Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167887.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_154, 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: 64280
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Found at i:2091 original size:20 final size:22
Alignment explanation
Indices: 2068--2120 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2058 AATAATTATT
*
2068 TATATAT-AAA-TCTATTTAAA
1 TATATATAAAATTCTATTAAAA
2088 TATAT-TAAAATTCTATTAAAA
1 TATATATAAAATTCTATTAAAA
*
2109 TAATATTTAAAA
1 T-ATATATAAAA
2121 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 10 0.36
22 4 0.14
23 5 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATATAAAATTCTATTAAAA
Found at i:2104 original size:21 final size:23
Alignment explanation
Indices: 2078--2120 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2068 TATATATAAA
*
2078 TCTATTTAAAT-ATA-TTAAAAT
1 TCTATTAAAATAATATTTAAAAT
2099 TCTATTAAAATAATATTTAAAA
1 TCTATTAAAATAATATTTAAAA
2121 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
TCTATTAAAATAATATTTAAAAT
Found at i:2568 original size:14 final size:15
Alignment explanation
Indices: 2544--2572 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2534 CAAATAATTA
2544 CTATGTATTTAATAT
1 CTATGTATTTAATAT
2559 CTAT-TATTTAATAT
1 CTATGTATTTAATAT
2573 AATAGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (15 bp):
CTATGTATTTAATAT
Found at i:3892 original size:2 final size:2
Alignment explanation
Indices: 3885--3915 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3875 TAATTTCCAA
3885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3916 ACTTTTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4134 original size:2 final size:2
Alignment explanation
Indices: 4127--4164 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
4117 GCATGAAATC
4127 AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4165 GTTATAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4170 original size:10 final size:9
Alignment explanation
Indices: 4128--4170 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
4118 CATGAAATCA
4128 TATATATAT
1 TATATATAT
4137 ATATATATAT
1 -TATATATAT
*
4147 TATATTATAA
1 TATA-TATAT
4157 TATATATAGT
1 TATATATA-T
4167 TATA
1 TATA
4171 AGATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TATATATAT
Found at i:4292 original size:14 final size:14
Alignment explanation
Indices: 4275--4308 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4265 TATTAATTTC
4275 AAAT-TATTTATAAA
1 AAATATATTT-TAAA
4289 AAATATATTTTAAA
1 AAATATATTTTAAA
4303 AAATAT
1 AAATAT
4309 TAAACTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATTTTAAA
Found at i:4470 original size:29 final size:30
Alignment explanation
Indices: 4418--4487 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
4408 TAAAGTAATT
* * *
4418 TATTATTTCAATTTATCTACAC-TT-AAAA
1 TATTATTTAAATTTATCAAAACTTTAAAAA
4446 TGATTATTTAAATTTATCAAAACTTTTAAAAA
1 T-ATTATTTAAATTTATCAAAAC-TTTAAAAA
4478 TATTATTTAA
1 TATTATTTAA
4488 TATCTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
31 11 0.31
32 5 0.14
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (30 bp):
TATTATTTAAATTTATCAAAACTTTAAAAA
Found at i:6144 original size:26 final size:26
Alignment explanation
Indices: 6093--6148 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
6083 AAATGAGCTT
6093 TAATCAATTAAATAAATCACTCATTA
1 TAATCAATTAAATAAATCACTCATTA
*
6119 GTAATCAA-TAAATAATTCA-TCAATTA
1 -TAATCAATTAAATAAATCACTC-ATTA
6145 TAAT
1 TAAT
6149 TTTTAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 6 0.22
26 14 0.52
27 7 0.26
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (26 bp):
TAATCAATTAAATAAATCACTCATTA
Found at i:6563 original size:17 final size:17
Alignment explanation
Indices: 6533--6566 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6523 ATTAAGAGTG
**
6533 TAAATTTTTCAAAATTT
1 TAAATTTTAAAAAATTT
6550 TAAATTTTAAAAAATTT
1 TAAATTTTAAAAAATTT
6567 AAAGAACATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTTAAAAAATTT
Found at i:7536 original size:12 final size:11
Alignment explanation
Indices: 7494--7535 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7484 TTATCTAAAT
7494 TTAAAATTTAA
1 TTAAAATTTAA
*
7505 TTAAAAATTAA
1 TTAAAATTTAA
7516 TTAAAATTCTAA
1 TTAAAATT-TAA
*
7528 ATAAAATT
1 TTAAAATT
7536 CATTTCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAATTTAA
Found at i:7800 original size:17 final size:17
Alignment explanation
Indices: 7778--7810 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7768 AAATTTTGAT
7778 AAATTTAAATTAAAATA
1 AAATTTAAATTAAAATA
*
7795 AAATTTAAATTTAAAT
1 AAATTTAAATTAAAAT
7811 CAATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAATTAAAATA
Found at i:11057 original size:19 final size:20
Alignment explanation
Indices: 11033--11073 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11023 AAATACGTGG
11033 TAAATATAAAT-ATTAAAGA
1 TAAATATAAATAATTAAAGA
*
11052 TAAATATAAATAATTAAGGA
1 TAAATATAAATAATTAAAGA
11072 TA
1 TA
11074 TGATTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
