Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 87 of 120
Found at i:11393557 original size:20 final size:19
Alignment explanation
Indices: 11393534--11393577 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
11393524 TTTTATAATT
*
11393534 TTTTTAATTATATTCTCAGA
1 TTTTTAATTAAATTC-CAGA
**
11393554 TTTTTTTTTAAATTCCAGA
1 TTTTTAATTAAATTCCAGA
11393573 TTTTT
1 TTTTT
11393578 TTATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTAATTAAATTCCAGA
Found at i:11393578 original size:20 final size:22
Alignment explanation
Indices: 11393531--11393580 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 22
11393521 TGCTTTTATA
*
11393531 ATTTTTTTAATTATATTCTCAG
1 ATTTTTTTAATTAAATTCTCAG
11393553 ATTTTTTT--TTAAATTC-CAG
1 ATTTTTTTAATTAAATTCTCAG
11393572 ATTTTTTTA
1 ATTTTTTTA
11393581 TAATTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
22 8 0.31
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTTTTTTAATTAAATTCTCAG
Found at i:11393671 original size:18 final size:19
Alignment explanation
Indices: 11393627--11393672 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
11393617 TAAGGCAGTA
11393627 CTCACTTTATCAAATTTTTT
1 CTCA-TTTATCAAATTTTTT
11393647 -TCTATTTATC-AATTTTTT
1 CTC-ATTTATCAAATTTTTT
11393665 CTCATTTA
1 CTCATTTA
11393673 AAAATATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 13 0.54
19 10 0.42
20 1 0.04
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (19 bp):
CTCATTTATCAAATTTTTT
Found at i:11393761 original size:17 final size:16
Alignment explanation
Indices: 11393739--11393808 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 16
11393729 GTGACGCTTC
11393739 AATTTTTTTATTTTTT
1 AATTTTTTTATTTTTT
* *
11393755 AAATTTTGTTAATTTTT
1 -AATTTTTTTATTTTTT
*
11393772 ATTGCTTTTTTATTGTTTTT
1 AAT--TTTTTTA-T-TTTTT
*
11393792 TATTTTTTTAGTTTTTT
1 AATTTTTTTA-TTTTTT
11393809 TCAAAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.05
17 19 0.46
18 14 0.34
20 6 0.15
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (16 bp):
AATTTTTTTATTTTTT
Found at i:11393783 original size:11 final size:10
Alignment explanation
Indices: 11393767--11393800 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11393757 ATTTTGTTAA
11393767 TTTTTATTGCT
1 TTTTTATTG-T
11393778 TTTTTATTGT
1 TTTTTATTGT
11393788 TTTTTATT-T
1 TTTTTATTGT
11393797 TTTT
1 TTTT
11393801 AGTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.22
10 9 0.39
11 9 0.39
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.82
Consensus pattern (10 bp):
TTTTTATTGT
Found at i:11393806 original size:9 final size:8
Alignment explanation
Indices: 11393740--11393809 Score: 50
Period size: 9 Copynumber: 8.0 Consensus size: 8
11393730 TGACGCTTCA
11393740 ATTTTTTT
1 ATTTTTTT
*
11393748 ATTTTTTAA
1 ATTTTTT-T
*
11393757 ATTTTGTTA
1 ATTTT-TTT
11393766 ATTTTTATT
1 ATTTTT-TT
**
11393775 GCTTTTTT
1 ATTTTTTT
11393783 ATTGTTTTTT
1 A-T-TTTTTT
11393793 ATTTTTTT
1 ATTTTTTT
11393801 AGTTTTTTT
1 A-TTTTTTT
11393810 CAAAAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 17 0.34
9 24 0.48
10 9 0.18
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11395099 original size:38 final size:39
Alignment explanation
Indices: 11395028--11395101 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
11395018 TACTTCAAGC
*
11395028 ATATATATAATATTATATTTTTTAAATATTTATTTAATT
1 ATATATATAATATTATATTTTATAAATATTTATTTAATT
* *
11395067 ATATATAT-GTATTATA-TTTATAAATTTATTATTTA
1 ATATATATAATATTATATTTTATAAATAT-TTATTTA
11395102 TTTTTTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.29
38 14 0.45
39 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (39 bp):
ATATATATAATATTATATTTTATAAATATTTATTTAATT
Found at i:11395838 original size:17 final size:17
Alignment explanation
Indices: 11395818--11395860 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11395808 ATATTTAATT
*
11395818 TTATATTTATATATGTA
1 TTATATTTATAAATGTA
* *
11395835 TTATATTAATAAATTTA
1 TTATATTTATAAATGTA
11395852 TTAT-TTTAT
1 TTATATTTAT
11395861 TTCTTAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATATTTATAAATGTA
Found at i:11395978 original size:28 final size:27
Alignment explanation
Indices: 11395928--11396002 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
11395918 GATACTCTCT
* * *
11395928 TTTC-CTTTTTTTTTTATCTTTGTTTA
1 TTTCTCTTTTTTTTCTATTTTTGTTGA
*
11395954 TTTCTCTTTTTTTTCTATTTATTGTTGC
1 TTTCTCTTTTTTTTCTATTT-TTGTTGA
*
11395982 TTTCT-TTTATTTTCTATTTTT
1 TTTCTCTTTTTTTTCTATTTTT
11396003 AATTAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.14
27 26 0.62
28 10 0.24
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (27 bp):
TTTCTCTTTTTTTTCTATTTTTGTTGA
Found at i:11396125 original size:29 final size:29
Alignment explanation
Indices: 11396066--11396127 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
11396056 ATGTTGTCTC
*
11396066 TTTTCCTTTTTTCTCTTTATTTTTATTTT
1 TTTTCCTTTTTTCTCTTTATTTTTATCTT
11396095 TTTTCCTTTTTGTCT-TTT-TTTTTATACTT
1 TTTTCCTTTTT-TCTCTTTATTTTTAT-CTT
11396124 TTTT
1 TTTT
11396128 AAATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (29 bp):
TTTTCCTTTTTTCTCTTTATTTTTATCTT
Found at i:11396476 original size:24 final size:24
Alignment explanation
Indices: 11396431--11396479 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11396421 TATAAAAATG
* * **
11396431 TATATTTTATTATTAATTTTATTA
1 TATATTATATTAATAAAATTATTA
11396455 TATATTATATTAATAAAATTATTA
1 TATATTATATTAATAAAATTATTA
11396479 T
1 T
11396480 TTGATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATATTAATAAAATTATTA
Found at i:11396500 original size:7 final size:7
Alignment explanation
Indices: 11396485--11396514 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11396475 ATTATTTGAT
11396485 ATTTT-A
1 ATTTTAA
11396491 ATTTTAA
1 ATTTTAA
11396498 ATTTTAA
1 ATTTTAA
11396505 ATTTTAA
1 ATTTTAA
11396512 ATT
1 ATT
11396515 CAATTGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:11401474 original size:2 final size:2
Alignment explanation
Indices: 11401467--11401498 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11401457 GTGGGGGCTT
*
11401467 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11401499 ACAAGAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11404251 original size:22 final size:21
Alignment explanation
Indices: 11404226--11404267 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11404216 TAGGTCAAAA
11404226 AAAAAAAAAACTTAAAATGAAC
1 AAAAAAAAAA-TTAAAATGAAC
11404248 AAAAAAAAAATTAAAATGAA
1 AAAAAAAAAATTAAAATGAA
11404268 TAAACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAAAAAATTAAAATGAAC
Found at i:11407878 original size:25 final size:25
Alignment explanation
Indices: 11407844--11407893 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11407834 CAAGACATTG
11407844 TTAAAAGTTATCAAAATTGACTTAA
1 TTAAAAGTTATCAAAATTGACTTAA
11407869 TTAAAAGTTATCAAAATTGACTTAA
1 TTAAAAGTTATCAAAATTGACTTAA
11407894 ATTTTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (25 bp):
TTAAAAGTTATCAAAATTGACTTAA
Found at i:11408371 original size:17 final size:17
Alignment explanation
Indices: 11408351--11408404 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
11408341 TTTATTAAAA
11408351 TAATTTTTAATTATTAT
1 TAATTTTTAATTATTAT
* *
11408368 TAATTTTATAAATATTAA
1 TAATTTT-TAATTATTAT
*
11408386 TAA-TTTAAATTTATTAT
1 TAATTTTTAA-TTATTAT
11408403 TA
1 TA
11408405 TATATAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.07
17 17 0.57
18 11 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATTTTTAATTATTAT
Found at i:11408389 original size:18 final size:17
Alignment explanation
Indices: 11408349--11408391 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
11408339 ATTTTATTAA
*
11408349 AATAATTTTTAATTATT
1 AATAATTTTTAAATATT
*
11408366 ATTAATTTTATAAATATT
1 AATAATTTT-TAAATATT
11408384 AATAATTT
1 AATAATTT
11408392 AAATTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATAATTTTTAAATATT
Found at i:11408398 original size:23 final size:23
Alignment explanation
Indices: 11408367--11408421 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
11408357 TTAATTATTA
*
11408367 TTAATTTTATAAATAT-TAATAAT
1 TTAAATTTATAAATATAT-ATAAT
* *
11408390 TTAAATTTATTATTATATATAAT
1 TTAAATTTATAAATATATATAAT
*
11408413 TTTAATTTA
1 TTAAATTTA
11408422 ATATCTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAATTTATAAATATATATAAT
Found at i:11408440 original size:22 final size:22
Alignment explanation
Indices: 11408412--11408455 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11408402 TTATATATAA
* *
11408412 TTTTAATTTAATATCTTTAATT
1 TTTTAATATAATATATTTAATT
*
11408434 TTTTAATATAATTTATTTAATT
1 TTTTAATATAATATATTTAATT
11408456 ATTATCATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAATATAATATATTTAATT
Found at i:11408488 original size:18 final size:18
Alignment explanation
Indices: 11408361--11408490 Score: 51
Period size: 18 Copynumber: 7.2 Consensus size: 18
11408351 TAATTTTTAA
*
11408361 TTATTATTAATTTT-ATAA
1 TTATTATTAATTTTAAT-T
* * *
11408379 ATATTAATAA-TTTAAAT
1 TTATTATTAATTTTAATT
*
11408396 TTATTATT-ATATATAATT
1 TTATTATTAAT-TTTAATT
*
11408414 TTAATT-TAATATCTTTAATT
1 TT-ATTATTA-AT-TTTAATT
