Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008090.1 Hibiscus syriacus cultivar Beakdansim tig00110600_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: 750292
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:558370 original size:101 final size:101
Alignment explanation
Indices: 558190--558389 Score: 373
Period size: 101 Copynumber: 2.0 Consensus size: 101
558180 ATAAATGTAT
*
558190 CATTTTCAATATCAACAAATCAATGTATATTAAATGAGAAAATATCTAAACTTCAATTTTAGTTC
1 CATTTTCAATATCAACAAATCAATGTATATTAAATGAGAAAAGATCTAAACTTCAATTTTAGTTC
*
558255 ATTTAAGATGTAACAGTGACAACACGAAATCTTAAC
66 ATTTAAGATATAACAGTGACAACACGAAATCTTAAC
558291 CATTTTCAATATCAACAAATCAATGTATATTAAATGAGAAAAGATCTAAACTTCAATTTTAGTTC
1 CATTTTCAATATCAACAAATCAATGTATATTAAATGAGAAAAGATCTAAACTTCAATTTTAGTTC
*
558356 TTTTAAGATATAACAGTGACAACACGAAATCTTA
66 ATTTAAGATATAACAGTGACAACACGAAATCTTA
558390 TAGATATTTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (101 bp):
CATTTTCAATATCAACAAATCAATGTATATTAAATGAGAAAAGATCTAAACTTCAATTTTAGTTC
ATTTAAGATATAACAGTGACAACACGAAATCTTAAC
Found at i:559810 original size:34 final size:36
Alignment explanation
Indices: 559741--559811 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
559731 GTTAGAAAAT
* *
559741 ATTTATATATTTTTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTAAAAAATTAAAAATCATAAA
*
559777 ATTTATAT-TTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTTTTTTAAAAAATTAAAAATCATAAA
559811 A
1 A
559812 AAGTTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 6 0.19
35 18 0.56
36 8 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (36 bp):
ATTTATATATTTTTTTAAAAAATTAAAAATCATAAA
Found at i:567002 original size:3 final size:3
Alignment explanation
Indices: 566994--567029 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
566984 TTCAAATGTG
* *
566994 TAT TAT TAT TAT TTT TAT TAT TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
567030 AATTTTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:567011 original size:9 final size:9
Alignment explanation
Indices: 566994--567036 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
566984 TTCAAATGTG
*
566994 TATTATTAT
1 TATTTTTAT
567003 TATTTTTAT
1 TATTTTTAT
567012 TATTTTTAT
1 TATTTTTAT
*
567021 TATTATTAT
1 TATTTTTAT
*
567030 AATTTTT
1 TATTTTT
567037 GTGAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTAT
Found at i:567282 original size:23 final size:23
Alignment explanation
Indices: 567255--567298 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
567245 AATTTGGGTT
567255 TTAAAATATTAATAAGT-TTAAGA
1 TTAAAAT-TTAATAAGTCTTAAGA
*
567278 TTAAAATTTATTAAGTCTTAA
1 TTAAAATTTAATAAGTCTTAA
567299 TATTTTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (23 bp):
TTAAAATTTAATAAGTCTTAAGA
Found at i:567306 original size:25 final size:25
Alignment explanation
Indices: 567253--567307 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
567243 TTAATTTGGG
567253 TTTTAAAATATTAATAAGTTTAAGA
1 TTTTAAAATATTAATAAGTTTAAGA
* *
567278 --TTAAAAT-TTATTAAGTCTTAATA
1 TTTTAAAATATTAATAAGT-TTAAGA
567301 TTTTAAA
1 TTTTAAA
567308 CGGGCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
25 5 0.20
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (25 bp):
TTTTAAAATATTAATAAGTTTAAGA
Found at i:568044 original size:7 final size:7
Alignment explanation
Indices: 568032--568068 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
568022 AACCGAAAAA
568032 AATATTT
1 AATATTT
568039 AATATTT
1 AATATTT
568046 AATATTT
1 AATATTT
*
568053 AATATAT
1 AATATTT
*
568060 ATTATTT
1 AATATTT
568067 AA
1 AA
568069 AAAAAATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATATTT
Found at i:570929 original size:20 final size:20
Alignment explanation
Indices: 570900--570943 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
570890 TCTGATTGAC
*
570900 AAAATTAAAAAATTAATAGT
1 AAAATAAAAAAATTAATAGT
*
570920 AAAATAAAAAGATTAATAGT
1 AAAATAAAAAAATTAATAGT
570940 AAAA
1 AAAA
570944 GGACGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAATAAAAAAATTAATAGT
Found at i:573039 original size:34 final size:30
Alignment explanation
Indices: 573001--573069 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
572991 TCGATATAAC
573001 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
573035 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
573064 AATTTA
1 AATTTA
573070 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:573081 original size:29 final size:30
Alignment explanation
Indices: 573010--573069 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
573000 CAATTTAAGG
573010 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
573041 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
573070 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:573199 original size:19 final size:20
Alignment explanation
Indices: 573159--573200 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
573149 TTCAAGATTG