TAAATATAAATAATTAAAGA
Found at i:17389 original size:19 final size:19
Alignment explanation
Indices: 17365--17407 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17355 TTGAATCAAA
17365 TTATATATTTTATT-AATTT
1 TTATATATTTT-TTAAATTT
17384 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
17403 TTATA
1 TTATA
17408 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:17411 original size:11 final size:10
Alignment explanation
Indices: 17372--17409 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
17362 AAATTATATA
*
17372 TTTTATTAAT
1 TTTTATAAAT
*
17382 TTTTATATAT
1 TTTTATAAAT
17392 TTTT-TAAAT
1 TTTTATAAAT
17401 TTTTATAAA
1 TTTTATAAA
17410 ATAAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:18159 original size:19 final size:19
Alignment explanation
Indices: 18135--18171 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18125 TAATTTTAAA
18135 TTATATTACTTTTGTATAT
1 TTATATTACTTTTGTATAT
*
18154 TTATATTATTTTTGTATA
1 TTATATTACTTTTGTATA
18172 ATATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATATTACTTTTGTATAT
Found at i:18530 original size:23 final size:23
Alignment explanation
Indices: 18515--18581 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 23
18505 TAAATGAGTT
18515 TATTCATAAATATTAAACGAATA
1 TATTCATAAATATTAAACGAATA
** *
18538 TATTCATGAATATATATAAATAAACA
1 TATTCAT-AA-ATAT-TAAACGAATA
*
18564 TATTCATAAATAATAAAC
1 TATTCATAAATATTAAAC
18582 AAATCATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 11 0.31
24 5 0.14
25 6 0.17
26 14 0.39
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (23 bp):
TATTCATAAATATTAAACGAATA
Found at i:22314 original size:8 final size:8
Alignment explanation
Indices: 22303--22338 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
22293 TTTGTCATAT
22303 TTTTTATA
1 TTTTTATA
22311 -TTTTATA
1 TTTTTATA
22318 TTTTTATA
1 TTTTTATA
*
22326 TTTTCATA
1 TTTTTATA
22334 TTTTT
1 TTTTT
22339 TTATAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:22320 original size:16 final size:17
Alignment explanation
Indices: 22297--22339 Score: 72
Period size: 15 Copynumber: 2.6 Consensus size: 17
22287 TCCCTTTTTG
22297 TCATATTTTTTATATTT
1 TCATATTTTTTATATTT
22314 T-ATA-TTTTTATATTT
1 TCATATTTTTTATATTT
22329 TCATATTTTTT
1 TCATATTTTTT
22340 TATAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.50
16 6 0.25
17 6 0.25
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TCATATTTTTTATATTT
Found at i:22393 original size:29 final size:29
Alignment explanation
Indices: 22334--22394 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
22324 TATTTTCATA
* * *
22334 TTTTTTTATAAAAAGACAGAATAATATTT
1 TTTTTTTAGAAAAAGACAGAATAACAATT
* * *
22363 TTTTTTTGGAAAAAGATAGAATAGCAATT
1 TTTTTTTAGAAAAAGACAGAATAACAATT
22392 TTT
1 TTT
22395 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.44
Consensus pattern (29 bp):
TTTTTTTAGAAAAAGACAGAATAACAATT
Found at i:22819 original size:32 final size:32
Alignment explanation
Indices: 22778--22839 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
22768 GGAATCTCCC
22778 CGAAAAATTCAAACACT-GTAAAAAAATTCAAT
1 CGAAAAATTC-AACACTCGTAAAAAAATTCAAT
* *
22810 CGAAAAATTCATCATTCGTAAAAAAATTCA
1 CGAAAAATTCAACACTCGTAAAAAAATTCA
22840 TCCCAATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (32 bp):
CGAAAAATTCAACACTCGTAAAAAAATTCAAT
Found at i:22886 original size:21 final size:21
Alignment explanation
Indices: 22862--22901 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22852 AAAAAACCTA
**
22862 GAAAAATTCTTAAAAATTTTT
1 GAAAAATTCAAAAAAATTTTT
22883 GAAAAATTCAAAAAAATTT
1 GAAAAATTCAAAAAAATTT
22902 CTAGGTCGTC
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:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
GAAAAATTCAAAAAAATTTTT
Found at i:23309 original size:3 final size:3
Alignment explanation
Indices: 23303--23359 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
23293 GCCAAACAAC
23303 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23351 ATA ATA ATA
1 ATA ATA ATA
23360 GCACCTAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23898 original size:114 final size:115
Alignment explanation
Indices: 23758--24032 Score: 349
Period size: 114 Copynumber: 2.4 Consensus size: 115
23748 TATCGAAATA
* * * *
23758 AAACCATGAATCATAAAAAATGATCTGGACTAAGTCAAGATCAAGTGATCGGGATTAAACCATAA
1 AAACCACGAATCATAAAAAATGATCTGGACTGAG-CAAGATCAAGTGATCGGGATGAAACCACAA
* *
23823 GTCAGATGA-GTGACTAAGATCGAGTCAAAGTCG-A-AAATGATTAGGACTG
65 GTCAAATGAGGTGACCAAGATCGAGTCAAAGTCGAATAAATGATTAGGA-TG
* * * *
23872 AAACCACGAATCATTAAAAATAATCTGGACTGAGCTAAGATCAAGTGATCGGGATGAAACTACGA
1 AAACCACGAATCATAAAAAATGATCTGGACTGAGC-AAGATCAAGTGATCGGGATGAAACCACAA
* * *
23937 GTCAAATGAGGTGACCAGGATCGAGTCAAGGTCGAAATAAATGATTGGGATG
65 GTCAAATGAGGTGACCAAGATCGAGTCAAAGTCG-AATAAATGATTAGGATG
* *
23989 AAATCACGAATCATAAAAAATGATCTAGACTGAGCCAAGATCAA
1 AAACCACGAATCATAAAAAATGATCTGGACTGAG-CAAGATCAA
24033 ACGACTGAGA
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
113 1 0.01
114 63 0.46
115 21 0.15
117 41 0.30
118 12 0.09
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (115 bp):
