Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 7 of 17
Found at i:861244 original size:7 final size:6
Alignment explanation
Indices: 861200--861242 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
861190 TATATATAAT
* **
861200 TAAAAA TAAAATT TAAATT TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAA-A TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
861243 ATTACAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:861410 original size:379 final size:373
Alignment explanation
Indices: 859511--861593 Score: 3122
Period size: 379 Copynumber: 5.6 Consensus size: 373
859501 TAAATCTCCT
*
859511 AAATAATTTTTT-TATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
*
859575 TTTTAAATATATTAGTTAAATATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTT-TT
66 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* *
859639 TTTCAAATGTGTTGGGTATAAATATTAAATATATATGATTCATAACGCGAACTATTGTTAAAATA
131 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
* * *
859704 TATATAATTAAAAATAAAATTAAAATTTAAAAATAAAAATA-AAAAAATTACAATTTTTTTTAAA
196 TATATAATTAAAAATAAAA-AAAAATATAAAAATAAAAATATAAAAAATTACAA-ATTTTTT-AA
* *
859768 AAAAATTAAGGAATTTAGTGTC--T-A----TTAGGCAAAGAGCTTGACACATGTCAAGCTTTAA
258 AAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCTTAA
*
859826 ATCTCCTAAACAATTTTTTTATTTGTTAGATACAAAAATTTTTTAAATATA
323 ATCTCCTAAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATA
*
859877 AAATAATTCTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
859942 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
66 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* * *
860007 TTTCAAATGTGCTGGGTATAAATATTAAATATATATGATTCATAACACGAACTATTATTAAAATA
131 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
*
860072 TATATAATTAAAAAT-----AAAA-ATAAAAATAAAAAT-T-ATAAATTACAAATTTTTTAAAAA
196 TATATAATTAAAAATAAAAAAAAATATAAAAATAAAAATATAAAAAATTACAAATTTTTTAAAAA
* * *
860129 AATTAAGGGATTTATTGTTTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGACTTAAATC
261 AATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCTTAAATC
* *
860194 TCCTAAACAATTTTTTTATTTGTTAGATATGAAATTTTTTTAAATATA
326 TCCTAAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATA
* ** *
860242 AAATAATTTTTTAAATTTGTTGGATACAAAATTTAAATTAATTTGAAAATTTTGATCATCAACTA
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
* * *
860307 TTTTAAACATATTAGTTAAATAGAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
66 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* *
860372 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAATGAGAACTATTATTAAAATA
131 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
* * *
860437 TATATAATTAAAAATAAAAAAAAATAAAAAAATTACAAATTTTTTTAAAAAATTTACAAATTTTT
196 TATATAATTAAAAATAAAAAAAAATATAAAAA-TA-AAA---ATATAAAAAA-TTACAAA-TTTT
* * * *
860502 TTTAAAAAATTAAGGGATTTAGTATCTATCATGTGTTAGGCAAAGAGCTTGAAACATGTCAAGTC
254 TTAAAAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCC
* *
860567 TTAAATCTCCTAAACAATTTTTTTTATTTGTTAGATATGAAATTTTTTTAAATATA
319 TTAAATCTCCTAAACAA-TTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATA
* *
860623 AAATAATTTTTTAAATTTGTTAGATACGAAATTTAAATCGATTT-AAAGATTTTGATCACCAACT
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAA-ATTTTGATCATCAACT
*
860687 CTTTTAAATATATTAATTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCT
65 CTTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCT
* * *
860752 TTTTCAAATGTTTTGAGTATGAATATTAAATATATATGATTCATAACGTGAACTATTATTAAAAT
130 TTTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAAT
* * * *
860817 AT-TAAAAATAAAAATAAAAATAAAA-ATAAAAATAAAAATAAAAATAAAAAATTA-TAA-TTTA
195 ATATATAATTAAAAATAAAAA-AAAATATAAAAATAAAAAT----ATAAAAAATTACAAATTTTT
* * *
860878 AAAAAAAATTAAGAGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTAACACATGTCAAGCCT
255 TAAAAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCT
860943 TAAATCTCCTAAACAATTTTTTTATTTGTTAGATAC-AAAATTTTTTTAAATATA
320 TAAATCTCCTAAACAATTTTTTTATTTGTTAGATACGAAAA-TTTTTTAAATATA
* **
860997 AAATAATTCTTTAAATTTGTTAGATAGGAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
861062 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
66 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
* * * *
861127 TTTCAAATTTGCTGGGTATGAATATTAAATATATATGATTCATAATGCGAACTATTGTTAAAATA
131 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
** *
861192 TATATAATTAAAAATAAAATTTAAATTTAAAAATAAAAATAAAAATAAAAAATTACAAATTATTT
196 TATATAATTAAAAATAAAA-AAAAATATAAAAATAAAAAT----ATAAAAAATTACAAATT-TTT
*
861257 TAAAAAAATCAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCT
255 TAAAAAAATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCT
*
861322 TAAATCT-CTGAAACAATTTTTTTATTTTTTAGATACGAAAATTTTTTAAATATA
320 TAAATCTCCT-AAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATA
* *
861376 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATTAACTT
1 AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
* * *
861441 TTTTAAATATATTAGTTAAAAATCAAATAAAAATTTAAAATTAATTATAAAATGATAATTTTTTT
66 TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
861506 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
131 TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
*
861571 TA-A-AAATAAAAATAAAAATAAAA
196 TATATAATTAAAAATAAAAA-AAAA
861594 AAATTATAAT
Statistics
Matches: 1567, Mismatches: 107, Indels: 75
0.90 0.06 0.04
Matches are distributed among these distances:
358 21 0.01
359 6 0.00
360 11 0.01
361 14 0.01
362 4 0.00
365 277 0.18
366 11 0.01
367 112 0.07
368 79 0.05
370 4 0.00
371 6 0.00
372 2 0.00
373 6 0.00
374 213 0.14
375 99 0.06
376 29 0.02
377 21 0.01
378 14 0.01
379 309 0.20
380 109 0.07
381 220 0.14
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (373 bp):
AAATAATTTTTTAAATTTGTTAGATACAAAATTTAAATCGATTTGAAAATTTTGATCATCAACTC
TTTTAAATATATTAGTTAAAAATAAAATAAAAATTTAAAATTAATTATAAAATAATAATTTTCTT
TTTCAAATGTGTTGGGTATGAATATTAAATATATATGATTCATAACGCGAACTATTATTAAAATA
TATATAATTAAAAATAAAAAAAAATATAAAAATAAAAATATAAAAAATTACAAATTTTTTAAAAA
AATTAAGGGATTTAGTGTCTATCATGTGTTAGGCAAAGAGCTTGACACATGTCAAGCCTTAAATC
TCCTAAACAATTTTTTTATTTGTTAGATACGAAAATTTTTTAAATATA
Found at i:861587 original size:5 final size:6
Alignment explanation
Indices: 861564--861594 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
861554 GAACTATTAT
861564 TAAAATA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAA-A TAAAAA TAAAAA TAAAAA TAAAAA
861595 AATTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:868749 original size:24 final size:24
Alignment explanation
Indices: 868703--868749 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
868693 CCTTAACCTT
* * *
868703 GGCTTGTTTGTGTAACACTGTATC
1 GGCTTCTTTGTGCAACACCGTATC
*
868727 GGCTTCTTTGTGCAACTCCGTAT
1 GGCTTCTTTGTGCAACACCGTAT
868750 AATGTACTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
GGCTTCTTTGTGCAACACCGTATC
Found at i:869120 original size:3 final size:3
Alignment explanation
Indices: 869114--869148 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
869104 CGATTTAACA
869114 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
869149 CGTCGTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:871813 original size:2 final size:2
Alignment explanation
Indices: 871806--871841 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
871796 CCACCATAAC
871806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
871842 TTTGTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:872818 original size:22 final size:23
Alignment explanation
Indices: 872765--872820 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
872755 AAAAATATGA
*
872765 AAATAAATATTATATTATATGTT
1 AAATAAAAATTATATTATATGTT
872788 AAATAAAAAATTAT-TATATAT-TT
1 AAAT-AAAAATTATAT-TATATGTT
*
872811 ATATAAAAAT
1 AAATAAAAAT
872821 AATAAATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 10 0.34
24 13 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAAAAATTATATTATATGTT
Found at i:873625 original size:75 final size:73
Alignment explanation
Indices: 873546--873693 Score: 179
Period size: 73 Copynumber: 2.0 Consensus size: 73
873536 ACTCTTTTTA
* * * * *
873546 TTTATTATCAAATAAATTTCATTTAGCTAAAGGCTTTGAATAGATTTATAATTTTTATTTACAAA
1 TTTATCATCAAATAAATTT-ATTTAACCAAA-GCTTTGAATAGAATTAAAATTTTTATTTACAAA
873611 TGTGATAAAT
64 TGTGATAAAT
** * * * *
873621 TTTATCATTTAATAAATTTATTTAACCAAATCTTTTAATATAATTAAAATTTTTATTTATAAATG
1 TTTATCATCAAATAAATTTATTTAACCAAAGCTTTGAATAGAATTAAAATTTTTATTTACAAATG
873686 TGATAAAT
66 TGATAAAT
873694 CTAATTAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
73 37 0.60
74 9 0.15
75 16 0.26
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (73 bp):
TTTATCATCAAATAAATTTATTTAACCAAAGCTTTGAATAGAATTAAAATTTTTATTTACAAATG
TGATAAAT
Found at i:873900 original size:13 final size:13
Alignment explanation
Indices: 873877--873901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
873867 AATTTTAATT
873877 TTTAATTTTATAA
1 TTTAATTTTATAA
873890 TTTAATTTTATA
1 TTTAATTTTATA
873902 TATTATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTTTATAA
Found at i:873907 original size:20 final size:20
Alignment explanation
Indices: 873870--873907 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
873860 AATTGTTAAT
*
873870 TTTAATTTTTAATTTTATAA
1 TTTAATTTTTAATATTATAA
873890 TTTAA-TTTTATATATTAT
1 TTTAATTTTTA-ATATTAT
873908 TGTAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTAATTTTTAATATTATAA
Found at i:874580 original size:16 final size:17
Alignment explanation
Indices: 874553--874591 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
874543 AAATTATAAT
*
874553 ATATATTTATATATTTA
1 ATATAATTATATATTTA
*
874570 A-ATAATTATATTTTTA
1 ATATAATTATATATTTA
874586 ATATAA
1 ATATAA
874592 AATTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATTATATATTTA
Found at i:875558 original size:13 final size:14
Alignment explanation
Indices: 875536--875574 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
875526 ATTTACAAAA
*
875536 ATTAAAAATT-TTT
1 ATTAATAATTATTT
875549 ATTAATAATTATTT
1 ATTAATAATTATTT
875563 A-TAATAATTATT
1 ATTAATAATTATT
875575 AATAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTAATAATTATTT
Found at i:877274 original size:20 final size:21
Alignment explanation
Indices: 877249--877300 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
877239 TTTTACAATT
877249 TGTATCGATACAATAAGT-AA
1 TGTATCGATACAATAAGTGAA
877269 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
*
877289 TGTATTGATACA
1 TGTATCGATACA
877301 TGGCTGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:877308 original size:20 final size:21
Alignment explanation
Indices: 877249--877317 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
877239 TTTTACAATT
877249 TGTATCGATACAATAAGT--AA
1 TGTATCGATAC-ATAAGTGAAA
877269 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
* *
877289 TGTATTGATACAT-GGCTGAAA
1 TGTATCGATACATAAG-TGAAA
877310 TGTATCGA
1 TGTATCGA
877318 GACAAAACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 7 0.16
20 27 0.63
21 9 0.21
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:878918 original size:35 final size:35
Alignment explanation
Indices: 878879--878948 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
878869 TGCTCAATAG
878879 ATGTTTGTTAGCCTTGGTTTAAGGTCCAAAAATCT
1 ATGTTTGTTAGCCTTGGTTTAAGGTCCAAAAATCT
878914 ATGTTTGTTAGCCTTGGTTTAAGGTCCAAAAATCT
1 ATGTTTGTTAGCCTTGGTTTAAGGTCCAAAAATCT
878949 TTTTTGGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (35 bp):
ATGTTTGTTAGCCTTGGTTTAAGGTCCAAAAATCT
Found at i:879933 original size:79 final size:78
Alignment explanation
Indices: 879830--880243 Score: 421
Period size: 79 Copynumber: 5.3 Consensus size: 78
879820 AGCATCACAT
* * * *
879830 TTTTTATCTC-GAGGATACTCCAACCCTGTTATTTCTGAGAGGTTACTCCAACCCCGTTTTTATT
1 TTTTCATCTCGGA-GATACTCCAACCCCGTTATTT-TGAGAGGATACTCCAACCCCATTTTTATT
879894 TTTAAAATATTAAAA
64 TTTAAAATATTAAAA
* * * * **
879909 TTTTCATCTCGGAGATACTTCAACCCCATCAATTTTGAGGGGATACTCCAACCCTGTTTTTATTT
1 TTTTCATCTCGGAGATACTCCAACCCCGT-TATTTTGAGAGGATACTCCAACCCCATTTTTATTT
**
879974 CCAAAATATTAAAA
65 TTAAAATATTAAAA
* * * *
879988 TTTTCATCACGGAGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCATTTTTACTT
1 TTTTCATCTCGGAGATACTCCAACCCCGTTATTTT-GAGAGGATACTCCAACCCCATTTTTATTT
880053 TTAAAATATTAAAA
65 TTAAAATATTAAAA
* * *
880067 TTTTCATCTCGGAGATACTTCAACCCCGTTATTTTCA-AGG--A---GAACCCCATTTTTATTTT