573159 CCCAGGGGGTACAGATACCC
1 CCCAGGGGGTACAGATACCC
573179 CCCAGGGGGTACAGATACCC
1 CCCAGGGGGTACAGATACCC
573199 CC
1 CC
573201 TGCAGGTTTT
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:0.24, C:0.38, G:0.29, T:0.10
Consensus pattern (20 bp):
CCCAGGGGGTACAGATACCC
Found at i:573341 original size:21 final size:21
Alignment explanation
Indices: 573315--573357 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
573305 ATTTGAATAT
*
573315 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
573336 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
573357 T
1 T
573358 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:573423 original size:20 final size:22
Alignment explanation
Indices: 573385--573424 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
573375 TTTGAGTATA
573385 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
573407 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
573425 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:573678 original size:34 final size:32
Alignment explanation
Indices: 573639--573708 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
573629 TTTTGTAAAG
*
573639 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
573673 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
573705 GGGA
1 GGGA
573709 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:574100 original size:42 final size:43
Alignment explanation
Indices: 574053--574142 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
574043 GCTGAAAAAT
* *
574053 ATTTTACG-TAAAATATTTTCCAGTGTTTGATAGTTGCAATTG
1 ATTTTACGAAAAAATATTTTCCAGTGTTTGATAATTGCAATTG
* * *
574095 GTTTTACGAAAAAATATTTTTCAGTGTTTGATAATTGTAATTG
1 ATTTTACGAAAAAATATTTTCCAGTGTTTGATAATTGCAATTG
574138 ATTTT
1 ATTTT
574143 CTCAATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 7 0.17
43 34 0.83
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (43 bp):
ATTTTACGAAAAAATATTTTCCAGTGTTTGATAATTGCAATTG
Found at i:574538 original size:254 final size:254
Alignment explanation
Indices: 574033--574502 Score: 558
Period size: 254 Copynumber: 1.9 Consensus size: 254
574023 ATCTTAGGGT
* * ** * *
574033 GTGTTTGATAGCTGAAAAATATTTTACGTAAAATATTTTCCAGTGTTTGATAGTTGCAATTGGTT
1 GTGTTTGATAGCTGAAAAATATTTTACGAAAAATATTTTCCAATGTTTGATAACTACAATTGATT
* *
574098 TTACGAAAAAATATTTTTCAGTGTTTGATAATTGTAATTGATTTTCTCAATATAATTCATTTTCC
66 TTAAGAAAAAATATTTTCCAGTGTTTGATAATTGTAATTGATTTTCTCAATATAATTCATTTTCC
* * * *
574163 TAATTCTTTTGTATTCTCTGTAAATTATTTTACCATCTGATTTTTCGTAAAATATTTTCTTAACT
131 TAATTCCTTTATATTCTCTGTAAATTATTTTACCATATGATTTTTCGTAAAATATTTTCCTAACT
* * ** * **** * *
574228 TTTTCACTTTAGTGTGTGTTTGATAGCAGATTTTTCGGAAAATGTTTTCCTCATTTTCCC
196 TTTTCACTTTAGAGTATGAATCATA-CAGAAAAATCGGAAAATATTTTCATCATTTTCCC
* *
574288 GTGTTTGATAGCT-AGAAAATATTTT-CTGAAAAATGTTTTCTAATGTTTGATAACTACAATTGA
1 GTGTTTGATAGCTGA-AAAATATTTTAC-GAAAAATATTTTCCAATGTTTGATAACTACAATTGA
* *
574351 TTTTAAG-AAAAATATTTTCCAGTGTTTGATAGTTGTAATTGATTTTCAT-AATGTAATTCATTT
64 TTTTAAGAAAAAATATTTTCCAGTGTTTGATAATTGTAATTGATTTTC-TCAATATAATTCATTT
* * * * *
574414 TCTTAGTTCCTTTATATTTTCT-TAAAATTGTTTTACCTTATGATTTTTCGTAAAATATTTTCCT
128 TCCTAATTCCTTTATATTCTCTGT-AAATTATTTTACCATATGATTTTTCGTAAAATATTTTCCT
574478 AA-TTTTTCACTTTAGAGTAT-AATCA
192 AACTTTTTCACTTTAGAGTATGAATCA
574503 CTCAAAAAAT
Statistics
Matches: 185, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
252 2 0.01
253 17 0.09
254 108 0.58
255 58 0.31
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (254 bp):
GTGTTTGATAGCTGAAAAATATTTTACGAAAAATATTTTCCAATGTTTGATAACTACAATTGATT
TTAAGAAAAAATATTTTCCAGTGTTTGATAATTGTAATTGATTTTCTCAATATAATTCATTTTCC
TAATTCCTTTATATTCTCTGTAAATTATTTTACCATATGATTTTTCGTAAAATATTTTCCTAACT
TTTTCACTTTAGAGTATGAATCATACAGAAAAATCGGAAAATATTTTCATCATTTTCCC
Found at i:574771 original size:19 final size:19
Alignment explanation
Indices: 574717--574762 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
574707 TAATCATGAG
*
574717 TAATATTAAT-TTATATATT
1 TAATATTAATATAATA-ATT
574736 TAATATTAATATAATAATT
1 TAATATTAATATAATAATT
574755 TAATATTA
1 TAATATTA
574763 TGTTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATTAATATAATAATT
Found at i:575110 original size:30 final size:30
Alignment explanation
Indices: 575074--575136 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
575064 TACTTTCCAG
* * *
575074 AAAACAGTTTTCATGTAATTTATTTTGCAT
1 AAAACAGTTTTCAGGTAATTCATTTTACAT
575104 AAAACAGTTTTCAGGTAATTCATTTTACAT
1 AAAACAGTTTTCAGGTAATTCATTTTACAT
575134 AAA
1 AAA
575137 TTACTTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (30 bp):
AAAACAGTTTTCAGGTAATTCATTTTACAT
Found at i:577907 original size:2 final size:2
Alignment explanation
Indices: 577900--577924 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
577890 TATTCGTCTT
577900 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
577925 TGCAGTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:580000 original size:24 final size:24