AAACCACGAATCATAAAAAATGATCTGGACTGAGCAAGATCAAGTGATCGGGATGAAACCACAAG
TCAAATGAGGTGACCAAGATCGAGTCAAAGTCGAATAAATGATTAGGATG
Found at i:24023 original size:117 final size:116
Alignment explanation
Indices: 23722--24379 Score: 362
Period size: 116 Copynumber: 5.6 Consensus size: 116
23712 CAAAGCGACT
* * * * ** * *
23722 AGGATTGAGTCAAGGTCAAAATAAATTATCGAAATAAAACCATGAATCATAAAAAATGATCTGGA
1 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTGGA
* * * * *
23787 CTAAG-TCAAGATCAAGTGATCGGGATTAAACCATAAGTCAGATGAGTGACT
66 CTGAGCT-AAGATCAAGTGATCGGGATGAAACCACAAGTCAAATGAGTGACC
* * * * *
23838 AAGATCGAGTCAAAGTCG--A-AAATGATTAGGACTGAAACCACGAATCATTAAAAATAATCTGG
1 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGA-TGAAACCACGAATCATAAAAAATGATCTGG
* *
23900 ACTGAGCTAAGATCAAGTGATCGGGATGAAACTACGAGTCAAATGAGGTGACC
65 ACTGAGCTAAGATCAAGTGATCGGGATGAAACCACAAGTCAAATGA-GTGACC
* *
23953 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAATCACGAATCATAAAAAATGATCTAGA
1 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTGGA
* ** * * * * *
24018 CTGAGCCAAGATCAAACGA-CTGAGATGAAACCATAAATCAAATGAAATAAAGCGATC
66 CTGAGCTAAGATCAAGTGATC-GGGATGAAACCACAAGTCAAATG------AGTGACC
* * * ** ** ** * * *
24075 AAGA-CTGAGTCAAGGTCTAAAACAAATGATCAGGACAAAACCATAAATCATCAGAAATGATTTG
1 AGGATC-GAGTCAAGGTC-GAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTG
* * * * ** * * *
24139 GATTGAGCCAATACCAAGTGATCGGGGCGAAACCATAAATCAAAATTAAAATAAAGTGACC
64 GACTGAGCTAAGATCAAGTGATCGGGATGAAACC----A-C--AAGTCAAAT-GAGTGACC
* ** * * *
24200 AGGATCGAGTCAAGGTCGAAATAAATGATCGAAATGAAACCACGAATC--AAGAAATAATCTAGA
1 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTGGA
* * *** * * * * * * ** *
24263 TTGAGCCAAGATCAAACAATTGAGG-CGAAACTATAGGTCCAAATAAAACGATC
66 CTGAGCTAAGATCAAGTGATCG-GGATGAAACCACAAGT-CAAAT-GAGTGACC
* * ** *
24316 AGAATTGAGTCAAGGTCGAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCTGG
1 AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTGG
24380 TGAGCGAGAT
Statistics
Matches: 411, Mismatches: 102, Indels: 56
0.72 0.18 0.10
Matches are distributed among these distances:
113 7 0.02
114 65 0.16
115 24 0.06
116 67 0.16
117 62 0.15
118 23 0.06
121 1 0.00
122 51 0.12
123 60 0.15
124 23 0.06
125 19 0.05
126 1 0.00
127 1 0.00
130 7 0.02
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (116 bp):
AGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAACCACGAATCATAAAAAATGATCTGGA
CTGAGCTAAGATCAAGTGATCGGGATGAAACCACAAGTCAAATGAGTGACC
Found at i:24290 original size:122 final size:120
Alignment explanation
Indices: 23947--24364 Score: 332
Period size: 122 Copynumber: 3.5 Consensus size: 120
23937 GTCAAATGAG
* ** * *
23947 GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATTGGGATGAAATCACGAATCATAAAAAATGA
1 GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATCGAAATGAAACCACGAATC--AAGAAATGA
* * ** *
24012 TCTAGACTGAGCCAAGATCAAACGACTGAGATGAAACCATAAATCAAATGAAATAAA
64 TCTAGATTGAGCCAAGATCAAACGATTGAGGCGAAACCATAAATCAAATAAAATAAA
* * * * * * **
24069 GCGATCAAGA-CTGAGTCAAGGTCTAAAACAAATGATCAGGACA--AAACCATAAATCATCAGAA
1 GTGACCAGGATC-GAGTCAAGGTC-GAAATAAATGATC--GAAATGAAACCACGAATCA--AGAA
* * * * ** * *
24131 ATGATTTGGATTGAGCCAATACCAAGTGATCGGGGCGAAACCATAAATCAAAATTAAAATAAA
60 ATGATCTAGATTGAGCCAAGATCAAACGATTGAGGCGAAACCATAAATC-AAA-TAAAATAAA
*
24194 GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATCGAAATGAAACCACGAATCAAGAAATAATC
1 GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATCGAAATGAAACCACGAATCAAGAAATGATC
* * **
24259 TAGATTGAGCCAAGATCAAACAATTGAGGCGAAACTATAGGTCCAAAT---A-AAA
66 TAGATTGAGCCAAGATCAAACGATTGAGGCGAAACCATAAAT-CAAATAAAATAAA
* * * * * *
24311 -CGATCAGAATTGAGTCAAGGTCGAAATAAATGATC-AGGATGAAACCACAAATCA
1 GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATCGA-AATGAAACCACGAATCA
24365 TAAAAAATGA
Statistics
Matches: 231, Mismatches: 52, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
115 1 0.00
116 46 0.20
117 3 0.01
118 1 0.00
121 3 0.01
122 63 0.27
123 60 0.26
124 25 0.11
125 28 0.12
126 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (120 bp):
GTGACCAGGATCGAGTCAAGGTCGAAATAAATGATCGAAATGAAACCACGAATCAAGAAATGATC
TAGATTGAGCCAAGATCAAACGATTGAGGCGAAACCATAAATCAAATAAAATAAA
Found at i:24384 original size:116 final size:121
Alignment explanation
Indices: 23959--24384 Score: 359
Period size: 123 Copynumber: 3.5 Consensus size: 121
23949 GACCAGGATC
** * * *
23959 GAGTCAAGGTCGAAATAAATGATTGGGATGAAATCACGAATCATAAAAAATGATCTAGACTGAGC
1 GAGTCAAGGTCGAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCTAGAGTGAGC
* ** *
24024 CAAGATCAAACGACTGAGATGAAACCATAAAT-CAAATGAAATAAAGCGATCA-AGACT
66 CAAGATCAAACGATTGAGGCGAAACCATAAATCCAAAT--AATAAAGCGATCAGA-ATT
* * ** * * * * * *
24081 GAGTCAAGGTCTAAAACAAATGATCAGGACAAAACCATAAATCATCAGAAATGATTTGGATTGAG
1 GAGTCAAGGTC-GAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCTAGAGTGAG
* * ** * * * * * * *
24146 CCAATACCAAGTGATCGGGGCGAAACCATAAATCAAAATTAAAATAAAGTGACCAGGATC
65 CCAAGATCAAACGATTGAGGCGAAACCATAAATCCAAA-T--AATAAAGCGATCAGAATT
* * * * *
24206 GAGTCAAGGTCGAAATAAATGATC-GAAATGAAACCACGAATC--AAGAAATAATCTAGATTGAG
