA
Found at i:664490 original size:23 final size:23
Alignment explanation
Indices: 664459--664507 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
664449 TAAAAAAATT
* * * *
664459 ATAATAATTTTAAGATTTTTTAA
1 ATAAAAATTTCAAAATTTTATAA
664482 ATAAAAATTTCAAAATTTTATAA
1 ATAAAAATTTCAAAATTTTATAA
664505 ATA
1 ATA
664508 TACATGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAAAATTTCAAAATTTTATAA
Found at i:666648 original size:64 final size:63
Alignment explanation
Indices: 666560--666721 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
666550 AATTTTTCAG
* * * * *
666560 AGTGTATCGATGCACAAGAAGTGCATCGATGCA-TCCCTTAAAAATGGAAACATCGAATGCAATT
1 AGTGTATCGATGCA-TAGGAGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAAGGCAATT
* **
666624 AGTGCATCGATGCATTAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAAGGTGATT
1 AGTGTATCGATGCA-TAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAAGGCAATT
* *
666688 GGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 AGTGTATCGATGCATAGG-AGTGCATCGATGCAC
666722 ATGTTAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 3 0.04
64 76 0.90
65 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (63 bp):
AGTGTATCGATGCATAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAAGGCAATT
Found at i:666754 original size:20 final size:22
Alignment explanation
Indices: 666709--666766 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
666699 GCATGGGTAG
666709 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
666733 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
666753 TGCATCGATGCACT
1 TGCATCGATGCACT
666767 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Done.