Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 136 of 211
Found at i:43056529 original size:7 final size:7
Alignment explanation
Indices: 43056517--43056600 Score: 71
Period size: 7 Copynumber: 12.1 Consensus size: 7
43056507 CGGGGTTTTT
43056517 GGGTTTG
1 GGGTTTG
*
43056524 GGGTTTA
1 GGGTTTG
43056531 GGGTTT-
1 GGGTTTG
43056537 GGGTTTG
1 GGGTTTG
* *
43056544 AGGTTTA
1 GGGTTTG
*
43056551 GGGTTTA
1 GGGTTTG
* *
43056558 TGATTTG
1 GGGTTTG
*
43056565 GGGGTTG
1 GGGTTTG
*
43056572 GGGGTTG
1 GGGTTTG
*
43056579 GGGGTTG
1 GGGTTTG
*
43056586 GGGGTTG
1 GGGTTTG
43056593 GGGTTTG
1 GGGTTTG
43056600 G
1 G
43056601 TTTTTGAGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 6 0.09
7 59 0.91
ACGTcount: A:0.06, C:0.00, G:0.55, T:0.39
Consensus pattern (7 bp):
GGGTTTG
Found at i:43056539 original size:20 final size:20
Alignment explanation
Indices: 43056514--43056556 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
43056504 GTTCGGGGTT
*
43056514 TTTGGGTTTGGGGTTTAGGG
1 TTTGGGTTTGAGGTTTAGGG
43056534 TTTGGGTTTGAGGTTTAGGG
1 TTTGGGTTTGAGGTTTAGGG
43056554 TTT
1 TTT
43056557 ATGATTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.00, G:0.44, T:0.49
Consensus pattern (20 bp):
TTTGGGTTTGAGGTTTAGGG
Found at i:43057231 original size:73 final size:72
Alignment explanation
Indices: 43057137--43057368 Score: 195
Period size: 73 Copynumber: 3.2 Consensus size: 72
43057127 GTCTATTGTA
* * *
43057137 TTAGTGGCGTTTTTCGGAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTTCGTTTTGA
1 TTAGTGGCGCTTTCCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTTCGTTTTGA
43057202 GTTATAG
66 GTTATAG
* * * * *** * *
43057209 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATT--TTAATTA-TGTTTATTGAAA-TGTTGTCGT
1 TTAGTGGCGCTTTCC-GAAAACGCCACAACATTGGGTAA--ACTG-TTGGGGAAACGGCT-TCGT
* *
43057270 TTT-TGTCTATTG
61 TTTGAGT-TATAG
** * *
43057282 TATTAGTGGCATTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTTCGTTTT
1 --TTAGTGGCGCTTTCCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTTCGTTTT
43057347 GAGTTATAG
64 GAGTTATAG
43057356 TTAGTGGCGCTTT
1 TTAGTGGCGCTTT
43057369 ACTTGAAACG
Statistics
Matches: 116, Mismatches: 31, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
71 3 0.03
72 30 0.26
73 31 0.27
74 31 0.27
75 18 0.16
76 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (72 bp):
TTAGTGGCGCTTTCCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTTCGTTTTGA
GTTATAG
Found at i:43057243 original size:147 final size:147
Alignment explanation
Indices: 43057062--43057388 Score: 582
Period size: 147 Copynumber: 2.2 Consensus size: 147
43057052 TACGTTGCTA
43057062 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTACGTTTATTGAAATGTTGTCATTTTT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTACGTTTATTGAAATGTTGTCATTTTT
* *
43057127 GTCTATTGTATTAGTGGCGTTTTTCGGAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
66 GTCTATTGTATTAGTGGCATTTTTCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
43057192 TTCGTTTTGAGTTATAG
131 TTCGTTTTGAGTTATAG
* *
43057209 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTATGTTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTACGTTTATTGAAATGTTGTCATTTTT
*
43057274 GTCTATTGTATTAGTGGCATTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
66 GTCTATTGTATTAGTGGCATTTTTCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
43057339 TTCGTTTTGAGTTATAG
131 TTCGTTTTGAGTTATAG
* * *
43057356 TTAGTGGCGCTTTACTTGAAACGCCGCAAAATT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATT
43057389 GTTCAAACAT
Statistics
Matches: 172, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 172 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (147 bp):
TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTACGTTTATTGAAATGTTGTCATTTTT
GTCTATTGTATTAGTGGCATTTTTCGAAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
TTCGTTTTGAGTTATAG
Found at i:43057451 original size:147 final size:145
Alignment explanation
Indices: 43057062--43057456 Score: 551
Period size: 147 Copynumber: 2.7 Consensus size: 145
43057052 TACGTTGCTA
*
43057062 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTACGTTTATTGAAATGTTGTCATTTTT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAA-TACGTTTATTGAAATGTTGCCA-TTTT
* *
43057127 GTCTATTGTATTAGTGGCGTTTTTCGGAAACGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
64 GTCTATTGTATTAGTGGCGTTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
43057192 TTCGTTTTGAGTTATAG
129 TTCGTTTTGAGTTATAG
* **
43057209 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATTATGTTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAA-TACGTTTATTGAAATGTTG-CCATTTT
*
43057274 GTCTATTGTATTAGTGGCATTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
64 GTCTATTGTATTAGTGGCGTTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGC
43057339 TTCGTTTTGAGTTATAG
129 TTCGTTTTGAGTTATAG
* * * * * *
43057356 TTAGTGGCGCTTTACTTGAAACGCCGCAAAATTGTTCAA-ACATTTGTTGAAACGTTGCCATTTT
1 TTAGTGGCGCTTTCCATAAAACGCCGCAAAATT-TT-AATACGTTTATTGAAATGTTGCCATTTT
* * * *
43057420 GT-AAATGTTATTAGTGGCGTTTTACCAAAAATGCCAC
64 GTCTATTG-TATTAGTGGCGTTTT-TCGAAAATGCCAC
43057457 GGGTTTGAGG
Statistics
Matches: 222, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
145 3 0.01
146 21 0.09
147 194 0.87
148 2 0.01
149 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (145 bp):
TTAGTGGCGCTTTCCATAAAACGCCGCAAAATTTTAATACGTTTATTGAAATGTTGCCATTTTGT
CTATTGTATTAGTGGCGTTTTTCGAAAATGCCACAACATTGGGTAAACTGTTGGGGAAACGGCTT
CGTTTTGAGTTATAG
Found at i:43058951 original size:10 final size:10
Alignment explanation
Indices: 43058945--43058973 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
43058935 AAATTTTAAA
43058945 TAATTTTATT
1 TAATTTTATT
43058955 TAATTTTATT
1 TAATTTTATT
43058965 TAATTTTAT
1 TAATTTTAT
43058974 AATTATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTTTATT
Found at i:43058961 original size:20 final size:20
Alignment explanation
Indices: 43058936--43058973 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43058926 GTTATGGGTA
43058936 AATTTTAAATAATTTTATTT
1 AATTTTAAATAATTTTATTT
**
43058956 AATTTTATTTAATTTTAT
1 AATTTTAAATAATTTTAT
43058974 AATTATTCAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTAAATAATTTTATTT
Found at i:43059039 original size:16 final size:16
Alignment explanation
Indices: 43059015--43059051 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
43059005 GTATTTATAA
*
43059015 TTATCGATTTGCAATT
1 TTATCGATTTACAATT
*
43059031 TTATTGATTTACAATT
1 TTATCGATTTACAATT
43059047 TTATC
1 TTATC
43059052 TCAATTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:43059200 original size:67 final size:67
Alignment explanation
Indices: 43059110--43059248 Score: 260
Period size: 67 Copynumber: 2.1 Consensus size: 67
43059100 ATTAATTGAT
*
43059110 TGAATGTCAATGAATTTTCAATTTTGGTTAGTTAATTGATTAAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTAAATGTTTAATAAATTCATTATAT
43059175 AA
66 AA
*
43059177 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTAAATGTTTAATAAATTCATTATAT
43059242 AA
66 AA
43059244 TGAAT
1 TGAAT
43059249 TCTCAAAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTAAATGTTTAATAAATTCATTATAT
AA
Found at i:43059518 original size:13 final size:13
Alignment explanation
Indices: 43059502--43059560 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
43059492 TTACTAAAAT
*
43059502 TTACTTTAATATA
1 TTACTTAAATATA
*
43059515 TTACTTGAATATA
1 TTACTTAAATATA
43059528 TTACTTAAATA-A
1 TTACTTAAATATA
*
43059540 TTTACTTAAATACA
1 -TTACTTAAATATA
43059554 TTACTTA
1 TTACTTA
43059561 CTAAAATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 1 0.02
13 40 0.95
14 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:43059733 original size:50 final size:49
Alignment explanation
Indices: 43059678--43059799 Score: 124
Period size: 52 Copynumber: 2.4 Consensus size: 49
43059668 CAATATTTAT
* *
43059678 TATATTTTTAAATATATTTTTACAATTTA-AT-TTAACTTATTA-ATAATATA
1 TATATTTTTAAGTATATTTTTAAAATTTATATCTT-AC--ATTACATAA-ATA
* *
43059728 TATATTCTTAAGTAATAATTTTTTAAAATTTATATCTTACATTACTTAAATA
1 TATATTTTTAAGT-AT-A-TTTTTAAAATTTATATCTTACATTACATAAATA
43059780 TATATTTTTAAGTATATTTT
1 TATATTTTTAAGTATATTTT
43059800 ACATGACTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
49 4 0.07
50 12 0.20
51 4 0.07
52 20 0.33
53 15 0.25
54 4 0.07
55 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (49 bp):
TATATTTTTAAGTATATTTTTAAAATTTATATCTTACATTACATAAATA
Found at i:43060227 original size:9 final size:9
Alignment explanation
Indices: 43060215--43060445 Score: 153
Period size: 9 Copynumber: 26.4 Consensus size: 9
43060205 TAGTTACATA
*
43060215 ATAACTTAT
1 ATAACTTAC
43060224 ATAAACTTAC
1 AT-AACTTAC
*
43060234 ATAA-TACAC
1 ATAACT-TAC
*
43060243 ATTACTTAC
1 ATAACTTAC
* *
43060252 ATAGCATAC
1 ATAACTTAC
43060261 ATAACTTAC
1 ATAACTTAC
* *
43060270 ACAACTTAA
1 ATAACTTAC
43060279 ATAA--TAC
1 ATAACTTAC
*
43060286 AAAACTTAC
1 ATAACTTAC
*
43060295 ATAACCTAC
1 ATAACTTAC
*
43060304 ATAACCTAC
1 ATAACTTAC
*
43060313 ATAATACATA-
1 AT-A-ACTTAC
43060323 ATAACTTAC
1 ATAACTTAC
43060332 --AACTTAC
1 ATAACTTAC
*
43060339 ATAACATAC
1 ATAACTTAC
* **
43060348 ATTACTTTG
1 ATAACTTAC
43060357 ATAACTTAC
1 ATAACTTAC
43060366 ATAACTTAC
1 ATAACTTAC
43060375 ATAA--TAC
1 ATAACTTAC
* *
43060382 ACAACTTAA
1 ATAACTTAC
*
43060391 ATAGCTTAC
1 ATAACTTAC
*
43060400 TTAA--TAC
1 ATAACTTAC
43060407 ATAACTTAC
1 ATAACTTAC
43060416 ATAACTT--
1 ATAACTTAC
*
43060423 ATACACGTAC
1 ATA-ACTTAC
43060433 ATAACTTAC
1 ATAACTTAC
43060442 ATAA
1 ATAA
43060446 TTGAATTAAT
Statistics
Matches: 169, Mismatches: 36, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
7 27 0.16
8 8 0.05
9 115 0.68
10 15 0.09
11 4 0.02
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:43060237 original size:38 final size:38
Alignment explanation
Indices: 43060150--43060241 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 38
43060140 CTTACATGTT
*
43060150 AACTTACATAATACATGACTTATATAAAATTCTCAAATA
1 AACTTACATAATACATGACTTACATAAAA-TCTCAAATA
* * * *
43060189 AACTTACATAATACATTAGTTACATAATAA-CTTATATA
1 AACTTACATAATACATGACTTACATAA-AATCTCAAATA
43060227 AACTTACATAATACA
1 AACTTACATAATACA
43060242 CATTACTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 21 0.45
39 24 0.51
40 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (38 bp):
AACTTACATAATACATGACTTACATAAAATCTCAAATA
Found at i:43060305 original size:43 final size:45
Alignment explanation
Indices: 43060227--43060349 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 45
43060217 AACTTATATA
* * * *
43060227 AACTTACATAATACACATTACTTACATAGCATACATAACTTACAC
1 AACTTAAATAATACACATAACTTACATAACATACATAACCTACAC
* *
43060272 AACTTAAATAATACA-A-AACTTACATAACCTACATAACCTACAT
1 AACTTAAATAATACACATAACTTACATAACATACATAACCTACAC
* *
43060315 AA--TACATAATA-ACTTACAACTTACATAACATACAT
1 AACTTAAATAATACAC--ATAACTTACATAACATACAT
43060350 TACTTTGATA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
40 1 0.02
41 8 0.12
43 25 0.38
44 18 0.27
45 14 0.21
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.28
Consensus pattern (45 bp):
AACTTAAATAATACACATAACTTACATAACATACATAACCTACAC
Found at i:43060307 original size:25 final size:25
Alignment explanation
Indices: 43060257--43060307 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43060247 CTTACATAGC
* *
43060257 ATACATAACTTACACAACTTAAATA
1 ATACAAAACTTACACAACCTAAATA
* *
43060282 ATACAAAACTTACATAACCTACATA
1 ATACAAAACTTACACAACCTAAATA
43060307 A
1 A
43060308 CCTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (25 bp):
ATACAAAACTTACACAACCTAAATA
Found at i:43060382 original size:34 final size:33
Alignment explanation
Indices: 43060261--43060446 Score: 131
Period size: 34 Copynumber: 5.7 Consensus size: 33
43060251 CATAGCATAC
* * *
43060261 ATAACTTACACAACTTAAATAATACAAAACTTA