1 GAGTCAAGGTCGAAATAAATGATCAG-GATGAAACCACAAATCATAAAAAATGATCTAGAGTGAG
* * **
24268 CCAAGATCAAACAATTGAGGCGAAACTATAGGTCCAAAT-A-AAA-CGATCAGAATT
65 CCAAGATCAAACGATTGAGGCGAAACCATAAATCCAAATAATAAAGCGATCAGAATT
24322 GAGTCAAGGTCGAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCT-G-GTGAGC
1 GAGTCAAGGTCGAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCTAGAGTGAGC
24385 GAGATAATAC
Statistics
Matches: 235, Mismatches: 61, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
116 50 0.21
117 5 0.02
118 11 0.05
121 1 0.00
122 54 0.23
123 64 0.27
124 25 0.11
125 25 0.11
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (121 bp):
GAGTCAAGGTCGAAATAAATGATCAGGATGAAACCACAAATCATAAAAAATGATCTAGAGTGAGC
CAAGATCAAACGATTGAGGCGAAACCATAAATCCAAATAATAAAGCGATCAGAATT
Found at i:24709 original size:1 final size:1
Alignment explanation
Indices: 24703--24733 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
24693 CCCCTTTCCC
*
24703 TTTTTTTTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24734 GTTATCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:31298 original size:31 final size:32
Alignment explanation
Indices: 31263--31339 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
31253 AAATAATTTT
*
31263 AAAATATAAAAAATA-AGAGTTTTG-GATAT-TC
1 AAAATATAAAAAATATA-A-TTTTGAGACATCTC
31294 AAAATA-AAAAATATATAATTTTGAGACATCTC
1 AAAATATAAAAA-ATATAATTTTGAGACATCTC
31326 AAAA-ATAAAAAATA
1 AAAATATAAAAAATA
31340 GACAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 10 0.25
31 18 0.45
32 12 0.30
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (32 bp):
AAAATATAAAAAATATAATTTTGAGACATCTC
Found at i:31565 original size:17 final size:17
Alignment explanation
Indices: 31523--31565 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
31513 TTATTATTGA
*
31523 AATATATAAATTTCAAT
1 AATATATATATTTCAAT
*
31540 AATGTATATATTTCAAT
1 AATATATATATTTCAAT
31557 AATATATAT
1 AATATATAT
31566 TTGGCTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
AATATATATATTTCAAT
Found at i:32872 original size:399 final size:398
Alignment explanation
Indices: 32135--32932 Score: 1533
Period size: 399 Copynumber: 2.0 Consensus size: 398
32125 TAAGAAAAAA
32135 TAAGTTTTTAACTCTAAATTACGACTATAATTTTATAAATAGAAATGAAAAAGGAAACCAAGTAT
1 TAAGTTTTTAACTCTAAATTACGACTATAATTTTATAAATAGAAATGAAAAAGGAAACCAAGTAT
32200 ATGACTAGCAAACACAAGACTGTTCAAAGAAGAAAAAAAAATCAAATATATTTGAAAAGGATGCG
66 ATGACTAGCAAACACAAGACTGTTCAAAGAAGAAAAAAAAATCAAATATATTTGAAAAGGATGCG
32265 TATGAAAAATCCGAAATTATAGTATGCAACCAAAATTTGTTCGTATTGCTAGGAGAAAGTGGAAG
131 TATGAAAAATCCGAAATTATAGTATGCAACCAAAATTTGTTCGTATTGCTAGGAGAAAGTGGAAG
*
32330 GTGTGGCCCTTTGAATAATAATCCAAACTTTGGAGCTGGAAATTGGAATGCAAGTTGCTGTTTCA
196 GTGTGGCCCTTTGAATAATAATCCAAACTTTGCAGCTGGAAATTGGAATGCAAGTTGCTGTTTCA
*
32395 GTCCAAATCAATCAATTCAACTATATATATACATAGGTATTACTATCCCTGCCCATGCATTAAAC
261 GTCCAAATCAATCAATTCAACTATATATATACATAGGTATTACTATCCCTGCCCATGCATGAAAC
32460 TGCTCTGAAATCAAAATTTCTATGTGAGAAACCGTTTGGGTAGGGTCGACATTGGCAACGATGTG
326 TGCTCTGAAATCAAAATTTCTATGTGAGAAACCGTTTGGGTAGGGTCGACATTGGCAACGATGTG
32525 GATATTTC
391 GATATTTC
32533 TAAGTTTTTAACTCTAAATTACGACTATAATTTTATAAATAGAAATGAAAAAGGAAACCAAGTAT
1 TAAGTTTTTAACTCTAAATTACGACTATAATTTTATAAATAGAAATGAAAAAGGAAACCAAGTAT
32598 ATGACTAGCAAACACAAGACTGTTCAAAGAAGAAAAAAAAAATCAAATATATTTGAAAAGGATGC
66 ATGACTAGCAAACACAAGACTGTTCAAAGAAG-AAAAAAAAATCAAATATATTTGAAAAGGATGC
32663 GTATGAAAAATCCGAAATTATAGTATGCAACCAAAATTTGTTCGTATTGCTAGGAGAAAGTGGAA
130 GTATGAAAAATCCGAAATTATAGTATGCAACCAAAATTTGTTCGTATTGCTAGGAGAAAGTGGAA
32728 GGTGTGGCCCTTTGAATAATAATCCAAACTTTGCAGCTGGAAATTGGAATGCAAGTTGCTGTTTC
195 GGTGTGGCCCTTTGAATAATAATCCAAACTTTGCAGCTGGAAATTGGAATGCAAGTTGCTGTTTC
* * * *
32793 AGTCCAAATCAATCAATTCAACTATATATATATATAGGTATTACTATTCCTTCCCATGCATGCAA
260 AGTCCAAATCAATCAATTCAACTATATATATACATAGGTATTACTATCCCTGCCCATGCATGAAA
32858 CTGCTCTGAAATCAAAATTTCTATGTGAGAAACCGTTTGGGTAGGGTCGACATTGGCAACGATGT
325 CTGCTCTGAAATCAAAATTTCTATGTGAGAAACCGTTTGGGTAGGGTCGACATTGGCAACGATGT
32923 GGATATTTC
390 GGATATTTC
32932 T
1 T
32933 TGTCTCTCCT
Statistics
Matches: 393, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
398 97 0.25
399 296 0.75
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (398 bp):
TAAGTTTTTAACTCTAAATTACGACTATAATTTTATAAATAGAAATGAAAAAGGAAACCAAGTAT
ATGACTAGCAAACACAAGACTGTTCAAAGAAGAAAAAAAAATCAAATATATTTGAAAAGGATGCG
TATGAAAAATCCGAAATTATAGTATGCAACCAAAATTTGTTCGTATTGCTAGGAGAAAGTGGAAG
GTGTGGCCCTTTGAATAATAATCCAAACTTTGCAGCTGGAAATTGGAATGCAAGTTGCTGTTTCA
GTCCAAATCAATCAATTCAACTATATATATACATAGGTATTACTATCCCTGCCCATGCATGAAAC
TGCTCTGAAATCAAAATTTCTATGTGAGAAACCGTTTGGGTAGGGTCGACATTGGCAACGATGTG
GATATTTC
Found at i:36874 original size:14 final size:13
Alignment explanation
Indices: 36850--36894 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 13
36840 ATAAATACGT
36850 AATATAAATATAA
1 AATATAAATATAA
36863 AATATAAAATATAA
1 AATAT-AAATATAA
* *
36877 AATA-CAATAAAA
1 AATATAAATATAA
36889 AATATA
1 AATATA
36895 TGAAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 10 0.37
13 5 0.19
14 12 0.44