1 TTTTCATCTCGGAGATACTCCAACCCCGTTATTTTGAGAGGATACTCCAACCCCATTTTTATTTT
*
880126 TAAAATA-TCAAA
66 TAAAATATTAAAA
* * * * * * *
880138 TTTTCACCATCGGGGATAATCCAACCCCATTATTTTTTAGAGGATATTCCAACCCCATTTTTACT
1 TTTTCATC-TCGGAGATACTCCAACCCCGTTA-TTTTGAGAGGATACTCCAACCCCATTTTTATT
** * *
880203 TCCAAAACATTAAATT
64 TTTAAAATATTAAA-A
*
880219 TTTTTATCTCGGAGATACTCCAACC
1 TTTTCATCTCGGAGATACTCCAACC
880244 TCGATTTCCA
Statistics
Matches: 277, Mismatches: 45, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
71 11 0.04
72 42 0.15
73 5 0.02
74 3 0.01
75 1 0.00
76 1 0.00
77 2 0.01
78 6 0.02
79 176 0.64
80 24 0.09
81 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (78 bp):
TTTTCATCTCGGAGATACTCCAACCCCGTTATTTTGAGAGGATACTCCAACCCCATTTTTATTTT
TAAAATATTAAAA
Found at i:880121 original size:72 final size:72
Alignment explanation
Indices: 880037--880173 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 72
880027 GGGATACTCC
* * * *
880037 AACCCCATTTTTACTTTTAAAATATTAAAATTTTCATC-TCGGAGATACTTCAACCCCGTTATTT
1 AACCCCATTTTTACTTTTAAAATA-TAAAATTTTCACCATCGGAGATAATCCAACCCCATTATTT
880101 TCAAGGAG
65 TCAAGGAG
* * *
880109 AACCCCATTTTTATTTTTAAAATATCAAATTTTCACCATCGGGGATAATCCAACCCCATTATTTT
1 AACCCCATTTTTACTTTTAAAATATAAAATTTTCACCATCGGAGATAATCCAACCCCATTATTTT
880174 TTAGAGGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 11 0.19
72 46 0.81
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (72 bp):
AACCCCATTTTTACTTTTAAAATATAAAATTTTCACCATCGGAGATAATCCAACCCCATTATTTT
CAAGGAG
Found at i:886665 original size:30 final size:28
Alignment explanation
Indices: 886629--886687 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
886619 AACTCAATTC
*
886629 AAAAGTTATAATTATTATTTAAATATTAAT
1 AAAAGTT-TAAATA-TATTTAAATATTAAT
**
886659 AAAAGTTTAAATATATTTTTATATTAAT
1 AAAAGTTTAAATATATTTAAATATTAAT
886687 A
1 A
886688 TTTATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 14 0.54
29 5 0.19
30 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
AAAAGTTTAAATATATTTAAATATTAAT
Found at i:886718 original size:22 final size:23
Alignment explanation
Indices: 886665--886718 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
886655 TAATAAAAGT
*
886665 TTAAATATATTTTTATATTAATAT
1 TTAAATA-ATTTTTATATTAATAA
*
886689 TTATATAA-TTTTATTATTAA-AA
1 TTAAATAATTTTTA-TATTAATAA
886711 TTAAATAA
1 TTAAATAA
886719 AAATTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 13 0.50
23 7 0.27
24 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAATAATTTTTATATTAATAA
Found at i:886810 original size:25 final size:25
Alignment explanation
Indices: 886782--886830 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
886772 CCAAGCTTTT
886782 AAGGAAAGTTTTCTTAATATAGTTC
1 AAGGAAAGTTTTCTTAATATAGTTC
886807 AAGGAAAGTTTTCTTAATATAGTT
1 AAGGAAAGTTTTCTTAATATAGTT
886831 TGGGCTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (25 bp):
AAGGAAAGTTTTCTTAATATAGTTC
Found at i:887452 original size:9 final size:9
Alignment explanation
Indices: 887434--887486 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
887424 TTTAAACATT
*
887434 AAAAATTTA
1 AAAAAATTA
887443 AAAAAATTA
1 AAAAAATTA
887452 AAAAAATTTTA
1 AAAAAA--TTA
*
887463 AATAAATT-
1 AAAAAATTA
887471 AAAAAATTGA
1 AAAAAATT-A
887481 AAAAAA
1 AAAAAA
887487 AGAGAACTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.19
9 16 0.43
10 6 0.16
11 8 0.22
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAAATTA
Found at i:887462 original size:20 final size:19
Alignment explanation
Indices: 887434--887486 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
887424 TTTAAACATT
887434 AAAAATTTAAAAAAATTAA
1 AAAAATTTAAAAAAATTAA
*
887453 AAAAATTTTAAATAAATT-A
1 AAAAA-TTTAAAAAAATTAA
*
887472 AAAAATTGAAAAAAA
1 AAAAATTTAAAAAAA
887487 AGAGAACTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.27
19 11 0.37
20 11 0.37
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAA
Found at i:887538 original size:2 final size:2
Alignment explanation
Indices: 887533--887683 Score: 110
Period size: 2 Copynumber: 81.0 Consensus size: 2
887523 GTATGCTCTC
* ** * * *
887533 TA TA TA TA TA TA TA TA TA TA CA CC CA -A T- TA TA TG T- TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
887572 TA TA TA TA TA TA TA TA T- TA TA TA TA -A CA TA TA TA -A TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
887611 GA -A TA TA TA T- TA -A TA TA AA TA TA TA TA -A TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
887649 TA -A TA TA TA TA TA TA TA GTA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
887684 ACATATAATT
Statistics
Matches: 122, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
1 12 0.10
2 108 0.89
3 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (2 bp):
TA
Found at i:887592 original size:13 final size:13
Alignment explanation
Indices: 887571--887683 Score: 83
Period size: 13 Copynumber: 8.9 Consensus size: 13
887561 TATATGTTAC
887571 ATATA-TATATAT
1 ATATATTATATAT
887583 ATATATTATATAT
1 ATATATTATATAT
*
887596 A-ACA-TATATA-
1 ATATATTATATAT
* **
887606 ATCTAGAATATAT
1 ATATATTATATAT
* *
887619 AT-TAATATAAAT
1 ATATATTATATAT
* *
887631 ATATATAATAGAT
1 ATATATTATATAT
*
887644 ATATATAATATAT
1 ATATATTATATAT
887657 ATATATATAGTATAT
1 ATATAT-TA-TATAT
*
887672 ATATATAATATA
1 ATATATTATATA
887684 ACATATAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.01
11 7 0.09
12 21 0.26
13 39 0.48
14 2 0.02
15 11 0.14
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (13 bp):
ATATATTATATAT
Found at i:888019 original size:89 final size:89
Alignment explanation
Indices: 887769--888239 Score: 639
Period size: 89 Copynumber: 5.3 Consensus size: 89
887759 ATCATATTTC
* *
887769 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTAGAATCCGAAAGATGTGAC
1 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
* *
887834 AGATGCATGCGGATATCAGATTCC
66 AGATGCATGCGGGTATCAGATTCT
* * * * *
887858 TTCTGATACGATATAAAATATTTTGACTAATACCTAATAAATTTTTTGGAACCCGAAAGATGTGA
1 TTCTGACACGACAGAAAATA-TTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
*
887923 CAAATGCATGCGGGTATCAGATTCT
65 CAGATGCATGCGGGTATCAGATTCT
* * *
887948 TTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCCAAAGATGTGGC
1 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
* *
888013 AGATGCATGCGGGTATCAAATTTT
66 AGATGCATGCGGGTATCAGATTCT
* * * *
888037 TTCTGACATGACAGAAAATATTTGACTAATGCCTAATAAATATCTTCGAACCCGAAAGATGTGAT
1 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
** * *
888102 AGATAAATG-TGG-----GATTCC
66 AGATGCATGCGGGTATCAGATTCT
888120 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
1 TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
* * *
888185 AGATGCATGTGGGTATTAGATTTT
66 AGATGCATGCGGGTATCAGATTCT
* *
888209 TTCTGACACGATAAAAAATATTTGACTAATG
1 TTCTGACACGACAGAAAATATTTGACTAATG
888240 ATACGACAGA
Statistics
Matches: 331, Mismatches: 44, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
83 71 0.21
84 2 0.01
88 2 0.01
89 177 0.53
90 79 0.24
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (89 bp):
TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGAC
AGATGCATGCGGGTATCAGATTCT
Found at i:888172 original size:172 final size:174
Alignment explanation
Indices: 887768--888239 Score: 651
Period size: 172 Copynumber: 2.7 Consensus size: 174
887758 GATCATATTT
* *
887768 CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTAGAATCCGAAAGATGTGA
1 CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
* ** * * *
887833 CAGATGCATGCGGATATCAGATTCCTTCTGATACGATATAAAATATTTTGACTAATACCTAATAA
66 CAGATGCATGCGGGTATCAGATTTTTTCTGACACGATAAAAAATA-TTTGACTAATGCCTAATAA
* * * **
887898 ATTTTTTGGAACCCGAAAGATGTGACAAATGCATGCGGGTATCAGATTC
130 ATATCTTCGAACCCGAAAGATGTGACAAATAAATGCGGG----AGATTC
* * * *
887947 TTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCCAAAGATGTGG
1 CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
* * * *
888012 CAGATGCATGCGGGTATCAAATTTTTTCTGACATGACAGAAAATATTTGACTAATGCCTAATAAA
66 CAGATGCATGCGGGTATCAGATTTTTTCTGACACGATAAAAAATATTTGACTAATGCCTAATAAA
* * *
888077 TATCTTCGAACCCGAAAGATGTGATAGATAAATG-TGG-GATTC
131 TATCTTCGAACCCGAAAGATGTGACAAATAAATGCGGGAGATTC
888119 CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
1 CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
* *
888184 CAGATGCATGTGGGTATTAGATTTTTTCTGACACGATAAAAAATATTTGACTAATG
66 CAGATGCATGCGGGTATCAGATTTTTTCTGACACGATAAAAAATATTTGACTAATG
888240 ATACGACAGA
Statistics
Matches: 260, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
172 116 0.45
177 2 0.01
178 46 0.18
179 96 0.37
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (174 bp):
CTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGA
CAGATGCATGCGGGTATCAGATTTTTTCTGACACGATAAAAAATATTTGACTAATGCCTAATAAA
TATCTTCGAACCCGAAAGATGTGACAAATAAATGCGGGAGATTC
Found at i:891256 original size:20 final size:20
Alignment explanation
Indices: 891206--891259 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
891196 TTTTACCCAG
* *
891206 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* * *
891226 ATATATTGATACATGTATGA
1 ATGTATCGATACATGTATCA
891246 ATGTATCGATACAT
1 ATGTATCGATACAT
891260 TCTGTCTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:891308 original size:71 final size:70
Alignment explanation
Indices: 891156--891310 Score: 247
Period size: 71 Copynumber: 2.2 Consensus size: 70
891146 TTTTACCTAG
* * *
891156 ATGTATTGATACATTTTTCAATGTATTGATACATTCTGTCTTTTACCCAGATGTATCGATACATT
1 ATGTATTGATACATGTATCAATGTATCGATACATTCTGTCTTTTACCCAGATGTATCGATACATT
891221 TTTCA
66 TTTCA
* *
891226 ATATATTGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
1 ATGTATTGATACATGTATCAATGTATCGATACATTCTGTC-TTTTACCCAGATGTATCGATACAT
891291 TTTTCA
65 TTTTCA
*
891297 ATGTATCGATACAT
1 ATGTATTGATACAT
891311 CTAGTTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 35 0.45
71 42 0.55
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (70 bp):
ATGTATTGATACATGTATCAATGTATCGATACATTCTGTCTTTTACCCAGATGTATCGATACATT
TTTCA
Found at i:892216 original size:20 final size:22
Alignment explanation
Indices: 892176--892216 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
892166 TAGCCTTTGA
*
892176 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
892198 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
892217 CTAGCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:893188 original size:72 final size:72
Alignment explanation
Indices: 893071--893247 Score: 345
Period size: 72 Copynumber: 2.5 Consensus size: 72
893061 TCCCGTAGCC
893071 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGTCGTTTATAGCCGTT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGTCGTTTATAGCCGTT
893136 AAAAGCA
66 AAAAGCA
893143 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGTCGTTTATAGCCGTT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGTCGTTTATAGCCGTT
893208 AAAAGCA
66 AAAAGCA
*
893215 ATGTATCGATACAATTCATCATGTATCGATACA
1 ATGTATCGATACAATTCATAATGTATCGATACA
893248 ATATATCGAT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 104 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (72 bp):
ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGTCGTTTATAGCCGTT
AAAAGCA
Found at i:893240 original size:20 final size:20
Alignment explanation
Indices: 893215--893282 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
893205 GTTAAAAGCA
893215 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
893235 ATGTATCGATAC-A---AT-
1 ATGTATCGATACAATTCATC
893250 A--TATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
893268 ATGTATCGAGACAAT
1 ATGTATCGATACAAT
893283 GTATCGATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 1 0.03
20 23 0.57
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:893256 original size:13 final size:13
Alignment explanation
Indices: 893238--893262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
893228 ATTCATCATG
893238 TATCGATACAATA
1 TATCGATACAATA
893251 TATCGATACAAT
1 TATCGATACAAT
893263 TCATCATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:893260 original size:33 final size:33
Alignment explanation
Indices: 893213--893314 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
893203 CCGTTAAAAG
893213 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
* *
893246 CAATATATCGATACAATTCATCATGTATCGAGA
1 CAATGTATCGATACAATTCATCATGTATCGATA
*
893279 CAATGTATCGATACAATGT-ACCATGTATCGATA