11408434 TT-TTAATATAA-TTT-ATT
1 TTATT-AT-TAATTTTAATT
* * *
11408451 TAATTATT-ATCATTATTT
1 TTATTATTAAT-TTTAATT
11408469 TTATTATTAATTTTAATT
1 TTATTATTAATTTTAATT
11408487 TTAT
1 TTAT
11408491 CGTTATAATA
Statistics
Matches: 80, Mismatches: 18, Indels: 28
0.63 0.14 0.22
Matches are distributed among these distances:
15 1 0.01
16 2 0.03
17 17 0.21
18 42 0.52
19 5 0.06
20 12 0.15
21 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTAATTTTAATT
Found at i:11411232 original size:10 final size:9
Alignment explanation
Indices: 11411193--11411246 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
11411183 TAAATACGAT
11411193 ACGAATAAC
1 ACGAATAAC
*
11411202 ATGAATAAC
1 ACGAATAAC
*
11411211 ACGGATATAC
1 ACGAATA-AC
11411221 ACGAATAGAC
1 ACGAATA-AC
11411231 AC-AACTAAC
1 ACGAA-TAAC
11411240 ACGAATA
1 ACGAATA
11411247 TATAAAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 21 0.57
10 16 0.43
ACGTcount: A:0.52, C:0.20, G:0.13, T:0.15
Consensus pattern (9 bp):
ACGAATAAC
Found at i:11419013 original size:2 final size:2
Alignment explanation
Indices: 11419006--11419044 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11418996 AAGCTGCGCC
11419006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11419045 TCGAACTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11421112 original size:17 final size:18
Alignment explanation
Indices: 11421085--11421118 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11421075 AATGCAAGAA
11421085 AAAAAATTAAAAATTGAG
1 AAAAAATTAAAAATTGAG
*
11421103 AAAAAA-TAAAATTTGA
1 AAAAAATTAAAAATTGA
11421119 TCAGATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAAAATTAAAAATTGAG
Found at i:11421601 original size:32 final size:33
Alignment explanation
Indices: 11421565--11421631 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
11421555 TACATGAATC
* *
11421565 TAATTATTTATGAATTTA-ACTATCAATGAACT
1 TAATTATTCATAAATTTATACTATCAATGAACT
* *
11421597 TAATTATTCATAAATTTATAGTATCCATGAACT
1 TAATTATTCATAAATTTATACTATCAATGAACT
11421630 TA
1 TA
11421632 TTTAATTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.43
Consensus pattern (33 bp):
TAATTATTCATAAATTTATACTATCAATGAACT
Found at i:11427296 original size:28 final size:28
Alignment explanation
Indices: 11427254--11427307 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
11427244 GGACTTGGGA
*
11427254 AACCATATCCTTTTATCTTTGAACATGC
1 AACCATATCCTTTTACCTTTGAACATGC
11427282 AACCATAT-CTCTTTACCTTTGAACAT
1 AACCATATCCT-TTTACCTTTGAACAT
11427308 ATTTCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (28 bp):
AACCATATCCTTTTACCTTTGAACATGC
Found at i:11428498 original size:23 final size:23
Alignment explanation
Indices: 11428454--11428496 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11428444 AGCCCAAAAT
*
11428454 TTTTAATTTGATTTTGATTTTGA
1 TTTTAAGTTGATTTTGATTTTGA
11428477 TTTTAAGTTGA-TTTGATTTT
1 TTTTAAGTTGATTTTGATTTT
11428497 TGTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (23 bp):
TTTTAAGTTGATTTTGATTTTGA
Found at i:11434135 original size:61 final size:60
Alignment explanation
Indices: 11433845--11434138 Score: 197
Period size: 61 Copynumber: 4.8 Consensus size: 60
11433835 GCCAAAAATG
* * * *
11433845 CCTTCAATAATCATTT-TATAATTTGATAAGGAGATTATTTAAGGTATTTTTGGCTAAAAACA
1 CCTTCAATAATC-TTTCTAT--TTTTATAAGGAGATTATTAAAGGTATTTCTGACTAAAAACA
* * * *
11433907 TCTTCAATAATTCATTCTA-TTTTAT-AGGGGATTATTGAAAGTGT-TTTCT-ACAAAAAAACA
1 CCTTCAATAA-TCTTTCTATTTTTATAAGGAGATTATT-AAAG-GTATTTCTGAC-TAAAAACA
* * * * ** * *
11433967 CATTCAATAATCTCTTCCATTTTTATGA-GAGGATTATTGAAGGCGTTTCAG-GTAAAAAACA
1 CCTTCAATAATCT-TTCTATTTTTATAAGGA-GATTATTAAAGGTATTTCTGACT-AAAAACA
* * * * * * * *
11434028 CCTTCAATAATTTTTTTAAAATTTGATGAGGTGATTATTAAAGGTATTTTTGACTAAAAACG
1 CCTTCAATAATCTTTCT--ATTTTTATAAGGAGATTATTAAAGGTATTTCTGACTAAAAACA
*
11434090 CGTTCAATAATCCTTTCTATTTTTATAAGGAGATTATTAAAGGTATTTC
1 CCTTCAATAAT-CTTTCTATTTTTATAAGGAGATTATTAAAGGTATTTC
11434139 AAGCAAAAAA
Statistics
Matches: 175, Mismatches: 40, Indels: 35
0.70 0.16 0.14
Matches are distributed among these distances:
59 13 0.07
60 34 0.19
61 60 0.34
62 58 0.33
63 10 0.06
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (60 bp):
CCTTCAATAATCTTTCTATTTTTATAAGGAGATTATTAAAGGTATTTCTGACTAAAAACA
Found at i:11434139 original size:123 final size:123
Alignment explanation
Indices: 11433960--11434261 Score: 272
Period size: 123 Copynumber: 2.4 Consensus size: 123
11433950 TTTTCTACAA
* * * * *
11433960 AAAAACACATTCAATAATCTCTTCCATTTTTATGAGAGGATTATTGAAGGCGTTTCAGGTAAAAA
1 AAAAACACATTCAATAATCTCTTCCATTTTTATAAGAGGATTATTAAAGGCATTTCAAGCAAAAA
* * ** * *
11434025 ACACCTTCAATAATTTTTTTAAAATTTGATGAGGTGATTATTAAAGGTATTTTTGACT
66 ACACATTCAATAATCTCCTTAAAATTTGATAAGGAGATTATTAAAGGTATTTTTGACT
* * * *
11434083 AAAAACGCGTTCAATAATC-CTTTCTATTTTTATAAG-GAGATTATTAAAGGTATTTCAAGCAAA
1 AAAAACACATTCAATAATCTC-TTCCATTTTTATAAGAG-GATTATTAAAGGCATTTCAAGCAAA
* * * * ** *
11434146 AAATACATTTAATAATCTCCTTAAATTTTGATAAGGAGATTATTGAAGGCGTTTTAGA-T
64 AAACACATTCAATAATCTCCTTAAAATTTGATAAGGAGATTATTAAAGGTATTTTTGACT
* * * * *
11434205 CAAAAATACCTTTAATAATCCTCTTCAATTTTT-TAA-AGGGAATTATTGAAGGCATTT
1 -AAAAACACATTCAATAAT-CTCTTCCATTTTTATAAGA-GG-ATTATTAAAGGCATTT
11434262 TCTACCAAAA
Statistics
Matches: 142, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
122 3 0.02
123 113 0.80
124 25 0.18
125 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (123 bp):
AAAAACACATTCAATAATCTCTTCCATTTTTATAAGAGGATTATTAAAGGCATTTCAAGCAAAAA
ACACATTCAATAATCTCCTTAAAATTTGATAAGGAGATTATTAAAGGTATTTTTGACT
Found at i:11434271 original size:62 final size:63
Alignment explanation
Indices: 11434108--11434349 Score: 174
Period size: 62 Copynumber: 3.9 Consensus size: 63
11434098 AATCCTTTCT
* * * * * *
11434108 ATTTTTATAAGGAGATTATTAAAGGTATTTCA-AGCAAAAAATACATTTAATAAT-CTCCTTAA
1 ATTTTGATAAGGAGATTATTGAAGGCATTTTAGA-CCAAAAATACCTTTAATAATCCTCCTTAA
* * *
11434170 ATTTTGATAAGGAGATTATTGAAGGCGTTTTAGATCAAAAATACCTTTAATAATCCT-CTTCA
1 ATTTTGATAAGGAGATTATTGAAGGCATTTTAGACCAAAAATACCTTTAATAATCCTCCTTAA
* ** ** * * *
11434232 ATTTT-TTAAAGG-GAATTATTGAAGGCATTTTCTACCAAAAATGTCTTCAATAATCC-CTTTCA
1 ATTTTGAT-AAGGAG-ATTATTGAAGGCATTTTAGACCAAAAATACCTTTAATAATCCTCCTTAA
* * * ** * *
11434294 TTTTTAATTAAGGA-ATTATTCAAACCATTTTAGCCCAAAAAATGCCTTTAATAATC
1 ATTTTGA-TAAGGAGATTATTGAAGGCATTTTAGACC-AAAAATACCTTTAATAATC
11434350 TCTCATAAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
61 2 0.01
62 116 0.81
63 24 0.17
64 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (63 bp):
ATTTTGATAAGGAGATTATTGAAGGCATTTTAGACCAAAAATACCTTTAATAATCCTCCTTAA
Found at i:11439255 original size:15 final size:13
Alignment explanation
Indices: 11439233--11439271 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
11439223 TGAGATGTGC
11439233 AAAAAATAAAACAA
1 AAAAAATAAAAC-A
*
11439247 AACAAAATAAAGCA
1 AA-AAAATAAAACA
11439261 AAAAAATAAAA
1 AAAAAATAAAA
11439272 ATAAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 9 0.41
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (13 bp):
AAAAAATAAAACA
Found at i:11439643 original size:14 final size:14
Alignment explanation
Indices: 11439617--11439649 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11439607 CATATTTGTC
11439617 ATGA-ATTAGAATG
1 ATGATATTAGAATG
*
11439630 ATGATATTATAATG
1 ATGATATTAGAATG
11439644 ATGATA
1 ATGATA
11439650 AATAAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (14 bp):
ATGATATTAGAATG
Found at i:11440186 original size:34 final size:34
Alignment explanation
Indices: 11440122--11440189 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
11440112 TAGAACATGC
* * *
11440122 ATTTGTATCATTTAGTGAGAATCTGGATTGTTAT
1 ATTTGCATCATTTAGTAAGAATCTGCATTGTTAT
*
11440156 ATTTGCATCATTTAG-AAGACATTTGCATTGTTAT
1 ATTTGCATCATTTAGTAAGA-ATCTGCATTGTTAT
11440190 CATGATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (34 bp):
ATTTGCATCATTTAGTAAGAATCTGCATTGTTAT
Found at i:11440632 original size:46 final size:46
Alignment explanation
Indices: 11440393--11440701 Score: 222
Period size: 46 Copynumber: 6.8 Consensus size: 46
11440383 GGCATAATCA
* * * * *
11440393 CTAAAGTTTATCAAAT-ATGAATATTTGAAGTTTTAGATGTGAAACT
1 CTAAAGTTTTTCAAATGA-AAATCTTTGAAATTTTGGATGTGAAACT
* *
11440439 CTAAAAATTTTT-AAATGAAAACCTTTGAAATTTTGGATGTGAAAC-
1 CT-AAAGTTTTTCAAATGAAAATCTTTGAAATTTTGGATGTGAAACT
** * * *
11440484 CATAAAGTTTTT-TTATGAAAATCTTTGAAATTTTGAATGTAAAATT
1 C-TAAAGTTTTTCAAATGAAAATCTTTGAAATTTTGGATGTGAAACT
* * * * * * *
11440530 ATAAAGTTTTTCTAATGAGAAGCTGTGAAATTTTAGATGTGAAACC
1 CTAAAGTTTTTCAAATGAAAATCTTTGAAATTTTGGATGTGAAACT
* *
11440576 CTGAAA-TTTTTCAAATAAAAATCTTTGAAATTTTGGTTGTGAAACT
1 CT-AAAGTTTTTCAAATGAAAATCTTTGAAATTTTGGATGTGAAACT
** ** * *
11440622 CTAAAGTTTTTTTAATGTGAATATTT-AAAGTTTCGGATGTG-AA-T
1 CTAAAGTTTTTCAAATGAAAATCTTTGAAA-TTTTGGATGTGAAACT
* ** *
11440666 CCATAAGTTTTTTGAATGAAAATCTTT-AATTTTTGG
1 CTA-AAGTTTTTCAAATGAAAATCTTTGAAATTTTGG
11440702 GCATAAATCT
Statistics
Matches: 206, Mismatches: 48, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
44 8 0.04
45 75 0.36
46 112 0.54
47 11 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (46 bp):
CTAAAGTTTTTCAAATGAAAATCTTTGAAATTTTGGATGTGAAACT