1 ATAACTTACATAACTTACATAATACATAACTTA
* *
43060294 CATAACCTACATAACCTACATAATAC---A--TA
1 -ATAACTTACATAACTTACATAATACATAACTTA
* *
43060323 ATAACTTAC--AACTTACATAACATACATTACTTTG
1 ATAACTTACATAACTTACAT-A-ATACATAAC-TTA
*
43060357 ATAACTTACATAACTTACATAATACACAACTTAA
1 ATAACTTACATAACTTACATAATACATAACTT-A
* *
43060391 ATAGCTTACTTAA--TACATAACTTACATAACTT-
1 ATAACTTACATAACTTACATAA--TACATAACTTA
*
43060423 ATACACGTACATAACTTACATAAT
1 ATA-ACTTACATAACTTACATAAT
43060447 TGAATTAATA
Statistics
Matches: 120, Mismatches: 16, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
26 8 0.07
27 1 0.01
28 12 0.10
29 2 0.02
31 2 0.02
32 10 0.08
33 10 0.08
34 58 0.48
35 8 0.07
36 9 0.08
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (33 bp):
ATAACTTACATAACTTACATAATACATAACTTA
Found at i:43065996 original size:21 final size:21
Alignment explanation
Indices: 43065970--43066019 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
43065960 CTACAACTTA
*
43065970 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCAAGAG
* *
43065991 AAGCAGAAGCTGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
43066012 AAGCAGAG
1 AAGCAGAG
43066020 CAGACCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:43066475 original size:42 final size:42
Alignment explanation
Indices: 43066428--43066585 Score: 246
Period size: 42 Copynumber: 3.8 Consensus size: 42
43066418 AATAAACGCT
43066428 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* *
43066470 ACTAAAGTACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * * *
43066512 GCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCAAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
43066554 GCTAAAGAACAT-AGTCTTTAGCGGCGTTTTTT
1 GCTAAAGAACATGA-TCTTTAGCGGCGTTTTTT
43066586 GTTTGTAAAC
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 104 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
Found at i:43066488 original size:84 final size:84
Alignment explanation
Indices: 43066395--43066579 Score: 219
Period size: 84 Copynumber: 2.2 Consensus size: 84
43066385 CACTATTTTT
* * * *
43066395 CATGTTCTTTAGCGGCGCTTAAGAATAAACGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 CATGATCTTTAGCGGCGCTTAAGAATAAACGCCGCTAAAGAACATGATCTTTAGAGGCATTTTTT
* *
43066460 TCTAAGCGCCACTAAAGTA
66 TCAAAGCGCCACTAAAGAA
* ***** * *
43066479 CATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTT
1 CATGATCTTTAGCGGCGCTTAAGAATAAACGCCGCTAAAGAACATGATCTTTAGAGGCATTTTTT
*
43066544 TCAAAGCGCCGCTAAAGAA
66 TCAAAGCGCCACTAAAGAA
43066563 CAT-AGTCTTTAGCGGCG
1 CATGA-TCTTTAGCGGCG
43066580 TTTTTTGTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 1 0.01
84 84 0.99
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
CATGATCTTTAGCGGCGCTTAAGAATAAACGCCGCTAAAGAACATGATCTTTAGAGGCATTTTTT
TCAAAGCGCCACTAAAGAA
Found at i:43068171 original size:10 final size:10
Alignment explanation
Indices: 43068153--43068187 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
43068143 TTTTGCCCGG
*
43068153 GCCCAGCCCA
1 GCCCGGCCCA
43068163 GCCCGGCCCA
1 GCCCGGCCCA
*
43068173 GCCCGGCCCG
1 GCCCGGCCCA
43068183 GCCCG
1 GCCCG
43068188 AAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.60, G:0.31, T:0.00
Consensus pattern (10 bp):
GCCCGGCCCA
Found at i:43068172 original size:15 final size:15
Alignment explanation
Indices: 43068147--43068186 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
43068137 AAGTTTTTTT
43068147 GCCCGGGCCCAGCCCA
1 GCCC-GGCCCAGCCCA
*
43068163 GCCCGGCCCAGCCCG
1 GCCCGGCCCAGCCCA
43068178 GCCCGGCCC
1 GCCCGGCCC
43068187 GAAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.07, C:0.60, G:0.33, T:0.00
Consensus pattern (15 bp):
GCCCGGCCCAGCCCA
Found at i:43068223 original size:22 final size:24
Alignment explanation
Indices: 43068197--43068240 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43068187 GAAAAATATT
43068197 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
43068219 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
43068241 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:43068351 original size:9 final size:9
Alignment explanation
Indices: 43068337--43068364 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
43068327 TTTTGTTACA
43068337 ACAATTAAT
1 ACAATTAAT
43068346 ACAATTAAT
1 ACAATTAAT
43068355 ACAATTAAT
1 ACAATTAAT
43068364 A
1 A
43068365 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:43068386 original size:68 final size:68
Alignment explanation
Indices: 43068307--43068516 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
43068297 TCAAGTTTGT
*
43068307 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
43068372 AAA
66 AAA
43068375 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
43068440 AAA
66 AAA
*
43068443 TTTACTAATCAAATGTTAGATTTTATTACAGCAATTAATACAATTAA-A-AATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
43068506 AAT
66 AAA
43068509 TTTACTAA
1 TTTACTAA
43068517 CAATTTATTT
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 25 0.18
67 1 0.01
68 113 0.81
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:43068417 original size:9 final size:9
Alignment explanation
Indices: 43068405--43068432 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
43068395 TTTTATTACA
43068405 ACAATTAAT
1 ACAATTAAT
43068414 ACAATTAAT
1 ACAATTAAT
43068423 ACAATTAAT
1 ACAATTAAT
43068432 A
1 A
43068433 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:43068528 original size:16 final size:16
Alignment explanation
Indices: 43068505--43068546 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
43068495 AATAATTTGA
*
43068505 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
43068521 TTATTTTAATAACAAT
1 TAATTTTAATAACAAT
43068537 TAATTTTAAT
1 TAATTTTAAT
43068547 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:43068537 original size:59 final size:65
Alignment explanation
Indices: 43068307--43068540 Score: 300
Period size: 68 Copynumber: 3.6 Consensus size: 65
43068297 TCAAGTTTGT
* *
43068307 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTA-A-TTT-TAATAACAATTAATACAATTAATACAATTAATAATTTGAT
43068372 AAA
63 AAA
*
43068375 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTA-ATTTTA--ATAACAATTAATACAATTAATACAATTAATAATTTGAT
43068440 AAA
63 AAA
*
43068443 TTTACTAATCAAATGTTAGATTTTATTACAGCAATTAATACAATTAA-A-AATTAATAATTTGAT
1 TTTACTAATCAAATGTTA-ATTTTAATA-A-CAATTAATACAATTAATACAATTAATAATTTGAT
*
43068506 AAT
63 AAA
43068509 TTTACTAA-C-AAT-TT-ATTTTAATAACAATTAAT
1 TTTACTAATCAAATGTTAATTTTAATAACAATTAAT
43068541 TTTAATTTTA
Statistics
Matches: 157, Mismatches: 5, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
59 8 0.05
60 1 0.01
61 8 0.05
63 2 0.01
64 3 0.02
65 1 0.01
66 27 0.17
67 5 0.03
68 102 0.65
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.41
Consensus pattern (65 bp):
TTTACTAATCAAATGTTAATTTTAATAACAATTAATACAATTAATACAATTAATAATTTGATAAA
Found at i:43068548 original size:22 final size:22
Alignment explanation
Indices: 43068523--43068580 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
43068513 CTAACAATTT
* *
43068523 ATTTTAATAACAATTAATTTTA
1 ATTTTAATAAAAAATAATTTTA
*
43068545 ATTTTATTAAAAAATAATTTTA
1 ATTTTAATAAAAAATAATTTTA
*
43068567 ATTTTAATTAAAAA
1 ATTTTAATAAAAAA
43068581 CGGGCCGGGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTAATAAAAAATAATTTTA
Found at i:43069050 original size:114 final size:114
Alignment explanation
Indices: 43068868--43069389 Score: 735
Period size: 114 Copynumber: 4.6 Consensus size: 114
43068858 AAAATAAGCA
** * *
43068868 TTAGCGGCGTTTTCCAGACAA-CGCCGC-TAAAAACCTAAGCCCAGCGACG-CGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGA-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
43068930 TTCGGGGATTTAGTGGCGTTTTTAAGAAAACGTCGCTAATGCTCAGGGTT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
43068980 TTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
43069045 TCGGGGATTTAGCGGCGTTCTTAAGAAAGCGCCGCTAATGCTCAGGACT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
43069094 TTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
43069159 TCGTGGATTTAGTGGCGTTTTTAATAAAGCGCCGCTAATGTTCAGGGCC
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
43069208 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAGGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * **
43069273 TTGGGGATTTAGCGACGTTTTTAAGAAAGCGTTGCTAATGCTCAGGGCTT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC-T
* * * *
43069323 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCCGTTTTTTGATCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
43069388 TC
66 TC
43069390 AGGCGCCGCT
Statistics
Matches: 364, Mismatches: 42, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
111 2 0.01
112 21 0.06
113 20 0.05
114 262 0.72
115 59 0.16
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:43069428 original size:90 final size:92
Alignment explanation
Indices: 43069306--43069481 Score: 257
Period size: 92 Copynumber: 1.9 Consensus size: 92
43069296 AGAAAGCGTT
* * *
43069306 GCTAATGCTCAGGGCTTTTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAAAATCCTAAGCCCAACG
1 GCTAATGCTCAGAGCTTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACG
* *
43069370 ACGCCGTTTTTTGATCTTTCAGGCGCC
66 ACGCCGTTTTCTGAGCTTTCAGGCGCC
* * *
43069397 GCTAATGCTCATAGC-TTTAGCGGCATTTTTGGGACAGCGTCGCAAAAAAAAACCTAAGCCCAAC
1 GCTAATGCTCAGAGCTTTTAGCGGCATTTTTGGGAAAGCGCCGC-AAAAAAAACCTAAGCCCAAC
43069461 GACGCCGTTTTCTGAGCTTTC
65 GACGCCGTTTTCTGAGCTTTC
43069482 GGGGATTTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
90 25 0.33
91 13 0.17
92 37 0.49
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (92 bp):
GCTAATGCTCAGAGCTTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACG
ACGCCGTTTTCTGAGCTTTCAGGCGCC
Found at i:43069550 original size:41 final size:41
Alignment explanation
Indices: 43069487--43069565 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
43069477 CTTTCGGGGA
* *
43069487 TTTAGCGGTGTTTTTAATAAAGCGCCGCTAATGCTCAGTGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGTGC
*
43069528 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAG
43069566 GGATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGTGC
Found at i:43069923 original size:7 final size:7
Alignment explanation
Indices: 43069874--43069923 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
43069864 ATGTGTTAAT
43069874 GGTTTATG
1 GGTTTA-G
43069882 GGTTTAG
1 GGTTTAG
43069889 GGTTTTAG
1 GG-TTTAG
43069897 GGTTTA-
1 GGTTTAG
* *
43069903 AGTTTAT
1 GGTTTAG
43069910 GGTTTAG
1 GGTTTAG
43069917 GGTTTAG
1 GGTTTAG
43069924 ATTAACTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 5 0.14
7 19 0.51
8 13 0.35
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:43070068 original size:21 final size:22
Alignment explanation
Indices: 43070028--43070113 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 22
43070018 TTTGGTTTAT
* **
43070028 GGATTATGGGTTTAAAGGTT-G
1 GGATTAGGGGTTTAGGGGTTAG
*
43070049 GGATTTGGGGTTTAGGGGTTAG
1 GGATTAGGGGTTTAGGGGTTAG
*
43070071 TGATTAGGGG-TTAGGGGTTA-
1 GGATTAGGGGTTTAGGGGTTAG
* *
43070091 AGAGTTAGGGATTTAGGGGTTAG
1 GGA-TTAGGGGTTTAGGGGTTAG
43070114 AACTTAAGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.04
21 32 0.60
22 19 0.36
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (22 bp):
GGATTAGGGGTTTAGGGGTTAG
Found at i:43070070 original size:7 final size:7
Alignment explanation
Indices: 43070055--43070113 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
43070045 GTTGGGATTT
43070055 GGGGTTTA
1 GGGG-TTA
43070063 GGGGTTA
1 GGGGTTA
* *
43070070 GTGATTA
1 GGGGTTA
43070077 GGGGTTA
1 GGGGTTA
43070084 GGGGTTA
1 GGGGTTA
* *
43070091 AGAGTTA
1 GGGGTTA
*
43070098 GGGATTTA
1 GGG-GTTA
43070106 GGGGTTA
1 GGGGTTA
43070113 G
1 G
43070114 AACTTAAGGA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