1 CAATGTATCGATACAAT-TCATCATGTATCGATA
893312 CAA
1 CAA
893315 ACAGTGGTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:893286 original size:13 final size:13
Alignment explanation
Indices: 893268--893298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
893258 ACAATTCATC
893268 ATGTATCGAGACA
1 ATGTATCGAGACA
*
893281 ATGTATCGATACA
1 ATGTATCGAGACA
893294 ATGTA
1 ATGTA
893299 CCATGTATCG
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:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (13 bp):
ATGTATCGAGACA
Found at i:893390 original size:19 final size:19
Alignment explanation
Indices: 893343--893397 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
893333 CTGCCAGTTT
***
893343 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TAAA
*
893363 CACGTATCGATACAATAAA
1 CATGTATCGATACAATAAA
893382 CATGTATCGATACAAT
1 CATGTATCGATACAAT
893398 GTATCGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATAAA
Found at i:893401 original size:13 final size:13
Alignment explanation
Indices: 893383--893409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
893373 TACAATAAAC
893383 ATGTATCGATACA
1 ATGTATCGATACA
893396 ATGTATCGATACA
1 ATGTATCGATACA
893409 A
1 A
893410 AGCATAATGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:894629 original size:28 final size:27
Alignment explanation
Indices: 894596--894667 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
894586 AAAATAAAGC
894596 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
894624 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
894652 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
894668 TCAATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:894711 original size:107 final size:107
Alignment explanation
Indices: 894525--894718 Score: 241
Period size: 107 Copynumber: 1.8 Consensus size: 107
894515 GTCGGGATTA
*
894525 GAGTATCCCCGTGAAAATAATAGAGTTGGAGTATCCCCAATTATAAGAAATCAATATTTTGAAAA
1 GAGTATCCCCGTGAAAATAAGAGAGTTGGAGTATCCCCAATTATAAGAAATCAATATTTTGAAAA
* * *
894590 TAAAGCCGGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTG
66 TAAAACCGGAGTTGGAATATCCCCTCGAAAGTAACGGGGTTG
* * * * * *
894632 GAGTATCCCCGATG-AAATAACGAG-GTTGGAGTATCCTCAATTGTGAA-AAATTAGTGTTTTGG
1 GAGTATCCCCG-TGAAAATAA-GAGAGTTGGAGTATCCCCAATTAT-AAGAAATCAATATTTTGA
*
894694 AAATAAAATCGGAGTTGGAATATCC
63 AAATAAAACCGGAGTTGGAATATCC
894719 TCGATTGTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
107 67 0.92
108 6 0.08
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (107 bp):
GAGTATCCCCGTGAAAATAAGAGAGTTGGAGTATCCCCAATTATAAGAAATCAATATTTTGAAAA
TAAAACCGGAGTTGGAATATCCCCTCGAAAGTAACGGGGTTG
Found at i:894769 original size:51 final size:51
Alignment explanation
Indices: 894655--894769 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 51
894645 GAAATAACGA
*
894655 GGTTGGAGTATCCTCAATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCAATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGG
* * * * * *
894706 AGTTGGAATATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCTCAATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGG
*
894757 GGTTCGAGTATCC
1 GGTTGGAGTATCC
894770 GTTCGAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GGTTGGAGTATCCTCAATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGG
Found at i:894850 original size:52 final size:51
Alignment explanation
Indices: 894782--895235 Score: 255
Period size: 51 Copynumber: 8.7 Consensus size: 51
894772 TCGAAAATAA
894782 CGGGGTTAGG-GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTT-GGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
** *** *** * *
894833 CGGGGGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGGA-GTATCCCCGATGAT-TAAT
1 C-GGGGTTGGAGTAT-CCC-CGATTATGAA--AAATT-GATGT-T-TTAGA-AATAAAAT
*
894890 -GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
** *** *** * *
894940 CAGGGGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGGA-GTATCCCCGATGAT-TAA-
1 C-GGGGTTGGAGTAT-CCC-CGATTATGAA--AAATT-GATGT-T-TTAGA-AATAAAAT
* * * * *
894996 CGGGGTTGGAGTATCCCCGAATGTGAAAAAATGGTGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAAAAT
* * * * *
895048 CGGAGTTGGAGTATCCCCGATTAAAGTAAAATTGGTGTTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAG-AAATAAAAT
* * * * * * *
895100 CGGGGTTGGATTATCCTCGATTGTTAAAAATTGGTGTTTCAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
* * *
895151 CGGAGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAAT
895202 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
895236 GAAACTTAAC
Statistics
Matches: 300, Mismatches: 70, Indels: 65
0.69 0.16 0.15
Matches are distributed among these distances:
49 2 0.01
50 6 0.02
51 105 0.35
52 82 0.27
53 31 0.10
54 20 0.07
55 34 0.11
56 7 0.02
57 9 0.03
58 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
Found at i:894876 original size:80 final size:79
Alignment explanation
Indices: 894707--894882 Score: 246
Period size: 80 Copynumber: 2.2 Consensus size: 79
894697 TAAAATCGGA
* * * * * * **
894707 GTTGGAATATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTCGAGTATCCGT
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTCGAGTATCCCC
894772 TCGAAAATAACGGG
66 TCGAAAATAACGGG
*
894786 GTTAGG-GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGGTTGGAGTATCC
1 GTT-GGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-GGGGTTCGAGTATCC
894850 CCTCGAAAATAACGGG
64 CCTCGAAAATAACGGG
894866 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
894883 GATTAATGGG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 41 0.48
80 44 0.52
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTCGAGTATCCCC
TCGAAAATAACGGG
Found at i:894901 original size:27 final size:27
Alignment explanation
Indices: 894835--895015 Score: 106
Period size: 27 Copynumber: 6.7 Consensus size: 27
894825 AATAAAATCG
894835 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATAAATAAC
* * *
894863 GGGGTTGGAGTATCCCCGATGATTAAT
1 GGGGTTGGAGTATCCCCGATAAATAAC
*
894890 GGGGTTGGAGTATCCCCGAT-TATGAA-
1 GGGGTTGGAGTATCCCCGATAAAT-AAC
*** * ***** *
894916 -AAATT-GATGTTTTAGAAATAAA-ACC
1 GGGGTTGGA-GTATCCCCGATAAATAAC
894941 AGGGGTTGGAGTATCCCCTCGA-AAATAAC
1 -GGGGTTGGAGTAT-CCC-CGATAAATAAC
* *
894970 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
894997 GGGGTTGGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
895016 ATGTGAAAAA
Statistics
Matches: 113, Mismatches: 28, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
24 3 0.03
25 7 0.06
26 8 0.07
27 61 0.54
28 31 0.27
29 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:894907 original size:107 final size:106
Alignment explanation
Indices: 894779--895065 Score: 459
Period size: 107 Copynumber: 2.7 Consensus size: 106
894769 CGTTCGAAAA
894779 TAACGGGGTTAGG-GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGGTTGG
1 TAACGGGGTT-GGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-GGGGTTGG
894843 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
64 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
* *
894886 TAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-GGGGTTGGA
894951 GTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
65 GTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * * *
894993 TAACGGGGTTGGAGTATCCCCGAATGTGAAAAAATGGTGTTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAAAATCGGGGTTGGA
895058 GTATCCCC
65 GTATCCCC
895066 GATTAAAGTA
Statistics
Matches: 167, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
106 2 0.01
107 151 0.90
108 14 0.08
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (106 bp):
TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAG
TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:895159 original size:51 final size:51
Alignment explanation
Indices: 895000--895234 Score: 281
Period size: 51 Copynumber: 4.6 Consensus size: 51
894990 GATTAACGGG
* * ** *
895000 GTTGGAGTATCCCCGAATGTGAAAAAATGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTAAAAATAAAACCGGA
** * * *
895052 GTTGGAGTATCCCCGATTAAAGTAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTAAAAATAAAACCGGA
* * * * *
895104 GTTGGATTATCCTCGATTGTTAAAAATTGGTGTTTCAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAAAAATAAAACCGGA
* * *
895155 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAAAAATAAAACCGGA
*
895206 GTTGGAGTATCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
895235 AGAAACTTAA
Statistics
Matches: 154, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
51 95 0.62
52 49 0.32
53 10 0.06
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAAAAATAAAACCGGA
Found at i:895217 original size:102 final size:104
Alignment explanation
Indices: 894996--895234 Score: 331
Period size: 102 Copynumber: 2.3 Consensus size: 104
894986 CGATGATTAA
* * ***
894996 CGGGGTTGGAGTATCCCCGAATGTGAAAAAATGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCAAAAATAAAATCGGAGTTGGAGTA
* *
895061 TCCCCGATTAAAGTAAAATTGGTGTTTTGAAAATAAAAC
66 TCCCCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAAC
* * *
895100 CGGGGTTGGATTATCCTCGATTGTTAAAAATTGGTG-TTTCAAAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCAAAAATAAAATCGGAGTTGGAGTA
**
895164 TCCCCGATT-GTGAAAAATTAGTGTTTT-AGAAATAAAAC
66 TCCCCGATTAAAGAAAAATTAGTGTTTTGA-AAATAAAAC
*
895202 CGGGGTTGGAGTATCCCCGATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTG
895235 AGAAACTTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
101 1 0.01
102 52 0.44
103 34 0.29
104 31 0.26
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (104 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCAAAAATAAAATCGGAGTTGGAGTA
TCCCCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAAC
Found at i:897683 original size:19 final size:21
Alignment explanation
Indices: 897659--897710 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
897649 AGCGATACAC
*
897659 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTAAA
897678 TGTATCGATACATTTACTAAA
1 TGTATCGATACATTTACTAAA
897699 TGTATCGATACA
1 TGTATCGATACA
897711 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTAAA
Found at i:900526 original size:13 final size:13
Alignment explanation
Indices: 900508--900534 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
900498 ATAGTAACCC
900508 ATGTATCGATACA
1 ATGTATCGATACA
900521 ATGTATCGATACA
1 ATGTATCGATACA
900534 A
1 A
900535 GGAATATTGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:906675 original size:20 final size:20
Alignment explanation
Indices: 906650--906703 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
906640 GTTAGAAGCA
*
906650 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
906670 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
906690 ATGTATCGATACAA
1 ATGTATCGATACAA
906704 GCAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:906776 original size:19 final size:20
Alignment explanation
Indices: 906733--906785 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
906723 TGCCAGTTTT
**
906733 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
906753 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
906772 ATGTATCGATACAA
1 ATGTATCGATACAA
906786 AGCATAACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:909936 original size:25 final size:25
Alignment explanation
Indices: 909904--909953 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
909894 ATGTCCTAAT
909904 TTAGAAATACGAAGAGATCCAAAAA
1 TTAGAAATACGAAGAGATCCAAAAA
909929 TTAGAAATACGAAGAGATCCAAAAA
1 TTAGAAATACGAAGAGATCCAAAAA
909954 GTCAGCCAAA
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (25 bp):
TTAGAAATACGAAGAGATCCAAAAA
Found at i:910548 original size:9 final size:9
Alignment explanation
Indices: 910536--910699 Score: 112
Period size: 9 Copynumber: 18.4 Consensus size: 9
910526 AATAAAATAT
*
910536 TATATGTTA
1 TATATATTA
910545 TATATATTA
1 TATATATTA
910554 TGTATATATTA
1 --TATATATTA
910565 TAT-TA-TA
1 TATATATTA
*
910572 TATATACTA
1 TATATATTA
910581 TATATATTA
1 TATATATTA
910590 TATATTATTA
1 TATA-TATTA
910600 TATATA-TA
1 TATATATTA
910608 TAGT-TATT-
1 TA-TATATTA
*
910616 TTTATA-TA
1 TATATATTA
*
910624 TTTATATTA
1 TATATATTA
*
910633 -ATATATAA
1 TATATATTA
**
910641 TATATAACA
1 TATATATTA
910650 TA-ATATATA
1 TATATAT-TA
*
910659 TATATATAA
1 TATATATTA
910668 TATATCA-TA
1 TATAT-ATTA
*
910677 TAATATAATA
1 T-ATATATTA
*
910687 TATATATAA