Found at i:11440684 original size:137 final size:137
Alignment explanation
Indices: 11440418--11440677 Score: 323
Period size: 137 Copynumber: 1.9 Consensus size: 137
11440408 TATGAATATT
* * *
11440418 TGAAGTTTTAGATGTGAAACTCTAAAAATTTTTAAATGAAAACCTTTGAAATTTTGGATGTGAAA
1 TGAAATTTTAGATGTGAAACCCTAAAAATTTTTAAATAAAAACCTTTGAAATTTTGGATGTGAAA
* * *
11440483 CCATAAAGTTTTTTTATGAAAATCTTTGAAATTTTGAATGTAAAATTATAAAGTTTTTCTAATGA
66 CCATAAAGTTTTTTTATGAAAATATTTGAAATTTCGAATGTAAAATCATAAAGTTTTTCTAATGA
11440548 GAAGCTG
131 GAAGCTG
* * *
11440555 TGAAATTTTAGATGTGAAACCCT-GAAATTTTTCAAATAAAAATCTTTGAAATTTTGGTTGTGAA
1 TGAAATTTTAGATGTGAAACCCTAAAAATTTTT-AAATAAAAACCTTTGAAATTTTGGATGTGAA
** * *
11440619 ACTC-TAAAGTTTTTTTAATGTGAATATTT-AAAGTTTCGGATGT-GAATCCAT-AAGTTTTT
65 AC-CATAAAGTTTTTTT-ATGAAAATATTTGAAA-TTTCGAATGTAAAAT-CATAAAGTTTTT
11440678 TGAATGAAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
136 8 0.08
137 77 0.73
138 20 0.19
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (137 bp):
TGAAATTTTAGATGTGAAACCCTAAAAATTTTTAAATAAAAACCTTTGAAATTTTGGATGTGAAA
CCATAAAGTTTTTTTATGAAAATATTTGAAATTTCGAATGTAAAATCATAAAGTTTTTCTAATGA
GAAGCTG
Found at i:11441919 original size:5 final size:6
Alignment explanation
Indices: 11441881--11441930 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
11441871 AAATTTTTAA
* * *
11441881 TTTGAT TTTGAT TTTGAT TTTGAT TTT-AA TTTGA- TTTGAT ATTGCT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
11441927 TTTG
1 TTTG
11441931 CTTTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 9 0.24
6 29 0.76
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (6 bp):
TTTGAT
Found at i:11441999 original size:19 final size:20
Alignment explanation
Indices: 11441967--11442006 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11441957 TTAGAAGTCG
*
11441967 AAAAAAAGTTAAAAGCAAAA
1 AAAAAAAGTAAAAAGCAAAA
*
11441987 AAAAAAAG-AAAAAGGAAAA
1 AAAAAAAGTAAAAAGCAAAA
11442006 A
1 A
11442007 TCAGAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.80, C:0.03, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAAAAGTAAAAAGCAAAA
Found at i:11442387 original size:34 final size:34
Alignment explanation
Indices: 11442323--11442387 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
11442313 GTTCTTAGGT
* *
11442323 ATTCAATTCTAGAATTTTTTAAACTGGTTTTGAG
1 ATTCAATTCTAGAATTTTTGAAACTAGTTTTGAG
* *
11442357 ATTCAATTCT-TAATATTTTGAAAGTAGTTTT
1 ATTCAATTCTAGAAT-TTTTGAAACTAGTTTT
11442388 AGGTATTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 3 0.12
34 23 0.88
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (34 bp):
ATTCAATTCTAGAATTTTTGAAACTAGTTTTGAG
Found at i:11442633 original size:20 final size:20
Alignment explanation
Indices: 11442589--11442633 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11442579 TTTTTTTTCT
11442589 TTTTTAGGTTTTTATTCAAA
1 TTTTTAGGTTTTTATTCAAA
* * *
11442609 ATTTTAGGTTTTTGTTTAAA
1 TTTTTAGGTTTTTATTCAAA
11442629 TTTTT
1 TTTTT
11442634 TGACAAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.64
Consensus pattern (20 bp):
TTTTTAGGTTTTTATTCAAA
Found at i:11443051 original size:18 final size:18
Alignment explanation
Indices: 11443010--11443051 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11443000 CTAATTGTCC
*
11443010 TATTTTCTTCTTTTTTTT
1 TATTTTCTTCTTTTTATT
*
11443028 TGTTTTCTT-TTATTTATT
1 TATTTTCTTCTT-TTTATT
11443046 TATTTT
1 TATTTT
11443052 AATTGTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (18 bp):
TATTTTCTTCTTTTTATT
Found at i:11443138 original size:24 final size:24
Alignment explanation
Indices: 11443110--11443163 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
11443100 TATATTTTGC
*
11443110 ATGATTTTATA-TTATTTGCATGAT
1 ATGATTTTATATTTA-TTACATGAT
11443134 ATGATTTTATATTTATTACATGAT
1 ATGATTTTATATTTATTACATGAT
11443158 ATGATT
1 ATGATT
11443164 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (24 bp):
ATGATTTTATATTTATTACATGAT
Found at i:11443143 original size:19 final size:19
Alignment explanation
Indices: 11443105--11443143 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11443095 ATATATATAT
* *
11443105 TTTGCATGATTTTATATTA
1 TTTGCATGATATGATATTA
*
11443124 TTTGCATGATATGATTTTA
1 TTTGCATGATATGATATTA
11443143 T
1 T
11443144 ATTTATTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTGCATGATATGATATTA
Found at i:11443285 original size:14 final size:15
Alignment explanation
Indices: 11443268--11443300 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11443258 TTTATTTGTG
*
11443268 TGATTTATAT-TGCA
1 TGATTAATATCTGCA
11443282 TGATTAATATCTGCA
1 TGATTAATATCTGCA
11443297 TGAT
1 TGAT
11443301 ATTTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (15 bp):
TGATTAATATCTGCA
Found at i:11445541 original size:19 final size:19
Alignment explanation
Indices: 11445517--11445558 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11445507 GATGATTTGA
* *
11445517 TGGTTTTTGTGAAGATTGT
1 TGGTTTTGGTGAAGATTGC
11445536 TGGTTTTGGTGAAGATTGC
1 TGGTTTTGGTGAAGATTGC
11445555 TGGT
1 TGGT
11445559 AAAGGATTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (19 bp):
TGGTTTTGGTGAAGATTGC
Found at i:11447051 original size:146 final size:145
Alignment explanation
Indices: 11446787--11447081 Score: 545
Period size: 146 Copynumber: 2.0 Consensus size: 145
11446777 TTTTAAATAA
*
11446787 TTTATTACTTCAAAATCAATAAAATCTTCTAATAGTTTGATAATATTTTATTTTGAGATTTAAAT
1 TTTATTACTTCAAAATCAATAAAATCCTCTAATAGTTTGATAATATTTTATTTTGAGATTTAAAT
11446852 TTTTCAATAGTTTAGTAGGATTAAAATTTTTCACTTTCTTGAAAAGAAATATAATTAAATCTTCT
66 TTTTCAATAGTTTAGTAGGATTAAAATTTTTCACTTTCTTGAAAAGAAATATAA-TAAATCTTCT
11446917 AATAGTTTGATAAGAT
130 AATAGTTTGATAAGAT
*
11446933 TTTATTACTTCATAATCAATAAAATCCTCTAATAGTTTGATAATATTTTATTTTGAGATTTAAAT
1 TTTATTACTTCAAAATCAATAAAATCCTCTAATAGTTTGATAATATTTTATTTTGAGATTTAAAT
* *
11446998 TTTTCAATAGTTTAGTAGGATTAAAATTTTTCACTTTCTTGACAAGAAATATAATAAATCTTTTA
66 TTTTCAATAGTTTAGTAGGATTAAAATTTTTCACTTTCTTGAAAAGAAATATAATAAATCTTCTA
11447063 ATAGTTTGATAAGAT
131 ATAGTTTGATAAGAT
11447078 TTTA
1 TTTA
11447082 ATTATGAGAT
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
145 29 0.20
146 116 0.80
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (145 bp):
TTTATTACTTCAAAATCAATAAAATCCTCTAATAGTTTGATAATATTTTATTTTGAGATTTAAAT
TTTTCAATAGTTTAGTAGGATTAAAATTTTTCACTTTCTTGAAAAGAAATATAATAAATCTTCTA
ATAGTTTGATAAGAT
Found at i:11449513 original size:357 final size:357
Alignment explanation
Indices: 11448600--11450039 Score: 2742
Period size: 357 Copynumber: 4.0 Consensus size: 357
11448590 TTCTTAAGTA
11448600 TTTT-TTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
1 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
11448664 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
66 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
11448729 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
131 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
11448794 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
196 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
11448859 ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTT-AAAAATATAAATT-
261 ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
11448922 ATTATTTAATTAATTATAAAAAAGTACATCAAT
326 ATTATTTAATTAATTAT-AAAAAGTACATCAAT
11448955 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
1 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
11449020 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
66 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
* * *
11449085 TTTTGTTTCTTAAATTAATTATAAAATAATTTTACTTGAAAAGTAAATCAAAATTCTTCTTATTA
131 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATT-
11449150 AAAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAA
195 AAAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAA
11449215 AATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATT
260 AATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATT
11449280 AATTATTTAATTAATTATAAAAAGTACATCAAT
325 AATTATTTAATTAATTATAAAAAGTACATCAAT
11449313 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
1 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
*
11449378 TTTTTCCTGGAAAAGACTCCATTGACAAATTAATTTGGCATTTAAAATATATTTTACTATTAAAA
66 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
*
11449443 TTTTGTTTCTTAAATTAATTATAAAATATTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
131 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
11449508 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
196 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
11449573 ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
261 ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
*
11449638 GTTATTTAATTAATTATAAAAAGTACATCAAT
326 ATTATTTAATTAATTATAAAAAGTACATCAAT
*
11449670 TTTTATTGATACTTTCAGTATAATTTAAGAAATATTCTCACTTTAAGAGTATTTAAAAACATTAC
1 TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
11449735 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
66 TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
*
11449800 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTATTTTTATTA
131 TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
11449865 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
196 AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
*
11449930 ATTGTCAAAGAAATTATCACTTGCATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
261 ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
11449995 ATTATTTAATTAATTATAAAAAGTACATCAATTT
326 ATTATTTAATTAATTATAAAAAGTACATCAA--T
11450029 TTTTATTGATA
1 TTTTATTGATA
11450040 AATTTTTAAA
Statistics
Matches: 1065, Mismatches: 14, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
355 4 0.00
356 186 0.17
357 628 0.59
358 218 0.20
359 29 0.03
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (357 bp):
TTTTATTGATACTTTCAGTATAATTTAAGAAATGTTCTCACTTTAAGAGTATTTAAAAACATTAC
TTTTTCCTGGAAAAGACTCCATTGACAAATTAGTTTGGCATTTAAAATATATTTTACTATTAAAA
TTTTGTTTCTTAAATTAATTATAAAATACTTTTACTTGAAAAATAAATCAAAATTCTTTTTATTA
AAAAAAATTCCCAAAATCCACCCAACACCCTTTGTAAAATTTTAGAAAACTTTCCTTATGTAAAA
ATTGTCAAAGAAATTATCACTTGTATTTTCTTTTAATTCCATCATTACTTAAAAAATATAAATTA
ATTATTTAATTAATTATAAAAAGTACATCAAT
Found at i:11453486 original size:12 final size:13
Alignment explanation
Indices: 11453469--11453500 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11453459 AAAATAATAA
11453469 AATTTTAA-TTTT
1 AATTTTAATTTTT
11453481 AATTTTAATTTTT
1 AATTTTAATTTTT
11453494 AATTTTA
1 AATTTTA
11453501 CACATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:11453495 original size:7 final size:6
Alignment explanation
Indices: 11453469--11453500 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
11453459 AAAATAATAA
11453469 AATTTT AATTTT AATTTT AATTTTT AATTTT A
1 AATTTT AATTTT AATTTT AA-TTTT AATTTT A
11453501 CACATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:11459627 original size:17 final size:16
Alignment explanation
Indices: 11459602--11459633 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11459592 CACAGTAAAA
11459602 TTTTTCTATTTTTTAG
1 TTTTTCTATTTTTTAG
11459618 TTTTTCCTATTTTTTA
1 TTTTT-CTATTTTTTA
11459634 TTTCCTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTCTATTTTTTAG
Found at i:11460822 original size:13 final size:14
Alignment explanation
Indices: 11460804--11460832 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11460794 TATGGAGGAA
11460804 TTTTT-GAAAATTT
1 TTTTTGGAAAATTT
11460817 TTTTTGGAAAATTT
1 TTTTTGGAAAATTT
11460831 TT
1 TT
11460833 AGTTTTAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (14 bp):
TTTTTGGAAAATTT
Found at i:11460913 original size:31 final size:31
Alignment explanation
Indices: 11460859--11460920 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
11460849 TTTGGCTTCG
** ** *
11460859 ATTGAATTTTTTGATGATTTTTTCAGCATTT
1 ATTGAATTTTTTGACAAGCTTTTCAGAATTT
11460890 ATTGAATTTTTTGACAAGCTTTTCAGAATTT
1 ATTGAATTTTTTGACAAGCTTTTCAGAATTT
11460921 GGTTGAAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (31 bp):
ATTGAATTTTTTGACAAGCTTTTCAGAATTT
Found at i:11465715 original size:13 final size:12
Alignment explanation
Indices: 11465688--11465714 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11465678 TCAAAGATAG
11465688 AAAGCAAAAAAA
1 AAAGCAAAAAAA
11465700 AAAGCAAAAAAA
1 AAAGCAAAAAAA
11465712 AAA
1 AAA
11465715 AAAGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAGCAAAAAAA
Found at i:11466160 original size:15 final size:16
Alignment explanation
Indices: 11466065--11466186 Score: 79
Period size: 18 Copynumber: 7.1 Consensus size: 16
11466055 ATCAATAATG
*
11466065 AATGAAAAAAAGAAAAA
1 AATGAAAAAAAG-GAAA
11466082 AATGAAAAAAAGAGAAAAA
1 AATGAAAAAAAG-G--AAA
*
11466101 AATGAAAAAAATGAAAAA
1 AATGAAAAAAA-G-GAAA
*
11466119 AATGAAAAAAATGAAAAA
1 AATGAAAAAAA-G-GAAA
11466137 AATGAAAAATAA--AAA
1 AATGAAAAA-AAGGAAA
*
11466152 AA-GGAAAAAAGGAAA
1 AATGAAAAAAAGGAAA
*
11466167 AATGCAAAAAGAGAGAAA
1 AATG-AAAAAAAG-GAAA
11466185 AA
1 AA
11466187 GAGAACTCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.11
16 1 0.01
17 19 0.21
18 36 0.40
19 16 0.18
20 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (16 bp):
AATGAAAAAAAGGAAA
Found at i:11466176 original size:9 final size:9
Alignment explanation
Indices: 11466065--11466161 Score: 139
Period size: 9 Copynumber: 11.1 Consensus size: 9
11466055 ATCAATAATG
11466065 AATGAAAAA
1 AATGAAAAA
11466074 AA-GAAAAA
1 AATGAAAAA
11466082 AATGAAAAA
1 AATGAAAAA
*
11466091 AAGAGAAAAA
1 AA-TGAAAAA
11466101 AATGAAAAA
1 AATGAAAAA
11466110 AATGAAAAA
1 AATGAAAAA
11466119 AATGAAAAA
1 AATGAAAAA
11466128 AATGAAAAA
1 AATGAAAAA
11466137 AATG--AAA
1 AATGAAAAA
11466144 AAT-AAAAA
1 AATGAAAAA
*
11466152 AAGGAAAAA
1 AATGAAAAA
11466161 A
1 A
11466162 GGAAAAATGC
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
7 6 0.08
8 13 0.16
9 53 0.66
10 8 0.10
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AATGAAAAA
Found at i:11466187 original size:25 final size:23
Alignment explanation
Indices: 11466116--11466187 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
11466106 AAAAAATGAA
* *
11466116 AAAAATGAAAAAAATGAAAAAAATG
1 AAAAATGAAAAAGA-G-AAAAAAGG
*
11466141 AAAAAT-AAAAAAAGGAAAAAAGG
1 AAAAATGAAAAAGA-GAAAAAAGG
11466164 AAAAATGCAAAAAGAGAGAAAAAG
1 AAAAATG-AAAAAGAGA-AAAAAG
11466188 AGAACTCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 13 0.32
24 10 0.24
25 18 0.44
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (23 bp):
AAAAATGAAAAAGAGAAAAAAGG
Found at i:11466189 original size:8 final size:8
Alignment explanation
Indices: 11466071--11466191 Score: 50
Period size: 9 Copynumber: 14.2 Consensus size: 8
11466061 AATGAATGAA
*
11466071 AAAAAGAA
1 AAAAAGAG
*
11466079 AAAAATGAA
1 AAAAA-GAG
11466088 AAAAAGAG
1 AAAAAGAG
*
11466096 AAAAAAATG
1 AAAAAGA-G
*
11466105 AAAAAAATG
1 AAAAAGA-G
*
11466114 AAAAAAATG
1 AAAAAGA-G
*
11466123 AAAAAAATG
1 AAAAAGA-G
*
11466132 AAAAAAATG
1 AAAAAGA-G
* *
11466141 AAAAATAA
1 AAAAAGAG
11466149 AAAAAG-G
1 AAAAAGAG
11466156 AAAAA-AGG
1 AAAAAGA-G
11466164 AAAAATGCA-
1 AAAAA-G-AG
11466173 AAAAGAGAG
1 AAAA-AGAG
11466182 AAAAAGAG
1 AAAAAGAG
11466190 AA
1 AA
11466192 CTCAATTTGA
Statistics
Matches: 98, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
7 5 0.05
8 31 0.32
9 60 0.61
10 1 0.01
11 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.07
Consensus pattern (8 bp):
AAAAAGAG
Found at i:11467434 original size:21 final size:22
Alignment explanation
Indices: 11467395--11467437 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11467385 TTGAACTCGA
11467395 ATGAGAAGCTTTAAAATTTTGG
1 ATGAGAAGCTTTAAAATTTTGG
* *
11467417 ATGAGAATCTTTAAATTTTTG
1 ATGAGAAGCTTTAAAATTTTG
11467438 AATGTAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (22 bp):
ATGAGAAGCTTTAAAATTTTGG
Found at i:11467450 original size:22 final size:22
Alignment explanation
Indices: 11467393--11467450 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11467383 CTTTGAACTC
*
11467393 GAATGAGAAGCTTTAAAATTTT
1 GAATGAGAACCTTTAAAATTTT
* * *
11467415 GGATGAGAATCTTTAAATTTTT
1 GAATGAGAACCTTTAAAATTTT
11467437 GAATGTA-AACCTTT
1 GAATG-AGAACCTTT
11467451 GAACTTAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GAATGAGAACCTTTAAAATTTT
Found at i:11468062 original size:43 final size:43
Alignment explanation
Indices: 11467983--11468460 Score: 539
Period size: 43 Copynumber: 11.0 Consensus size: 43
11467973 CATAATTGTC
* * *
11467983 GAGGAGCCTTATTTGTTTTTTAAAGGTTATTGAGCCTTTGATTA
1 GAGGAGCCTTATTTATTTTTCAAA-GTTATTGAGCCTCTGATTA
* *
11468027 GAGGAGCCTTATTTATTTTTCAAAGTCATCGAGCCTCTGATTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
* * ** * * *
11468070 GAGAAGCCTTATTTATTTTACAAAGTCGTTGAGCATTTGCTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
*
11468113 AAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCT-ACTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGA-TTA
* * * * *
11468156 GAGGAGCTTTATTTATTTTTCAAAGTCATCGAGCCTTTGCTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
* * * *
11468199 GAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
*
11468242 GAGGAGCCTTATTTATTTTTTTAAAGTTATTGAGCCTCTGATTA
1 GAGGAGCCTTATTTA-TTTTTCAAAGTTATTGAGCCTCTGATTA
* * * * *
11468286 TAGGAG-TTTAATTTATTTTTCAAAGTCATTGAGCATCTGTTTA
1 GAGGAGCCTT-ATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
* * *
11468329 GAGGAGCCTTGTTTATTTTTCAAAGTTGTGGAGCCTCTGATTA
1 GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
** * *
11468372 GAGGAGTTTTATTTACTTTTTCAAAATTTGTTGAGCCTCTGATTA
1 GAGGAGCCTTATTTA-TTTTTC-AAAGTTATTGAGCCTCTGATTA
* *
11468417 GAGGAACCTTATTTATTTTTCCAAAGTTA-TGAGCCTCTGCTTA
1 GAGGAGCCTTATTTATTTTT-CAAAGTTATTGAGCCTCTGATTA
11468460 G
1 G
11468461 GGGATTTTTA
Statistics
Matches: 368, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
43 261 0.71
44 74 0.20
45 33 0.09
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (43 bp):
GAGGAGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGATTA
Found at i:11468330 original size:130 final size:130
Alignment explanation
Indices: 11467983--11468460 Score: 597
Period size: 130 Copynumber: 3.7 Consensus size: 130
11467973 CATAATTGTC
* *
11467983 GAGGAGCCTTATTT-GTTTTTTAAAGGTTATTGAGCCTTTGATTAGAGGAGCCTTATTTATTTTT
1 GAGGAGCCTTATTTATTTTTTTAAA-GTTATTGAGCCTCTGATTAGAGGAGCCTTATTTATTTTT