7 30 0.75
8 10 0.25
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.32
Consensus pattern (7 bp):
GGGGTTA
Found at i:43070079 original size:14 final size:14
Alignment explanation
Indices: 43070060--43070113 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
43070050 GATTTGGGGT
*
43070060 TTAGGGGTTAGTGA
1 TTAGGGGTTAGGGA
*
43070074 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGGA
* *
43070088 TTAAGAGTTAGGGA
1 TTAGGGGTTAGGGA
43070102 TTTAGGGGTTAG
1 -TTAGGGGTTAG
43070114 AACTTAAGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 23 0.72
15 9 0.28
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGGA
Found at i:43070080 original size:22 final size:22
Alignment explanation
Indices: 43070050--43070114 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
43070040 TAAAGGTTGG
* *
43070050 GATTTGGGGTTTAGGGGTTAGT
1 GATTAGGGGTTTAGGGGTTAGA
43070072 GATTAGGGG-TTAGGGGTTA-A
1 GATTAGGGGTTTAGGGGTTAGA
*
43070092 GAGTTAGGGATTTAGGGGTTAGA
1 GA-TTAGGGGTTTAGGGGTTAGA
43070115 ACTTAAGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 18 0.49
23 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.34
Consensus pattern (22 bp):
GATTAGGGGTTTAGGGGTTAGA
Found at i:43070120 original size:29 final size:28
Alignment explanation
Indices: 43070066--43070121 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
43070056 GGGTTTAGGG
* ***
43070066 GTTAGTGATTAGGGGTTAGGGGTTAAGA
1 GTTAGGGATTAGGGGTTAGAACTTAAGA
43070094 GTTAGGGATTTAGGGGTTAGAACTTAAG
1 GTTAGGGA-TTAGGGGTTAGAACTTAAG
43070122 GATTCAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (28 bp):
GTTAGGGATTAGGGGTTAGAACTTAAGA
Found at i:43070124 original size:22 final size:22
Alignment explanation
Indices: 43070081--43070125 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
43070071 TGATTAGGGG
* *
43070081 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGACTTAAGGAT
43070103 TTAGGGGTT-AGAACTTAAGGAT
1 TTAGGGGTTAAG-ACTTAAGGAT
43070125 T
1 T
43070126 CAAGGGTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (22 bp):
TTAGGGGTTAAGACTTAAGGAT
Found at i:43070461 original size:19 final size:18
Alignment explanation
Indices: 43070432--43070485 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
43070422 GGACCAAATT
*
43070432 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
43070450 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
43070469 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
43070486 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:43070875 original size:16 final size:15
Alignment explanation
Indices: 43070854--43070892 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
43070844 ACGCTGTGGT
43070854 TTTATTCCCCTCCAAA
1 TTTATTCCCCTCC-AA
*
43070870 TTTATTCCCCTTCAA
1 TTTATTCCCCTCCAA
43070885 TTT-TTCCC
1 TTTATTCCC
43070893 ATACCCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 12 0.55
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTATTCCCCTCCAA
Found at i:43075362 original size:54 final size:53
Alignment explanation
Indices: 43075275--43075426 Score: 178
Period size: 45 Copynumber: 3.0 Consensus size: 53
43075265 AAAATCATGT
* ***
43075275 TCTTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGA
1 TCTTTAGCGGCGTTTGTGGGT-AAGGCATTGCTAAAGATCAT-TTCTTTAGCGGA
43075329 TCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCA--T-TTT-----A
1 TCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTTCTTTAGCGGA
43075374 TCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTTTCTTTAGCGG
1 TCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCA-TTTCTTTAGCGG
43075427 CGCTTTTACC
Statistics
Matches: 84, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
45 41 0.49
48 1 0.01
49 3 0.04
50 3 0.04
51 1 0.01
54 32 0.38
55 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.36
Consensus pattern (53 bp):
TCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTTCTTTAGCGGA
Found at i:43075392 original size:45 final size:44
Alignment explanation
Indices: 43075328--43075428 Score: 186
Period size: 45 Copynumber: 2.3 Consensus size: 44
43075318 TCTTTAGCGG
43075328 ATCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTTT
1 ATCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCA-TTT
43075373 ATCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTT
1 ATCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTT
43075417 -TCTTTAGCGGCG
1 ATCTTTAGCGGCG
43075429 CTTTTACCAC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 12 0.21
44 3 0.05
45 41 0.73
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (44 bp):
ATCTTTAGCGGCGTTTGTGGGTAAGGCATTGCTAAAGATCATTT
Found at i:43075450 original size:43 final size:43
Alignment explanation
Indices: 43075403--43075495 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
43075393 GTAAGGCATT
* ** * *
43075403 GCTAAAGATCATTTTCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTAAACACAAACGCC
43075446 GCTAAAGAACATGATCTTTAGCGGCGCTTTAAACACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTAAACACAAACGCC
*
43075489 GCAAAAG
1 GCTAAAG
43075496 TTAGCGACGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTAAACACAAACGCC
Found at i:43079743 original size:8 final size:8
Alignment explanation
Indices: 43079732--43079757 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43079722 TTAAAAATTC
43079732 AAAATAAT
1 AAAATAAT
43079740 AAAATAAT
1 AAAATAAT
43079748 AAAATAAT
1 AAAATAAT
43079756 AA
1 AA
43079758 GAGCTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:43087709 original size:20 final size:21
Alignment explanation
Indices: 43087684--43087723 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43087674 AATCGAAGGT
*
43087684 TGTTACCGGTATTT-TTTTTC
1 TGTTACAGGTATTTATTTTTC
*
43087704 TGTTACATGTATTTATTTTT
1 TGTTACAGGTATTTATTTTT
43087724 GTTGTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (21 bp):
TGTTACAGGTATTTATTTTTC
Found at i:43092695 original size:85 final size:85
Alignment explanation
Indices: 43092552--43092722 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
43092542 GGCCGGCCAT
43092552 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43092617 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43092637 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43092702 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43092722 G
1 G
43092723 GGCGTGGGCA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:43094052 original size:47 final size:47
Alignment explanation
Indices: 43093998--43094819 Score: 1043
Period size: 47 Copynumber: 17.6 Consensus size: 47
43093988 TATTTGAATA
43093998 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* **
43094045 AATGTGAAAGTGTATATATATCTGATAAGGCCTAATGGCGGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
43094094 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
43094141 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
43094188 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
43094237 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
43094286 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
43094333 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
43094380 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094429 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094476 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
43094523 AATGTGAACA-TG--TGTATGTG-T---G-ATAA-GG-C---GTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094558 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094605 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094652 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
43094699 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
43094746 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
43094793 GATATGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43094820 TCCCGAAGGG
Statistics
Matches: 714, Mismatches: 41, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
35 18 0.03
37 6 0.01
38 2 0.00
39 2 0.00
40 2 0.00
41 2 0.00
42 2 0.00
43 2 0.00
44 2 0.00
45 6 0.01
46 1 0.00
47 484 0.68
49 184 0.26
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:43094302 original size:143 final size:141
Alignment explanation
Indices: 43093998--43094819 Score: 1022
Period size: 143 Copynumber: 5.9 Consensus size: 141
43093988 TATTTGAATA
*
43093998 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* * **
43094062 ATATCTGATAAGGCCTAATGGCGGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* *
43094127 TAGCCGATGTGATG
128 TGGCCAATGTGATG
* *
43094141 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* *
43094205 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
43094270 AATGGCCGATGTGATG
126 AATGGCCAATGTGATG
* * *
43094286 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
43094350 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAA
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
43094415 TGGCCAATGTGATG
128 TGGCCAATGTGATG
* *
43094429 AATGTGAACATGTG-TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAACA-GTGATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* * *
43094492 TATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATGTG-T---G-ATAA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAA
43094549 -GG-C---GTGATG
128 TGGCCAATGTGATG
* *
43094558 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAACAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* * * *
43094621 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAA
43094685 TGGCCAATGTGATG
128 TGGCCAATGTGATG
*
43094699 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * *
43094763 ATGTGACAAGGCCGAATGGCCAATGTGATGGATATGGAAGTGTATAAATGTGATAAG
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43094820 TCCCGAAGGG
Statistics
Matches: 620, Mismatches: 37, Indels: 46
0.88 0.05 0.07
Matches are distributed among these distances:
127 2 0.00
129 102 0.16
131 6 0.01
132 2 0.00
133 2 0.00
134 2 0.00
135 2 0.00
136 2 0.00
137 2 0.00
138 2 0.00
139 7 0.01
140 2 0.00
141 114 0.18
143 275 0.44
144 3 0.00
145 95 0.15
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (141 bp):
AATGTGAACAGTGATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCAATGTGATG
Found at i:43094583 original size:35 final size:35
Alignment explanation
Indices: 43094517--43094586 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
43094507 AATGGCCAAT
** * *
43094517 GTGATGAATGTGAACATGTGTATGTGTGATAAGGC
1 GTGATGAATGTGAACATGCATATATGAGATAAGGC
43094552 GTGATGAATGTGAACATGCATATATGAGATAAGGC
1 GTGATGAATGTGAACATGCATATATGAGATAAGGC
43094587 CGAATGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (35 bp):
GTGATGAATGTGAACATGCATATATGAGATAAGGC
Found at i:43105092 original size:132 final size:132
Alignment explanation
Indices: 43104855--43105283 Score: 786
Period size: 132 Copynumber: 3.2 Consensus size: 132
43104845 ATTGATGAAA
**
43104855 CACCAAGCCTTGTCTCCCTGAGCAGCAGAAGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
*
43104920 GCAGTAGTGGAGCAGATCGAAGACCGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
43104985 GC
131 GC
43104987 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
* *
43105052 ACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
43105117 GC
131 GC
* * *
43105119 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
43105184 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
43105249 GC
131 GC
43105251 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAG
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAG
43105284 CAGATCGAAG
Statistics
Matches: 287, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 287 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:43105305 original size:220 final size:220
Alignment explanation
Indices: 43105043--43105503 Score: 841
