Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 33 of 206
Found at i:9809078 original size:29 final size:29
Alignment explanation
Indices: 9808956--9809075 Score: 89
Period size: 29 Copynumber: 3.9 Consensus size: 29
9808946 ATATATGCGC
* * *
9808956 GGGTTTTGTTATATATAATATATATGCGT
1 GGGTCTTGTTATATATAATATATATACAT
* * *
9808985 GGGT-TTAGATATATATAATATATATGCGT
1 GGGTCTT-GTTATATATAATATATATACAT
*
9809014 GGGTCTTGATTATATATATGATATATATGCATATAT
1 GGGTCTTG--T-TATATAT-A-ATATAT--ATACAT
*
9809050 GGGTCTTGTTTTATATAATATATATA
1 GGGTCTTGTTATATATAATATATATA
9809076 TATATGTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
28 2 0.03
29 33 0.43
30 2 0.03
31 6 0.08
32 8 0.11
33 7 0.09
34 7 0.09
36 11 0.14
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (29 bp):
GGGTCTTGTTATATATAATATATATACAT
Found at i:9809397 original size:18 final size:18
Alignment explanation
Indices: 9809329--9809399 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
9809319 CATGTTAACT
* *
9809329 TGGCGAATTATATTACTA
1 TGGCGAATTGTATTAATA
* *
9809347 TGGCGAATTGTGTTAATT
1 TGGCGAATTGTATTAATA
* * *
9809365 TGGTGATTTGCATTAATA
1 TGGCGAATTGTATTAATA
9809383 TGGCGAATTGTATTAAT
1 TGGCGAATTGTATTAAT
9809400 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (18 bp):
TGGCGAATTGTATTAATA
Found at i:9810093 original size:34 final size:34
Alignment explanation
Indices: 9810044--9810128 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
9810034 TACGATGTGG
* *
9810044 TATGAATGAATTATTATATTGAATGAACTGTTA-
1 TATGCATGAACTATTATATTGAATGAACTGTTAT
*
9810077 TATTGTATGAACTATTATATTGAATGAACTGTTAT
1 TA-TGCATGAACTATTATATTGAATGAACTGTTAT
*
9810112 TATGCATGAACTGTTAT
1 TATGCATGAACTATTAT
9810129 TTCATATGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
33 2 0.04
34 42 0.91
35 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (34 bp):
TATGCATGAACTATTATATTGAATGAACTGTTAT
Found at i:9810129 original size:17 final size:17
Alignment explanation
Indices: 9810046--9810128 Score: 105
Period size: 17 Copynumber: 4.9 Consensus size: 17
9810036 CGATGTGGTA
* *
9810046 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
9810063 TGAATGAACTGTTATAT
1 TGAATGAACTGTTATAT
* *
9810080 TGTATGAACTATTATAT
1 TGAATGAACTGTTATAT
9810097 TGAATGAACTGTTAT-T
1 TGAATGAACTGTTATAT
*
9810113 ATGCATGAACTGTTAT
1 -TGAATGAACTGTTAT
9810129 TTCATATGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
16 1 0.02
17 57 0.98
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:9810137 original size:17 final size:17
Alignment explanation
Indices: 9810057--9810144 Score: 69
Period size: 17 Copynumber: 5.2 Consensus size: 17
9810047 GAATGAATTA
9810057 TTATATTGA-ATGAACTG
1 TTATATT-ATATGAACTG
* *
9810074 TTATATTGTATGAACTA
1 TTATATTATATGAACTG
9810091 TTATATTGA-ATGAACTG
1 TTATATT-ATATGAACTG
9810108 -T-TATTATGCATGAACTG
1 TTATATTAT--ATGAACTG
*
9810125 TTAT-TTCATATGAATTG
1 TTATATT-ATATGAACTG
9810142 TTA
1 TTA
9810145 CTTTATGCGA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
14 1 0.02
15 4 0.07
16 1 0.02
17 46 0.79
18 3 0.05
19 3 0.05
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (17 bp):
TTATATTATATGAACTG
Found at i:9810138 original size:34 final size:34
Alignment explanation
Indices: 9810049--9810144 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
9810039 TGTGGTATGA
* * *
9810049 ATGAATTATTATATTGAATGAACTGTTATATTGT
1 ATGAACTATTATATTCAATGAACTGTTATATTGC
*
9810083 ATGAACTATTATATTGAATGAACTGTTAT-TATGC
1 ATGAACTATTATATTCAATGAACTGTTATAT-TGC
* *
9810117 ATGAACTGTTAT-TTCATATGAATTGTTA
1 ATGAACTATTATATTCA-ATGAACTGTTA