* * * * *
11468047 CAAAGTCATCGAGCCTCTGATTAGAGAAGCCTTATTTATTTTACAAAGTCGTTGAGCATTTGCTT
65 CAAAGTCATCGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTTTGATT
11468112 A
130 A
* * *
11468113 AAGGAGCCTTATTTA-TTTTTCAAAGTTATTGAGCCTCT-ACTTAGAGGAGCTTTATTTATTTTT
1 GAGGAGCCTTATTTATTTTTTTAAAGTTATTGAGCCTCTGA-TTAGAGGAGCCTTATTTATTTTT
* * * *
11468176 CAAAGTCATCGAGCCTTTGCTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTT
65 CAAAGTCATCGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTTTGATT
11468241 A
130 A
* *
11468242 GAGGAGCCTTATTTATTTTTTTAAAGTTATTGAGCCTCTGATTATAGGAG-TTTAATTTATTTTT
1 GAGGAGCCTTATTTATTTTTTTAAAGTTATTGAGCCTCTGATTAGAGGAGCCTT-ATTTATTTTT
* * * * * * *
11468306 CAAAGTCATTGAGCATCTGTTTAGAGGAGCCTTGTTTATTTTTCAAAGTTGTGGAGCCTCTGATT
65 CAAAGTCATCGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTTTGATT
11468371 A
130 A
** ** * * *
11468372 GAGGAGTTTTATTTACTTTTTCAAAATTTGTTGAGCCTCTGATTAGAGGAACCTTATTTATTTTT
1 GAGGAGCCTTATTTA-TTTTTTTAAAGTTATTGAGCCTCTGATTAGAGGAGCCTTATTTATTTTT
*
11468437 CCAAAGTTAT-GAGCCTCTGCTTAG
65 -CAAAGTCATCGAGCCTCTGCTTAG
11468461 GGGATTTTTA
Statistics
Matches: 302, Mismatches: 38, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
128 1 0.00
129 110 0.36
130 129 0.43
131 52 0.17
132 10 0.03
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (130 bp):
GAGGAGCCTTATTTATTTTTTTAAAGTTATTGAGCCTCTGATTAGAGGAGCCTTATTTATTTTTC
AAAGTCATCGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTTTGATTA
Found at i:11469885 original size:15 final size:15
Alignment explanation
Indices: 11469865--11469896 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11469855 TATTTTTAAC
11469865 AAATAAAAAAAATTA
1 AAATAAAAAAAATTA
*
11469880 AAATAAAAATAATTA
1 AAATAAAAAAAATTA
11469895 AA
1 AA
11469897 GCCTTTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAAAAAAAATTA
Found at i:11475442 original size:3 final size:3
Alignment explanation
Indices: 11475434--11475458 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11475424 CATTTCATAC
11475434 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
11475459 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11475479 original size:10 final size:10
Alignment explanation
Indices: 11475464--11475502 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11475454 TTATTTGTTT
11475464 TTTTTTTCAA
1 TTTTTTTCAA
**
11475474 TTTTTTTACTC
1 TTTTTTT-CAA
11475485 TTTTTTTCAA
1 TTTTTTTCAA
11475495 TTTTTTTC
1 TTTTTTTC
11475503 TTTTTTTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:11475490 original size:21 final size:19
Alignment explanation
Indices: 11475463--11475509 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
11475453 ATTATTTGTT
11475463 TTTTTTTTCAATTTTTTTAC
1 TTTTTTTTCAATTTTTTT-C
11475483 TCTTTTTTTCAATTTTTTTC
1 T-TTTTTTTCAATTTTTTTC
11475503 TTTTTTT
1 TTTTTTT
11475510 GCTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 17 0.65
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCAATTTTTTTC
Found at i:11485813 original size:9 final size:9
Alignment explanation
Indices: 11485797--11485839 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
11485787 GGCTTGAACC
11485797 TAAAAAAATA
1 TAAAAAAA-A
11485807 TAAAAAAAA
1 TAAAAAAAA
11485816 TAAAAAAAA
1 TAAAAAAAA
11485825 T-AAAAAAA
1 TAAAAAAAA
11485833 TAAAAAA
1 TAAAAAA
11485840 TAAAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
10 8 0.25
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:11485820 original size:8 final size:8
Alignment explanation
Indices: 11485799--11485844 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
11485789 CTTGAACCTA
11485799 AAAAAATAT
1 AAAAAA-AT
11485808 AAAAAAAAT
1 -AAAAAAAT
11485817 AAAAAAAAT
1 -AAAAAAAT
11485826 AAAAAAAT
1 AAAAAAAT
11485834 -AAAAAAT
1 AAAAAAAT
11485841 AAAA
1 AAAA
11485845 GAAAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.20
8 11 0.31
9 11 0.31
10 6 0.17
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11485822 original size:18 final size:18
Alignment explanation
Indices: 11485799--11485850 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
11485789 CTTGAACCTA
11485799 AAAAAATATAAAAAAAAT
1 AAAAAATATAAAAAAAAT
*
11485817 AAAAAAAAT-AAAAAAAT
1 AAAAAATATAAAAAAAAT
11485834 AAAAAATA-AAAGAAAAA
1 AAAAAATATAAA-AAAAA
11485851 AAGAGAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAATATAAAAAAAAT
Found at i:11485828 original size:28 final size:29
Alignment explanation
Indices: 11485797--11485852 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11485787 GGCTTGAACC
* *
11485797 TAAAAAAATATAAAA-AAAATAAAAAAAA
1 TAAAAAAATAAAAAATAAAAGAAAAAAAA
11485825 TAAAAAAATAAAAAATAAAAGAAAAAAA
1 TAAAAAAATAAAAAATAAAAGAAAAAAA
11485853 GAGAAGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (29 bp):
TAAAAAAATAAAAAATAAAAGAAAAAAAA
Found at i:11485844 original size:20 final size:19
Alignment explanation
Indices: 11485798--11485852 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
11485788 GCTTGAACCT
11485798 AAAAAAATATAAAAAAAATA
1 AAAAAAATA-AAAAAAAATA
11485818 AAAAAAATAAAAAAATAA-A
1 AAAAAAATAAAAAAA-AATA
*
11485837 AAATAAAAGAAAAAAA
1 AAA-AAAATAAAAAAA
11485853 GAGAAGAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAAATAAAAAAAAATA
Found at i:11485852 original size:15 final size:14
Alignment explanation
Indices: 11485797--11485852 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
11485787 GGCTTGAACC
*
11485797 TAAAAAAATATAAAA
1 TAAAAAAA-AAAAAA
*
11485812 -AAAATAAAAAAAA
1 TAAAAAAAAAAAAA
11485825 TAAAAAAATAAAAAA
1 TAAAAAAA-AAAAAA
*
11485840 TAAAAGAAAAAAA
1 TAAAAAAAAAAAA
11485853 GAGAAGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 5 0.14
14 17 0.49
15 13 0.37
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (14 bp):
TAAAAAAAAAAAAA
Found at i:11486906 original size:119 final size:119
Alignment explanation
Indices: 11486608--11487298 Score: 551
Period size: 119 Copynumber: 5.8 Consensus size: 119
11486598 TTGTTCACCT
* * * *
11486608 ACTTGGTCTTGGCTCAGTCCAGATCATCTTTGATGATTTATGATTTCATCTCGATCATCTATCTT
1 ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGATCATCTATCTT
* * * * * *
11486673 TAACCTCAACTC-GATCCTGGTTACTTTATTTTGACTCATGGTTTTATCCCGGTC
66 TGACCTCAACTCAG-TCCTGGTCACTTTATTTTGACTCGTGATTTTGTCTCGGTC
* * * * * * * * *
11486727 ACTTGGTCTTGACTTAGTTTAAATCATCTCTGATGATTCATGATTTTAGCT-TAGTAATCTATCT
1 ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGA-TCATCTATCT
* * * *
11486791 TCGACCTCGAA-TCAGTCCTGGTCGCTTTGTTTTGACTCGTGATTTTGTC-CTAGTC
65 TTGACCTC-AACTCAGTCCTGGTCACTTTATTTTGACTCGTGATTTTGTCTC-GGTC
* * * * *
11486846 ACTTGATTTTGGCTCAATCTAAATCATCTCTGATGATTCGTGGTTTCATCTCGATCATCTATCTT
1 ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGATCATCTATCTT
** * * *
11486911 TGACCTTGACTCAGT-CTCCGTCACTTTATTTTGACTCGTGATTTCGTTTCGGTC
66 TGACCTCAACTCAGTCCT-GGTCACTTTATTTTGACTCGTGATTTTGTCTCGGTC
* * * * * * *
11486965 ACTT-ATTCTTGGCTCAATCTAGATCATCTTTAATAATTCGTG-TTTCATCCCGATTATCTAT-T
1 ACTTGA-TCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGATCATCTATCT
* ** *
11487027 TTGACCTCAACTCAATTTTGGTCATTTTATTTTGACTCGTGATTTTGTCTCGGTC
65 TTGACCTCAACTCAGTCCTGGTCACTTTATTTTGACTCGTGATTTTGTCTCGGTC
* * * *
11487082 ACTTGATCTTGGCTCAGTCTGGATCATCTCTAATGATTTATGATTTCATCCCGATCATCTAT-TT
1 ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGATCATCTATCTT
* ** * * * ** *
11487146 TGACATTGACTC-GATCTTGGTCACTTTATTTTAACTCGTGGTTTCATCTCGATC
66 TGACCTCAACTCAG-TCCTGGTCACTTTATTTTGACTCGTGATTTTGTCTCGGTC
* * ** * * * * * * ** *
11487200 ACTTGGTTTTCACTTAGTCCAAATCATCTCTAATGATTTATGGTTT-AGTCTTAATCATCTATTT
1 ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCA-TCTCGATCATCTATCT
* * * *
11487264 TTAACTTCGAC-CTAGTCCTGGTCACTTTATCTTGA
65 TTGACCTCAACTC-AGTCCTGGTCACTTTATTTTGA
11487299 TCCTTAGTTC
Statistics
Matches: 463, Mismatches: 92, Indels: 34
0.79 0.16 0.06
Matches are distributed among these distances:
117 81 0.17
118 136 0.29
119 240 0.52
120 6 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (119 bp):
ACTTGATCTTGGCTCAGTCTAGATCATCTCTGATGATTCATGATTTCATCTCGATCATCTATCTT
TGACCTCAACTCAGTCCTGGTCACTTTATTTTGACTCGTGATTTTGTCTCGGTC
Found at i:11487772 original size:3 final size:3
Alignment explanation
Indices: 11487766--11487839 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
11487756 TTTCATACTT
11487766 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11487814 TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11487840 TTTTCATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11487865 original size:22 final size:22
Alignment explanation
Indices: 11487838--11487886 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
11487828 ATTATTATTA
11487838 TTTTTTCATTTTTT-CTACTCTT
1 TTTTTTCATTTTTTGCT-CTCTT
* *
11487860 TTTTTTCTTTTTTTGCTTTCTT
1 TTTTTTCATTTTTTGCTCTCTT
11487882 TTTTT
1 TTTTT
11487887 ATGTGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTTCATTTTTTGCTCTCTT
Found at i:11488728 original size:5 final size:5
Alignment explanation
Indices: 11488720--11488754 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
11488710 GTTTTTCTTT
11488720 TTTTA TTTTA TTTTGA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA
11488755 ACCCTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 26 0.93
6 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:11488741 original size:15 final size:14
Alignment explanation
Indices: 11488712--11488752 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
11488702 AATCTTAGGT
*
11488712 TTTTCTTTT-TTTA
1 TTTTATTTTATTTA
11488725 TTTTATTTTGATTTA
1 TTTTATTTT-ATTTA
11488740 TTTTATTTTATTT
1 TTTTATTTTATTT
11488753 TAACCCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 13 0.52
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:11489307 original size:2 final size:2
Alignment explanation
Indices: 11489302--11489335 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11489292 TCTCCCCTTA
11489302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11489336 TAGGGACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11491091 original size:3 final size:3
Alignment explanation
Indices: 11491083--11491114 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11491073 AAATAAGTAG
*
11491083 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11491115 ATGAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11494616 original size:13 final size:14
Alignment explanation
Indices: 11494598--11494628 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11494588 CCATCAAATG
11494598 AAAAGAAAAAAA-A
1 AAAAGAAAAAAAGA
11494611 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
11494625 AAAA
1 AAAA
11494629 ATAGATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:11499690 original size:9 final size:8
Alignment explanation
Indices: 11499674--11499727 Score: 65
Period size: 9 Copynumber: 6.4 Consensus size: 8
11499664 TTTTAGTTTT
11499674 AAAATTAA
1 AAAATTAA
11499682 AAGAATTAA
1 AA-AATTAA
11499691 AAAATTTTAA
1 AAAA--TTAA
11499701 AAAATT-A
1 AAAATTAA
11499708 AAAATTAA
1 AAAATTAA
11499716 AATAATTAA
1 AA-AATTAA
11499725 AAA
1 AAA
11499728 TTTTTATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.17
8 10 0.24
9 16 0.39
10 8 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAATTAA
Found at i:11499696 original size:17 final size:16
Alignment explanation
Indices: 11499674--11499727 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
11499664 TTTTAGTTTT
11499674 AAAATTAAAAGAATTAA
1 AAAATTAAAA-AATTAA
11499691 AAAATTTTAAAAAATT-A
1 AAAA--TTAAAAAATTAA
11499708 AAAATTAAAATAATTAA
1 AAAATTAAAA-AATTAA
11499725 AAA
1 AAA
11499728 TTTTTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 13 0.39
18 4 0.12
19 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATTAAAAAATTAA
Found at i:11499710 original size:16 final size:18
Alignment explanation
Indices: 11499678--11499731 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 18
11499668 AGTTTTAAAA
*
11499678 TTAAAAGAATTAAAAAATT
1 TTAAAATAATT-AAAAATT
11499697 TTAAAA-AATTAAAAA--
1 TTAAAATAATTAAAAATT
11499712 TTAAAATAATTAAAAATT
1 TTAAAATAATTAAAAATT
11499730 TT
1 TT
11499732 TATATTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.19
16 9 0.28
17 5 0.16
18 6 0.19
19 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TTAAAATAATTAAAAATT
Found at i:11500181 original size:19 final size:20
Alignment explanation
Indices: 11500157--11500200 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11500147 TATTTATATA
11500157 TATTTAATAA-ATAAAATTT
1 TATTTAATAATATAAAATTT
*
11500176 TATTTAATAATATAAATTTT
1 TATTTAATAATATAAAATTT
11500196 TATTT
1 TATTT
11500201 TAGAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTAATAATATAAAATTT
Found at i:11500207 original size:20 final size:20
Alignment explanation
Indices: 11500157--11500207 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11500147 TATTTATATA
*
11500157 TATTTAATAA-ATAAAATTT
1 TATTTAAGAATATAAAATTT
* *
11500176 TATTTAATAATATAAATTTT
1 TATTTAAGAATATAAAATTT
*
11500196 TATTTTAGAATA
1 TATTTAAGAATA
11500208 ATTTGAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTTAAGAATATAAAATTT
Found at i:11501743 original size:16 final size:16
Alignment explanation
Indices: 11501706--11501744 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11501696 TGTTTATTTA
*
11501706 ATTA-TTTATTAATAT
1 ATTATTTTATTAAAAT
11501721 ATGTATTTTATTAAAAT
1 AT-TATTTTATTAAAAT
11501738 ATTATTT
1 ATTATTT
11501745 AATACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 7 0.33
17 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTATTTTATTAAAAT
Found at i:11508835 original size:14 final size:14
Alignment explanation
Indices: 11508812--11508843 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11508802 TAAAAAACAT
*
11508812 AAAAAGATAAAATA
1 AAAAAAATAAAATA
11508826 AAAAAAATAAAATA
1 AAAAAAATAAAATA
11508840 AAAA
1 AAAA
11508844 TGGAGCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:11508951 original size:15 final size:15
Alignment explanation
Indices: 11508933--11508967 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11508923 TTTATTAATA
11508933 AAAAATAAAAAAAGG
1 AAAAATAAAAAAAGG
* *
11508948 AAAAATAAATAACGG
1 AAAAATAAAAAAAGG
11508963 AAAAA
1 AAAAA
11508968 GAAAGACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.09
Consensus pattern (15 bp):
AAAAATAAAAAAAGG
Found at i:11509076 original size:17 final size:16
Alignment explanation
Indices: 11509056--11509116 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11509046 TAACTTTATT
*
11509056 AATATAATATGTAAATA
1 AATATAAAAT-TAAATA
11509073 AATATAAAATTAAATA
1 AATATAAAATTAAATA
*
11509089 GATAATAAAATATATAATA
1 AAT-ATAAAAT-TA-AATA
*
11509108 AAAATAAAA
1 AATATAAAA
11509117 AATAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.22
17 16 0.43
18 8 0.22
19 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AATATAAAATTAAATA
Found at i:11509123 original size:12 final size:12
Alignment explanation
Indices: 11509068--11509123 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
11509058 TATAATATGT
11509068 AAAT-AAATATA
1 AAATAAAATATA
* *
11509079 AAATTAAATAGA
1 AAATAAAATATA
*
11509091 TAATAAAATATA
1 AAATAAAATATA
* *
11509103 TAATAAAAATAAA
1 AAAT-AAAATATA
11509116 AAATAAAA
1 AAATAAAA
11509124 AATATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 4 0.11
12 23 0.62
13 10 0.27
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
AAATAAAATATA
Found at i:11509197 original size:21 final size:20
Alignment explanation
Indices: 11509160--11509207 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
11509150 GAGCATCACT
11509160 AAAAATATTTTATAATATTA
1 AAAAATATTTTATAATATTA
*
11509180 AAAAATA-TTTATCAAATATTG
1 AAAAATATTTTAT--AATATTA
11509201 AAAAATA
1 AAAAATA
11509208 AATAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 7 0.28
21 13 0.52
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATATTTTATAATATTA
Found at i:11509546 original size:18 final size:19
Alignment explanation
Indices: 11509492--11509555 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 19
11509482 AATATTGAAA
*
11509492 AAAAATTTTGAAAAGCAA-T
1 AAAAATTTTGAAAA-AAATT
*
11509511 AAAACAGTTTTGAAAAAATTT
1 AAAA-A-TTTTGAAAAAAATT
11509532 AAAAATTTT-AAAAAAATT
1 AAAAATTTTGAAAAAAATT
11509550 AAAAAT
1 AAAAAT
11509556 AAAAAAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 14 0.36
19 8 0.21
20 3 0.08
21 14 0.36
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAAATTTTGAAAAAAATT
Found at i:11521877 original size:45 final size:43
Alignment explanation
Indices: 11521812--11521941 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 43
11521802 TTAGCTTTAG
*
11521812 GATGTGAATCTCAAATTTTTTTTCGAATGAGAATTTTTGAAACTTAA
1 GATGTGAATC-CAAA--TTTTTT-GAATGAGAATTTTTGAAACCTAA
* * ** *
11521859 GATGTGAATCCTAATTTTTTAAATGAGAATTTTCAAAACCTAG
1 GATGTGAATCCAAATTTTTTGAATGAGAATTTTTGAAACCTAA
*
11521902 GATGTGAAACCCAAAATTTTTTGAATGAGAATTTTTGAAA
1 GATGTG-AATCC-AAATTTTTTGAATGAGAATTTTTGAAA
11521942 TTTTGGATGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 24 0.34
44 10 0.14
45 23 0.33
46 3 0.04
47 10 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (43 bp):
GATGTGAATCCAAATTTTTTGAATGAGAATTTTTGAAACCTAA
Found at i:11521950 original size:45 final size:45
Alignment explanation
Indices: 11521808--11521986 Score: 155
Period size: 45 Copynumber: 4.0 Consensus size: 45
11521798 ATCTTTAGCT
* * *
11521808 TTAGGATGTGAATCTCAAATTTTTTTTCGAATGAGAATTTTTGAAAC
1 TTAGGATGTGAAACCCAAA-ATTTTTT-GAATGAGAATTTTTGAAAC
* * * * **
11521855 TTAAGATGTG-AATCC-TAATTTTTTAAATGAGAATTTTCAAAAC
1 TTAGGATGTGAAACCCAAAATTTTTTGAATGAGAATTTTTGAAAC
* *
11521898 CTAGGATGTGAAACCCAAAATTTTTTGAATGAGAATTTTTGAAAT
1 TTAGGATGTGAAACCCAAAATTTTTTGAATGAGAATTTTTGAAAC
* * * * * * *
11521943 TTTGGATGTGAGACCCTTAACTTTTTTTAATGAAAATCTTTGAA
1 TTAGGATGTGAAACCC-AAAATTTTTTGAATGAGAATTTTTGAA
11521987 TTTTGGTTAT
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
43 24 0.23
44 10 0.10
45 37 0.36
46 24 0.23
47 9 0.09
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (45 bp):
TTAGGATGTGAAACCCAAAATTTTTTGAATGAGAATTTTTGAAAC
Found at i:11521989 original size:45 final size:45
Alignment explanation
Indices: 11521782--11521992 Score: 117
Period size: 45 Copynumber: 4.7 Consensus size: 45
11521772 TGAATCTTTG
* ** * * *
11521782 AATTTTTTGAATAAAAATCTTT-AGCTTTAGGATGTGAATCTCAA