Alignment explanation
Indices: 579937--580013 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
579927 CATTTAAATG
* * *
579937 ATAAACGAACACAAAGGAAAGAAC
1 ATAAACAAACACAAATGAACGAAC
* * *
579961 GTAAATAGACACAAATGAACGAAC
1 ATAAACAAACACAAATGAACGAAC
* *
579985 ATAAACAAACATAAATGAGCGAAC
1 ATAAACAAACACAAATGAACGAAC
580009 ATAAA
1 ATAAA
580014 ATTAATTAGG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.60, C:0.16, G:0.14, T:0.10
Consensus pattern (24 bp):
ATAAACAAACACAAATGAACGAAC
Found at i:581192 original size:14 final size:14
Alignment explanation
Indices: 581173--581203 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
581163 ATCATTATTT
581173 TAATTATATAAAGA
1 TAATTATATAAAGA
581187 TAATTATATAAAGA
1 TAATTATATAAAGA
581201 TAA
1 TAA
581204 GTGTTGGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (14 bp):
TAATTATATAAAGA
Found at i:585756 original size:19 final size:19
Alignment explanation
Indices: 585732--585788 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
585722 AAATAGAGAT
585732 ATCAGAAC-GAAAATCAGAG
1 ATCAGAACAG-AAATCAGAG
* *
585751 ATCAGAACAGATATCAAAG
1 ATCAGAACAGAAATCAGAG
* *
585770 TTCAGAACATAAATCAGAG
1 ATCAGAACAGAAATCAGAG
585789 GCCAAACTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.16
Consensus pattern (19 bp):
ATCAGAACAGAAATCAGAG
Found at i:588137 original size:31 final size:30
Alignment explanation
Indices: 588098--588157 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
588088 TAAAAATTTA
588098 ATATTTTTAGTAATTAAATTATTAATTTTG
1 ATATTTTTAGTAATTAAATTATTAATTTTG
** *
588128 ATATGTTTTAGTGCTTAAATTTTTAATTTT
1 ATAT-TTTTAGTAATTAAATTATTAATTTT
588158 CTCAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (30 bp):
ATATTTTTAGTAATTAAATTATTAATTTTG
Found at i:588302 original size:31 final size:30
Alignment explanation
Indices: 588256--588316 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
588246 TATAATTTTT
588256 TTAAAAATAAAAATTTAAATACTAAAACAAA
1 TTAAAAATAAAAATTTAAATA-TAAAACAAA
* * *
588287 TTAAAATTAATAATTTAAATATTAAACAAA
1 TTAAAAATAAAAATTTAAATATAAAACAAA
588317 AAATTTAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (30 bp):
TTAAAAATAAAAATTTAAATATAAAACAAA
Found at i:591258 original size:17 final size:18
Alignment explanation
Indices: 591238--591272 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
591228 TGTCTAATAA
591238 TTTTAA-TAATTAAATTT
1 TTTTAAGTAATTAAATTT
*
591255 TTTTAAGTAATTATATTT
1 TTTTAAGTAATTAAATTT
591273 ATACGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAGTAATTAAATTT
Found at i:592255 original size:31 final size:32
Alignment explanation
Indices: 592186--592256 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
592176 TACAAATATA
*
592186 TAAAA-ATATATTTTAAAACCTTCAATTAGTTT
1 TAAAATATATATTTTAAAACATTCAATTAG-TT
* *
592218 TCAAATATATATTTTATAAA-ATTTAATTA-TT
1 TAAAATATATATTTTA-AAACATTCAATTAGTT
592249 TAAAATAT
1 TAAAATAT
592257 TTAAATAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
31 9 0.27
32 4 0.12
33 17 0.52
34 3 0.09
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (32 bp):
TAAAATATATATTTTAAAACATTCAATTAGTT
Found at i:594303 original size:20 final size:20
Alignment explanation
Indices: 594258--594371 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 20
594248 CCCAAACCCC
* *
594258 AAACCCATAATCTCAAACCATT
1 AAACCC-TAAACTCAAA-TATT
* * * *
594280 AAACCTTTACCTCAAATCTT
1 AAACCCTAAACTCAAATATT
594300 AAACCCTAAACTCAAATATT
1 AAACCCTAAACTCAAATATT
*
594320 AAACCCCAAAC-CATAA-ACTTT
1 AAACCCTAAACTCA-AATA--TT
* * *
594341 GAACCTTAAAGCTTAAATATT
1 AAACCCTAAA-CTCAAATATT
594362 AAACCCTAAA
1 AAACCCTAAA
594372 TTCCAAACCT
Statistics
Matches: 70, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
19 3 0.04
20 30 0.43
21 27 0.39
22 8 0.11
23 2 0.03
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (20 bp):
AAACCCTAAACTCAAATATT
Found at i:595093 original size:44 final size:43
Alignment explanation
Indices: 595010--595169 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
595000 TTTTTGGAAA
* * * *
595010 AAAAAAGCCTCTAATTATCCTGTATTTAGTGGCGTTTTTTTTCC
1 AAAAACGCCGCTAATTATCTTGTCTTTAGTGGCG-TTTTTTTCC
* * *
595054 AAAAACGCCGCTAATTCTCTTGTCTTTAGTGGTGCTTTTTGT-C
1 AAAAACGCCGCTAATTATCTTGTCTTTAGTGGCG-TTTTTTTCC
* * ** * * *
595097 ACAAATGATGCTAATTCTCTTGTCTTTAGTGGCGTTTATTGCC
1 AAAAACGCCGCTAATTATCTTGTCTTTAGTGGCGTTTTTTTCC
*
595140 ACAAACGCCGCTAATTATCTTGTCTTTAGT
1 AAAAACGCCGCTAATTATCTTGTCTTTAGT
595170 CGCATGTTTG
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
42 4 0.04
43 57 0.60
44 34 0.36
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (43 bp):
AAAAACGCCGCTAATTATCTTGTCTTTAGTGGCGTTTTTTTCC
Found at i:595184 original size:43 final size:42
Alignment explanation
Indices: 595020--595190 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 42
595010 AAAAAAGCCT
* * * * * *
595020 CTAATTATCCTGTATTTAGTGGCGTTTTTTTTCCAAAAACGCCG
1 CTAATTCTCTTGTCTTTAGT-GCG-TGTTTTGCCACAAACGCCG