9810145 CTTTATGCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
33 4 0.07
34 51 0.93
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (34 bp):
ATGAACTATTATATTCAATGAACTGTTATATTGC
Found at i:9815845 original size:2 final size:2
Alignment explanation
Indices: 9815838--9815877 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9815828 ACAATAATAT
9815838 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9815878 CGTACCTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9818919 original size:6 final size:6
Alignment explanation
Indices: 9818908--9818932 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9818898 CCATAATGAT
9818908 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
9818933 TTAGATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:9829807 original size:24 final size:25
Alignment explanation
Indices: 9829773--9829820 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
9829763 GTATATTTAA
*
9829773 TAATTAGTAATTTA-ATTTAAAAAG
1 TAATTAATAATTTATATTTAAAAAG
*
9829797 TAATTAATAATTTATTTTTAAAAA
1 TAATTAATAATTTATATTTAAAAA
9829821 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATTAATAATTTATATTTAAAAAG
Found at i:9830880 original size:19 final size:19
Alignment explanation
Indices: 9830841--9830880 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
9830831 CTTATTTATC
9830841 ATTTTATTTTTTTAGAATTA
1 ATTTTATTTTTTTAG-ATTA
9830861 ATTTTAGTTTTTTTAG-TTA
1 ATTTTA-TTTTTTTAGATTA
9830880 A
1 A
9830881 AGGTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (19 bp):
ATTTTATTTTTTTAGATTA
Found at i:9831181 original size:21 final size:21
Alignment explanation
Indices: 9831116--9831182 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
9831106 ATTAAAGGGA
9831116 AAAACTTGAGG-TTTTACAAGG
1 AAAACTTG-GGTTTTTACAAGG
* * * * *
9831137 AATTACATGGGTGTTTATAGGG
1 AA-AACTTGGGTTTTTACAAGG
*
9831159 AAAACTTGGGTTTTTACATGG
1 AAAACTTGGGTTTTTACAAGG
9831180 AAA
1 AAA
9831183 TTATTTTTTC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.33
Consensus pattern (21 bp):
AAAACTTGGGTTTTTACAAGG
Found at i:9831410 original size:13 final size:14
Alignment explanation
Indices: 9831392--9831424 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
9831382 CAATATGTGA
9831392 ATAGTTTTTAA-TG
1 ATAGTTTTTAACTG
9831405 ATAGTTTTTAACTG
1 ATAGTTTTTAACTG
9831419 -TAGTTT
1 ATAGTTT
9831425 GGTAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (14 bp):
ATAGTTTTTAACTG
Found at i:9846602 original size:27 final size:27
Alignment explanation
Indices: 9846567--9846625 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
9846557 AATTAATAAT
9846567 AAAAGACAAATGAAA-TAAAATAATATA
1 AAAAGACAAATGAAAGT-AAATAATATA
* *
9846594 CAAAA-ACAATTTAAAGTAAATAATATA
1 -AAAAGACAAATGAAAGTAAATAATATA
9846621 AAAAG
1 AAAAG
9846626 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.15
27 18 0.67
28 5 0.19
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (27 bp):
AAAAGACAAATGAAAGTAAATAATATA
Found at i:9846629 original size:23 final size:23
Alignment explanation
Indices: 9846596--9846670 Score: 89
Period size: 26 Copynumber: 3.1 Consensus size: 23
9846586 ATAATATACA
*
9846596 AAAACAATTTAAAGTAAATAATAT
1 AAAA-AATTTAAAATAAATAATAT
*
9846620 AAAAAGTTTAAAATAAATAATATAT
1 AAAAAATTTAAAATAAAT-A-ATAT
9846645 GAAAAAATTTAAAATAAATAA-AT
1 -AAAAAATTTAAAATAAATAATAT
9846668 AAA
1 AAA
9846671 TAACAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
22 3 0.07
23 14 0.31
24 6 0.13
25 5 0.11
26 17 0.38
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAAAATTTAAAATAAATAATAT
Found at i:9846668 original size:27 final size:26