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:36890 original size:19 final size:20
Alignment explanation
Indices: 36850--36894 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
36840 ATAAATACGT
*
36850 AATATAAATATAAAATATAA
1 AATATAAATATAAAATAAAA
*
36870 AATATAAA-ATACAATAAAA
1 AATATAAATATAAAATAAAA
36889 AATATA
1 AATATA
36895 TGAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AATATAAATATAAAATAAAA
Found at i:36892 original size:7 final size:7
Alignment explanation
Indices: 36850--36880 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
36840 ATAAATACGT
36850 AATAT-A
1 AATATAA
36856 AATATAA
1 AATATAA
36863 AATATAA
1 AATATAA
36870 AATATAA
1 AATATAA
36877 AATA
1 AATA
36881 CAATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATATAA
Found at i:36895 original size:21 final size:20
Alignment explanation
Indices: 36851--36920 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
36841 TAAATACGTA
* *
36851 ATATAAATATAAAATATAAA-
1 ATATAAA-ATAATATAAAAAT
36871 ATATAAAATACA-ATAAAAAAT
1 ATATAAAATA-ATAT-AAAAAT
*
36892 ATATGAAATAATATAAAAAT
1 ATATAAAATAATATAAAAAT
36912 ATATGAAAA
1 ATAT-AAAA
36921 GAAAGAACAG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
19 5 0.12
20 23 0.55
21 14 0.33
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (20 bp):
ATATAAAATAATATAAAAAT
Found at i:36911 original size:20 final size:19
Alignment explanation
Indices: 36882--36919 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
36872 TATAAAATAC
36882 AATAAAAAATATATGAAAT
1 AATAAAAAATATATGAAAT
36901 AATATAAAAATATATGAAA
1 AATA-AAAAATATATGAAA
36920 AGAAAGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAAAAAATATATGAAAT
Found at i:38534 original size:11 final size:11
Alignment explanation
Indices: 38512--38542 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
38502 CAAATTTTTA
38512 AATAAGAATATT
1 AATAA-AATATT
38524 AATAAAATATT
1 AATAAAATATT
38535 AATAAAAT
1 AATAAAAT
38543 TTCTAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
AATAAAATATT
Found at i:50168 original size:47 final size:47
Alignment explanation
Indices: 50116--50495 Score: 446
Period size: 47 Copynumber: 8.2 Consensus size: 47
50106 AAAAGATAAG
*
50116 ATTTTAAAGTTGTTGAGCCTCT-CTTGAGAGGAGCTTTTTCAAATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGC-TGAGAGGAGCTTTTTCAAATGAA
* * *
50163 ATTTTAAAGTTATTGAGCCTCTGTTGAGAGGATCCCTTTTTCAAATGAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA--GCTTTTTCAAATGAA
* * * * *
50212 AATTTAAAGTTGTTGAGCCT-TACTGAGAGGAACTTTTTTAAATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAA
50258 ATTTT-AA-------AG--T-TGCTGAGAGGAGCCCTTTTTCAAATGAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAATGAA
*
50296 ATTTTAAAGTTGTTGAGCCTTTGCTGAGA-GAGCCATTTTTCAAATGAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTTCAAATGAA
* *
50344 ATTTTAAAGTTTTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAA
* *
50391 ATTTTAAAATTGTTGAACCTCTGCTGAGAGGAGCCCTTTTTCAAATGAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAATGAA
*
50440 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATAAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAA
50487 ATTTTAAAG
1 ATTTTAAAG
50496 AGGAGCTTTT
Statistics
Matches: 287, Mismatches: 26, Indels: 40
0.81 0.07 0.11
Matches are distributed among these distances:
36 11 0.04
38 19 0.07
39 2 0.01
45 2 0.01
46 18 0.06
47 95 0.33
48 54 0.19
49 86 0.30
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (47 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAA
Found at i:50275 original size:36 final size:37
Alignment explanation
Indices: 50234--50312 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
50224 TTGAGCCTTA
* *
50234 CTGAGAGGA-ACTTTTTTAAATGAGATTTTAAAGTTG
1 CTGAGAGGACACTTTTTCAAATGAAATTTTAAAGTTG
*
50270 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTG
1 CTGAGAGGA-CACTTTTTCAAATGAAATTTTAAAGTTG
*
50308 TTGAG
1 CTGAG
50313 CCTTTGCTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 9 0.24
38 28 0.76
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (37 bp):
CTGAGAGGACACTTTTTCAAATGAAATTTTAAAGTTG
Found at i:50304 original size:84 final size:86
Alignment explanation
Indices: 50187--50456 Score: 253
Period size: 84 Copynumber: 3.0 Consensus size: 86
50177 GAGCCTCTGT
*
50187 TGAGAGGATCCCTTTTTCAAATGAAAATTTAAAGTTGTTGAGCC-TTACTGAGAG-GA-ACTTTT
1 TGAGAGGAGCCCTTTTTCAAATGAAAATTTAAAGTTGTTGAGCCTTTACTGAGAGAGACA-TTTT
* *
50249 TTAAATGAGATTTTAAAGTTGC
65 TCAAATGAAATTTTAAAGTTGC
* * *
50271 TGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTTTGCTGAGAGAGCCATTTTT
1 TGAGAGGAGCCCTTTTTCAAATGAAAATTTAAAGTTGTTGAGCCTTTACTGAGAGAGACATTTTT
50336 CAAATGAAATTTTAAAGTTTTTGAGCCTCTGC
66 CAAATGAAATTTT-AA-------AG--T-TGC
* * * * * * * *
50368 TGAGAGGAG--CTTTTTCAAATGAGATTTTAAAATTGTTGAACCTCTGCTGAGAGGAGCCCTTTT
1 TGAGAGGAGCCCTTTTTCAAATGAAAATTTAAAGTTGTTGAGCCTTTACTGAGA-GAGACATTTT
*
50431 TCAAATGAAATTTTAAAGTTGT
65 TCAAATGAAATTTTAAAGTTGC
50453 TGAG
1 TGAG
50457 CCTCTGCTGA
Statistics
Matches: 159, Mismatches: 12, Indels: 29
0.80 0.06 0.14
Matches are distributed among these distances:
84 42 0.26
85 15 0.09
86 18 0.11
87 3 0.02
88 2 0.01
94 2 0.01
95 41 0.26
96 24 0.15
97 12 0.08
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (86 bp):
TGAGAGGAGCCCTTTTTCAAATGAAAATTTAAAGTTGTTGAGCCTTTACTGAGAGAGACATTTTT
CAAATGAAATTTTAAAGTTGC
Found at i:50506 original size:28 final size:28
Alignment explanation
Indices: 50466--50523 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
50456 GCCTCTGCTG
50466 AGAGGAGCTTTTTCAAATAAAATTTTAA
1 AGAGGAGCTTTTTCAAATAAAATTTTAA
*
50494 AGAGGAGCTTTTTCAAATGAAATTTTAA
1 AGAGGAGCTTTTTCAAATAAAATTTTAA
50522 AG
1 AG
50524 TTGTTGAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (28 bp):
AGAGGAGCTTTTTCAAATAAAATTTTAA
Found at i:50513 original size:75 final size:76
Alignment explanation
Indices: 50417--50660 Score: 283
Period size: 75 Copynumber: 3.0 Consensus size: 76
50407 ACCTCTGCTG
50417 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
1 AGAGGAG-CCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
*
50482 ATAAAATTTTAA
65 ATGAAATTTTAA
*
50494 AGAGGAG-CTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCA
1 AGAGGAGCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCA
50558 AATGAAATTTTAAA
64 AATGAAATTTT-AA
* * *
50572 GTTGTTGAGCCTGAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGCCTCTGCTGAGAGG
1 -------A----GAGGAG-CCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG
*
50637 AGCTTTTTCAAATGAGATTTTAA
54 AGCTTTTTCAAATGAAATTTTAA
50660 A
1 A
50661 ATTATTGAGC
Statistics
Matches: 144, Mismatches: 7, Indels: 28
0.80 0.04 0.16
Matches are distributed among these distances:
75 46 0.32
77 25 0.17
78 2 0.01
81 1 0.01
85 1 0.01
88 2 0.01
89 24 0.17
91 43 0.30
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (76 bp):
AGAGGAGCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAA
TGAAATTTTAA
Found at i:50564 original size:49 final size:49
Alignment explanation
Indices: 50494--50971 Score: 538
Period size: 49 Copynumber: 10.2 Consensus size: 49
50484 AAAATTTTAA
*
50494 AGAGGAG--CTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTACTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
50541 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAG---C--CT-
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
* * *
50584 -GAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGCCTCTGCTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
* * *
50632 AGAGGAG--CTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTGCTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
*
50679 AGATGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
50728 AGAGGAG--CTTTTTCAAATGAAATTTTAAAGTTGTTGAG---C--CTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
*
50770 AGA--AGCCCTTTTTCAAATAAAATTTTAAAGTTGTTGAGCCTCTGCTG
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
* * * * * *
50817 AGAGAAGCCTTTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTTTACTA
1 AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
* * * *
50866 AGAGGAG--CTTTTCCAAAAT-AGATTTTTAAAGTTATAGAGCCTCTGCTG
1 AGAGGAGCCCTTTTTC-AAATGA-AATTTTAAAGTTGTTGAGCCTCTGCTG
* * *
50914 AGAGGAG-CCTTTTTCAAGATAAAATTTTTAAAGTTGTCGAGCCTCAAG-TG
1 AGAGGAGCCCTTTTTCAA-ATGAAA-TTTTAAAGTTGTTGAGCCTC-TGCTG
50964 AGAGGAGC
1 AGAGGAGC
50972 ATTTTCGATT
Statistics
Matches: 367, Mismatches: 36, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
40 2 0.01
42 72 0.20
44 3 0.01
45 2 0.01
46 1 0.00
47 92 0.25
48 33 0.09
49 133 0.36
50 28 0.08
51 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (49 bp):
AGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
Found at i:50741 original size:262 final size:268
Alignment explanation
Indices: 50270--50859 Score: 886
Period size: 262 Copynumber: 2.2 Consensus size: 268
50260 TTTAAAGTTG
50270 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTTTGCTGAGAGAGCCATTTT
1 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAG-C----CTGAGAGAGCCATTTT
* * * *
50335 TCAAATGAAATTTTAAAGTTTTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAA
61 TCAAATAAAAATTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAA
*
50400 TTGTTGAACCTCTGCTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCT
126 TTATTGAACCTCTGCTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCT
*
50465 GAGAGGAGCTTTTTCAAATAAAATTTTAAA-GA-G-G-AG-CTTTTTCAAATGAAATTTTAAAGT
191 GAGAGGAGCTTTTTCAAATAAAATTTTAAATGACGAGAAGCCTTTTTCAAATAAAATTTTAAAGT
50525 TGTTGAGCCTCTA
256 TGTTGAGCCTCTA
*
50538 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTGAG-GAGCCCTTTTTCAAA
1 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTGAGAGAGCCATTTTTCAAA
50602 TAAAAATTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAATTATT
66 TAAAAATTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAATTATT
* *
50667 GAGCCTCTGCTGAGATGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
131 GAACCTCTGCTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
*
50732 GAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTGAGAAGCCCTTTTTCAAATAAAATTTTA
196 GAGCTTTTTCAAATAAAATTTTAAA-----TGA--C-GAGAAG-CCTTTTTCAAATAAAATTTTA