* * **
595064 CTAATTCTCTTGTCTTTAGTG-GTGCTTTTTGTCACAAATGATG
1 CTAATTCTCTTGTCTTTAGTGCGTG--TTTTGCCACAAACGCCG
595107 CTAATTCTCTTGTCTTTAGTGGCGT-TTATTGCCACAAACGCCG
1 CTAATTCTCTTGTCTTTAGT-GCGTGTT-TTGCCACAAACGCCG
* * *
595150 CTAATTATCTTGTCTTTAGTCGCATGTTTGGCCACAAACGC
1 CTAATTCTCTTGTCTTTAGT-GCGTGTTTTGCCACAAACGC
595191 TCTGCTTGTC
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 77 0.75
44 20 0.19
45 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (42 bp):
CTAATTCTCTTGTCTTTAGTGCGTGTTTTGCCACAAACGCCG
Found at i:595186 original size:86 final size:86
Alignment explanation
Indices: 595020--595187 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 86
595010 AAAAAAGCCT
* * *
595020 CTAATTATCCTGTATTTAGTGGCGTTTTTTTTCCAAAAACGCCGCTAATTCTCTTGTCTTTAGTG
1 CTAATTATCCTGTATTTAGTGGCGTTTTATTGCCAAAAACGCCGCTAATTATCTTGTCTTTAGTG
* * *
595085 GTGCTTTTTGTCACAAATGATG
66 ATGC-TTTGGCCACAAATGATG
* * * *
595107 CTAATTCTCTTGTCTTTAGTGGCG-TTTATTGCCACAAACGCCGCTAATTATCTTGTCTTTAGTC
1 CTAATTATCCTGTATTTAGTGGCGTTTTATTGCCAAAAACGCCGCTAATTATCTTGTCTTTAGT-
595171 GCATG-TTTGGCCACAAA
65 G-ATGCTTTGGCCACAAA
595188 CGCTCTGCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
86 45 0.65
87 22 0.32
88 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (86 bp):
CTAATTATCCTGTATTTAGTGGCGTTTTATTGCCAAAAACGCCGCTAATTATCTTGTCTTTAGTG
ATGCTTTGGCCACAAATGATG
Found at i:609857 original size:17 final size:17
Alignment explanation
Indices: 609835--609872 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
609825 CCGACCGACC
*
609835 GACCCGACCCGACTGTT
1 GACCCGACCCGACCGTT
609852 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
609869 GACC
1 GACC
609873 GTTGACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:611301 original size:17 final size:17
Alignment explanation
Indices: 611263--611301 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
611253 GATAGTATAA
*
611263 TTTATTTATAATTTCAT
1 TTTATTTATAATGTCAT
* *
611280 GTTATTTATAATGTGAT
1 TTTATTTATAATGTCAT
611297 TTTAT
1 TTTAT
611302 ATTGATAGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (17 bp):
TTTATTTATAATGTCAT
Found at i:617079 original size:19 final size:20
Alignment explanation
Indices: 617055--617102 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
617045 GCAGCTGGAA
617055 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
*
617074 ACCGG-TCTGAATCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
617093 ACCGG-TCTGA
1 ACCGGTTCTGA
617103 CACGACCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:617123 original size:5 final size:5
Alignment explanation
Indices: 617113--617166 Score: 54
Period size: 5 Copynumber: 10.0 Consensus size: 5
617103 CACGACCGAT
* *
617113 CGACC CGACC CGACC GTTGACC CGACC CGACC CGACC GTTGACC CGACC
1 CGACC CGACC CGACC --CGACC CGACC CGACC CGACC --CGACC CGACC
617162 CGACC
1 CGACC
617167 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 33 0.80
7 8 0.20
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
CGACC
Found at i:617136 original size:17 final size:17
Alignment explanation
Indices: 617136--617173 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
617126 CCGTTGACCC
617136 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
617153 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
617170 GACC
1 GACC
617174 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:617138 original size:22 final size:22
Alignment explanation
Indices: 617113--617166 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
617103 CACGACCGAT
617113 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
617135 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
617157 CGACCCGACC
1 CGACCCGACC
617167 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (22 bp):
CGACCCGACCCGACCGTTGACC
Found at i:619910 original size:15 final size:14
Alignment explanation
Indices: 619887--619922 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
619877 ATCGTTAAAT
619887 AAAATATTTTTGAA
1 AAAATATTTTTGAA
*
619901 AAATATATTTTTTAA
1 AAA-ATATTTTTGAA
619916 AAAATAT
1 AAAATAT
619923 AGATGTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AAAATATTTTTGAA
Found at i:619918 original size:16 final size:15
Alignment explanation
Indices: 619881--619923 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
619871 ATATCTATCG
619881 TTAAATAAA-ATATTT
1 TTAAA-AAATATATTT
*
619896 TTGAAAAATATATTTT
1 TTAAAAAATATA-TTT
619912 TTAAAAAATATA
1 TTAAAAAATATA
619924 GATGTGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 7 0.29
16 14 0.58
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAAAAAATATATTT
Found at i:620275 original size:60 final size:60
Alignment explanation
Indices: 620133--620275 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 60
620123 TAGGATGAAG
* * * * * *
620133 TATATAAATGGTCCCTCGATTATAGAGTAATCATTTATTAAGTCTCTTGACTATTAAAAGT
1 TATA-AAATGGTCACTCGACTATAGAGTAATCATTTATTAAGTCACTCGACTATCAAAAAT