Period size: 220 Copynumber: 2.1 Consensus size: 220
43105033 GAAGATCTTA
* * * *
43105043 TCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * *
43105108 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGAAGATCT
43105173 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
43105238 AGCAGATTTAAGCCACCAAGCCTTG
196 AGCAGATTTAAGCCACCAAGCCTTG
43105263 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
*
43105328 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGAAGATCT
*
43105393 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
43105458 AGCAGATTTAAGCCACCAAGCCTTG
196 AGCAGATTTAAGCCACCAAGCCTTG
43105483 TCTCCCTGAGCAGCAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAG
43105504 AAGGTTGTAG
Statistics
Matches: 232, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
220 232 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (220 bp):
TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGAAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
AGCAGATTTAAGCCACCAAGCCTTG
Found at i:43105382 original size:88 final size:88
Alignment explanation
Indices: 43105175--43105371 Score: 367
Period size: 88 Copynumber: 2.2 Consensus size: 88
43105165 GAAGATCTTA
* *
43105175 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
43105240 CAGATTTAAGCCACCAAGCCTTG
66 CAGATTTAAGCCACCAAGCCTTG
43105263 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
43105328 CAGATTTAAGCCACCAAGCCTTG
66 CAGATTTAAGCCACCAAGCCTTG
*
43105351 TCTCCCTGAGCAACAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAG
43105372 AAGGATGAAG
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTG
Found at i:43105399 original size:132 final size:132
Alignment explanation
Indices: 43105263--43106393 Score: 1657
Period size: 132 Copynumber: 8.8 Consensus size: 132
43105253 CCAAGCCTTG
* *
43105263 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43105328 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43105393 TA
131 TA
*
43105395 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43105460 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43105525 TA
131 TA
* *
43105527 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * *
43105592 CAGATTTAAGCCACCAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGTAGAGTAAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43105657 TA
131 TA
43105659 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * * * * *
43105724 TAGATTTAAGCCACTAAGTCTTGTCTCCTTAAGAAGCAGTGGAGAAGGATGAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43105789 TA
131 TA
*
43105791 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43105856 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43105921 TA
131 TA
* ** * *
43105923 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA---C-AA-CGAATC--T------TAGCGGGAAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * *
43105975 TAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43106040 TA
131 TA
*
43106042 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43106107 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43106172 TA
131 TA
* * *
43106174 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCG-A----ATC--T------TAGCGGGAAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * * *
43106226 TAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAATGGAGAATGATAAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
43106291 TA
131 TA
* *
43106293 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTAGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43106358 CAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAG
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
43106394 TTGTGGAGCA
Statistics
Matches: 897, Mismatches: 76, Indels: 52
0.88 0.07 0.05
Matches are distributed among these distances:
119 203 0.23
120 1 0.00
122 1 0.00
123 2 0.00
124 7 0.01
125 2 0.00
126 2 0.00
127 7 0.01
128 2 0.00
129 1 0.00
131 1 0.00
132 668 0.74
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGAGTGAAGATCT
TA
Found at i:43105401 original size:264 final size:266
Alignment explanation
Indices: 43105131--43106392 Score: 1125
Period size: 264 Copynumber: 4.9 Consensus size: 266
43105121 CCAAGCCTTG
* * * * *
43105131 TCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAG-ATCTTATC-TCCCTAAGCAGTAGT-G
1 TCTCCCTAAGCAGTAGTGGAGAAGATCGAAGAGTGAAGAATCTTATCTTCCC-AAG-A-TAGTGG
** *
43105193 G-AGCAGATCGAAGACGGCGAA-TCTTATCTTTCC-AAG-A-TAGTGG-GAAGCAGATTTAAGCC
63 GAAGCAGATCGAAG-CCACGAAGTCTTATC-TTCCTAAGAAGCAGTGGAGAAG--GATTTAAG--
* *
43105252 A-CCAAG-CCTTGTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
122 AGCCAAGACCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
43105315 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGA
187 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGA
*
43105380 AGATTGAAGATCTTA
252 AGAGTGAAGATCTTA
* ** *
43105395 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGCGAATCTTATCTTTCCAAGATAGTGGGAA
1 TCTCCCTAAGCAGTAGTGGAGAAGATCGAAGAGTGAAGAATCTTATCTTCCCAAGATAGTGGGAA
** * * * * * * **
43105459 GCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGG-TTGT-AGAGTGAAGA
66 GCAGATCGAAGCCACGAAGTCTTATCTTCCTAAGAAGCAGTGGAGAAGGATT-TAAGAGCCAAGA
* * * *
43105522 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATG
130 CCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTG
* * * * *
43105587 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGTAGAGTAAA
195 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGAA
43105652 GATCTTA
260 GATCTTA
* * *
43105659 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-G-CGAATCTTATCTTTCCAAGATAGTGGGA
1 TCTCCCTAAGCAGTAGTGGAGAAGATCGAAGA-GTGAAGAATCTTATCTTCCCAAGATAGTGGGA
* ** * * * ***
43105722 AGTAGATTTAAGCCACTAAGTCTTGTC-TCCTTAAGAAGCAGTGGAGAAGGA-TGAAGATTGAAG
65 AGCAGATCGAAGCCACGAAGTCTTATCTTCC-TAAGAAGCAGTGGAGAAGGATTTAAGAGCCAAG
* * *
43105785 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGT
129 ACCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGT
* * *
43105850 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGA
194 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGA
43105915 AGATCTTA
259 AGATCTTA
* *
43105923 TCTCCCTAAGCAGTAGTGGAGCAA-ATCGAAGA--CAACG-A----ATC-T-------TAGCGGG
1 TCTCCCTAAGCAGTAGTGGAG-AAGATCGAAGAGTGAA-GAATCTTATCTTCCCAAGATAGTGGG
** ** * * * * * * * * ***
43105972 AAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGA-TAAAGATTGAAG
64 AAGCAGATCGAAGCCACGAAGTCTTATCTTCCTAAGAAGCAGTGGAGAAGGATTTAAGAGCCAAG
* * *
43106036 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGT
129 ACCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGT
* * *
43106101 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGA
194 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGA
43106166 AGATCTTA
259 AGATCTTA
* *
43106174 TCTCCCTAAGCAGTAGTGGAGCAA-ATCGAAGACG-G-CG-A----ATC-T-------TAGCGGG
1 TCTCCCTAAGCAGTAGTGGAG-AAGATCGAAGA-GTGAAGAATCTTATCTTCCCAAGATAGTGGG
** ** * * * * * * * * * ***
43106223 AAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAATGGAGAATGA-TAAAGATTGAAG
64 AAGCAGATCGAAGCCACGAAGTCTTATCTTCCTAAGAAGCAGTGGAGAAGGATTTAAGAGCCAAG
* * *
43106287 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGT
129 ACCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGT
* * *
43106352 AGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCA
194 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCA
43106393 GTTGTGGAGC
Statistics
Matches: 911, Mismatches: 64, Indels: 59
0.88 0.06 0.06
Matches are distributed among these distances:
251 408 0.45
252 2 0.00
258 1 0.00
259 3 0.00
262 5 0.01
263 19 0.02
264 456 0.50
265 8 0.01
266 5 0.01
267 4 0.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (266 bp):
TCTCCCTAAGCAGTAGTGGAGAAGATCGAAGAGTGAAGAATCTTATCTTCCCAAGATAGTGGGAA
GCAGATCGAAGCCACGAAGTCTTATCTTCCTAAGAAGCAGTGGAGAAGGATTTAAGAGCCAAGAC
CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGG
GAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGAGTGAAG
ATCTTA
Found at i:43105420 original size:88 final size:88
Alignment explanation
Indices: 43105175--43105397 Score: 297
Period size: 88 Copynumber: 2.5 Consensus size: 88
43105165 GAAGATCTTA
* ** * ** *
43105175 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAACAGTGGAGAAGATCGAAGACGAAGAATCTTATCTTCCCAAGATAGTGGGAAG
43105240 CAGATTTAAGCCACCAAGCCTTG
66 CAGATTTAAGCCACCAAGCCTTG
* * ** *
43105263 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAACAGTGGAGAAGATCGAAGACGAAGAATCTTATCTTCCCAAGATAGTGGGAAG
43105328 CAGATTTAAGCCACCAAGCCTTG
66 CAGATTTAAGCCACCAAGCCTTG
*
43105351 TCTCCCTGAGCAACAGTGGAGAAGGAT-GAAGATTGAAG-ATCTTATCT
1 TCTCCCTGAGCAACAGTGGAGAA-GATCGAAGA-CGAAGAATCTTATCT
43105398 CCCTAAGCAG
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
88 121 0.96
89 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (88 bp):
TCTCCCTGAGCAACAGTGGAGAAGATCGAAGACGAAGAATCTTATCTTCCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTG
Found at i:43105555 original size:352 final size:352
Alignment explanation
Indices: 43104911--43105635 Score: 1378
Period size: 352 Copynumber: 2.1 Consensus size: 352
43104901 GAAGATCTTA
* *
43104911 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACCGCGAATCTTATCTTTCCAAGATAGTGGGAAG
*
43104976 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATGAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
43105041 TATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
131 TATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
43105106 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGAT
196 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGAT
* *
43105171 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGG
261 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATGG
43105236 GAAGCAGATTTAAGCCACCAAGCCTTG
326 GAAGCAGATTTAAGCCACCAAGCCTTG
*
43105263 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACCGCGAATCTTATCTTTCCAAGATAGTGGGAAG
43105328 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
*
43105393 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
131 TATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
43105458 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGAT
196 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGAT
43105523 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATGG
261 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATGG
43105588 GAAGCAGATTTAAGCCACCAAGCCTTG
326 GAAGCAGATTTAAGCCACCAAGCCTTG
*
43105615 TCTCTCTGAGCAGCAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAG
43105636 AAGGTTGTAG
Statistics
Matches: 365, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
352 365 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (352 bp):
TCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACCGCGAATCTTATCTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGATGAAGATTGAAGATCT
TATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGA
AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATAATGG
GAAGCAGATTTAAGCCACCAAGCCTTG
Found at i:43106074 original size:44 final size:43
Alignment explanation
Indices: 43105998--43106205 Score: 120
Period size: 44 Copynumber: 4.7 Consensus size: 43
43105988 CCAAGCCTTG
* * * *
43105998 TCTCCCTGAGCAGCAGTGGAGAATGAT-AAAGATTGAAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGA-TGAAGATCTTA
**
43106042 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAG-ATCTTA
* ** ** * *
43106086 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAG--ATGAAGATCTTA
* * * * * *
43106130 TCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGAAGATCTTA
*
43106174 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
43106206 CGGCGAATCT
Statistics
Matches: 119, Mismatches: 33, Indels: 24
0.68 0.19 0.14