*
50797 AAGTTGTTGAGCCTCTG
252 AAGTTGTTGAGCCTCTA
* * *
50814 CTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAGTTGTTGAGCCT
1 CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCT
50860 TTACTAAGAG
Statistics
Matches: 294, Mismatches: 14, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
262 161 0.55
263 5 0.02
267 1 0.00
268 45 0.15
272 1 0.00
273 1 0.00
274 2 0.01
276 78 0.27
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (268 bp):
CTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTGAGAGAGCCATTTTTCAAA
TAAAAATTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAATTATT
GAACCTCTGCTGAGAGGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
GAGCTTTTTCAAATAAAATTTTAAATGACGAGAAGCCTTTTTCAAATAAAATTTTAAAGTTGTTG
AGCCTCTA
Found at i:50771 original size:138 final size:139
Alignment explanation
Indices: 50494--50958 Score: 514
Period size: 138 Copynumber: 3.3 Consensus size: 139
50484 AAAATTTTAA
*
50494 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCAA
1 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCCCTTTTTCAA
* **
50559 ATGAAATTTTAAAGTTGTTGAG-C-CTG-AG-GA-GCCCTTTTTCAAATAAAAATTTAAAGTTGT
65 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATAAAAATTTAAAGTTGT
50619 TAAGCCTCTGCTG
130 TAAG-C-C-GCTG
* * *
50632 AGAGGAGCTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTGCTGAGATGAGCCCTTTTTCAA
1 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCCCTTTTTCAA
* *
50697 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGT
65 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATAAAAATTTAAAGTTGT
*
50762 TGAG-C-CTG
130 TAAGCCGCTG
* ** * *
50770 AGAAGCCCTTTTTCAAATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCTTTTTTCAA
1 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCCCTTTTTCAA
* * * * * * **
50835 ATGAGATTTTAAAGTTGTTGAGCCTTTACTAAGAGGAGCTTTTCCAAAATAGATTTTTAAAGTT-
65 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAATAAAAATTTAAAGTTG
*
50899 ATAGAGCCTCTGCTG
129 TTA-AG-C-C-GCTG
* *
50914 AGAGGAGCCTTTTTCAAGATAAAATTTTTAAAGTTGTCGAGCCTC
1 AGAGGAG-CTTTTTCAA-ATGAAA-TTTTAAAGTTGTTGAGCCTC
50959 AAGTGAGAGG
Statistics
Matches: 278, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
137 1 0.00
138 181 0.65
139 18 0.06
140 4 0.01
141 1 0.00
142 3 0.01
143 29 0.10
144 7 0.03
145 9 0.03
146 6 0.02
147 19 0.07
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (139 bp):
AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCCCTTTTTCAAA
TGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATAAAAATTTAAAGTTGTT
AAGCCGCTG
Found at i:50815 original size:185 final size:186
Alignment explanation
Indices: 50493--50957 Score: 686
Period size: 185 Copynumber: 2.5 Consensus size: 186
50483 TAAAATTTTA
*
50493 AAGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCA
1 AAGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCA
*
50558 AATGAAATTTTAAAGTTGTTGAGCCTGAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAG
65 AATGAAATTTTAAAGTTGTTGAGCCTGAGAAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAG
* *
50623 CCTCTGCTGAGAGGAG-C-TTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTGCT
130 CCTCTGCTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTACT
* *
50678 GAGATGAGCCCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTC
1 AAGAGGAG--CTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* *
50742 AAATGAAATTTTAAAGTTGTTGAGCCTGAGAAGCCCTTTTTCAAATAAAATTTTAAAGTTGTTGA
64 AAATGAAATTTTAAAGTTGTTGAGCCTGAGAAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAA
* * *
50807 GCCTCTGCTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTTTACT
129 GCCTCTGCTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTACT
* * * *
50865 AAGAGGAGCTTTTCCAAAAT-AGATTTTTAAAGTTATAGAGCCTCTGCTGAGAGGAGCCTTTTTC
1 AAGAGGAGCTTTTTC-AAATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* *
50929 AAGATAAAATTTTTAAAGTTGTCGAGCCT
64 AA-ATGAAA-TTTTAAAGTTGTTGAGCCT
50958 CAAGTGAGAG
Statistics
Matches: 252, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
185 98 0.39
186 36 0.14
187 95 0.38
188 5 0.02
189 18 0.07
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (186 bp):
AAGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
ATGAAATTTTAAAGTTGTTGAGCCTGAGAAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGC
CTCTGCTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTACT
Found at i:50927 original size:234 final size:232
Alignment explanation
Indices: 50494--50977 Score: 633
Period size: 234 Copynumber: 2.1 Consensus size: 232
50484 AAAATTTTAA
50494 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCAA
1 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAG-C-C-ACTGAGA-GAGCCCTTTTTCAA
*
50559 ATGAAATTTTAAAGTTGTTGAGCCTGAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGC
62 ATAAAATTTTAAAGTTGTTGAGCCTGAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGC
* * * * *
50624 CTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAATTATTGAGCCTCTGCTGAGATGAGCCC
127 CTCTACTAAGAGGAGCTTTTCCAAATGAGATTTTAAAATTATAGAGCCTCTGCTGAGAGGAGCCC
* * *