* * ** *
620194 TATAAAATGAT-ACTCCAACTATAGAGTGTTTC-TTTGTTAAGTCACTCGACTATCAAAAAT
1 TATAAAATGGTCACT-CGACTATAGAGT-AATCATTTATTAAGTCACTCGACTATCAAAAAT
620254 TATAAAATGGTCACTCGACTAT
1 TATAAAATGGTCACTCGACTAT
620276 TAATTATATT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
59 2 0.03
60 55 0.83
61 9 0.14
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (60 bp):
TATAAAATGGTCACTCGACTATAGAGTAATCATTTATTAAGTCACTCGACTATCAAAAAT
Found at i:624337 original size:18 final size:18
Alignment explanation
Indices: 624314--624354 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
624304 ATTATTTAAT
624314 TAAAATATTAAAATAAAA
1 TAAAATATTAAAATAAAA
* *
624332 TAAAATATTGAAATAAAT
1 TAAAATATTAAAATAAAA
624350 TAAAA
1 TAAAA
624355 AAACATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAATATTAAAATAAAA
Found at i:631588 original size:22 final size:22
Alignment explanation
Indices: 631560--631636 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
631550 CGGAAGTGCC
631560 TACAAAAGTGC-CTCAACACTGA
1 TACAAAAGTGCACTC-ACACTGA
* * * *
631582 TACAAAAATGCATTCGCATTGA
1 TACAAAAGTGCACTCACACTGA
* *
631604 TTCAAAAGTGCATTCACACTGA
1 TACAAAAGTGCACTCACACTGA
*
631626 TACTAAAGTGC
1 TACAAAAGTGC
631637 CTTAGCATTG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
22 42 0.95
23 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (22 bp):
TACAAAAGTGCACTCACACTGA
Found at i:631625 original size:44 final size:44
Alignment explanation
Indices: 631562--631646 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
631552 GAAGTGCCTA
*
631562 CAAAAGTGCCTCAACACTGATACAAAAATGCATTCGCATTGATT
1 CAAAAGTGCCTCAACACTGATACAAAAATGCATTAGCATTGATT
* * * *
631606 CAAAAGTGCATTC-ACACTGATACTAAAGTGCCTTAGCATTG
1 CAAAAGTGC-CTCAACACTGATACAAAAATGCATTAGCATTG
631647 CAGATACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (44 bp):
CAAAAGTGCCTCAACACTGATACAAAAATGCATTAGCATTGATT
Found at i:635594 original size:18 final size:18
Alignment explanation
Indices: 635571--635616 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
635561 GGATCCCTCG
635571 TGTGTTTTGAAAGAACCA
1 TGTGTTTTGAAAGAACCA
635589 TGTGTTTTGAAAGAACCA
1 TGTGTTTTGAAAGAACCA
635607 TGTGTTTTGA
1 TGTGTTTTGA
635617 CTACTTCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (18 bp):
TGTGTTTTGAAAGAACCA
Found at i:636358 original size:18 final size:19
Alignment explanation
Indices: 636337--636380 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
636327 ATTAATAAAA
636337 ATAAAGTATTT-AAATTAT
1 ATAAAGTATTTAAAATTAT
* *
636355 ATAAA-AATTTAAAATTTT
1 ATAAAGTATTTAAAATTAT
636373 ATAAAGTA
1 ATAAAGTA
636381 GAGTCGTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.19
18 16 0.76
19 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAGTATTTAAAATTAT
Found at i:639142 original size:18 final size:17
Alignment explanation
Indices: 639093--639142 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
639083 GGCAATAGGT
*
639093 CTAGTGATTTCTCCCGGC
1 CTAGTGA-TTCTCCCGAC
*
639111 CTAGCGACTTCTCCCGAC
1 CTAGTGA-TTCTCCCGAC
639129 CTAGTGATTACTCC
1 CTAGTGATT-CTCC
639143 AGAATGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.16, C:0.36, G:0.18, T:0.30
Consensus pattern (17 bp):
CTAGTGATTCTCCCGAC
Found at i:641776 original size:20 final size:20
Alignment explanation
Indices: 641751--641789 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
641741 TATCTTGTCG
641751 TTAAATATTTAACTATCAAT
1 TTAAATATTTAACTATCAAT
*
641771 TTAAATATTTAACTTTCAA
1 TTAAATATTTAACTATCAA
641790 ATTGCTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATATTTAACTATCAAT
Found at i:642816 original size:119 final size:118
Alignment explanation
Indices: 642642--642878 Score: 298
Period size: 119 Copynumber: 2.0 Consensus size: 118
642632 AATTTTCGTG
* ** * *
642642 CCCACCCTGCAATCCGAGTTTTCTTCGATTAATTACTTATTTTACGGGCGGTGTCCACCCTGAAT
1 CCCACCCTGAAATCCGAGTTTTCTTCGATTAATTACTTATTTTACGAACAGTGTCCACCCT-AAA
* * * ** *
642707 TTTTTTTTTGTATTC-ATCTCATTTAATATTTTTTATATTGTTAA-TATATGTGTA
65 ATTTTATTTGTA-TCAATCCCATTTAA-AAATTTTATATTGCTAACTATATGTGTA
** *
642761 CCCACCCTGAAATTTGAGTTTTCTTCGATTAATTACTTATTTTACGAACATTGTCCACCCTAAAA
1 CCCACCCTGAAATCCGAGTTTTCTTCGATTAATTACTTATTTTACGAACAGTGTCCACCCTAAAA
642826 TTTTATTTGTATCAATCCCATTTAAAAATTTTATATTGCTAACGTATATGTGT
66 TTTTATTTGTATCAATCCCATTTAAAAATTTTATATTGCTAAC-TATATGTGT
642879 CATCATCTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
117 16 0.16
118 22 0.22
119 63 0.62
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (118 bp):
CCCACCCTGAAATCCGAGTTTTCTTCGATTAATTACTTATTTTACGAACAGTGTCCACCCTAAAA
TTTTATTTGTATCAATCCCATTTAAAAATTTTATATTGCTAACTATATGTGTA
Found at i:644652 original size:3 final size:3
Alignment explanation
Indices: 644644--644669 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
644634 GTTTTCAGTA
644644 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
644670 CGACATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:657429 original size:20 final size:20