1 TATATATTA
910696 TATA
1 TATA
910700 AAAAAATTTA
Statistics
Matches: 126, Mismatches: 13, Indels: 32
0.74 0.08 0.19
Matches are distributed among these distances:
7 7 0.06
8 28 0.22
9 61 0.48
10 21 0.17
11 9 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (9 bp):
TATATATTA
Found at i:910550 original size:2 final size:2
Alignment explanation
Indices: 910543--910699 Score: 130
Period size: 2 Copynumber: 85.0 Consensus size: 2
910533 TATTATATGT
*
910543 TA TA TA TA T- TA TG TA TA TA T- TA TA T- TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
910583 TA TA T- TA TA TA T- TA T- TA TA TA TA TA TA GT- TA TT TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
910622 TA TT TA TA T- TA -A TA TA TA -A TA TA TA -A CA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
910659 TA TA TA TA -A TA TA TCA TA TA -A TA TA -A TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
910698 TA
1 TA
910700 AAAAAATTTA
Statistics
Matches: 129, Mismatches: 7, Indels: 38
0.74 0.04 0.22
Matches are distributed among these distances:
1 16 0.12
2 108 0.84
3 5 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:910605 original size:55 final size:54
Alignment explanation
Indices: 910536--910699 Score: 151
Period size: 55 Copynumber: 3.1 Consensus size: 54
910526 AATAAAATAT
* * *
910536 TATATGTTATATATATTATGTATATATTATATTATATATATACTATATATATTA
1 TATATATTATATATATTATGTATATATTATATTATATATATAATATATATATAA
* * *
910590 TATATTATTATATATA-TATAGT-TAT-TTTTA-TATATTTATATTA-ATATATAA
1 TATA-TATTATATATATTAT-GTATATATTATATTATATATATAATATATATATAA
** * * *
910641 TATATAACATA-ATATATATATATATAATATATCATATAATATAATATATATATAA
1 TATATATTATATATAT-TATGTATATATTATATTATAT-ATATAATATATATATAA
910696 TATA
1 TATA
910700 AAAAAATTTA
Statistics
Matches: 88, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
49 3 0.03
50 6 0.07
51 17 0.19
52 14 0.16
53 8 0.09
54 16 0.18
55 24 0.27
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (54 bp):
TATATATTATATATATTATGTATATATTATATTATATATATAATATATATATAA
Found at i:910699 original size:5 final size:5
Alignment explanation
Indices: 910642--910700 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
910632 AATATATAAT
*
910642 ATATA ACATA ATAT- ATATA TATATA ATATA TCATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA -ATATA ATATA --ATATA ATATA ATATA
910689 TATATA ATATA A
1 -ATATA ATATA A
910701 AAAAATTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.09
5 28 0.60
6 10 0.21
7 5 0.11
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:910915 original size:13 final size:13
Alignment explanation
Indices: 910897--910941 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
910887 ATGTACATTA
* *
910897 AAAAAAATTATTT
1 AAAAAAATAATCT
910910 AAAAAAATAATCT
1 AAAAAAATAATCT
910923 AAAAATAATAATACT
1 AAAAA-AATAAT-CT
910938 AAAA
1 AAAA
910942 TAAACACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 6 0.21
15 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAAAATAATCT
Found at i:916058 original size:2 final size:2
Alignment explanation
Indices: 916051--916096 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
916041 ATGCAGAAAG
916051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
916093 -T AT A
1 AT AT A
916097 GATAGTGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:924825 original size:60 final size:60
Alignment explanation
Indices: 924732--924854 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
924722 GAAAAATGGG
924732 ATGCTCATGCAAGAAGAGTATGAATAACACTCATGAAGGTGCTGGACATGCTGTAAATGC
1 ATGCTCATGCAAGAAGAGTATGAATAACACTCATGAAGGTGCTGGACATGCTGTAAATGC
* *
924792 ATGCTTATGCAAGAAGTGTATGAATAACACTCATGAAGGTGCTGGACATGCTGTAAATGC
1 ATGCTCATGCAAGAAGAGTATGAATAACACTCATGAAGGTGCTGGACATGCTGTAAATGC
924852 ATG
1 ATG
924855 AAACATAGCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (60 bp):
ATGCTCATGCAAGAAGAGTATGAATAACACTCATGAAGGTGCTGGACATGCTGTAAATGC
Found at i:925860 original size:13 final size:13
Alignment explanation
Indices: 925842--925893 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
925832 AACTTCGTAG
925842 CGATACATTGTAT
1 CGATACATTGTAT
925855 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
925874 CGATACATTGTAT
1 CGATACATTGTAT
925887 CGATACA
1 CGATACA
925894 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:925874 original size:19 final size:19
Alignment explanation
Indices: 925850--925912 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
925840 AGCGATACAT
925850 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
925869 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
925882 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
925901 TGTATCGATACA
1 TGTATCGATACA
925913 TTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:925883 original size:32 final size:32
Alignment explanation
Indices: 925842--925914 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
925832 AACTTCGTAG
925842 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
925874 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
925906 CGATACATT
1 CGATACATT
925915 TACTGTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:928402 original size:13 final size:15
Alignment explanation
Indices: 928384--928415 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
928374 TAGAAATTTA
928384 TATACA-AT-AAATT
1 TATACATATAAAATT
928397 TATACATATAAAATT
1 TATACATATAAAATT
928412 TATA
1 TATA
928416 TTTTTAACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TATACATATAAAATT
Found at i:928582 original size:23 final size:23
Alignment explanation
Indices: 928532--928586 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
928522 TTTTGGTAGT
*
928532 TAATTAAT-GTAAAATATTTCAC
1 TAATTAATAGTAAAATATTTCAA
*
928554 TGATTAATAGTAAAAT-TTTGCAA
1 TAATTAATAGTAAAATATTT-CAA
928577 TAATTAATAG
1 TAATTAATAG
928587 ATCAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (23 bp):
TAATTAATAGTAAAATATTTCAA
Found at i:932509 original size:13 final size:13
Alignment explanation
Indices: 932491--932516 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
932481 CAGGGCAACT
932491 TTGTATCGATACA
1 TTGTATCGATACA
932504 TTGTATCGATACA
1 TTGTATCGATACA
932517 ACACTTATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:933459 original size:49 final size:49
Alignment explanation
Indices: 933394--933987 Score: 492
Period size: 49 Copynumber: 12.8 Consensus size: 49
933384 TGTTAAAGAC
* * * * *
933394 GCCAATATGCTAATTCAAGGCCAACGATATCGGACTTAAAGATGAAGTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* *
933443 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* * *
933492 GCCAATATGCTGATTCAAGGCCAGTGATATCGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* * * * *
933541 GCCAATGTGCTGATTCAAGGCTAGTGACATTGGTTTTAAAGATGGTTAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-G--AAGGT
* * * * * *
933593 GCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAAATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* *
933642 GCCAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----GT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* * * * * *
933681 GCCAATGTGCTGATTTAAGACCAGTGACATTGGTCTTAAAGA-CAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
*
933729 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
933768 GCCAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----T----GT
1 GCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAAGATGAAGGT
* * ** *
933807 GCCAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAA-AACAAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* *
933855 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* * * *
933898 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGTCTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
* *
933947 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
933988 GTGCCACCGA
Statistics
Matches: 450, Mismatches: 64, Indels: 62
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.00
39 98 0.22
40 4 0.01
43 36 0.08
45 1 0.00
47 2 0.00
48 67 0.15
49 197 0.44
50 1 0.00
52 42 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGT
Found at i:933596 original size:150 final size:136
Alignment explanation
Indices: 933539--933922 Score: 388
Period size: 126 Copynumber: 2.9 Consensus size: 136
933529 AAAGATGAAG
* * * *
933539 GTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTTTTAAAGATGGTTAAGGTGCCAATGTGCT
1 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGA----CAAGGTGCCAATGTGCT
* * * *
933604 GATTCAAGGCCAACGACATCGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGA
62 GATTCAAGGCCAGCGATATTGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* *
933669 TATTGGGCTT
127 TATCGGACTT
* *
933679 GTGCCAATGTGCTGATTTAAGACCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGACAAGGTGCCAATGTGCTGATT
*
933744 CAAGGCCAGCGATATTGGGC-T-----T----GTGCCAATATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAGCGATATTGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA-T
*
933799 AGG-CTT
130 CGGACTT
* * * * * * *
933805 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAAAACAAAGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGACAAGGTGCCAATGTGCTGATT
* * *
933870 CAAGGCCAACGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
66 CAAGGCCAGCGATATTGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
933923 AACATTAGTC
Statistics
Matches: 217, Mismatches: 22, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
126 111 0.51
127 3 0.01
130 27 0.12
135 1 0.00
136 35 0.16
140 40 0.18
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (136 bp):
GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGACAAGGTGCCAATGTGCTGATT
CAAGGCCAGCGATATTGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATC
GGACTT
Found at i:933694 original size:39 final size:39
Alignment explanation
Indices: 933640--933922 Score: 242
Period size: 39 Copynumber: 6.7 Consensus size: 39
933630 AAAAATAAAG
*
933640 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
933679 GTGCCAATGTGCTGATTTAAGACCAGTGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
933718 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
933766 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
933805 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
933844 AAAAACAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
933892 AAAGGTGCCAATGTGCTGATTCAAGGCCAGC
1 ----GTGCCAATATGCTGATTCAAGGCCAGC
933923 AACATTAGTC
Statistics
Matches: 200, Mismatches: 26, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
39 105 0.52
43 27 0.14
48 68 0.34
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:933755 original size:87 final size:88
Alignment explanation
Indices: 933591--933794 Score: 320
Period size: 87 Copynumber: 2.3 Consensus size: 88
933581 GATGGTTAAG
*
933591 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAAATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAAATAAAGGTGCCAATATGCTGAT
*
933656 TCAAGGCTAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * *
933679 GTGCCAATGTGCTGATTTAAGACCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAAATAAAGGTGCCAATATGCTGAT
933743 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
*
933766 GTGCCAATATGCTGATTCAAGGCCAGCGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGA
933795 TATTAGGCTT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 66 0.63
88 38 0.37
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAAATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:933761 original size:48 final size:46
Alignment explanation
Indices: 933679--933986 Score: 265
Period size: 39 Copynumber: 6.9 Consensus size: 46
933669 TATTGGGCTT
* * * * *
933679 GTGCCAATGTGCTGATTTAAGACCAGTGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAA-A-AAG
*
933727 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAAAG
933766 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAAAAAG
* * *
933805 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAAAACAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAAA-AAG
* *
933853 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT---AAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAAAG
* * * *
933896 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTAGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAA-A--AAG
* *
933945 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAA
933987 GGTGCCACCG
Statistics
Matches: 218, Mismatches: 25, Indels: 33
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.01
39 70 0.32
40 2 0.01
43 35 0.16
44 1 0.00
47 1 0.00
48 68 0.31
49 39 0.18
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (46 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAAAG
Found at i:933865 original size:126 final size:127
Alignment explanation
Indices: 933640--933922 Score: 424
Period size: 126 Copynumber: 2.2 Consensus size: 127
933630 AAAAATAAAG
* * * * *
933640 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTGTGCCAATGTGCTGATTTAAGACCAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTGTGCCAATATGCTAATTCAAGACCAG
* * * * *
933705 TGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-
66 CGACATTGGTCTTAAAAACAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
*
933766 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTGTGCCAATATGCTAATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTGTGCCAATATGCTAATTCAAGACCAG
933831 CGACATTGGTCTTAAAAACAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA
66 CGACATTGGTCTTAAAAACAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT--A
*
933895 GGTGCCAATGTGCTGATTCAAGGCCAGC
1 -GTGCCAATATGCTGATTCAAGGCCAGC
933923 AACATTAGTC
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
126 115 0.82
130 26 0.18
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (127 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTGTGCCAATATGCTAATTCAAGACCAG
CGACATTGGTCTTAAAAACAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:933978 original size:92 final size:91
Alignment explanation
Indices: 933766--933993 Score: 331
Period size: 92 Copynumber: 2.5 Consensus size: 91
933756 TATTGGGCTT
*
933766 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTT----GTGCCAATATGCTAATTCAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATT-GGACTTAAAGGTGCCAATATGCTAATTCAAG
* *
933826 GCCAGCGACATTGGTCTTAAAAACAAA
65 GCCAGCAACATTAGTCTTAAAAACAAA
* *
933853 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTAATTCAAGG
** *
933918 CCAGCAACATTAGTCTTAAAGATGAAG
66 CCAGCAACATTAGTCTTAAA-AACAAA
933945 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCA
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCA
933994 CCGAGTTATA
Statistics
Matches: 127, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
86 2 0.02
87 35 0.28
91 38 0.30
92 52 0.41
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (91 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCTAATTCAAGG
CCAGCAACATTAGTCTTAAAAACAAA
Found at i:934130 original size:26 final size:26
Alignment explanation
Indices: 934101--934158 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
934091 CTTAAAAGGA
* *
934101 AAAAGATGCCATGGAGTTGTGGACTT
1 AAAAGATGCCACGAAGTTGTGGACTT
*
934127 AAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAA-GATGCCACGAAGTTGTGGACTT
934154 AAAAG
1 AAAAG
934159 GAAAAAGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (26 bp):
AAAAGATGCCACGAAGTTGTGGACTT
Found at i:934158 original size:27 final size:28
Alignment explanation
Indices: 934082--934443 Score: 115
Period size: 34 Copynumber: 11.4 Consensus size: 28
934072 GACTTTATAG
* *
934082 AGTTGTGGACTTAAAAGGAAAAAGATGCCATGG
1 AGTTGTGGACTTAAAAGG----AG-TGCCACGA
934115 AGTTGTGGACTTAAAAGG-GTGCCACGA
1 AGTTGTGGACTTAAAAGGAGTGCCACGA
* *
934142 AGTTGTGGACTTAAAAGGAAAAAGAGTACCA-TA
1 AGTTGTGGACTTAAAA-G-----GAGTGCCACGA
*
934175 GAGTTGTAGACTTAAAAGGAACAAAGTGCCACGA
1 -AGTTGTGGACTTAAAAGG-----AGTGCCACGA
* *
934209 AGTTGTGGACTTAAAAGGAAAAAGATGTCACGG
1 AGTTGTGGACTTAAAAGG----AG-TGCCACGA
* *
934242 AGTTGTGGACTTAAAAGG-GTGCCATGG
1 AGTTGTGGACTTAAAAGGAGTGCCACGA
934269 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-A
1 AGTTGTGGACTTAAAA-G-----GAGTGCCACGA
* * *
934302 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 -AGTTGTGGAC-TT-AAAAG---GA-GTGCCACGA
*
934337 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGG
1 AGTTGTGGACTTAAAA-G-----GAGTGCCACGA
* *
934371 AGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGG
1 AGTTGTGGAC-TT-AAAAG---GA-GTGCCACGA
934405 AGTTGTGGACTTAAAAGG-GTGCCAC-A
1 AGTTGTGGACTTAAAAGGAGTGCCACGA
934431 GAGTTGTGGACTT
1 -AGTTGTGGACTT
934444 TGAAAAGAGA
Statistics
Matches: 272, Mismatches: 23, Indels: 74
0.74 0.06 0.20
Matches are distributed among these distances:
27 63 0.23
28 5 0.02
32 14 0.05
33 82 0.30
34 90 0.33
35 10 0.04
36 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (28 bp):
AGTTGTGGACTTAAAAGGAGTGCCACGA
Found at i:934180 original size:34 final size:34
Alignment explanation
Indices: 934127--934422 Score: 371
Period size: 34 Copynumber: 9.0 Consensus size: 34
934117 TTGTGGACTT
* *
934127 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* ** *
934161 AAAAGAGTACCATAGAGTTGTAGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
934195 ACAA-AGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
934228 AAAAGA-TGTCACGGAGTTGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
934259 ----G-GTGCCATGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
934288 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
934323 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
934356 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
934391 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
934423 GTGCCACAGA
Statistics
Matches: 224, Mismatches: 26, Indels: 25
0.81 0.09 0.09
Matches are distributed among these distances:
27 23 0.10
28 1 0.00
32 1 0.00
33 70 0.31
34 103 0.46
35 26 0.12
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:934308 original size:127 final size:128
Alignment explanation
Indices: 934082--934422 Score: 497
Period size: 127 Copynumber: 2.6 Consensus size: 128
934072 GACTTTATAG
* *
934082 AGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
* *
934147 TGGACTTAAAAGGAAAAAGAGTACCATAGAGTTGTAGAC-TTAAAAGGAACAAA-GTGCCACGA
66 TGGACTTAAAAGGAAAAAGAGTACCACAGAGTTGTAGACTTTAAAAAGAA-AAAGGTGCCACGA
* *
934209 AGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
* * * *
934274 TGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
66 TGGACTTAAAAGGAAAAAGAGTACCACAGAGTTGTAGACTTTAAAAAGAAAAAGGTGCCACGA
934337 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCA
1 AGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAG-----GGTGCCA
934402 CGGAGTTGTGGACTTAAAAGG
58 CGGAGTTGTGGACTTAAAAGG
934423 GTGCCACAGA
Statistics
Matches: 192, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
127 99 0.52
128 42 0.22
129 17 0.09
130 2 0.01
131 5 0.03
136 27 0.14
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (128 bp):
AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
TGGACTTAAAAGGAAAAAGAGTACCACAGAGTTGTAGACTTTAAAAAGAAAAAGGTGCCACGA
Found at i:934339 original size:68 final size:68
Alignment explanation
Indices: 934254--934915 Score: 346
Period size: 68 Copynumber: 10.4 Consensus size: 68
934244 TTGTGGACTT
* * *
934254 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
934319 AAG
66 AAG
*
934322 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
934387 AAG
66 AAG
*
934390 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACAGAGTTGTGGACTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
934448 AAG
66 AAG
* * ** * * * * * ** *
934451 ----AGATACCATTGAGTTATGGAGTT----TGAAAAGAGATTGCCACTGAGTCATGAACTTT--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGAGTGCCACAGAGTTGTGGACTTTAA
*
934506 GAAG
65 AAAG
* * * * * * * * * *
934510 -AAAAGATGCCACTGAGTCGTGGACTT---CGGGAAGAGA-TTCCACTA-AGTCGTGGATTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-AGAGTTGTGGACTTTAA
*
934569 AGA-
65 AAAG
* ** * * * * * **
934572 AAAAAGATGCCATTGAGTCGTGGACTT----GGATAAGAGATTACCACTGAGTCATGGACTTT--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA-AAAAGAGTGCCACAGAGTTGTGGACTTTAA
*
934631 GAAG
65 AAAG
* ** * * ** *
934635 -AAAAGATGCCACTAAATCGTGGACTTTGGGAA-GAAAAAGAGTGCCACGGAGTTGTGGACTTTA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTA
934698 AAAAG
64 AAAAG
* ** * * * *
934703 AACAAGGTGCCATAGAGTCGTGGACTT---TGGGAAGAGA-TGCCAC-GTAGTTGTGGAC-TT-A
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAG-AGTTGTGGACTTTAA
934761 AAAG
65 AAAG
* * *
934765 -----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
934825 AAG
66 AAG
* * *
934828 AAAAAGGTGCCACAGAGTTATGGACTTAAAA-G-----G-GTGCCACAGAGTTGTGGACTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
934886 AAG
66 AAG
* *
934889 AAAAAGGTGCCACAGAGTTGTGAACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
934916 TGAGAAGAGA
Statistics
Matches: 478, Mismatches: 73, Indels: 93
0.74 0.11 0.14
Matches are distributed among these distances:
54 1 0.00
57 37 0.08
59 3 0.01
60 8 0.02
61 122 0.26
62 55 0.12
63 45 0.09
64 32 0.07
65 6 0.01
66 22 0.05
67 4 0.01
68 125 0.26
69 18 0.04
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.23
Consensus pattern (68 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAA
AAG
Found at i:934353 original size:61 final size:62
Alignment explanation
Indices: 934287--934915 Score: 285
Period size: 61 Copynumber: 10.0 Consensus size: 62
934277 ACTTAAAAGG
*
934287 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
*
934349 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1 ------AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
934414 CTT
60 CTT
* * * * ** * *
934417 -AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAG----AGATACCATTGAGTTATGGAGTTT
1 AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA-CTT
* * ** * * * * *
934475 GAAAAGAGATTGCCACTGAGTCATGAACTTT--GAAG-AAAAGATGCCACTGAGTCGTGGACTT
1 -AAAA-AGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
*** * * * * * * ** *
934536 CGGGAAGAGATTCCACTA-AGTCGTGGATTTTGAAGA-AAAAAGATGCCATTGAGTCGTGGACTT
1 -AAAAAGAG-TGCCAC-AGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * * * ** * * ** * *
934599 GGATAAGAGATTACCACTGAGTCATGGACTTT--GAAG-AAAAGATGCCACTAAATCGTGGACTT
1 --A-AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-T
934661 T
62 T
* * ** *
934662 GGGAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAACAAGGTGCCATAGAGTCGTGGA
1 ------AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
934727 CTTT
60 C-TT
*** *
934731 GGGAAGAGATGCCAC-GTAGTTGTGGAC-TT-AAAAG-----GGTGCCACAGAGTTGTGGACTT
1 AAAAAGAG-TGCCACAG-AGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * * *
934787 AAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTATGGA
1 ------AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
934852 CTT
60 CTT
* * * *
934855 -AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGAACTT
1 AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
934916 TGAGAAGAGA
Statistics
Matches: 439, Mismatches: 82, Indels: 87
0.72 0.13 0.14
Matches are distributed among these distances:
56 2 0.00
57 33 0.08
58 2 0.00
59 3 0.01
60 6 0.01
61 137 0.31
62 51 0.12
63 41 0.09
64 32 0.07
65 3 0.01
66 22 0.05
67 2 0.00
68 84 0.19
69 21 0.05
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (62 bp):
AAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:934427 original size:163 final size:161
Alignment explanation
Indices: 934127--934443 Score: 458
Period size: 163 Copynumber: 2.0 Consensus size: 161
934117 TTGTGGACTT
* * *
934127 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTACCATAGAGTTGTAGACTTAAAA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTACCACAGAGTTGTAGACTTAAAA
* * *
934192 GGAACAAAGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAAA
66 GGAAAAAAGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAA
**
934257 AGGGTGCCATGGAGTTGTGGACTTAAAAGGA
131 AGGGTGCCACAGAGTTGTGGACTTAAAAGGA
* * * *
934288 AAAAGAGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAA
1 AAAAGAGTGCCACGA-AGTTGTGGAC-TTAAAAAGAAAAAGAGTACCACAGAGTTGTAGACTTAA
* *
934351 AAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACT
64 AAGGAAAAA-AGTGCCACGAAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGTTGTGGACT
934416 TAAAAGGGTGCCACAGAGTTGTGGACTT
127 TAAAAGGGTGCCACAGAGTTGTGGACTT
934444 TGAAAAGAGA
Statistics
Matches: 138, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
160 1 0.01
161 48 0.35
162 32 0.23
163 57 0.41
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.21
Consensus pattern (161 bp):
AAAAGAGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTACCACAGAGTTGTAGACTTAAAA
GGAAAAAAGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAA
AGGGTGCCACAGAGTTGTGGACTTAAAAGGA
Found at i:934465 original size:30 final size:30
Alignment explanation
Indices: 934356--935017 Score: 292
Period size: 30 Copynumber: 21.3 Consensus size: 30
934346 CTTAAAAGGA
* * *
934356 AAAAGAG-TGCCACGGAGTTGTGGACTTTA
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* * *
934385 AAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-
1 AAAAG----AGATGCCACTGAGTCGTGGACTTTG
* * *
934417 AAAAG-GGTGCCACAGAGTTGTGGACTTTG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* * ** *
934446 AAAAGAGATACCATTGAGTTATGGAGTTTG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* *
934476 AAAAGAGATTGCCACTGAGTCATGAACTTTG
1 AAAAGAGA-TGCCACTGAGTCGTGGACTTTG
* *
934507 AAGAAAAGATGCCACTGAGTCGTGGACTTCG
1 AA-AAGAGATGCCACTGAGTCGTGGACTTTG
** * * *
934538 GGAAGAGATTCCACTAAGTCGTGGATTTTGAAG
1 AAAAGAGATGCCACTGAGTCGTGGACTTT---G
* * *
934571 AAAAAAGATGCCATTGAGTCGTGGACTTGG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* * *
934601 ATAAGAGATTACCACTGAGTCATGGACTTTG
1 AAAAGAGA-TGCCACTGAGTCGTGGACTTTG
* * *
934632 AAGAAAAGATGCCACTAAATCGTGGACTTTGGG
1 AA-AAGAGATGCCACTGAGTCGTGGACTTT--G
* * * *
934665 AAGAAAAAGAGTGCCACGGAGTTGTGGACTTTA
1 -A-AAAGAGA-TGCCACTGAGTCGTGGACTTTG
*
934698 AAAAGAACAAGGTGCCA-TAGAGTCGTGGACTTTG
1 AAAAG----AGATGCCACT-GAGTCGTGGACTTTG
** *
934732 GGAAGAGATGCCAC-GTAGTTGTGGAC-TT-
1 AAAAGAGATGCCACTG-AGTCGTGGACTTTG
* * * *
934760 AAAAG-GGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGAGATGCCACTGAGTCGTGGACTT----TG
* * *
934793 AAAA-AGAGTGCCA-TAGAGTTGTGGGCTTTA
1 AAAAGAGA-TGCCACT-GAGTCGTGGACTTTG
* * **
934823 AAAAGAAAAAGGTGCCACAGAGTTATGGAC-TT-
1 AAAAG----AGATGCCACTGAGTCGTGGACTTTG
* * *
934855 AAAAG-GGTGCCACAGAGTTGTGGACTTTG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* * * *
934884 AAAAGAAAAAGGTGCCACAGAGTTGTGAACTTTG
1 AAAAG----AGATGCCACTGAGTCGTGGACTTTG
* * *
934918 AGAAGAGATGCCACTAAGTCATGGACTTTG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTG
* *
934948 AGATA-AGATGCCACTAAGTCGTGGACTTTG
1 A-AAAGAGATGCCACTGAGTCGTGGACTTTG
*
934978 AAGAAAAGATGCCACTGAGTCGTGGACTTTG
1 AA-AAGAGATGCCACTGAGTCGTGGACTTTG
*
935009 AGAAGAGAT
1 AAAAGAGAT
935018 TTGAAGAATT
Statistics
Matches: 494, Mismatches: 86, Indels: 105
0.72 0.13 0.15
Matches are distributed among these distances:
27 55 0.11
28 9 0.02
29 19 0.04
30 127 0.26
31 103 0.21
32 21 0.04
33 34 0.07
34 104 0.21
35 22 0.04
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (30 bp):
AAAAGAGATGCCACTGAGTCGTGGACTTTG
Found at i:934589 original size:63 final size:61
Alignment explanation
Indices: 934478--934668 Score: 249
Period size: 63 Copynumber: 3.1 Consensus size: 61
934468 GGAGTTTGAA
* *
934478 AAGAGATTGCCACTGAGTCATGAACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTCGGG
1 AAGAGATTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT-GGG
* * * * *
934540 AAGAGATT-CCACTAAGTCGTGGATTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAT
1 AAGAGATTACCACTGAGTCATGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGACTTGG-G
* *
934603 AAGAGATTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTTGGG
1 AAGAGATTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGAC-TTGGG
934665 AAGA
1 AAGA
934669 AAAAGAGTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
61 19 0.17
62 35 0.32
63 37 0.33
64 20 0.18
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (61 bp):
AAGAGATTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTGGG
Found at i:934692 original size:97 final size:94
Alignment explanation
Indices: 934518--934695 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 94
934508 AGAAAAGATG
* * * * * *
934518 CCACTGAGTCGTGGACTTCGGGAAGAGATTCCACTAAGTCGTGGATTTTGAAGAAAAAAGATGCC
1 CCACTGAGTCATGGACTTCGAGAAAAGATGCCACTAAATCGTGGATTTGGAAGAAAAAAGATGCC
**
934583 ATTGAGTCGTGGACTTGGATAAGAGATTA
66 ACGGAGTCGTGGACTTGGATAAGAGATTA
*
934612 CCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTTGGGAAG-AAAAAGAG
1 CCACTGAGTCATGGACTTCG-AGAAAAGATGCCACTAAATCGTGGA-TTT-GGAAGAAAAAAGA-
*
934676 TGCCACGGAGTTGTGGACTT
62 TGCCACGGAGTCGTGGACTT
934696 TAAAAAGAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
94 18 0.26
95 21 0.30
96 10 0.14
97 21 0.30
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (94 bp):
CCACTGAGTCATGGACTTCGAGAAAAGATGCCACTAAATCGTGGATTTGGAAGAAAAAAGATGCC
ACGGAGTCGTGGACTTGGATAAGAGATTA
Found at i:934703 original size:125 final size:125
Alignment explanation
Indices: 934417--934701 Score: 319
Period size: 125 Copynumber: 2.3 Consensus size: 125
934407 TTGTGGACTT
* * * * *
934417 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAGATACCATTGAGTTATGGAGTTTGAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTT-AAAAAAGATACCATTGAGTCATGGACTTGGAAAAGA
* * *
934482 GATTGCCACTGAGTCATGAACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTCGGGAAG
65 GATTACCACTGAGTCATGAACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTCGGGAAG
* * * * * *
934543 ---AGA-TTCCACTA-AGTCGTGGATTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAT
1 AAAAGAGTGCCAC-AGAGTTGTGGACTTT----AAAAAAGATACCATTGAGTCATGGACTTGGAA
* *
934603 AAGAGATTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTTGGGAAG
61 AAGAGATTACCACTGAGTCATGAACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTCGGGAAG
*
934668 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAA
1 -AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAA
934702 GAACAAGGTG
Statistics
Matches: 129, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
122 16 0.12
123 3 0.02
125 86 0.67
126 5 0.04
129 3 0.02
130 16 0.12
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (125 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAAGATACCATTGAGTCATGGACTTGGAAAAGAG
ATTACCACTGAGTCATGAACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTCGGGAAG
Found at i:934726 original size:34 final size:33
Alignment explanation
Indices: 934665--934916 Score: 214
Period size: 34 Copynumber: 7.9 Consensus size: 33
934655 GGACTTTGGG
*
934665 AAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAA
1 AAGAAAAAG-GTGCCACAGAGTTGTGGACTTT-AA
* * *
934700 AAGAACAAGGTGCCATAGAGTCGTGGACTTT--
1 AAGAAAAAGGTGCCACAGAGTTGTGGACTTTAA
* * * *
934731 -GGGAAGAGATGCCAC-GTAGTTGTGGAC-TTAA
1 AAGAAAAAGGTGCCACAG-AGTTGTGGACTTTAA
934762 AAG-----GGTGCCACAGAGTTGTGGAC-TTAA
1 AAGAAAAAGGTGCCACAGAGTTGTGGACTTTAA
* *
934789 AAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAA
1 AA-GAAAAAG-GTGCCACAGAGTTGTGGACTTT-AA
*
934825 AAGAAAAAGGTGCCACAGAGTTATGGAC-TTAA
1 AAGAAAAAGGTGCCACAGAGTTGTGGACTTTAA
934857 AAG-----GGTGCCACAGAGTTGTGGACTTTGAA
1 AAGAAAAAGGTGCCACAGAGTTGTGGACTTT-AA
*
934886 AAGAAAAAGGTGCCACAGAGTTGTGAACTTT
1 AAGAAAAAGGTGCCACAGAGTTGTGGACTTT
934917 GAGAAGAGAT
Statistics
Matches: 176, Mismatches: 20, Indels: 43
0.74 0.08 0.18
Matches are distributed among these distances:
27 42 0.24
28 4 0.02
29 8 0.05
30 18 0.10
32 6 0.03
33 3 0.02
34 74 0.42
35 17 0.10
36 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (33 bp):
AAGAAAAAGGTGCCACAGAGTTGTGGACTTTAA
Found at i:934866 original size:95 final size:90
Alignment explanation
Indices: 934669--934945 Score: 301
Period size: 95 Copynumber: 3.0 Consensus size: 90
934659 TTTGGGAAGA
* * * * * *
934669 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAACAAGGTGCCATAGAGTCGTGGACTTTGGG
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGAAAAAGGTGCCATAGAGTTGTGGACTTTAGA
* *
934734 AAGAGATGCCACGTAGTTGTGGACTT
65 AAAAGATGCCACGTAGTTATGGACTT
*
934760 AAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAAA-GAAAAAG-GTGCCATAGAGTTGTGGACTTT--
*
934824 AAAGAAAAAGGTGCCACAG-AGTTATGGACTT
62 --AGAAAAAGATGCCAC-GTAGTTATGGACTT
* *
934855 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGAACTTT-GA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGAAAAAGGTGCCATAGAGTTGTGGACTTTAGA
* *
934919 GAAGAGATGCCAC-TAAGTCATGGACTT
65 -AAAAGATGCCACGT-AGTTATGGACTT
934946 TGAGATAAGA
Statistics
Matches: 158, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
89 4 0.03
90 10 0.06
91 64 0.41
95 66 0.42
96 10 0.06
97 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (90 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTTAGAA
AAAGATGCCACGTAGTTATGGACTT
Found at i:934917 original size:34 final size:34
Alignment explanation
Indices: 934855--934923 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
934845 TTATGGACTT
* *
934855 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGAACTTTGAAAAG
*
934889 AAAAAGGTGCCACAGAGTTGTGAACTTTGAGAAG
1 AAAAAGGTGCCACAGAGTTGTGAACTTTGAAAAG
934923 A
1 A
934924 GATGCCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTGTGAACTTTGAAAAG
Found at i:935004 original size:61 final size:61
Alignment explanation
Indices: 934424--935017 Score: 306
Period size: 61 Copynumber: 9.5 Consensus size: 61
934414 CTTAAAAGGG
* * * * ** * *
934424 TGCCACAGAGTTGTGGACTTTGA-AAAGAGATACCA-TTGAGTTATGGAGTTTGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-AGATGCCACTAGAGTCGTGGACTTTGAGAAGAGA
* * * *
934484 TTGCCACTGAGTCATGAACTTTGAAGAAAAGATGCCACT-GAGTCGTGGACTTCGGGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAGATGCCACTAGAGTCGTGGACTTTGAGAAGAGA
* * * * * *
934546 TTCCACTAAGTCGTGGATTTTGAAGAAAAAAGATGCCA-TTGAGTCGTGGACTTGGATAAGAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAAAGATGCCACTAGAGTCGTGGACTTTGAGAAGAGA
* * * *
934609 TTACCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTA-AATCGTGGACTTTGGGAAGAAAAA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAGATGCCACTAGAGTCGTGGACTTT--G-AG-AAGA
934673 GA
60 GA
* * * * *
934675 GTGCCACGGAGTTGTGGACTTTAAAAAGAACAAGGTGCCA-TAGAGTCGTGGACTTTGGGAAGAG
1 -TGCCACTGAGTCGTGGACTTT---GAGAA-AAGATGCCACTAGAGTCGTGGACTTTGAGAAGAG
934739 A
61 A
* * * * ** *
934740 TGCCAC-GTAGTTGTGGAC-TT-A-AAAGGGTGCCAC-AGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACTG-AGTCGTGGACTTTGAGAAAAGATGCCACTAGAGTCGTGGACTT-TGA-G-AAGAGA
* * * * ** *
934800 GTGCCA-TAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC-AGAGTTATGGAC-TT-AAAAG-
1 -TGCCACT-GAGTCGTGGACTTT---GAG-AAAAGATGCCACTAGAGTCGTGGACTTTGAGAAGA
*
934860 GG
60 GA
* * * * *
934862 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCAC-AGAGTTGTGAACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTG---AG-AAAAGATGCCACTAGAGTCGTGGACTTTGAGAAGAGA
* * * *
934926 TGCCACTAAGTCATGGACTTTGAGATAAGATGCCACTA-AGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTAGAGTCGTGGACTTTG-AGAAGAGA
*
934987 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAT
935018 TTGAAGAATT
Statistics
Matches: 421, Mismatches: 71, Indels: 82
0.73 0.12 0.14
Matches are distributed among these distances:
57 21 0.05
58 2 0.00
59 2 0.00
60 27 0.06
61 132 0.31
62 54 0.13
63 45 0.11
64 57 0.14
65 7 0.02
66 24 0.06
67 2 0.00
68 28 0.07
69 20 0.05
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTAGAGTCGTGGACTTTGAGAAGAGA
Found at i:936262 original size:11 final size:11
Alignment explanation
Indices: 936246--936283 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
936236 GCCTTTGCAC
936246 TTTTTTTTGTG
1 TTTTTTTTGTG
936257 TTTTTTTTGT-
1 TTTTTTTTGTG
936267 TGTTTTTTTGTG
1 T-TTTTTTTGTG
936279 TTTTT
1 TTTTT
936284 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:943410 original size:13 final size:13
Alignment explanation
Indices: 943392--943416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
943382 AAGATCAATG
943392 TATCGATACATTA
1 TATCGATACATTA
943405 TATCGATACATT
1 TATCGATACATT
943417 GAATAATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:943414 original size:33 final size:33
Alignment explanation
Indices: 943372--943434 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
943362 TTCTCTTATG
943372 TATCGATACAAAG-ATCAATGTATCGATACATTA
1 TATCGATACAAAGAAT-AATGTATCGATACATTA
**
943405 TATCGATACATTGAATAATGTATCGATACA
1 TATCGATACAAAGAATAATGTATCGATACA
943435 GTTCCTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAGAATAATGTATCGATACATTA
Found at i:944595 original size:13 final size:12
Alignment explanation
Indices: 944556--944597 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
944546 AAATAAAACC
944556 AAAAAAAAAGGAG
1 AAAAAAAAA-GAG
944569 AAAGAAAAAA-AG
1 AAA-AAAAAAGAG
944581 AAAAAAAATAGAG
1 AAAAAAAA-AGAG
944594 AAAA
1 AAAA
944598 GTAAAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.19