1 AATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGAAACCCAA
* * * * ** * *
11521826 ATTTTTTTTCGAATGAGAATTTTTGAAACTTAAGATGTG-AATCC-T
1 A-ATTTTTT-GAATGAAAATCTTTGAAATTTTGGATGTGAAACCCAA
* * * ** *
11521871 AATTTTTTAAATGAGAAT-TTTCAAAACCTAGGATGTGAAACCCAA
1 AATTTTTTGAATGAAAATCTTT-GAAATTTTGGATGTGAAACCCAA
* * * *
11521916 AATTTTTTGAATGAGAATTTTTGAAATTTTGGATGTGAGACCCTTA
1 AATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGAAACCC-AA
* *
11521962 ACTTTTTTTAATGAAAATCTTTG-AATTTTGG
1 AATTTTTTGAATGAAAATCTTTGAAATTTTGG
11521993 TTATAAACCA
Statistics
Matches: 129, Mismatches: 30, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
42 3 0.02
43 21 0.16
44 11 0.09
45 48 0.37
46 36 0.28
47 10 0.08
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (45 bp):
AATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGAAACCCAA
Found at i:11522987 original size:31 final size:30
Alignment explanation
Indices: 11522880--11522990 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 30
11522870 GATTCAATCC
* * *
11522880 CAGTCATTTATTTTTGACATCAGCTTAGTC
1 CAGTCATTTATTTTTTACCTCAGCTTAGTT
* * * *
11522910 CAATTCATTTATTTTTCTAACTTACGATTTAGTCT
1 C-AGTCATTTATTTTT-TACCTCA-G-CTTAGT-T
*
11522945 CAGTCACTTATTTTTTACCTCAGCTTAGTT
1 CAGTCATTTATTTTTTACCTCAGCTTAGTT
11522975 CAGGTCATTTATTTTT
1 CA-GTCATTTATTTTT
11522991 CTAATTTTGT
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
30 4 0.06
31 30 0.48
32 4 0.06
33 6 0.10
34 17 0.27
35 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.49
Consensus pattern (30 bp):
CAGTCATTTATTTTTTACCTCAGCTTAGTT
Found at i:11523023 original size:66 final size:65
Alignment explanation
Indices: 11522839--11523024 Score: 212
Period size: 65 Copynumber: 2.8 Consensus size: 65
11522829 CGACTTCGGG
* * * * *
11522839 TTAGTTCAGATTATTTATTTTTTTAACTTGTGATTCAATCCCAGTCATTTATTTTTGACATCAGC
1 TTAGTTCAGATCATTTATTTTTCTAACTTGTGATTTAGTCCCAGTCACTTATTTTTGACATCAGC
* ** * * *
11522904 TTAGTCCA-ATTCATTTATTTTTCTAACTTACGATTTAGTCTCAGTCACTTATTTTTTACCTCAG
1 TTAGTTCAGA-TCATTTATTTTTCTAACTTGTGATTTAGTCCCAGTCACTTATTTTTGACATCAG
11522968 C
65 C
* * * *
11522969 TTAGTTCAGGTCATTTATTTTTCTAATTTTGTGGTTTAGTCCCAATCACTTATTTT
1 TTAGTTCAGATCATTTATTTTTCTAA-CTTGTGATTTAGTCCCAGTCACTTATTTT
11523025 AAAGTTGTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
64 1 0.01
65 75 0.76
66 23 0.23
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (65 bp):
TTAGTTCAGATCATTTATTTTTCTAACTTGTGATTTAGTCCCAGTCACTTATTTTTGACATCAGC
Found at i:11523070 original size:43 final size:43
Alignment explanation
Indices: 11523017--11523478 Score: 396
Period size: 43 Copynumber: 10.8 Consensus size: 43
11523007 GTCCCAATCA
* * **
11523017 CTTATTTTAAAGTTGTTTAGCCTTTGTATAGATAAGCCCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* ** * * * * *
11523060 CTTAGTTTAAAGTCATTTGGCCTCTAAATAAAGAAGTCCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* *
11523103 CTTATTTTACAA-TTGTTTTGCCTCTATTTAGAGGAGCCCATTT
1 CTTATTTTA-AAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* * * **
11523146 TTTATTTTAAAGTTGTTTAGCC-CTGTATAAAGGAGCTTATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
** * * *
11523188 -TTATTTTAAAGTCATTTAGTCTTTGA-ATAGAGGAGCCTATTT
1 CTTATTTTAAAGTTGTTTAGCCTCT-ATATAGAGGAGCCCATTT
** ** * * *
11523230 CTTATTTTAAAGTCATTTTTCCTCTATTTAGATGAACCCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* *
11523273 CCTATTTTAAAGTTGTTTAGCCTCTGTATAGATGG-GCCCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGA-GGAGCCCATTT
* * * * *
11523316 CATATTTTAAAGTTGATTAGCCTCTATTTAGATGAGCTCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* * * *
11523359 CATATTTTAAAGTTGTTTAGCCTCTAAATAAAGGAGCCTATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* * * * *
11523402 CTCATTTTAAATTTGTTTAGCCTCTATTTAGAGAAGCTCATTT
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
* * * *
11523445 CTTAATTTAAATTTGTTTA-CCTTTATTTAGAGGA
1 CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGA
11523479 TTCTTGAGTT
Statistics
Matches: 335, Mismatches: 76, Indels: 17
0.78 0.18 0.04
Matches are distributed among these distances:
41 18 0.05
42 47 0.14
43 267 0.80
44 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.45
Consensus pattern (43 bp):
CTTATTTTAAAGTTGTTTAGCCTCTATATAGAGGAGCCCATTT
Found at i:11523222 original size:42 final size:41
Alignment explanation
Indices: 11523134--11523247 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 41
11523124 CTCTATTTAG
* ** *
11523134 AGGAGCCCATTTTTTATTTTAAAGTTGTTTAGCCCTGTATAA
1 AGGAGCCTA-TTTTTATTTTAAAGTCATTTAGCCCTGAATAA
* ** *
11523176 AGGAGCTTATTTTTATTTTAAAGTCATTTAGTCTTTGAATAG
1 AGGAGCCTATTTTTATTTTAAAGTCATTTAG-CCCTGAATAA
11523218 AGGAGCCTATTTCTTATTTTAAAGTCATTT
1 AGGAGCCTATTT-TTATTTTAAAGTCATTT
11523248 TTCCTCTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 20 0.33
42 24 0.39
43 17 0.28
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (41 bp):
AGGAGCCTATTTTTATTTTAAAGTCATTTAGCCCTGAATAA
Found at i:11529921 original size:20 final size:17
Alignment explanation
Indices: 11529893--11529932 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
11529883 TTTCACTCCA
11529893 TTTTCTATTTTTATTATAT
1 TTTTCTA-TTTTATT-TAT
11529912 TTTTCTTATTTTATTTAT
1 TTTTC-TATTTTATTTAT
11529930 TTT
1 TTT
11529933 AGTTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 12 0.60
20 2 0.10
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTATTTTATTTAT
Found at i:11535095 original size:13 final size:13
Alignment explanation
Indices: 11535077--11535102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11535067 TTTTTTTTTT
11535077 ATTTTGTAATGTC
1 ATTTTGTAATGTC
11535090 ATTTTGTAATGTC
1 ATTTTGTAATGTC
11535103 TGTTTACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTGTAATGTC
Found at i:11536577 original size:17 final size:18
Alignment explanation
Indices: 11536544--11536588 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
11536534 GAAATTTAAA
*
11536544 ATAAAATAAACTAAAATT
1 ATAAAATAAACTAAAATC
11536562 ATAAAATAAA-TAAAATC
1 ATAAAATAAACTAAAATC
*
11536579 AAAAAATAAA
1 ATAAAATAAA
11536589 AGAAAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAATAAACTAAAATC
Found at i:11536582 original size:23 final size:22
Alignment explanation
Indices: 11536526--11536582 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11536516 ATAGTAAAGT
*
11536526 AAATAAAA-GAAATTTAAAATA
1 AAATAAAATAAAATTTAAAATA
*
11536547 AAATAAACTAAAATTATAAAAT-
1 AAATAAAATAAAATT-TAAAATA
11536569 AAATAAAATCAAAA
1 AAATAAAAT-AAAA
11536583 AATAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.23
22 13 0.43
23 10 0.33
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATAAAATAAAATTTAAAATA
Found at i:11536587 original size:22 final size:23
Alignment explanation
Indices: 11536540--11536595 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
11536530 AAAAGAAATT
* *
11536540 TAAAATAAAATAAACTAAAATTA
1 TAAAATAAAATAAAATAAAATAA
11536563 TAAAAT-AAATAAAATCAAAA-AA
1 TAAAATAAAATAAAAT-AAAATAA
*
11536585 TAAAAGAAAAT
1 TAAAATAAAAT
11536596 GGAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (23 bp):
TAAAATAAAATAAAATAAAATAA
Found at i:11537754 original size:37 final size:36
Alignment explanation
Indices: 11537713--11537922 Score: 172
Period size: 37 Copynumber: 5.7 Consensus size: 36
11537703 TAGGTCAGGG
* * *
11537713 AAATGATCTGGA-TCGAGCCAAGATTGAATAGTCAATA
1 AAATGATCTAGACT-GAGCCAAGATCGAAAAGTCAA-A
** *
11537750 AAATGATCT-GTACTGAATCGAGATCGAAAAGTCAAA
1 AAATGATCTAG-ACTGAGCCAAGATCGAAAAGTCAAA
* * * *
11537786 AAGATGATCTAGACTAAGTCAAGATCAAAAAGTCAGGA
1 AA-ATGATCTAGACTGAGCCAAGATCGAAAAGTCA-AA
* * * *
11537824 AAATGATTTAGACTGAGCGAAGATTGAAAAGTTAGAA
1 AAATGATCTAGACTGAGCCAAGATCGAAAAGTCA-AA
* * * * *
11537861 AAATGGTTTGGATTGAGCCAAGATCGAATAGTCAATA
1 AAATGATCTAGACTGAGCCAAGATCGAAAAGTCAA-A
11537898 AAATGATCTAGACTGAGCCAAGATC
1 AAATGATCTAGACTGAGCCAAGATC
11537923 AAATGACCAA
Statistics
Matches: 138, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
36 5 0.04
37 128 0.93
38 5 0.04
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (36 bp):
AAATGATCTAGACTGAGCCAAGATCGAAAAGTCAAA
Found at i:11537810 original size:74 final size:74
Alignment explanation
Indices: 11537728--11537922 Score: 198
Period size: 74 Copynumber: 2.6 Consensus size: 74
11537718 ATCTGGATCG
* *
11537728 AGCCAAGATTGAATAGTCAATAAAATGATCT-GTACTGAATCG-AGATCGAAAAGTCA-AAAAGA
1 AGCCAAGATCGAATAGTCAATAAAATGATCTAG-ACTG-AGCGAAGATCGAAAAGTCAGAAAA-A
11537790 TGATCTAGACTA
63 TGATCTAGACTA
* * * ** * * * *
11537802 AGTCAAGATCAAAAAGTCAGGAAAATGATTTAGACTGAGCGAAGATTGAAAAGTTAGAAAAATGG
1 AGCCAAGATCGAATAGTCAATAAAATGATCTAGACTGAGCGAAGATCGAAAAGTCAGAAAAATGA
* * * *
11537867 TTTGGATTG
66 TCTAGACTA
*
11537876 AGCCAAGATCGAATAGTCAATAAAATGATCTAGACTGAGCCAAGATC
1 AGCCAAGATCGAATAGTCAATAAAATGATCTAGACTGAGCGAAGATC
11537923 AAATGACCAA
Statistics
Matches: 95, Mismatches: 23, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
73 3 0.03
74 87 0.92
75 5 0.05
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.23
Consensus pattern (74 bp):
AGCCAAGATCGAATAGTCAATAAAATGATCTAGACTGAGCGAAGATCGAAAAGTCAGAAAAATGA
TCTAGACTA