Matches are distributed among these distances:
42 5 0.04
43 15 0.13
44 88 0.74
45 6 0.05
46 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGATCTTA
Found at i:43106167 original size:251 final size:251
Alignment explanation
Indices: 43105718--43106393 Score: 1226
Period size: 251 Copynumber: 2.7 Consensus size: 251
43105708 CCAAGATAGT
* * * * * * * *
43105718 GGGAAGTAGATTTAAGCCACTAAGTCTTGTCTCCTTAAGAAGCAGTGGAGAAGGATGAAGATTGA
1 GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGA
43105783 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
66 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
43105848 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGT
131 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGT
43105913 GAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAACGAATCTTAGC
196 GAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAACGAATCTTAGC
43105969 GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGA
1 GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGA
43106034 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
66 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
43106099 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGT
131 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGT
**
43106164 GAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTAGC
196 GAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAACGAATCTTAGC
*
43106220 GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAATGGAGAATGATAAAGATTGA
1 GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGA
43106285 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
66 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
* * *
43106350 GTAGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAG
131 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
43106394 TTGTGGAGCA
Statistics
Matches: 411, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
251 411 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (251 bp):
GGGAAATAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGA
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGT
GAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAACGAATCTTAGC
Found at i:43106330 original size:119 final size:119
Alignment explanation
Indices: 43105857--43106336 Score: 663
Period size: 119 Copynumber: 3.9 Consensus size: 119
43105847 AGTGGGAAGC
* **
43105857 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCTT
1 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATAAAGAGTGAAGATCTT
**
43105922 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAACGAATCTTAGCGGGAAAT
66 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTAGCGGGAAAT
* *
43105976 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAATGATAAAGATTGAAGATCTT
1 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATAAAGAGTGAAGATCTT
* * *
43106041 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAA
66 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCG-A----ATC--T------TAGCGGGAA
**
43106106 GC
118 AT
* **
43106108 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGTAGAGTGAAGATCTT
1 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATAAAGAGTGAAGATCTT
43106173 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTAGCGGGAAAT
66 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTAGCGGGAAAT
* * *
43106227 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAATGGAGAATGATAAAGATTGAAGATCTT
1 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATAAAGAGTGAAGATCTT
* *
43106292 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTA
66 ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTA
43106337 TCTTTCCAAG
Statistics
Matches: 318, Mismatches: 30, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
119 204 0.64
120 1 0.00
124 3 0.01
125 1 0.00
126 1 0.00
127 3 0.01
131 1 0.00
132 104 0.33
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (119 bp):
AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGATAAAGAGTGAAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTAGCGGGAAAT
Found at i:43106681 original size:17 final size:20
Alignment explanation
Indices: 43106643--43106687 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 20
43106633 GGGCCACAAA
43106643 GCCCAAAACCAAAGTCAGTG
1 GCCCAAAACCAAAGTCAGTG
43106663 GCCCAAAA-CAAA-T-AGTG
1 GCCCAAAACCAAAGTCAGTG
43106680 GCCCAAAA
1 GCCCAAAA
43106688 TTGATCCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.48
18 1 0.04
19 4 0.16
20 8 0.32
ACGTcount: A:0.44, C:0.29, G:0.18, T:0.09
Consensus pattern (20 bp):
GCCCAAAACCAAAGTCAGTG
Found at i:43108033 original size:20 final size:20
Alignment explanation
Indices: 43107996--43108033 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43107986 TATGTTTCAT
*
43107996 ATTTTTTTATTATCTTGTCC
1 ATTTTTTTAATATCTTGTCC
*
43108016 ATTTTTTTAATATTTTGT
1 ATTTTTTTAATATCTTGT
43108034 AGGCCATTAT
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:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTTTTTAATATCTTGTCC
Found at i:43109152 original size:3 final size:3
Alignment explanation
Indices: 43109144--43109177 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
43109134 GAAATAAAAC
*
43109144 TAA TAA TAA TAA TTAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
43109178 CATTGACGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:43109162 original size:22 final size:22
Alignment explanation
Indices: 43109136--43109177 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43109126 TAAAAGGGGA
43109136 AATAA-AACTAATAATAATAATT
1 AATAATAA-TAATAATAATAATT
*
43109158 AATAATAATAGTAATAATAA
1 AATAATAATAATAATAATAA
43109178 CATTGACGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAATAATAATAATAATT
Found at i:43109896 original size:12 final size:12
Alignment explanation
Indices: 43109876--43109926 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
43109866 AAAATGAATC
*
43109876 AAAACAAAACCG
1 AAAAGAAAACCG
*
43109888 AAAAGAAAATCG
1 AAAAGAAAACCG
**
43109900 AAAAAGAAAAAGG
1 -AAAAGAAAACCG
43109913 AAAA-AAAACCG
1 AAAAGAAAACCG
43109924 AAA
1 AAA
43109927 GAAGCAAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 8 0.25
12 14 0.44
13 10 0.31
ACGTcount: A:0.73, C:0.12, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAGAAAACCG
Found at i:43111380 original size:87 final size:87
Alignment explanation
Indices: 43110960--43111380 Score: 639
Period size: 87 Copynumber: 4.8 Consensus size: 87
43110950 CACTATCGAT
* *
43110960 GCAGGAGGGCAAGATCTGCTATCTTTAACC-GACTCCACTGCAACCGATGGAGGCAAGGCTTTGT
1 GCAGGAAGGCAAGATCTGCTATCTTCAACCAG-CTCCACTGCAACCGATGGAGGCAAGGCTTTGT
*
43111024 TTTCGATCAGCTTCGCTGTTAAC
65 TTTCGATCTGCTTCGCTGTTAAC
* * * *
43111047 GCAGGAAGGCAAGATCTGTTATGTTCAACCAGCTCCACTGCAACCGATCGAGGTAAGGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
*
43111112 TTCGATCTGCTTCGTTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
* * * **
43111134 GCAGGAAGGCAAGATCTGCTATCTTCAACAAGCTCCACTACAACAGATGGAGGTGAGGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
*
43111199 TTCGATCTACTTCGCTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
** * *
43111221 GCAGGAAGGCAAGATCTGCTATCTTCAACCAAATCCTCT-CAAACCGATGGAGACAAGGCTTTGT
1 GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGC-AACCGATGGAGGCAAGGCTTTGT
43111285 TTTCGATCTGCTTCGCTGTTAAC
65 TTTCGATCTGCTTCGCTGTTAAC
*
43111308 GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
43111373 TTCGATCT
66 TTCGATCT
43111381 TCACTGATCT
Statistics
Matches: 300, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
86 1 0.00
87 297 0.99
88 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (87 bp):
GCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
TTCGATCTGCTTCGCTGTTAAC
Found at i:43112612 original size:14 final size:14
Alignment explanation
Indices: 43112604--43112639 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
43112594 ATTTTTACTC
*
43112604 TTTCATTTTTCATT
1 TTTCATCTTTCATT
43112618 TTTCAT-TTTCATT
1 TTTCATCTTTCATT
43112631 TTTCATCTT
1 TTTCATCTT
43112640 CTCTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCATCTTTCATT
Found at i:43112626 original size:6 final size:7
Alignment explanation
Indices: 43112604--43112636 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
43112594 ATTTTTACTC
43112604 TTTCATT
1 TTTCATT
43112611 TTTCATT
1 TTTCATT
43112618 TTTCA-T
1 TTTCATT
43112624 TTTCATT
1 TTTCATT
43112631 TTTCAT
1 TTTCAT
43112637 CTTCTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCATT
Found at i:43112646 original size:20 final size:20
Alignment explanation
Indices: 43112604--43112646 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
43112594 ATTTTTACTC
*
43112604 TTTCATTTTTCATTTTTCAT
1 TTTCATTTTTCATTTCTCAT
43112624 TTTCATTTTTCATCTTCTC-T
1 TTTCATTTTTCAT-TTCTCAT
43112644 TTT
1 TTT
43112647 TTTTGAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCATTTTTCATTTCTCAT
Found at i:43115633 original size:20 final size:21
Alignment explanation
Indices: 43115591--43115634 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
43115581 TCCTTTTGCA
43115591 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
43115612 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
43115632 TTT
1 TTT
43115635 CGACGAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:43119851 original size:25 final size:26
Alignment explanation
Indices: 43119822--43119873 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
43119812 AGTTTTAAAT
43119822 TAGAAAAATATC-TCTAGA-AATTTTC
1 TAGAAAAATATCTTC-AGAGAATTTTC
* *
43119847 TAGAATAATCTCTTCAGAGAATTTTC
1 TAGAAAAATATCTTCAGAGAATTTTC
43119873 T
1 T
43119874 CTCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (26 bp):
TAGAAAAATATCTTCAGAGAATTTTC
Found at i:43121877 original size:13 final size:13
Alignment explanation
Indices: 43121859--43121885 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43121849 AAGATTTCCC
43121859 AACAGCTCGACCA
1 AACAGCTCGACCA
43121872 AACAGCTCGACCA
1 AACAGCTCGACCA
43121885 A
1 A
43121886 TTTACAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.37, G:0.15, T:0.07
Consensus pattern (13 bp):
AACAGCTCGACCA
Found at i:43122707 original size:20 final size:20
Alignment explanation
Indices: 43122673--43122720 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
43122663 TGAAAAGAAA
*
43122673 AACTC-AAAGAGAATTTATT
1 AACTCAAAAAAGAATTTATT
43122692 AACTCAAAAAAGAATTTATT
1 AACTCAAAAAAGAATTTATT
43122712 AACTCAAAA
1 AACTCAAAA
43122721 GATAAGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (20 bp):
AACTCAAAAAAGAATTTATT
Found at i:43126653 original size:21 final size:20
Alignment explanation
Indices: 43126610--43126654 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
43126600 TGAAGACTTG
*
43126610 AAGTTTGGTACTTACGGATC
1 AAGTTTGGTACTTACGGAAC
**
43126630 AAGTTTGGTTACTTGTGGAAC
1 AAGTTTGG-TACTTACGGAAC
43126651 AAGT
1 AAGT
43126655 AAAATCACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (20 bp):
AAGTTTGGTACTTACGGAAC
Found at i:43128347 original size:50 final size:50
Alignment explanation
Indices: 43128272--43128413 Score: 248
Period size: 50 Copynumber: 2.8 Consensus size: 50
43128262 GATAATAACA
**
43128272 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
43128322 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
43128372 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43128414 TTACCCAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:43128530 original size:13 final size:13
Alignment explanation
Indices: 43128509--43128539 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43128499 GCTTGGATAA
*
43128509 TCATCAAATAAAT
1 TCATAAAATAAAT
43128522 TCATAAAATAAAT
1 TCATAAAATAAAT
43128535 TCATA
1 TCATA
43128540 GTTGCTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:43132353 original size:39 final size:39