50689 TTTTTCAA-ATGAAA-TTTTAAAGTTGTTGAGCCTC-TGCTG
192 TTTTTCAAGATAAAATTTTTAAAGTTGTCGAGCCTCAAG-TG
50728 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAG-C-CTGAGA-AGCCCTTTTTCAAATAA
1 AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCACTGAGAGAGCCCTTTTTCAAATAA
* * * * *
50790 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCTTTTTTCAAATGAGATTTTAAAGTTGTTG
66 AATTTTAAAGTTGTTGAG---C--CTGAG-G-AGCCCTTTTTCAAATAAAAATTTAAAGTTGTTA
* *
50855 AGCCTTTACTAAGAGGAGCTTTTCCAAAAT-AGATTTTTAAAGTTATAGAGCCTCTGCTGAGAGG
124 AGCCTCTACTAAGAGGAGCTTTTCC-AAATGAGA-TTTTAAAATTATAGAGCCTCTGCTGAGAGG
50919 AG-CCTTTTTCAAGATAAAATTTTTAAAGTTGTCGAGCCTCAAGTG
187 AGCCCTTTTTCAAGATAAAATTTTTAAAGTTGTCGAGCCTCAAGTG
*
50964 AGAGGAGCATTTTC
1 AGAGGAGCTTTTTC
50978 GATTAAAAAA
Statistics
Matches: 221, Mismatches: 17, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
227 34 0.15
229 6 0.03
230 1 0.00
231 1 0.00
232 5 0.02
233 1 0.00
234 100 0.45
235 38 0.17
236 34 0.15
237 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (232 bp):
AGAGGAGCTTTTTCAAATGAAATTTTAAAGTTGTTGAGCCACTGAGAGAGCCCTTTTTCAAATAA
AATTTTAAAGTTGTTGAGCCTGAGGAGCCCTTTTTCAAATAAAAATTTAAAGTTGTTAAGCCTCT
ACTAAGAGGAGCTTTTCCAAATGAGATTTTAAAATTATAGAGCCTCTGCTGAGAGGAGCCCTTTT
TCAAGATAAAATTTTTAAAGTTGTCGAGCCTCAAGTG
Found at i:51151 original size:19 final size:18
Alignment explanation
Indices: 51096--51177 Score: 56
Period size: 20 Copynumber: 4.2 Consensus size: 18
51086 ACTTTATCCA
51096 AAATAAATAAATAAATACG
1 AAATAAATAAA-AAATACG
** *
51115 TAATATAGGTATAAAATACG
1 -AA-ATAAATAAAAAATACG
*
51135 AAATACAATAAAAAATATATG
1 AAATA-AAT-AAAAA-ATACG
*
51156 AAATAATATAAAAAATATG
1 AAATAA-ATAAAAAATACG
51175 AAA
1 AAA
51178 AAAAATAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 3 0.06
19 11 0.22
20 19 0.38
21 17 0.34
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAAAATACG
Found at i:51160 original size:21 final size:21
Alignment explanation
Indices: 51134--51173 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51124 TATAAAATAC
51134 GAAATACA-ATAAAAAATATAT
1 GAAATA-ATATAAAAAATATAT
51155 GAAATAATATAAAAAATAT
1 GAAATAATATAAAAAATAT
51174 GAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
GAAATAATATAAAAAATATAT
Found at i:51184 original size:21 final size:21
Alignment explanation
Indices: 51142--51184 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51132 ACGAAATACA
* *
51142 ATAAAAAATATATGAAATAAT
1 ATAAAAAATATATAAAAAAAT
51163 ATAAAAAATATGA-AAAAAAAT
1 ATAAAAAATAT-ATAAAAAAAT
51184 A
1 A
51185 GAATAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAAAAATATATAAAAAAAT
Found at i:52543 original size:23 final size:21
Alignment explanation
Indices: 52501--52553 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
52491 GAGTATTTAT
* *
52501 AAAAAATTTTCAATACAATAA
1 AAAAAATTTTAAATAAAATAA
52522 AAAAAATTTTAAATAAAAAATAA
1 AAAAAATTTTAAAT--AAAATAA
52545 ATAAAAATT
1 A-AAAAATT
52554 GATGAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 13 0.48
23 7 0.26
24 7 0.26
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATTTTAAATAAAATAA
Found at i:52561 original size:18 final size:19
Alignment explanation
Indices: 52540--52583 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
52530 TTAAATAAAA
52540 AATAAATAAAAAT-TGATG
1 AATAAATAAAAATATGATG
* *
52558 AATATATTAAAAATATGATT
1 AATA-AATAAAAATATGATG
52578 AATAAA
1 AATAAA
52584 AATGAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
AATAAATAAAAATATGATG
Found at i:55805 original size:17 final size:17
Alignment explanation
Indices: 55783--55815 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55773 AAATTTTGAT
55783 AAATTTAAATTAAAATA
1 AAATTTAAATTAAAATA
*
55800 AAATTTAAATTTAAAT
1 AAATTTAAATTAAAAT
55816 CAATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAATTAAAATA
Found at i:57043 original size:38 final size:37
Alignment explanation
Indices: 56974--57051 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
56964 ATAATTTTAT
* *
56974 ATATATTTCTTTTAAAATAAAATTTTCCAATAATATTC
1 ATATATCTCTTTTAAAATAAAACTTTCCAAT-ATATTC
* * *
57012 ATATATCTCTTTTAAATTTGAAACTTT-CAATATCTTC
1 ATATATCTCTTTTAAA-ATAAAACTTTCCAATATATTC
57049 ATA
1 ATA
57052 GATTTTCTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 8 0.24
38 19 0.56
39 7 0.21
ACGTcount: A:0.38, C:0.13, G:0.01, T:0.47
Consensus pattern (37 bp):
ATATATCTCTTTTAAAATAAAACTTTCCAATATATTC
Found at i:58493 original size:16 final size:15
Alignment explanation
Indices: 58472--58502 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
58462 CTAAAATGAG
58472 TAATAAAAATATAATA
1 TAATAAAAATA-AATA
58488 TAATAAAAATAAATA
1 TAATAAAAATAAATA
58503 ATATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATAAAAATAAATA
Found at i:59069 original size:19 final size:20
Alignment explanation
Indices: 59045--59085 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
59035 AAATACGTGG
59045 TAAATATAAAT-ATTAAAGA
1 TAAATATAAATAATTAAAGA
*
59064 TAAATATAAATAATTAAGGA
1 TAAATATAAATAATTAAAGA
59084 TA
1 TA
59086 GGATTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
TAAATATAAATAATTAAAGA
Done.