12 6 0.23
13 9 0.35
14 6 0.23
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:944597 original size:18 final size:19
Alignment explanation
Indices: 944576--944613 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
944566 GAGAAAGAAA
944576 AAAAGAAAAAAAAT-AGAG
1 AAAAGAAAAAAAATAAGAG
* *
944594 AAAAGTAAAAGAATAAGAG
1 AAAAGAAAAAAAATAAGAG
944613 A
1 A
944614 GTTCTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAAGAAAAAAAATAAGAG
Found at i:945043 original size:21 final size:22
Alignment explanation
Indices: 945017--945060 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
945007 ATTCGTTGGT
945017 TTATTTAACATTTATAAA-AAA
1 TTATTTAACATTTATAAATAAA
945038 TTATTTAACATTTATAAATAAA
1 TTATTTAACATTTATAAATAAA
945060 T
1 T
945061 AAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATTTAACATTTATAAATAAA
Found at i:945060 original size:4 final size:4
Alignment explanation
Indices: 945051--945120 Score: 81
Period size: 4 Copynumber: 17.2 Consensus size: 4
945041 TTTAACATTT
* *
945051 ATAA ATAA ATAA ATAA ATAAA AGTAT ATAT ATAA A-AA TATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA AT-AA A-TAA ATAA ATAA ATAA -ATAA ATAA ATAA
945101 ATAA ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA A
945121 AAAGCTCGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
3 5 0.08
4 46 0.78
5 7 0.12
6 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:945216 original size:39 final size:39
Alignment explanation
Indices: 945169--945390 Score: 198
Period size: 39 Copynumber: 5.5 Consensus size: 39
945159 GCATTTCATG
*
945169 CATTACATTTCATGCATGCATTTCACGTAATGTTCATTT
1 CATTACATTGCATGCATGCATTTCACGTAATGTTCATTT
** * *
945208 CATTACATTGGTTTCATGCATTTCACGTAATTTTCATTTCAT
1 CATTACATTGCATGCATGCATTTCACGTAATGTTCA-TT--T
* *
945250 GCATTACATTTCATGCATGCATTTTACGTAATGTTCATTT
1 -CATTACATTGCATGCATGCATTTCACGTAATGTTCATTT
* * * *
945290 CA-TGCATTGCATGCATTACATTTCA-TTAATGTTTCA-CT
1 CATTACATTGCATGCA-TGCATTTCACGTAATG-TTCATTT
* * *
945328 CATGAGTTCATTCCATGCATGCATTTCACGTAATGTTCACTT
1 CAT---TACATTGCATGCATGCATTTCACGTAATGTTCATTT
* *
945370 CATTACATTGCTTTCATGCAT
1 CATTACATTGCATGCATGCAT
945391 GCATAATGGA
Statistics
Matches: 145, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
38 19 0.13
39 58 0.40
40 3 0.02
41 12 0.08
42 23 0.16
43 30 0.21
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (39 bp):
CATTACATTGCATGCATGCATTTCACGTAATGTTCATTT
Found at i:945223 original size:43 final size:43
Alignment explanation
Indices: 945160--945394 Score: 185
Period size: 43 Copynumber: 5.7 Consensus size: 43
945150 ATATTGCATG
*
945160 CATTTCA-TGCATTACATTTCATGCATGCATTTCACGTAATGTT
1 CATTTCATTACATT-CATTTCATGCATGCATTTCACGTAATGTT
** *
945203 CATTTCATTACATT-GGTT--T-CATGCATTTCACGTAATTTT
1 CATTTCATTACATTCATTTCATGCATGCATTTCACGTAATGTT
* *
945242 CATTTCA-TGCATTACATTTCATGCATGCATTTTACGTAATGTT
1 CATTTCATTACATT-CATTTCATGCATGCATTTCACGTAATGTT
* * * *
945285 CA--T--TT-CATGCATTGCATGCATTACATTTCA-TTAATGTTT
1 CATTTCATTACATTCATTTCATGCA-TGCATTTCACGTAATG-TT
* * * *
945324 CA-CTCATGA-GTTCATTCCATGCATGCATTTCACGTAATGTT
1 CATTTCATTACATTCATTTCATGCATGCATTTCACGTAATGTT
*
945365 CACTTCATTACATTGC-TTTCATGCATGCAT
1 CATTTCATTACATT-CATTTCATGCATGCAT
945395 AATGGAATTG
Statistics
Matches: 151, Mismatches: 24, Indels: 34
0.72 0.11 0.16
Matches are distributed among these distances:
38 20 0.13
39 40 0.26
40 5 0.03
41 13 0.09
42 25 0.17
43 42 0.28
44 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (43 bp):
CATTTCATTACATTCATTTCATGCATGCATTTCACGTAATGTT
Found at i:945250 original size:25 final size:24
Alignment explanation
Indices: 945219--945297 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 24
945209 ATTACATTGG
945219 TTTCATGCATTTCACGTAATTTTCA
1 TTTCATGCATTT-ACGTAATTTTCA
945244 TTTCATGCA-TTAC---A-TTTCA
1 TTTCATGCATTTACGTAATTTTCA
* *
945263 -TGCATGCATTTTACGTAATGTTCA
1 TTTCATGCA-TTTACGTAATTTTCA
945287 TTTCATGCATT
1 TTTCATGCATT
945298 GCATGCATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
18 7 0.16
19 5 0.11
20 5 0.11
23 3 0.07
24 8 0.18
25 16 0.36
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (24 bp):
TTTCATGCATTTACGTAATTTTCA
Found at i:945312 original size:82 final size:81
Alignment explanation
Indices: 945160--945380 Score: 279
Period size: 82 Copynumber: 2.7 Consensus size: 81
945150 ATATTGCATG
** *
945160 CATTTCATGCATTACATTTCATGCATGCATTTCACGTAATGTTCATTTCATTACATTGGTTTCAT
1 CATTTCATGCATTACATTTCATGCATGCATTTCACGTAATGTTCATTTCA-TACATTGCATGCAT
*
945225 GCATTTCACGTAAT-TTT
65 ACATTTCA-GTAATGTTT
* *
945242 CATTTCATGCATTACATTTCATGCATGCATTTTACGTAATGTTCATTTCATGCATTGCATGCATT
1 CATTTCATGCATTACATTTCATGCATGCATTTCACGTAATGTTCATTTCATACATTGCATGCA-T
*
945307 ACATTTCATTAATGTTT
65 ACATTTCAGTAATGTTT
* * *
945324 CA-CTCATG-AGTT-CATTCCATGCATGCATTTCACGTAATGTTCACTTCATTACATTGC
1 CATTTCATGCA-TTACATTTCATGCATGCATTTCACGTAATGTTCATTTCA-TACATTGC
945381 TTTCATGCAT
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
80 34 0.28
81 27 0.22
82 62 0.50
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (81 bp):
CATTTCATGCATTACATTTCATGCATGCATTTCACGTAATGTTCATTTCATACATTGCATGCATA
CATTTCAGTAATGTTT
Found at i:947197 original size:19 final size:18
Alignment explanation
Indices: 947173--947265 Score: 89
Period size: 19 Copynumber: 5.6 Consensus size: 18
947163 ACCGTAACTC
947173 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
947192 TATCGATAC---A--TTG
1 TATCGATACATAAGTTTG
947205 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
947224 TATCGATAC---A--TTG
1 TATCGATACATAAGTTTG
947237 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
947256 TATCGATACA
1 TATCGATACA
947266 ATGTATTGCT
Statistics
Matches: 62, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
13 24 0.39
16 4 0.06
19 34 0.55
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:947207 original size:13 final size:13
Alignment explanation
Indices: 947189--947247 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 13
947179 TACATAAGTG
947189 TTGTATCGATACA
1 TTGTATCGATACA
947202 TTGTATCGATACATAA
1 TTGTATCGATAC---A
947218 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
947234 TTGTATCGATACA
1 TTGTATCGATACA
947247 T
1 T
947248 AAGTTTTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 26 0.65
16 2 0.05
19 12 0.30
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:947214 original size:32 final size:32
Alignment explanation
Indices: 947173--947271 Score: 180
Period size: 32 Copynumber: 3.1 Consensus size: 32
947163 ACCGTAACTC
947173 TATCGATACATAAGTGTTGTATCGATACATTG
1 TATCGATACATAAGTGTTGTATCGATACATTG
947205 TATCGATACATAAGTGTTGTATCGATACATTG
1 TATCGATACATAAGTGTTGTATCGATACATTG
* *
947237 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACATTG
947269 TAT
1 TAT
947272 TGCTACGAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACATTG
Found at i:947336 original size:34 final size:34
Alignment explanation
Indices: 947297--947365 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
947287 GCCAAGGAAA
*
947297 TGTATCGATACATTGCTCAAATGTATCGATACAT
1 TGTATCGATACATTGATCAAATGTATCGATACAT
* ***
947331 TGTATCGATACGTTGATCTTTTGTATCGATACAT
1 TGTATCGATACATTGATCAAATGTATCGATACAT
947365 T
1 T
947366 TGGGAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (34 bp):
TGTATCGATACATTGATCAAATGTATCGATACAT
Found at i:950633 original size:51 final size:51
Alignment explanation
Indices: 950568--950685 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
950558 GAAAATAACA
** ** *
950568 GGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAG
1 GGGTTGGAGTATCCCCAATTGTGAAAAATTAATATTTTAGAAATAAAATAG
* * *
950619 GGGTTGGAGTATCCCCAATTGTGAGAAATTAATATTTTAGAAATAAAGTCG
1 GGGTTGGAGTATCCCCAATTGTGAAAAATTAATATTTTAGAAATAAAATAG
950670 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
950686 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTGTGAAAAATTAATATTTTAGAAATAAAATAG
Found at i:950794 original size:131 final size:128
Alignment explanation
Indices: 950495--950895 Score: 491
Period size: 130 Copynumber: 3.1 Consensus size: 128
950485 AACGGGGCTA
* * ** * *
950495 AAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGTATCTCCGCGA
1 AAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCTCCTCGA
*
950560 AAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTG
66 AAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGAAATAAAATAGGGGTTG
* * * * *
950625 GAGTATCCCCAATTGTGAGAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCGG
1 AAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCTCCTCGA
* *
950690 AAATAACGGGATTGGAGTATCCCCAATCGTGAAAAAATTAGTGTTTTAGAAATAAAATTA-GGGT
66 AAATAACGGG-TTGGAGTATCCCCGATTGTG-AAAAATT-GTGTTTTAGAAATAAAA-TAGGGGT
950754 TG
127 TG
* * * *
950756 AAGTATCCTCAATTATGAAAAATCAATATTTTATAAATAAAG-CTGGGGTTGGAGTATCTTCTCG
1 AAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGTC-GGGGTTGGAGTATCTCCTCG
* * * **
950820 AAAATAAGGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTT
65 AAAATAA-CGGGTTGGAGTATCCCCGATTGTGAAAAATTG-TGTTTTAGAAATAAAATAGGGGTT
950885 G
128 G
*
950886 GAGTATCCCC
1 AAGTATCCCC
950896 GAGATGAAAA
Statistics
Matches: 231, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
129 4 0.02
130 115 0.50
131 107 0.46
132 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (128 bp):
AAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCTCCTCGA
AAATAACGGGTTGGAGTATCCCCGATTGTGAAAAATTGTGTTTTAGAAATAAAATAGGGGTTG
Found at i:953212 original size:20 final size:20
Alignment explanation
Indices: 953187--953241 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
953177 AAAATGCCTG
953187 AATGTATCAATACATTGAAA
1 AATGTATCAATACATTGAAA
* * *
953207 AATGTATCGATACAATGAAC
1 AATGTATCAATACATTGAAA
953227 AATGTATCAATACAT
1 AATGTATCAATACAT
953242 CTGCGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (20 bp):
AATGTATCAATACATTGAAA
Found at i:956663 original size:340 final size:340
Alignment explanation
Indices: 956043--956722 Score: 1360
Period size: 340 Copynumber: 2.0 Consensus size: 340
956033 CAATGACCCG
956043 AATCCCCGAAAAATACAATATATTTAGATCGATATGGCCCACAAAGTAGGAGTCATCATAGCTAT
1 AATCCCCGAAAAATACAATATATTTAGATCGATATGGCCCACAAAGTAGGAGTCATCATAGCTAT
956108 ATTTTTCCTTATATCTACGTTCACATAATTAAACCATGGGCCATCTTAAGTCAGACTTGGTTGGG
66 ATTTTTCCTTATATCTACGTTCACATAATTAAACCATGGGCCATCTTAAGTCAGACTTGGTTGGG
956173 ATTCGTATTTGGGCCACGTTGCGACAATCTCCAAATGCTTTTGGTTTGTTTTCTTTGATAGTTTT
131 ATTCGTATTTGGGCCACGTTGCGACAATCTCCAAATGCTTTTGGTTTGTTTTCTTTGATAGTTTT
956238 TATTTAAAGTTTCACTAAAAATTAACTTTCTATCAAGAAAACTTGTTTTCATGGATTTTTTGCGT
196 TATTTAAAGTTTCACTAAAAATTAACTTTCTATCAAGAAAACTTGTTTTCATGGATTTTTTGCGT
956303 GATTTATAGTTCTTTCCACCATGTTGTTTTCCTTATTTTTGCCTTTGTTAGTTATCTCATGCCAT
261 GATTTATAGTTCTTTCCACCATGTTGTTTTCCTTATTTTTGCCTTTGTTAGTTATCTCATGCCAT
956368 TCATTTTCCATGTTA
326 TCATTTTCCATGTTA
956383 AATCCCCGAAAAATACAATATATTTAGATCGATATGGCCCACAAAGTAGGAGTCATCATAGCTAT
1 AATCCCCGAAAAATACAATATATTTAGATCGATATGGCCCACAAAGTAGGAGTCATCATAGCTAT
956448 ATTTTTCCTTATATCTACGTTCACATAATTAAACCATGGGCCATCTTAAGTCAGACTTGGTTGGG
66 ATTTTTCCTTATATCTACGTTCACATAATTAAACCATGGGCCATCTTAAGTCAGACTTGGTTGGG
956513 ATTCGTATTTGGGCCACGTTGCGACAATCTCCAAATGCTTTTGGTTTGTTTTCTTTGATAGTTTT
131 ATTCGTATTTGGGCCACGTTGCGACAATCTCCAAATGCTTTTGGTTTGTTTTCTTTGATAGTTTT
956578 TATTTAAAGTTTCACTAAAAATTAACTTTCTATCAAGAAAACTTGTTTTCATGGATTTTTTGCGT
196 TATTTAAAGTTTCACTAAAAATTAACTTTCTATCAAGAAAACTTGTTTTCATGGATTTTTTGCGT
956643 GATTTATAGTTCTTTCCACCATGTTGTTTTCCTTATTTTTGCCTTTGTTAGTTATCTCATGCCAT
261 GATTTATAGTTCTTTCCACCATGTTGTTTTCCTTATTTTTGCCTTTGTTAGTTATCTCATGCCAT
956708 TCATTTTCCATGTTA
326 TCATTTTCCATGTTA
956723 TGTATGATCC
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 340 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (340 bp):
AATCCCCGAAAAATACAATATATTTAGATCGATATGGCCCACAAAGTAGGAGTCATCATAGCTAT
ATTTTTCCTTATATCTACGTTCACATAATTAAACCATGGGCCATCTTAAGTCAGACTTGGTTGGG
ATTCGTATTTGGGCCACGTTGCGACAATCTCCAAATGCTTTTGGTTTGTTTTCTTTGATAGTTTT
TATTTAAAGTTTCACTAAAAATTAACTTTCTATCAAGAAAACTTGTTTTCATGGATTTTTTGCGT
GATTTATAGTTCTTTCCACCATGTTGTTTTCCTTATTTTTGCCTTTGTTAGTTATCTCATGCCAT
TCATTTTCCATGTTA
Found at i:960201 original size:76 final size:78
Alignment explanation
Indices: 960107--960256 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 78
960097 TGATTATGAG
* * * * *
960107 AATAACGGGGTTGGAGTATCCCCGATGA-AG-AATTGATGTTTTGGAAATAAAACCGGGGTTGGA