Alignment explanation
Indices: 657406--657457 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
657396 CCTAATGCGT
*
657406 ACCTTATGTTCTACTAGCGC
1 ACCTTATGTTCTACTAGCAC
*
657426 ACCTTATGTTCTACTAGCAT
1 ACCTTATGTTCTACTAGCAC
*
657446 ACCTTATATTCT
1 ACCTTATGTTCT
657458 CTTAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (20 bp):
ACCTTATGTTCTACTAGCAC
Found at i:658950 original size:10 final size:10
Alignment explanation
Indices: 658948--658973 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
658938 AAAAATAAAG
658948 AAAGAAAAAC
1 AAAGAAAAAC
658958 AAAGAAAAAC
1 AAAGAAAAAC
658968 AAAGAA
1 AAAGAA
658974 TTATTATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAC
Found at i:658954 original size:14 final size:14
Alignment explanation
Indices: 658935--658964 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
658925 TATTTATTAT
*
658935 AAGAAAAATAAAGA
1 AAGAAAAACAAAGA
658949 AAGAAAAACAAAGA
1 AAGAAAAACAAAGA
658963 AA
1 AA
658965 AACAAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.03
Consensus pattern (14 bp):
AAGAAAAACAAAGA
Found at i:659845 original size:20 final size:20
Alignment explanation
Indices: 659816--659853 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
659806 TCGCCACCTA
* *
659816 TTATTTAATTTTTATTTTGG
1 TTATTCAATTATTATTTTGG
659836 TTATTCAATTATTATTTT
1 TTATTCAATTATTATTTT
659854 TTAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTATTCAATTATTATTTTGG
Found at i:663875 original size:24 final size:26
Alignment explanation
Indices: 663830--663884 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
663820 TTATTTAAAA
*
663830 TTAAAAAAATAAAATTACATATAGTT
1 TTAAAAAAATAAAATTAAATATAGTT
* **
663856 TTAAAGAAA-AAAA-TAAATATTTTT
1 TTAAAAAAATAAAATTAAATATAGTT
663880 TTAAA
1 TTAAA
663885 TAACCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 13 0.52
25 4 0.16
26 8 0.32
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (26 bp):
TTAAAAAAATAAAATTAAATATAGTT
Found at i:664736 original size:37 final size:37
Alignment explanation
Indices: 664682--664760 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
664672 TCACCAGTTG
* *
664682 CCGAACCTGTACTCATCTTAATCTATCCTGATACATT
1 CCGAACCTGTACACATCTTAATCTACCCTGATACATT
* *
664719 CCGAACCTGTGCACATCTTCATCTACCCTGATACATT
1 CCGAACCTGTACACATCTTAATCTACCCTGATACATT
664756 CCGAA
1 CCGAA
664761 AACTCCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (37 bp):
CCGAACCTGTACACATCTTAATCTACCCTGATACATT
Found at i:670434 original size:18 final size:18
Alignment explanation
Indices: 670411--670540 Score: 136
Period size: 18 Copynumber: 7.2 Consensus size: 18
670401 TTTGTCGCTT
670411 AGGTTTGGCTGATCCTTC
1 AGGTTTGGCTGATCCTTC
* * *
670429 AGGTTTTGTTGATCCTTA
1 AGGTTTGGCTGATCCTTC
*
670447 AGATTTGGCTGATCCTTC
1 AGGTTTGGCTGATCCTTC
* * *
670465 AGGTTTTGTTGATCCTTT
1 AGGTTTGGCTGATCCTTC
* *
670483 AGATTTGTCTGATCCTTC
1 AGGTTTGGCTGATCCTTC
*
670501 AGGTTTGG-TCGATCCTTT
1 AGGTTTGGCT-GATCCTTC
* *
670519 AGATTTGGCTGATCCTTT
1 AGGTTTGGCTGATCCTTC
670537 AGGT
1 AGGT
670541 GTCTTCTGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
17 1 0.01
18 87 0.98
19 1 0.01
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.45
Consensus pattern (18 bp):
AGGTTTGGCTGATCCTTC
Found at i:670454 original size:36 final size:36
Alignment explanation
Indices: 670409--670540 Score: 210
Period size: 36 Copynumber: 3.7 Consensus size: 36
670399 AGTTTGTCGC
*
670409 TTAGGTTTGGCTGATCCTTCAGGTTTTGTTGATCCT
1 TTAGATTTGGCTGATCCTTCAGGTTTTGTTGATCCT
*
670445 TAAGATTTGGCTGATCCTTCAGGTTTTGTTGATCCT
1 TTAGATTTGGCTGATCCTTCAGGTTTTGTTGATCCT
* * *
670481 TTAGATTTGTCTGATCCTTCAGGTTTGGTCGATCCT
1 TTAGATTTGGCTGATCCTTCAGGTTTTGTTGATCCT
*
670517 TTAGATTTGGCTGATCCTTTAGGT
1 TTAGATTTGGCTGATCCTTCAGGT
670541 GTCTTCTGCT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.45
Consensus pattern (36 bp):
TTAGATTTGGCTGATCCTTCAGGTTTTGTTGATCCT
Found at i:675160 original size:60 final size:60
Alignment explanation
Indices: 675062--675198 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
675052 AAAGTACACG
* * ** * *
675062 AATGGTCCCCTGACTATATGATATTGTTTTATTAAGTCCCTTGACTATTAAAAGTTGCAA
1 AATGGTCCCCTGACTATATGATATTGCTTTATTAAGTCCATCAACTATCAAAAGTTACAA
* * * *
675122 AATGGTCCTCTGACTATA-GATTGTTGCTTTGTTTAGTCCATCAACTATCAAAAGTTACAA
1 AATGGTCCCCTGACTATATGA-TATTGCTTTATTAAGTCCATCAACTATCAAAAGTTACAA
675182 AATGGTCACCC-GACTAT
1 AATGGTC-CCCTGACTAT
675199 TCATTATGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 60 0.94
61 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (60 bp):
AATGGTCCCCTGACTATATGATATTGCTTTATTAAGTCCATCAACTATCAAAAGTTACAA
Found at i:678187 original size:2 final size:2
Alignment explanation
Indices: 678175--678206 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
678165 AACCGTACAA
678175 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