Alignment explanation
Indices: 43132264--43132439 Score: 185
Period size: 39 Copynumber: 4.5 Consensus size: 39
43132254 CATATTCACT
* *
43132264 TTTAAGCATATATC-CTATTATACATATAATCACCTAACA
1 TTTAAGCATATATCAC-AATATACATATAATCACATAACA
** * * * *
43132303 TCCAGGTATATATCACAATATTCATATAACCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* * *
43132342 TTTAAGCATATATCACATTACT-CGTATAATCATATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
* * *
43132381 TTCAAGCATATATCATAATATACATATAATCTCATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
*
43132420 TTTAAGCATATATCATAATA
1 TTTAAGCATATATCACAATA
43132440 CTCAAAACAT
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 108 0.97
40 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (39 bp):
TTTAAGCATATATCACAATATACATATAATCACATAACA
Found at i:43132354 original size:78 final size:78
Alignment explanation
Indices: 43132264--43132443 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 78
43132254 CATATTCACT
* * * *
43132264 TTTAAGCATATATC-CTATTA-TACATATAATCACCTAACATCCAGGTATATATCACAATATTCA
1 TTTAAGCATATATCAC-ATTACT-CATATAATCACATAACATCCAAGCATATATCACAATATACA
43132327 TATAACCACATAACA
64 TATAACCACATAACA
* * * *
43132342 TTTAAGCATATATCACATTACTCGTATAATCATATAACATTCAAGCATATATCATAATATACATA
1 TTTAAGCATATATCACATTACTCATATAATCACATAACATCCAAGCATATATCACAATATACATA
* *
43132407 TAATCTCATAACA
66 TAACCACATAACA
* *
43132420 TTTAAGCATATATCATAATACTCA
1 TTTAAGCATATATCACATTACTCA
43132444 AAACATGTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 85 0.98
79 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (78 bp):
TTTAAGCATATATCACATTACTCATATAATCACATAACATCCAAGCATATATCACAATATACATA
TAACCACATAACA
Found at i:43135924 original size:15 final size:16
Alignment explanation
Indices: 43135892--43135925 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43135882 TAATGAGTAT
43135892 AATAAAATATTAAAAA
1 AATAAAATATTAAAAA
43135908 AATAAAA-ATTTAAAAA
1 AATAAAATA-TTAAAAA
43135924 AA
1 AA
43135926 GATATATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAATATTAAAAA
Found at i:43139250 original size:3 final size:3
Alignment explanation
Indices: 43139226--43139356 Score: 52
Period size: 3 Copynumber: 43.3 Consensus size: 3
43139216 TTTAATAATG
* * * * * *
43139226 TTA TCA TTA TTT TTA CTA TTA TTA TTA TGT- TTA ATA CTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * * * * *
43139271 CTA TTA CTA TTA TT- TTT TTA TTT TTA -TA TTT TTA CTA CTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
43139317 TTA TTA TTA TTA CTC TTA TTTA TCTA TTTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA T
43139357 ATGTTTATTA
Statistics
Matches: 93, Mismatches: 28, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
2 5 0.05
3 79 0.85
4 8 0.09
5 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:43139737 original size:20 final size:19
Alignment explanation
Indices: 43139714--43139767 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
43139704 CATACATACT
*
43139714 TATATATATTTTATAATTTA
1 TATATATATTTTAT-ATCTA
43139734 TATATACATATATTTATATCTA
1 TATAT--ATAT-TTTATATCTA
*
43139756 TATACATATTTT
1 TATATATATTTT
43139768 CTAACTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 9 0.31
22 12 0.41
23 5 0.17
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATATTTTATATCTA
Found at i:43143664 original size:24 final size:22
Alignment explanation
Indices: 43143623--43143672 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
43143613 TCACTTGAAA
*
43143623 AAAAGAAACGAAAAGAAAAAAG
1 AAAAGAAAAGAAAAGAAAAAAG
43143645 AAAAGAAAAGAAGAACGAAAAAAG
1 AAAAGAAAAGAA-AA-GAAAAAAG
43143669 AAAA
1 AAAA
43143673 AGGAGAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 12 0.48
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAGAAAAGAAAAAAG
Found at i:43143665 original size:17 final size:17
Alignment explanation
Indices: 43143621--43143656 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
43143611 CTTCACTTGA
*
43143621 AAAAAAGAAACGAAAAG
1 AAAAAAGAAAAGAAAAG
43143638 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAGAAAAG
43143655 AA
1 AA
43143657 GAACGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:43144757 original size:44 final size:44
Alignment explanation
Indices: 43144663--43144757 Score: 100
Period size: 44 Copynumber: 2.2 Consensus size: 44
43144653 AAGCATCAGC
* * * **
43144663 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAAACGGCAAAT
* * * **
43144707 CCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGTGAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAAACGGCAAAT
43144751 CTTATCT
1 CTTATCT
43144758 TCTCAAGGTA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAAACGGCAAAT
Found at i:43145125 original size:50 final size:50
Alignment explanation
Indices: 43145059--43145453 Score: 380
Period size: 50 Copynumber: 7.9 Consensus size: 50
43145049 CTCTTTGGCG
* * * **
43145059 TTACAGTGGAACAGATTGAAGCTACAACAATGAATCTTACTTCCTCGACA
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
* * * * * * * * *
43145109 TTGCAGTTAAATAGATTGAAGCTACGATAGTGAATCTTACTTCTTTGGCA
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
* * * * *
43145159 TTACAGTGGAACAGATTGAAGCTACAATAGTGAATCTTACTTCC-CTGCCG
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTC-GACA
* * * * * **
43145209 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCGCTT-CTCGAACA
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCG-ACA
* * * * * * *
43145259 TTGCAGTTAAATAGATTAAAGCTACAATAGCGAATCTTATTTCCTTGGCG
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
* * * *
43145309 TTACAGTGAAGCAGATTAAAGCTATAATAGCGAATCTTACTTCCCCGACG
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
* * *
43145359 TTACAGTGAAGCAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGATA
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
* *
43145409 TTACAGTGAAGCAGATTAAAGCTACAATAGCAAATCTTACTTCCT
1 TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCT
43145454 TGAAGTTGCG
Statistics
Matches: 288, Mismatches: 53, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.01
50 283 0.98
51 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (50 bp):
TTACAGTGAAACAGATTAAAGCTACAATAGCGAATCTTACTTCCTCGACA
Found at i:43145313 original size:150 final size:150
Alignment explanation
Indices: 43145060--43145455 Score: 510
Period size: 150 Copynumber: 2.6 Consensus size: 150
43145050 TCTTTGGCGT
**
43145060 TACAGTGGAACAGATTGAAGCTACAACAATGAATCTTACTTCCTCGACATTGCAGTTAAATAGAT
1 TACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAATAGAT
* * * * *
43145125 TGAAGCTACGATAGTGAATCTTACTTCTTTGGCATTACAGTGGAA-CAGATTGAAGCTACAATAG
66 TAAAGCTACAATAGCGAATCTTACTTCCTTGGCATTACAGT-GAAGCAGATTAAAGCTACAATAG
* * *
43145189 TGAATCTTACTTCCCTGCCGG
130 CGAATCTTACTTCCCCGACGG
* **
43145210 TGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCGCTT-CTCGAACATTGCAGTTAAATAGA
1 TACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCG-ACATTGCAGTTAAATAGA
* * *
43145274 TTAAAGCTACAATAGCGAATCTTATTTCCTTGGCGTTACAGTGAAGCAGATTAAAGCTATAATAG
65 TTAAAGCTACAATAGCGAATCTTACTTCCTTGGCATTACAGTGAAGCAGATTAAAGCTACAATAG
*
43145339 CGAATCTTACTTCCCCGACGT
130 CGAATCTTACTTCCCCGACGG
* * * * * * **
43145360 TACAGT-GAAGCAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGATATTACAGTGAAGCAGA
1 TACAGTGGAA-CAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAATAGA
*
43145424 TTAAAGCTACAATAGCAAATCTTACTTCCTTG
65 TTAAAGCTACAATAGCGAATCTTACTTCCTTG
43145456 AAGTTGCGAC
Statistics
Matches: 212, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
149 10 0.05
150 199 0.94
151 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (150 bp):
TACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAATAGAT
TAAAGCTACAATAGCGAATCTTACTTCCTTGGCATTACAGTGAAGCAGATTAAAGCTACAATAGC
GAATCTTACTTCCCCGACGG
Found at i:43145475 original size:100 final size:100
Alignment explanation
Indices: 43145270--43145485 Score: 272
Period size: 100 Copynumber: 2.2 Consensus size: 100
43145260 TGCAGTTAAA
* ** * * *
43145270 TAGATTAAAGCTACAATAGCGAATCTTATTTCCTTGGCGTTACAGTGAAGCAGATTAAAGCTATA
1 TAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGACATTACAGTGAAGCAGATTAAAGCTACA
* * **
43145335 ATAGCGAATCTTACTTCCCCGACGTTACAGTGAAG
66 ATAGCAAATCTTACTTCCCCGAAGTTACACAGAAG
* *
43145370 CAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGATATTACAGTGAAGCAGATTAAAGCTACA
1 TAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGACATTACAGTGAAGCAGATTAAAGCTACA
** *
43145435 ATAGCAAATCTTACTTCCTTGAAGTTGCGACAG-AG
66 ATAGCAAATCTTACTTCCCCGAAGTTAC-ACAGAAG
*
43145470 TAGATTGAAGCTACAA
1 TAGATTAAAGCTACAA
43145486 GTCATGTCTC
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
100 96 0.98
101 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGATTAAAGCTACAATAGCGAATCTTACTTCCCCGACATTACAGTGAAGCAGATTAAAGCTACA
ATAGCAAATCTTACTTCCCCGAAGTTACACAGAAG
Found at i:43145775 original size:21 final size:22
Alignment explanation
Indices: 43145750--43145800 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
43145740 CAAACCCAAC
*
43145750 AAGCCCAAATAA-AATAACCCT
1 AAGCCCAAATAACAATAACCCA
* * *
43145771 AAGCCCGATTAACAATAGCCCA
1 AAGCCCAAATAACAATAACCCA
43145793 AAGCCCAA
1 AAGCCCAA
43145801 CAAATTTCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.47, C:0.31, G:0.10, T:0.12
Consensus pattern (22 bp):
AAGCCCAAATAACAATAACCCA
Found at i:43146146 original size:8 final size:8
Alignment explanation
Indices: 43146117--43146146 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
43146107 GTTCGAATCC
43146117 TTTTTTAT
1 TTTTTTAT
*
43146125 TTTTCTAT
1 TTTTTTAT
43146133 TTTTTTAT
1 TTTTTTAT
43146141 TTTTTT
1 TTTTTT
43146147 TTGCATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:43147077 original size:26 final size:26
Alignment explanation
Indices: 43147030--43147079 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
43147020 TATAATAAAT
* **
43147030 TGTTTTATATTATTTTAGATATTAAG
1 TGTTTTAAATTATTCCAGATATTAAG
*
43147056 TGTTTTAAATTATTCCATATATTA
1 TGTTTTAAATTATTCCAGATATTA
43147080 TTTATGTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (26 bp):
TGTTTTAAATTATTCCAGATATTAAG
Found at i:43157986 original size:45 final size:45
Alignment explanation
Indices: 43157930--43158142 Score: 146
Period size: 46 Copynumber: 4.7 Consensus size: 45
43157920 ATCACGATTC
* * *
43157930 AAACGTGTAAGACCATAGTTGAAAGGCACTAAGAAACTATATTGA
1 AAACGTATAAGACCATAGTTGAAAGACACTAAGAAACTATATAGA
* * * ** * *
43157975 AAACTTATAAGACCATAGTTGAAAGACATTATGGCACTGTATAGG
1 AAACGTATAAGACCATAGTTGAAAGACACTAAGAAACTATATAGA
* * *
43158020 AAACGTATAAGACCATAGTTGGAAA-ACATTATGGCAAC-ATA-ATGAA
1 AAACGTATAAGACCATAGTT-GAAAGACACTA-AGAAACTATATA-G-A
* * * * * *
43158066 AAATGAATAAGACCATAGTTGAAAGACAATATGGCAAC-ATGATGGA
1 AAACGTATAAGACCATAGTTGAAAGACACTA-AGAAACTAT-ATAGA
* * *
43158112 AAATGAATAAGACCATAGTTCAAAGACACTA
1 AAACGTATAAGACCATAGTTGAAAGACACTA
43158143 TGGCATCATT
Statistics
Matches: 139, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
44 1 0.01
45 67 0.48
46 69 0.50
47 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (45 bp):
AAACGTATAAGACCATAGTTGAAAGACACTAAGAAACTATATAGA
Found at i:43158085 original size:46 final size:46
Alignment explanation
Indices: 43157837--43158147 Score: 198
Period size: 45 Copynumber: 6.9 Consensus size: 46
43157827 GTTCGTTTCT
* *
43157837 TGAAAAATGAGTAAGACCATAGCTGAAAGAC-ATATGGCATCACA-AA
1 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCA--ACATAA
* * ** * * *
43157883 TCAAACAA-G--TAAGACCATAGCTGAAAGACGCTATGGCATCACGAT
1 TGAAA-AATGAATAAGACCATAGTTGAAAGACAATATGGCAACA-TAA
* ** * * * * *
43157928 TCAAACGTG--TAAGACCATAGTTGAAAGGCACTA-AGAAACTATAT
1 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCAAC-ATAA
* * * *
43157972 TGAAAACT-TATAAGACCATAGTTGAAAGACATTATGGC-AC-TGTA
1 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCAACAT-AA