1 AATAACGGGGATGGAGTATCCCCGATGAGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGA
960170 GTATCCCCTCGAA
66 GTATCCCCTCGAA
*
960183 AATAACGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGG
1 AATAACGGGGATGGAGTATCCCCGATGA-GAGAAATTAATATTTTAGAAATAAAAACGGGGTTGG
960248 AGTATCCCC
65 AGTATCCCC
960257 GATGATGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
76 26 0.40
78 2 0.03
79 37 0.57
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (78 bp):
AATAACGGGGATGGAGTATCCCCGATGAGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGA
GTATCCCCTCGAA
Found at i:960466 original size:153 final size:153
Alignment explanation
Indices: 960188--960475 Score: 359
Period size: 153 Copynumber: 1.9 Consensus size: 153
960178 TCGAAAATAA
* *
960188 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTGAGAAATAAAAACGGAGTTGGAGTAT
* * * *
960253 CCCCGATGATGAAAAATTAGTATTTTGGAAATACAATCGGAGTTGGAGTATCCCCGATTATAG-A
66 CCCCGATGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAT-GCA
960317 AAATTGGTGTTTTGAAAATAAAAC
130 AAATTGGTGTTTTGAAAATAAAAC
* * ** * *
960341 CGGGGTTGGAGTATCCCCGATTGTG-GAAAATTGGTGTTCTGAG-AATAAAATCGGAGTTGGAGT
1 CGGGGATGGAGTATCCCCGATTATGAG-AAATTAATATT-TGAGAAATAAAAACGGAGTTGGAGT
* * * * *
960404 GTCCCCGATTG-TGGAAAATTAATGTTTTAGAAGTAAAACCGGGGTTGGAGTATCCCCGATTATG
64 ATCCCCGA-TGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATG
960468 CAAAATTG
128 CAAAATTG
960476 AGAAAACTTG
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
152 2 0.02
153 107 0.94
154 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (153 bp):
CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTGAGAAATAAAAACGGAGTTGGAGTAT
CCCCGATGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGCAA
AATTGGTGTTTTGAAAATAAAAC
Found at i:960473 original size:51 final size:50
Alignment explanation
Indices: 960188--960474 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 50
960178 TCGAAAATAA
* * * *
960188 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAA
1 CGGGGTTGGAGTATCCCCGATTATGA-AAATTAGTGTTTTAGAAATAAAAC
* * * * *
960239 CGGGGTTGGAGTATCCCCGATGATGAAAAATTAGTATTTTGGAAATACAAT
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATTAGTGTTTTAGAAATAAAAC
* *
960290 CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAG-AAATAAAAC
* * * *
960341 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTCT-GAGAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAGA-AATAAAAC
* * * * *
960392 CGGAGTTGGAGTGTCCCCGATTGTGGAAAATTAATGTTTTAGAAGTAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAGAAATAAAAC
960443 CGGGGTTGGAGTATCCCCGATTATGCAAAATT
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATT
960475 GAGAAAACTT
Statistics
Matches: 203, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
50 3 0.01
51 196 0.97
52 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATTAGTGTTTTAGAAATAAAAC
Found at i:960475 original size:102 final size:101
Alignment explanation
Indices: 960194--960475 Score: 370
Period size: 102 Copynumber: 2.8 Consensus size: 101
960184 ATAACGGGGA
* *
960194 TGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTATGA-AAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
* * * *
960259 TGATGAAAAATTAGTATTTTGGAAATACAATCGGAGT
65 TTATGAAAAATTGGTATTCTGGAAATAAAATCGGAGT
**
960296 TGGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCCCCG
1 TGGAGTATCCCCGATTAT-GAAAATTAATGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCG
* * *
960360 ATTGTGGAAAATTGGTGTTCT-GAGAATAAAATCGGAGT
64 ATTATGAAAAATTGGTATTCTGGA-AATAAAATCGGAGT
* * *
960398 TGGAGTGTCCCCGATTGTGGAAAATTAATGTTTTAGAAGTAAAACCGGGGTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTAT-GAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
*
960463 TTATGCAAAATTG
65 TTATGAAAAATTG
960476 AGAAAACTTG
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
101 3 0.02
102 151 0.96
103 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (101 bp):
TGGAGTATCCCCGATTATGAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGAT
TATGAAAAATTGGTATTCTGGAAATAAAATCGGAGT
Found at i:962854 original size:13 final size:13
Alignment explanation
Indices: 962836--962861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
962826 ACAAAGATCC
962836 ATGTATCGATACA
1 ATGTATCGATACA
962849 ATGTATCGATACA
1 ATGTATCGATACA
962862 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:962857 original size:33 final size:33
Alignment explanation
Indices: 962815--962881 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
962805 AAAATTTCCA
***
962815 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
962848 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
962881 A
1 A
962882 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:962925 original size:19 final size:18
Alignment explanation
Indices: 962901--962968 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
962891 CAGTAGCTAA
962901 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
962920 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
962935 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
962952 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
962969 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:962941 original size:13 final size:13
Alignment explanation
Indices: 962923--962947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
962913 ACAATACTTA
962923 TGTATCGATACAT
1 TGTATCGATACAT
962936 TGTATCGATACA
1 TGTATCGATACA
962948 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:962945 original size:32 final size:32
Alignment explanation
Indices: 962904--962966 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
962894 TAGCTAATTA
*
962904 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
962936 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
962967 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:963048 original size:21 final size:21
Alignment explanation
Indices: 963024--963080 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
963014 CATTTGTAGG
963024 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
963045 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
963066 ATGTATCGATACATT
1 ATGTATCGATACATT
963081 TAAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:963799 original size:55 final size:55
Alignment explanation
Indices: 963704--964876 Score: 1774
Period size: 55 Copynumber: 21.3 Consensus size: 55
963694 ATAAATTGTA
* * * * * *
963704 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
963759 TCCTACTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
963814 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
963869 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
963924 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
963979 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
964034 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
964089 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
964144 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
964199 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
964254 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
964309 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
964364 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
964419 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
964474 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
964529 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
964584 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
964639 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
964694 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
964749 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
964804 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAACGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
964859 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
964877 AAAAAGCGGA
Statistics
Matches: 1056, Mismatches: 36, Indels: 52
0.92 0.03 0.05
Matches are distributed among these distances:
53 4 0.00
54 28 0.03
55 994 0.94
56 24 0.02
57 6 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:963999 original size:26 final size:26
Alignment explanation
Indices: 963970--964059 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
963960 GTGTGGGCTT
963970 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
963996 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
964023 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
964051 TGAAAGGTG
1 TGAAAGGTG
964060 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:964088 original size:29 final size:29
Alignment explanation
Indices: 964000--964088 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
963990 GAGGACTGAA
964000 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
964029 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
964055 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
964084 AGGTG
1 AGGTG
964089 TCCTGCTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:964095 original size:220 final size:220
Alignment explanation
Indices: 963704--964876 Score: 2011
Period size: 220 Copynumber: 5.3 Consensus size: 220
963694 ATAAATTGTA
* * * * * *
963704 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTACTCT
1 TCCTGCTCTTTGAGGACTGAAAGA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
963768 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTGTCCTGCTCTTTGGGGAAT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
*
963832 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCC
129 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCC
963897 ACCAACTTGTGTGGGCTTTGAAAGGTG
194 ACCAACTTGTGTGGGCTTTGAAAGGTG
*
963924 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
963988 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
964053 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCA
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCA
964118 CCAACTTGTGTGGGCTTTGAAAGGTG
195 CCAACTTGTGTGGGCTTTGAAAGGTG
*
964144 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
964208 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
964273 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCA
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCA
964338 CCAACTTGTGTGGGCTTTGAAAGGTG
195 CCAACTTGTGTGGGCTTTGAAAGGTG
* *
964364 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
964429 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
964494 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCAC
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCAC
964559 CAACTTGTGTGGGCTTTGAAAGGTG
196 CAACTTGTGTGGGCTTTGAAAGGTG
* *
964584 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCG
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
* *
964648 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGAC
65 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGAC
* * *
964711 TGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATG
128 T-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATG
*
964775 CCACCAACTTGTGTGGGCTTTAAAAGGTG
192 CCACCAACTTGTGTGGGCTTTGAAAGGTG
*
964804 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAACGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
964869 TGAGGACT
66 TGAGGACT
964877 AAAAAGCGGA
Statistics
Matches: 921, Mismatches: 23, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
219 8 0.01
220 897 0.97
221 13 0.01
222 3 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (220 bp):
TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGACAATGCCAC
CAACTTGTGTGGGCTTTGAAAGGTG
Found at i:964799 original size:27 final size:27
Alignment explanation
Indices: 964714--964799 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
964704 TGAGGACTGG
964714 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
** * * * **
964741 AAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AAAA--TG-CCACCAACTTGTGTGGGCTTT
964769 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
964796 AAAA
1 AAAA
964800 GGTGTCCTGC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTGTGGGCTTT
Found at i:965862 original size:1 final size:1
Alignment explanation
Indices: 965858--965906 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
965848 CTTTTCTCTC
* * * * *
965858 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
965907 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Done.