678207 AAGGCAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:678382 original size:47 final size:47
Alignment explanation
Indices: 678313--678404 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
678303 TAAGATTTTG
* * *
678313 TATAATTAGGGGTCTATTTCTTTTATTTTG-TCCCGGGTCAAAAAAAA
1 TATAAATAGGGGTCTATTTCTTTTATTTCGCT-CCGAGTCAAAAAAAA
678360 TATAAATAGGGG-CATATTTCTTTTATTTCGCTCCGAGTCAAAAAA
1 TATAAATAGGGGTC-TATTTCTTTTATTTCGCTCCGAGTCAAAAAA
678405 TACCCAGAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 1 0.03
47 38 0.95
48 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (47 bp):
TATAAATAGGGGTCTATTTCTTTTATTTCGCTCCGAGTCAAAAAAAA
Found at i:678500 original size:2 final size:2
Alignment explanation
Indices: 678495--678535 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
678485 TTCAAAATCG
678495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
678536 TAGTGCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:678979 original size:32 final size:33
Alignment explanation
Indices: 678942--679005 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
678932 TGATCTTCCC
678942 CTCA-TTTTCTATGATTAATTATACTTTGCCCT
1 CTCATTTTTCTATGATTAATTATACTTTGCCCT
*
678974 CTCATTTTTTTATGATTAATTATACTTTGCCC
1 CTCATTTTTCTATGATTAATTATACTTTGCCC
679006 CTTGAGTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (33 bp):
CTCATTTTTCTATGATTAATTATACTTTGCCCT
Found at i:680103 original size:22 final size:22
Alignment explanation
Indices: 680059--680103 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
680049 ACAAATCTCT
* *
680059 ATAAATATAAATTAATATGAGG
1 ATAAATATAAAATAATATAAGG
*
680081 ATAAATATAAAATACTATAAGG
1 ATAAATATAAAATAATATAAGG
680103 A
1 A
680104 GTCGTTTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (22 bp):
ATAAATATAAAATAATATAAGG
Found at i:681043 original size:39 final size:39
Alignment explanation
Indices: 681000--681105 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
680990 TTTAAAAAAT
*
681000 AATTTAGAATGTTAATGTGAAATAATTTAAGAAGTTAAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
*
681039 AATTTAGAATGTT-ATGGTGACAA-AATTTAAGAAATTAGA
1 AATTTAGAATGTTAAT-GTGA-AATAATTTAAGAAATTAAA
* *
681078 CATTTAGAATATTAGA-GTGAAATAATTT
1 AATTTAGAATGTTA-ATGTGAAATAATTT
681106 TGAATAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
38 4 0.07
39 51 0.88
40 2 0.03
41 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
Found at i:681052 original size:16 final size:18
Alignment explanation
Indices: 681013--681052 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
681003 TTAGAATGTT
*
681013 AATGTGAAATAATTTAAG
1 AATGTTAAATAATTTAAG
681031 AA-GTTAAA-AATTT-AG
1 AATGTTAAATAATTTAAG
681046 AATGTTA
1 AATGTTA
681053 TGGTGACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 5 0.25
18 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (18 bp):
AATGTTAAATAATTTAAG
Found at i:682851 original size:2 final size:2
Alignment explanation
Indices: 682844--682884 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
682834 ATTTGGATCC
682844 TA TA TA TA TA TA TA TA TA TA TA TA TA CTA 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
682885 GTGTAAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:683384 original size:2 final size:2
Alignment explanation
Indices: 683372--683416 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
683362 AATCTTAGCA
683372 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
683413 AT AT
1 AT AT
683417 TTTAAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:694810 original size:13 final size:13
Alignment explanation
Indices: 694769--695012 Score: 334
Period size: 13 Copynumber: 19.0 Consensus size: 13
694759 CTATATACAT
*
694769 ACATGGAC-ATGG
1 ACATGGACAATAG
*
694781 ACATGGAC-ATGG
1 ACATGGACAATAG
694793 ACATGGACAATAG
1 ACATGGACAATAG
*
694806 ACATGGAC-ATGG
1 ACATGGACAATAG
*
694818 ACAATAGAC-ATAG
1 AC-ATGGACAATAG
694831 ACATGGACAATAG
1 ACATGGACAATAG
694844 ACATGGACAATAG
1 ACATGGACAATAG
*
694857 GCATGGACAATAG
1 ACATGGACAATAG
*
694870 GCATGGACAATAG
1 ACATGGACAATAG
*
694883 GCATGGACAATAG
1 ACATGGACAATAG
*
694896 GCATGGACAATAG
1 ACATGGACAATAG
*
694909 GCATGGACAATAG
1 ACATGGACAATAG
694922 ACATGGACAATAG
1 ACATGGACAATAG
694935 ACATGGACAATAG
1 ACATGGACAATAG
*
694948 GCATGGACAATAG
1 ACATGGACAATAG
* *
694961 GCATGGACAAAAG
1 ACATGGACAATAG
694974 ACATGGACAATAG
1 ACATGGACAATAG
*
694987 GCATGGACAATAG
1 ACATGGACAATAG
695000 ACATGGACAATAG
1 ACATGGACAATAG
695013 GCATAGGCAT
Statistics
Matches: 216, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
12 30 0.14
13 186 0.86
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.15
Consensus pattern (13 bp):
ACATGGACAATAG
Found at i:695018 original size:6 final size:6
Alignment explanation
Indices: 695009--695071 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
694999 GACATGGACA
* *
695009 ATAGGC ATAGGC ATAGGC ATAGGC ATCGGC ATAGGC ATCGGC ATAGGC
1 ATAGGC ATAGGC ATAGGC ATAGGC ATAGGC ATAGGC ATAGGC ATAGGC
*