Found at i:11538126 original size:121 final size:121
Alignment explanation
Indices: 11537890--11538113 Score: 295
Period size: 121 Copynumber: 1.9 Consensus size: 121
11537880 AAGATCGAAT
* ** *
11537890 AGTCAATAAAATGATCTAGACTGAGCCAAGATCAAATGACCAAGATTAAACTATGAGTCTAAAAG
1 AGTCAAAAAAATGATCTAGACTGAGCCAAGATCAAATGACCAAGACAAAACTATGAGTCCAAAAG
* * * *
11537955 ATAAAGTGATCAGGACCAAGTCGAGGTCAAAGATGAATAACCAAAACAAAATCGTG
66 ATAAAATGACCAAGACCAAGTCAAGGTCAAAGATGAATAACCAAAACAAAATCGTG
* * * * *
11538011 AGTCAAAAAAATGATCTGGATTGAGCCAAGATCGAATGACTAGGACAAAACTATGAGTCCAAAAG
1 AGTCAAAAAAATGATCTAGACTGAGCCAAGATCAAATGACCAAGACAAAACTATGAGTCCAAAAG
*** *
11538076 ATAAAATGACCAAGATTGAGTCAAGGTCGAAGATGAAT
66 ATAAAATGACCAAGACCAAGTCAAGGTCAAAGATGAAT
11538114 GACTGAGACA
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
121 86 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (121 bp):
AGTCAAAAAAATGATCTAGACTGAGCCAAGATCAAATGACCAAGACAAAACTATGAGTCCAAAAG
ATAAAATGACCAAGACCAAGTCAAGGTCAAAGATGAATAACCAAAACAAAATCGTG
Found at i:11539363 original size:21 final size:23
Alignment explanation
Indices: 11539339--11539386 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
11539329 TTTCTCTTCA
* *
11539339 TTTTCTTTGTTTT-TCC-TTATT
1 TTTTCTTTCTTTTATCCATCATT
11539360 TTTTCTTTCTTTTATCCATCATT
1 TTTTCTTTCTTTTATCCATCATT
11539383 TTTT
1 TTTT
11539387 TTAGCATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 3 0.13
23 8 0.35
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTCTTTCTTTTATCCATCATT
Found at i:11543715 original size:18 final size:18
Alignment explanation
Indices: 11543690--11543761 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 18
11543680 AAAAATAAAC
11543690 AAAT-AATAAAAATAGTA
1 AAATAAATAAAAATAGTA
11543707 AAATAAATAAAAGATATTGAAAATA
1 AAATAAATAAAA-ATA--G----TA
11543732 AAATAAACTAAAAATA-TA
1 AAATAAA-TAAAAATAGTA
11543750 AAATAAATAAAA
1 AAATAAATAAAA
11543762 TCAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
17 9 0.20
18 16 0.35
19 3 0.07
21 1 0.02
25 12 0.26
26 5 0.11
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAAATAGTA
Found at i:11543733 original size:25 final size:23
Alignment explanation
Indices: 11543705--11543781 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 23
11543695 ATAAAAATAG
11543705 TAAAATAAA-TAAAAGATATTGAAAA
1 TAAAATAAACTAAAA-ATA-T-AAAA
11543730 TAAAATAAACTAAAAATATAAAA
1 TAAAATAAACTAAAAATATAAAA
*
11543753 T-AAATAAAATCAAAAA-ATAAAA
1 TAAAATAAACT-AAAAATATAAAA
11543775 TGAAAAT
1 T-AAAAT
11543782 GGAAAAGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
22 15 0.32
23 10 0.21
24 5 0.11
25 12 0.26
26 5 0.11
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (23 bp):
TAAAATAAACTAAAAATATAAAA
Found at i:11543760 original size:22 final size:22
Alignment explanation
Indices: 11543681--11543781 Score: 80
Period size: 25 Copynumber: 4.2 Consensus size: 22
11543671 ATATTTAGTA
* *
11543681 AAAATAAACAAATAATAAAAATAGT
1 AAAATAAATAAA-AATATAAA-A-T
11543706 AAAATAAATAAAAGATATTGAAAAT
1 AAAATAAATAAAA-ATA-T-AAAAT
11543731 AAAATAAACTAAAAATATAAAAT
1 AAAATAAA-TAAAAATATAAAAT
11543754 -AAATAAAATCAAAAA-ATAAAAT
1 AAAAT-AAAT-AAAAATATAAAAT
11543776 GAAAAT
1 -AAAAT
11543782 GGAAAAGAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
22 12 0.18
23 13 0.20
24 6 0.09
25 26 0.39
26 6 0.09
27 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAAATAAAAATATAAAAT
Found at i:11543769 original size:17 final size:18
Alignment explanation
Indices: 11543731--11543773 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
11543721 TATTGAAAAT
*
11543731 AAAATAAACTAAAAATAT
1 AAAATAAACTAAAAATAA
11543749 AAAATAAA-T-AAAATCAA
1 AAAATAAACTAAAAAT-AA
11543766 AAAATAAA
1 AAAATAAA
11543774 ATGAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAAACTAAAAATAA
Found at i:11544260 original size:20 final size:20
Alignment explanation
Indices: 11544231--11544269 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11544221 CACCTCCGAG
*
11544231 AAACCTAAATCTAAACCTAA
1 AAACCCAAATCTAAACCTAA
11544251 AAACCCAAATCTAAACCTA
1 AAACCCAAATCTAAACCTA
11544270 GAAATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (20 bp):
AAACCCAAATCTAAACCTAA
Found at i:11544644 original size:3 final size:3
Alignment explanation
Indices: 11544636--11544665 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11544626 ATAAAATAGA
11544636 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11544666 TGCTATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11544724 original size:39 final size:36
Alignment explanation
Indices: 11544637--11544727 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 36
11544627 TAAAATAGAA
*
11544637 ATAATAATAATAATAATAATAATATAATATGCTATACT
1 ATAAT-ATAATAAT-ATAATAATATAATATGATATACT
* *
11544675 ATAGTATAATAATATAATAATAATAGTATGATATAACAT
1 ATAATATAATAATATAATAAT-ATAATATGATAT-AC-T
11544714 ATAA-ATTAATAATA
1 ATAATA-TAATAATA
11544728 AAAATACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
36 8 0.18
37 18 0.40
38 7 0.16
39 12 0.27
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (36 bp):
ATAATATAATAATATAATAATATAATATGATATACT
Found at i:11544726 original size:42 final size:44
Alignment explanation
Indices: 11544636--11544733 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 44
11544626 ATAAAATAGA
* *
11544636 AATAATAATAATAATAATAATAATATAATATGCTATACTATAGT
1 AATAATAATAATAATAATAATAATATAATATACTATACTAAAGT
* * *
11544680 -ATAATAAT-ATAATAATAATAGTATGATATAAC-ATA-TAAATT
1 AATAATAATAATAATAATAATAATATAATAT-ACTATACTAAAGT
*
11544721 AATAATAAAAATA
1 AATAATAATAATA
11544734 CAAAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.09
42 29 0.64
43 12 0.27
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (44 bp):
AATAATAATAATAATAATAATAATATAATATACTATACTAAAGT
Found at i:11545024 original size:85 final size:85
Alignment explanation
Indices: 11544934--11545104 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 85
11544924 CAAACATTAC
* * * * ** *
11544934 TATTCCTATTTTGTTAAACAACTGTTGATGTTCCTATTTTGCT-AAATTGCACTTTAATCTTTAT
1 TATTCCCATTTTGTTAAACAACTGCTAATGTTCATATTTTGCTAAAATTG-ACTCCAATCCTTAT
11544998 TCATGTATATAGAACATCTTT
65 TCATGTATATAGAACATCTTT
*
11545019 TATTCCCATTTTGTTAAACAACTGCTAATGTTCATATTTTGTTAAAATTGACTCCAATCCTTATT
1 TATTCCCATTTTGTTAAACAACTGCTAATGTTCATATTTTGCTAAAATTGACTCCAATCCTTATT
* *
11545084 CCTGTATATAGAACATTTTT
66 CATGTATATAGAACATCTTT
11545104 T
1 T
11545105 TTTTGTATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 69 0.92
86 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (85 bp):
TATTCCCATTTTGTTAAACAACTGCTAATGTTCATATTTTGCTAAAATTGACTCCAATCCTTATT
CATGTATATAGAACATCTTT
Found at i:11546186 original size:10 final size:11
Alignment explanation
Indices: 11546167--11546196 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11546157 TAAGCATAAA
11546167 AAAAATTTTTT
1 AAAAATTTTTT
11546178 AAAAATTTTTT
1 AAAAATTTTTT
11546189 AGAAAATT
1 A-AAAATT
11546197 CAAAATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AAAAATTTTTT
Found at i:11546419 original size:19 final size:20
Alignment explanation
Indices: 11546377--11546420 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11546367 AAAGAAACTT
* *
11546377 AAAATTTTTCCAAAAATCAC
1 AAAATTTTTCAAAAAATCAA
*
11546397 AAAATTTTT-AAAAAATTAA
1 AAAATTTTTCAAAAAATCAA
11546416 AAAAT
1 AAAAT
11546421 CAAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTTTTCAAAAAATCAA
Found at i:11546896 original size:21 final size:20
Alignment explanation
Indices: 11546868--11546911 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
11546858 TTTTTAAAAC
* *
11546868 TTTTAAAAATTTTTGGAATT
1 TTTTAAAAAATTTTAGAATT
11546888 TTTTCAAAAAATTTTAGAATT
1 TTTT-AAAAAATTTTAGAATT
11546909 TTT
1 TTT
11546912 AGAAAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAAAAAATTTTAGAATT
Found at i:11546917 original size:21 final size:21
Alignment explanation
Indices: 11546872--11546917 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11546862 TAAAACTTTT
* * *
11546872 AAAAATTTTTGGAATTTTTTC
1 AAAAAATTTTAGAATTTTTAC
*
11546893 AAAAAATTTTAGAATTTTTAG
1 AAAAAATTTTAGAATTTTTAC
11546914 AAAA
1 AAAA
11546918 CTTTGAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (21 bp):
AAAAAATTTTAGAATTTTTAC
Found at i:11547061 original size:18 final size:17
Alignment explanation
Indices: 11547007--11547062 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
11546997 GATGTTTTTT
*
11547007 TTAAATTTTTAAAAATTT
1 TTAAATTTTTAAAAA-TG
*
11547025 TTAAATTTTTAATATATG
1 TTAAATTTTTAA-AAATG
*
11547043 TTAGGATTTTTAAAAATG
1 TTA-AATTTTTAAAAATG
11547061 TT
1 TT
11547063 TTAGAGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 22 0.69
19 10 0.31
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (17 bp):
TTAAATTTTTAAAAATG
Found at i:11547186 original size:19 final size:20
Alignment explanation
Indices: 11547158--11547207 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
11547148 ATTTTTTTGG
*
11547158 AATTTATTTTAATGTTTT-A
1 AATTTTTTTTAATGTTTTAA
*
11547177 AATTTTTTTTAATTTTTTAA
1 AATTTTTTTTAATGTTTTAA
*
11547197 AATTTTGTTTA
1 AATTTTTTTTA
11547208 GAAATTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
AATTTTTTTTAATGTTTTAA
Done.