* * * *
43158016 T-AGGAAACGTATAAGACCATAGTTGGAAA-ACATTATGGCAACATAA
1 TGA-AAAATGAATAAGACCATAGTT-GAAAGACAATATGGCAACATAA
*
43158062 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCAACATGA
1 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCAACATAA
* * *
43158108 TGGAAAATGAATAAGACCATAGTTCAAAGACACTATGGCA
1 TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCA
43158148 TCATTTCAGG
Statistics
Matches: 214, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
43 4 0.02
44 33 0.15
45 89 0.42
46 84 0.39
47 4 0.02
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (46 bp):
TGAAAAATGAATAAGACCATAGTTGAAAGACAATATGGCAACATAA
Found at i:43158166 original size:91 final size:91
Alignment explanation
Indices: 43157981--43158170 Score: 217
Period size: 91 Copynumber: 2.1 Consensus size: 91
43157971 TTGAAAACTT
* * *
43157981 ATAAGACCATAGTTGAAAGACATTATGGCACTGTATAGGAAACGTATAAGACCATAGTTGGAAAA
1 ATAAGACCATAGTTGAAAGACAATATGGCACTGTATAGGAAACGAATAAGACCATAGTTGCAAAA
* * *
43158046 CATTATGGCAACATAATGAAAAATGA
66 CACTATGGCAACATAATCAAAAATAA
*
43158072 ATAAGACCATAGTTGAAAGACAATATGGCAACATG-AT-GGAAAATGAATAAGACCATAGTT-CA
1 ATAAGACCATAGTTGAAAGACAATATGGC-AC-TGTATAGG-AAACGAATAAGACCATAGTTGCA
* * **
43158134 AAGACACTATGGCATCAT-TTCAGGAATAA
63 AA-ACACTATGGCAACATAATCAAAAATAA
43158163 ATAAGACC
1 ATAAGACC
43158171 GTGGCTGAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
91 47 0.56
92 35 0.42
93 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (91 bp):
ATAAGACCATAGTTGAAAGACAATATGGCACTGTATAGGAAACGAATAAGACCATAGTTGCAAAA
CACTATGGCAACATAATCAAAAATAA
Found at i:43173645 original size:36 final size:37
Alignment explanation
Indices: 43173605--43173679 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
43173595 AATACAAACT
* *
43173605 TAATCCAACCGA-AACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
*
43173641 TAATCCAACCAATAACACGCGAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
43173678 TA
1 TA
43173680 TACATCTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 11 0.31
37 24 0.69
ACGTcount: A:0.43, C:0.27, G:0.13, T:0.17
Consensus pattern (37 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
Found at i:43174832 original size:48 final size:48
Alignment explanation
Indices: 43174768--43174864 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
43174758 CTTAATTCCT
43174768 TCCTCACTTAGTAATTAAGCTATTTGATCACCTAAATGCAATAATTAC
1 TCCTCACTTAGTAATTAAGCTATTTGATCACCTAAATGCAATAATTAC
*
43174816 TCCTCACTTAGTAATTAAGCTATTTGATCACCTAAATGCAGTAATTAC
1 TCCTCACTTAGTAATTAAGCTATTTGATCACCTAAATGCAATAATTAC
43174864 T
1 T
43174865 ATCTTTTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (48 bp):
TCCTCACTTAGTAATTAAGCTATTTGATCACCTAAATGCAATAATTAC
Found at i:43181470 original size:20 final size:20
Alignment explanation
Indices: 43181431--43181482 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
43181421 AAGTCATTTA
*
43181431 TCGTTCCATTCCTTTTTCTTAC
1 TCGTTTCATTCC--TTTCTTAC
43181453 -CTGTTTCATTCCTTTCTTAC
1 TC-GTTTCATTCCTTTCTTAC
43181473 TCGTTTCATT
1 TCGTTTCATT
43181483 TGCATAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 16 0.59
21 2 0.07
22 9 0.33
ACGTcount: A:0.10, C:0.29, G:0.06, T:0.56
Consensus pattern (20 bp):
TCGTTTCATTCCTTTCTTAC
Found at i:43184851 original size:14 final size:14
Alignment explanation
Indices: 43184832--43184861 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43184822 AGTGAGAGAG
*
43184832 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
43184846 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
43184860 GA
1 GA
43184862 ATGAGGGATG
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:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:43195939 original size:112 final size:112
Alignment explanation
Indices: 43195742--43195969 Score: 386
Period size: 112 Copynumber: 2.0 Consensus size: 112
43195732 ATTAATTTTT
43195742 AAGGTATGAGTTTATACCAATAGTATAATGCACACGGTGATTGTGGTCCCGTGCCAGTTAGGTTA
1 AAGGTATGAGTTTATACCAATAGTATAATGCACACGGTGATTGTGGTCCCGTGCCAGTTAGGTTA
* *
43195807 CAAGGTAAGCTAGTTTGGAACTAATCGAATGTGAACTAGAAGAGTTA
66 CAAGGTAAGCTAGTTAGGAACTAATCGAATGTGAACTAAAAGAGTTA
* **
43195854 AAGGTATGAGTTTATGCCAATAGTATAATGCAC-CTGGTGATTGTGGTCTTGTGCCAGTTAGGTT
1 AAGGTATGAGTTTATACCAATAGTATAATGCACAC-GGTGATTGTGGTCCCGTGCCAGTTAGGTT
*
43195918 ACAAGGTAAGCTGGTTAGGAACTAATCGAATGTGAACTAAAAGAGTTA
65 ACAAGGTAAGCTAGTTAGGAACTAATCGAATGTGAACTAAAAGAGTTA
43195966 AAGG
1 AAGG
43195970 CTTAGGAGAT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 1 0.01
112 108 0.99
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (112 bp):
AAGGTATGAGTTTATACCAATAGTATAATGCACACGGTGATTGTGGTCCCGTGCCAGTTAGGTTA
CAAGGTAAGCTAGTTAGGAACTAATCGAATGTGAACTAAAAGAGTTA
Found at i:43199098 original size:43 final size:42
Alignment explanation
Indices: 43199050--43199134 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
43199040 TTTTGGTAAA
43199050 TGTTGTTTTGTTATAGTTACGGTGTCTTTTGAAAGGCATATTG
1 TGTTGTTTTGTTATAGTTACGGTGTC-TTTGAAAGGCATATTG
**
43199093 TGTTGTTTTGTTATAGTTGTGGTGTCTTTGAAAGGCATATTG
1 TGTTGTTTTGTTATAGTTACGGTGTCTTTGAAAGGCATATTG
43199135 GTTAGGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 16 0.40
43 24 0.60
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.49
Consensus pattern (42 bp):
TGTTGTTTTGTTATAGTTACGGTGTCTTTGAAAGGCATATTG
Found at i:43199566 original size:42 final size:42
Alignment explanation
Indices: 43199504--43199588 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
43199494 CTAACACATG
* * *
43199504 GCCTGGCACATGGGCATGTGAAGC-AACTCAGAGAGTTACACA
1 GCCTGACACACGGGCATGTG-ACCTAACTCAGAGAGTTACACA
* * *
43199546 GCCTGACACACGGGCGTGTGACCTTACTCGGAGAGTTACACA
1 GCCTGACACACGGGCATGTGACCTAACTCAGAGAGTTACACA
43199588 G
1 G
43199589 GTGAGGACAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.18
Consensus pattern (42 bp):
GCCTGACACACGGGCATGTGACCTAACTCAGAGAGTTACACA
Found at i:43204978 original size:25 final size:23
Alignment explanation
Indices: 43204947--43205009 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 23
43204937 GTAATACAGT
43204947 AAATAAACTTAAAATCAAAATTA
1 AAATAAACTTAAAATCAAAATTA
* * *
43204970 AAACTTAAACTTAAACTTAAACTTA
1 AAA--TAAACTTAAAATCAAAATTA
*
43204995 AAATAAACTTCAAAT
1 AAATAAACTTAAAAT
43205010 TAACTAGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 13 0.39
25 20 0.61
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATAAACTTAAAATCAAAATTA
Found at i:43204979 original size:6 final size:6
Alignment explanation
Indices: 43204950--43204996 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
43204940 ATACAGTAAA
* * *
43204950 TAAACT TAAAAT CAAAAT TAAAACT TAAACT TAAACT TAAACT TAAA
1 TAAACT TAAACT TAAACT T-AAACT TAAACT TAAACT TAAACT TAAA
43204997 ATAAACTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (6 bp):
TAAACT
Found at i:43205003 original size:11 final size:11
Alignment explanation
Indices: 43204947--43205014 Score: 64
Period size: 11 Copynumber: 5.8 Consensus size: 11
43204937 GTAATACAGT
43204947 AAATAAACTTA
1 AAATAAACTTA
*
43204958 AAATCAAAATTA
1 AAAT-AAACTTA
43204970 AAACTTAAACTTA
1 AAA--TAAACTTA
*
43204983 AACTTAAACTTA
1 AA-ATAAACTTA
*
43204995 AAATAAACTTC
1 AAATAAACTTA
*
43205006 AAATTAACT
1 AAATAAACT
43205015 AGGTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 19 0.40
12 19 0.40
13 8 0.17
14 1 0.02
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAAACTTA
Found at i:43208036 original size:149 final size:151
Alignment explanation
Indices: 43207859--43208136 Score: 454
Period size: 149 Copynumber: 1.8 Consensus size: 151
43207849 ATAAAAAATT
* * *
43207859 GTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTTTTCAACTATTTCAAAG
1 GTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTATTCAACTACTTCAAAA
* *
43207924 TAAAAGCTTTAATCTTTAAGAAAAATA-G-TTTTTTTTAAATGAGAAAGTTTAGTTTTTGAAAAT
66 TAAAAGCTTTAATCTTTAAGAAAAATAGGTTTTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAT
43207987 TACAAATCTGTTTTTTTTATA
131 TACAAATCTGTTTTTTTTATA
* *
43208008 GTTATTTTAAAGGAAAGTTTGAAA-TTTTAAAATAAAGTTTTGATTTTTATTCAACTACTTCAAA
1 GTTATTTTAAAGGAAAATTT-AAATTTTTAAAATAAAATTTTGATTTTTATTCAACTACTTCAAA
43208072 ATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTTAAAAGAGAAAGTTTAGATTTTGAAA
65 ATAAAAGCTTTAATCTTTAAGAAAAATAG-GTTTTTTTTTAAAAGAGAAAGTTTAGATTTTGAAA
43208137 TTAAGTCATT
Statistics
Matches: 118, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
149 83 0.70
150 3 0.03
151 1 0.01
152 31 0.26
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (151 bp):
GTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTATTCAACTACTTCAAAA
TAAAAGCTTTAATCTTTAAGAAAAATAGGTTTTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAT
TACAAATCTGTTTTTTTTATA
Found at i:43208706 original size:25 final size:24
Alignment explanation
Indices: 43208678--43208724 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
43208668 TCACTTGCAT
43208678 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
43208703 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
43208725 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:43220099 original size:42 final size:42
Alignment explanation
Indices: 43220052--43220306 Score: 312
Period size: 42 Copynumber: 6.1 Consensus size: 42
43220042 AAGGAGAACA
* * *
43220052 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
* * * *
43220094 TTCATTGCATTTAAAGGCCCAGATGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
** **
43220136 TTCATTGCATTTAGAGACTTAATTGTGGAGGTCCATTGACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
* * * *
43220178 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTTCATTAACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
* *
43220220 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCACTGACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
* * * * *
43220262 TTCATTGCAGTTAGAGACCCAGATATGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
43220304 TTC
1 TTC
43220307 TAGTTTACTT
Statistics
Matches: 183, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 183 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
Found at i:43220196 original size:84 final size:84
Alignment explanation
Indices: 43220052--43220306 Score: 348
Period size: 84 Copynumber: 3.0 Consensus size: 84
43220042 AAGGAGAACA
* * * * *
43220052 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCCAGA
1 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCCCAGA
*
43220117 TGTGGAGGTCCATTCACTT
66 TGTGGAGGTCCATTAACTT
** * *
43220136 TTCATTGCATTTAGAGACTTAATTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCCCAGG
1 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCCCAGA
* *
43220201 TGTTGAGGTTCATTAACTT
66 TGTGGAGGTCCATTAACTT
* * *
43220220 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCACTGACTTTTCATTGCAGTTAGAGACCCAGA
1 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCCCAGA
* * *
43220285 TATGGAGGTCCGTTTACTT
66 TGTGGAGGTCCATTAACTT
43220304 TTC
1 TTC
43220307 TAGTTTACTT
Statistics
Matches: 147, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 147 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCCCAGA
TGTGGAGGTCCATTAACTT
Found at i:43220277 original size:126 final size:126
Alignment explanation
Indices: 43220052--43220279 Score: 359
Period size: 126 Copynumber: 1.8 Consensus size: 126
43220042 AAGGAGAACA
* *
43220052 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCCAGA
1 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
* *
43220117 TGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACTTAATTGTGGAGGTCCATTGACTT
66 TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGACTTAATTGTGGAGGTCCATTGACTT
* * * *
43220178 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTTCATTAACTTTTCATTGCATTTAGAGACCCA-A
1 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