695057 ATAGGC ATAGAC ATA
1 ATAGGC ATAGGC ATA
695072 AACACACATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.17
Consensus pattern (6 bp):
ATAGGC
Found at i:701740 original size:21 final size:20
Alignment explanation
Indices: 701698--701742 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
701688 TATTAAATAA
*
701698 ATTTAAAAAATTTCGCTCTT
1 ATTTAAAAAATTTAGCTCTT
701718 ATTTAAATAAATTTAG-TCATT
1 ATTTAAA-AAATTTAGCTC-TT
701739 ATTT
1 ATTT
701743 GAGATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (20 bp):
ATTTAAAAAATTTAGCTCTT
Found at i:711790 original size:14 final size:14
Alignment explanation
Indices: 711771--711803 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
711761 GACTCGGTCA
*
711771 ACCCGGTTGACTCG
1 ACCCGGTTGACCCG
711785 ACCCGGTTGACCCG
1 ACCCGGTTGACCCG
711799 ACCCG
1 ACCCG
711804 CCGACCCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.42, G:0.27, T:0.15
Consensus pattern (14 bp):
ACCCGGTTGACCCG
Found at i:711797 original size:23 final size:23
Alignment explanation
Indices: 711745--711798 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
711735 GCAAAACTAT
*
711745 TCGACCCGGTTGACTCGACTCGG
1 TCGACCCGGTTGACTCGACCCGG
*
711768 TCAACCCGGTTGACTCGACCCGG
1 TCGACCCGGTTGACTCGACCCGG
*
711791 TTGACCCG
1 TCGACCCG
711799 ACCCGCCGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.15, C:0.37, G:0.28, T:0.20
Consensus pattern (23 bp):
TCGACCCGGTTGACTCGACCCGG
Found at i:713382 original size:23 final size:23
Alignment explanation
Indices: 713350--713417 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
713340 TGTACTTATG
713350 TTGCTTGAATCATTCAGCACTGTT
1 TTGC-TGAATCATTCAGCACTGTT
*
713374 TTGCTGAATCATTCAACACTGTT
1 TTGCTGAATCATTCAGCACTGTT
* *
713397 TTGTTGAATCAGTCAGCACTG
1 TTGCTGAATCATTCAGCACTG
713418 AATAATTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 36 0.90
24 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TTGCTGAATCATTCAGCACTGTT
Found at i:719555 original size:19 final size:16
Alignment explanation
Indices: 719532--719574 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
719522 TATAATGTAA
719532 AATTATTTTTATTATATT
1 AATTATTTTTA-TAT-TT
*
719550 ATATTAATTTTATATTT
1 A-ATTATTTTTATATTT
719567 AATTATTT
1 AATTATTT
719575 GGCCAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 4 0.18
19 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTATTTTTATATTT
Found at i:720311 original size:13 final size:13
Alignment explanation
Indices: 720293--720318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
720283 AATAACAACA
720293 ATTAAATAGAAAC
1 ATTAAATAGAAAC
720306 ATTAAATAGAAAC
1 ATTAAATAGAAAC
720319 GATACAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATTAAATAGAAAC
Found at i:720866 original size:21 final size:21
Alignment explanation
Indices: 720820--720886 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
720810 TATGAATCAG
* *
720820 TTGTGGTGGCATCTGAAAC-A
1 TTGTAGTGCCATCTGAAACGA
*
720840 TCTGTAGTGCCATCTGAAACGG
1 T-TGTAGTGCCATCTGAAACGA
*
720862 TTGTA-TCCCCATCTGAAACGA
1 TTGTAGT-GCCATCTGAAACGA
720883 TTGT
1 TTGT
720887 GGAATGTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGTAGTGCCATCTGAAACGA
Found at i:725613 original size:21 final size:21
Alignment explanation
Indices: 725587--725626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
725577 CAGAACCCCA
*
725587 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
725608 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
725627 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:733825 original size:23 final size:23
Alignment explanation
Indices: 733791--733852 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
733781 GAGTCGAAGG
733791 TTCTACGCGGTCCTTCGGAACAA
1 TTCTACGCGGTCCTTCGGAACAA
* * * *
733814 TTCTACGTGGTCCTTTGGGACAT
1 TTCTACGCGGTCCTTCGGAACAA
733837 TTCTACGCGGTCCTTC
1 TTCTACGCGGTCCTTC
733853 AGGACATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.15, C:0.29, G:0.23, T:0.34
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGAACAA
Found at i:733857 original size:23 final size:22
Alignment explanation
Indices: 733791--733860 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
733781 GAGTCGAAGG
*
733791 TTCTACGCGGTCCTTCGGAACAA
1 TTCTACGCGGTCCTTCGG-ACAT
* *
733814 TTCTACGTGGTCCTTTGGGACAT
1 TTCTACGCGGTCC-TTCGGACAT
733837 TTCTACGCGGTCCTTCAGGACAT
1 TTCTACGCGGTCCTTC-GGACAT
733860 T
1 T
733861 CTATGTGACA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.85
24 4 0.10
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (22 bp):
TTCTACGCGGTCCTTCGGACAT
Found at i:734864 original size:2 final size:2
Alignment explanation
Indices: 734857--734916 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
734847 AAATAAGTGA
734857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
734899 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
734917 TGCATTTAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.