*
43220242 GTGTGGAGGTCCACTGACTTTTCATTGCAGTTAGAGAC
66 -TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGAC
43220280 CCAGATATGG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
125 1 0.01
126 91 0.99
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (126 bp):
TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGACTTAATTGTGGAGGTCCATTGACTT
Found at i:43220291 original size:126 final size:126
Alignment explanation
Indices: 43220052--43220306 Score: 352
Period size: 126 Copynumber: 2.0 Consensus size: 126
43220042 AAGGAGAACA
* *
43220052 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCCAGA
1 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
* * ** *
43220117 TGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACTTAATTGTGGAGGTCCATTGACTT
66 TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGACCCAATTATGGAGGTCCATTGACTT
* * * *
43220178 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTTCATTAACTTTTCATTGCATTTAGAGACCCA-A
1 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
* * *
43220242 GTGTGGAGGTCCACTGACTTTTCATTGCAGTTAGAGACCCAGA-TATGGAGGTCCGTTTACTT
66 -TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGACCCA-ATTATGGAGGTCCATTGACTT
43220304 TTC
1 TTC
43220307 TAGTTTACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
125 1 0.01
126 111 0.98
127 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (126 bp):
TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTAACTTTTCATTGCATTTAAAGACCCAGA
TGTGGAGGTCCACTCACTTTTCATTGCAGTTAGAGACCCAATTATGGAGGTCCATTGACTT
Found at i:43221425 original size:148 final size:147
Alignment explanation
Indices: 43221058--43221544 Score: 478
Period size: 148 Copynumber: 3.3 Consensus size: 147
43221048 AATTTTTTGT
* * * *
43221058 TTTTTTTTAAAAGAGAAATTTTAGATTTTAACAAAT---AATTT-TTTTTTTGTTATTTTAAAGG
1 TTTTTTTT-AAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTATTTTTTAGTCATTTTAAAGG
* * * * *
43221119 AAAGTTTAAATTTTTAAAACAAAGTTTTA--ATTTTTTTCAACTATTTCAAAGTAAAGATTTAAT
65 AAAGTTTAAAATTTTAAAACAAAGTTTTATTTTTTTTTTCAACTACTCCAAAATAAAGATTTAAT
43221182 CTTTAAGAAAAATAGTGA
130 CTTTAAGAAAAATAGTGA
* * * **
43221200 TTTTTTTTAAAAAAAAAAAAGGAGAAAGTTTAGTTTTTGAAAATTAAAAATCCATTTTTTTAGTC
1 TTTTTTTT---------AAA-GAGAAAGTTTAGATTTTAAAAAATAAAAATTTA-TTTTTTAGTC
43221265 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTCCAAAAT
55 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTT-ATTTTTTTTTTCAACTACTCCAAAAT
*
43221330 AAAAGCTTTAATCTTTAAGAAAAATAGTG-
119 -AAAGATTTAATCTTTAAGAAAAATAGTGA
43221359 TTTTTTTT-AAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTATTTTTTAAGTCATTTTAAAGG
1 TTTTTTTTAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTATTTTTT-AGTCATTTTAAAGG
* * * * * * *
43221423 AAAGTTTAAAATTTTAAAATAAAGTTTTA-ATTTTTTTT-AACTATTTCGAAATAAAGCTTTGAT
65 AAAGTTTAAAATTTTAAAACAAAGTTTTATTTTTTTTTTCAACTACTCCAAAATAAAGATTTAAT
* * *
43221486 TTTTAAGAAAATTATTGA
130 CTTTAAGAAAAATAGTGA
** * *
43221504 TTTTTTCGAAAGA-AAACTTTA-ATTTTGTAAAAA-AAAAATTT
1 TTTTTTTTAAAGAGAAAGTTTAGATTTT-AAAAAATAAAAATTT
43221545 CTGGCCACCG
Statistics
Matches: 290, Mismatches: 33, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
142 8 0.03
144 37 0.13
145 29 0.10
146 12 0.04
147 7 0.02
148 69 0.24
149 2 0.01
150 4 0.01
151 19 0.07
154 3 0.01
156 45 0.16
157 1 0.00
159 27 0.09
160 27 0.09
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (147 bp):
TTTTTTTTAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTATTTTTTAGTCATTTTAAAGGA
AAGTTTAAAATTTTAAAACAAAGTTTTATTTTTTTTTTCAACTACTCCAAAATAAAGATTTAATC
TTTAAGAAAAATAGTGA
Found at i:43222978 original size:19 final size:19
Alignment explanation
Indices: 43222954--43223085 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
43222944 AATTTTTGAG
43222954 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
43222973 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
43222992 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43223011 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
43223032 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
43223051 TATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43223070 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
43223086 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43223021 original size:59 final size:57
Alignment explanation
Indices: 43222954--43223092 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
43222944 AATTTTTGAG
*
43222954 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* * *
43223011 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATTATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
43223070 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
43223093 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:43224684 original size:98 final size:98
Alignment explanation
Indices: 43224561--43224755 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
43224551 AAAAATCATG
*
43224561 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
43224626 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
43224659 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
43224724 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
43224756 TTTATTATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:43230188 original size:44 final size:44
Alignment explanation
Indices: 43230113--43230320 Score: 138
Period size: 44 Copynumber: 4.7 Consensus size: 44
43230103 CCAAACCTTG
* * * * *
43230113 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* ** *
43230157 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* * *** * *
43230201 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CAAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGTAGATCTTA
* * * * *
43230245 TCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
*
43230289 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
43230321 CGGCGGATCT
Statistics
Matches: 118, Mismatches: 36, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
42 5 0.04
43 8 0.07
44 95 0.81
45 7 0.06
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
Found at i:43230275 original size:132 final size:132
Alignment explanation
Indices: 43230038--43230427 Score: 692
Period size: 132 Copynumber: 3.0 Consensus size: 132
43230028 CCTGCAGTGA
*
43230038 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 TAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
43230103 CCAAA-CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
66 -CAAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
43230167 CAG
130 CAG
*
43230170 TAGTGGAGCAGATCGAAGACGGTGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 TAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
43230235 CAAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
66 CAAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
43230300 AG
131 AG
*
43230302 TAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAAATAGTGGGAAGCAGATTTAAGCCA
1 TAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * * *
43230367 CCAAGCCTTGTCTCCCTCAGCGGCAGCGGAGAAAGTTGAAGATTGTAGATCCTATCTCCCT
66 CAAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
43230428 GAAGTTGCAG
Statistics
Matches: 248, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
131 4 0.02
132 244 0.98
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (132 bp):
TAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CAAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AG
Found at i:43230557 original size:44 final size:42
Alignment explanation
Indices: 43230419--43230798 Score: 206
Period size: 44 Copynumber: 8.8 Consensus size: 42
43230409 TTGTAGATCC
** * * *
43230419 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTTAGATCT
1 TATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * *
43230463 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCAAATCT
1 TATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
43230503 TATCTCCCTGAAGTTTCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* * *
43230547 TATCCTCCTGAAGTTGCAATGGGGCAGACTGAAGATGGCAAGTCT
1 TAT-CTCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCT
* * *
43230592 TATCTCCCTAAAGTTGCAGTGGAGCAGA-TTA-AAGCCGATAATCT
1 TATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * * *
43230636 TATCTCTTTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCT
1 TATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * *
43230680 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
* * *
43230720 TATCTCCCTGAAGTTGCAGTGAAGCAGACCAAATAAGCAAGTCT
1 TATCT-CCTGAAGTTGCAGTGGAGCAGA-CTAAGAAGCAAGTCT
*
43230764 TATCCTCCTGAAGTTGCAAT-GAGGCAGACTGAAGA
1 TAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA
43230799 TGGCACTAAT
Statistics
Matches: 260, Mismatches: 50, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
40 39 0.15
41 20 0.08
42 9 0.03
43 19 0.07
44 132 0.51
45 41 0.16
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
TATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:43230993 original size:19 final size:19
Alignment explanation
Indices: 43230969--43231100 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
43230959 AATTTTTGAG
43230969 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
43230988 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
43231007 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43231026 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
43231047 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
43231066 TATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43231085 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
43231101 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43231036 original size:59 final size:57
Alignment explanation
Indices: 43230969--43231107 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
43230959 AATTTTTGAG
*
43230969 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* * *
43231026 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATTATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
43231085 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
43231108 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:43231892 original size:25 final size:24
Alignment explanation
Indices: 43231864--43231915 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
43231854 GTATATATTT
43231864 TTTTTAAAACGAATATTTTCCTATA
1 TTTTTAAAACGAATATTTTCC-ATA
** * *
43231889 TTTTTTTAATGAATATTTTTCATA
1 TTTTTAAAACGAATATTTTCCATA
43231913 TTT
1 TTT
43231916 ATATGTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTTAAAACGAATATTTTCCATA
Found at i:43232701 original size:98 final size:98
Alignment explanation
Indices: 43232578--43232772 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
43232568 AAAAATCATG
*
43232578 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
43232643 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
43232676 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
43232741 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
43232773 TTTATTATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:43244825 original size:45 final size:45
Alignment explanation
Indices: 43244761--43244864 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
43244751 GACGGAAACG
* * *
43244761 AGTAAGACTATAGCCGAAAGATGCTATGGCATTATGATGAA-AA-TA
1 AGTAAGACCATAGCCGAAAGACGCTATGGCATCATGA--AAGAAGTA
** *
43244806 AGTAAGACCATAGTTGAAAGACGCTATGGCATCATGAAAGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCTATGGCATCATGAAAGAAGTA
43244851 AGTAAGACCATAGC
1 AGTAAGACCATAGC
43244865 TAAAAGGCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.04
44 2 0.04
45 46 0.92
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (45 bp):
AGTAAGACCATAGCCGAAAGACGCTATGGCATCATGAAAGAAGTA
Done.