Alignment explanation
Indices: 9846605--9846681 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
9846595 AAAAACAATT
*
9846605 TAAAGTAAATAATATAAAAAGTTTAAAA
1 TAAA-TAAAT-ATATAAAAAATTTAAAA
9846633 TAAAT-AATATATGAAAAAATTTAAAA
1 TAAATAAATATAT-AAAAAATTTAAAA
* *
9846659 TAAATAAATAAATAACAAATTTA
1 TAAATAAATATATAAAAAATTTA
9846682 CAAAAAGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.09
26 29 0.66
27 7 0.16
28 4 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAATAAATATATAAAAAATTTAAAA
Found at i:9849456 original size:18 final size:18
Alignment explanation
Indices: 9849435--9849496 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
9849425 ATATATAGAT
9849435 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
9849453 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
9849472 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
9849487 ATA-ATAATAA
1 ATATATAATAA
9849497 TAATAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:9849487 original size:35 final size:33
Alignment explanation
Indices: 9849432--9849496 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
9849422 GAGATATATA
9849432 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
9849467 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
9849497 TAATAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:9850326 original size:15 final size:16
Alignment explanation
Indices: 9850308--9850337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9850298 AAATAATTCG
9850308 AAAG-GAAAAAAAAAT
1 AAAGAGAAAAAAAAAT
9850323 AAAGAGAAAAAAAAA
1 AAAGAGAAAAAAAAA
9850338 CTAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAAAAAAAT
Found at i:9857455 original size:23 final size:24
Alignment explanation
Indices: 9857420--9857469 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
9857410 TAGCTCAAAA
9857420 CTTCTTCTTCTTTTG-TTCTTTCT
1 CTTCTTCTTCTTTTGTTTCTTTCT
*
9857443 CTTC-TCTTGCTTTTGTTTCTTTTT
1 CTTCTTCTT-CTTTTGTTTCTTTCT
9857467 CTT
1 CTT
9857470 GATGCGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
24 10 0.42
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.70
Consensus pattern (24 bp):
CTTCTTCTTCTTTTGTTTCTTTCT
Found at i:9870232 original size:31 final size:31
Alignment explanation
Indices: 9870197--9870262 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
9870187 ACAACCTAAT
9870197 GACTTAAATAAAAACTTTCGAATAGTGTAAC
1 GACTTAAATAAAAACTTTCGAATAGTGTAAC
* * * *
9870228 GACTTAAATGAAAAGTTTCGAATAGTTTAGC
1 GACTTAAATAAAAACTTTCGAATAGTGTAAC
9870259 GACT
1 GACT
9870263 ATATTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTCGAATAGTGTAAC
Found at i:9872826 original size:5 final size:5
Alignment explanation
Indices: 9872816--9872874 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
9872806 AAATTTAATA
* *
9872816 TATAT TATAT TAAAT TATACT TA-AT TA-AT TAT-T AAGTAT ATATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TATAT TA-TAT -TATAT
9872861 TATAT TATAT TATA
1 TATAT TATAT TATA
9872875 ATAAAACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 9 0.20
5 28 0.62
6 7 0.16
7 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:9872916 original size:95 final size:96
Alignment explanation
Indices: 9872810--9872995 Score: 347
Period size: 96 Copynumber: 1.9 Consensus size: 96
9872800 GTATTCAAAT
9872810 TTAATATATATTATATTAAATTATACTTAATTAATTA-TTAAGTATATATATTATATTATATTAT
1 TTAATATATATTATATTAAATTATACTTAATTAATTAGTTAAGTATATATATTATATTATATTAT
9872874 AATAAAACAAATAAATAAAAGAAAAAAAAAG
66 AATAAAACAAATAAATAAAAGAAAAAAAAAG
*
9872905 TTAATGTATATTATATTAAATTATACTTAATTAATTAGTTAAGTATATATATTATATTATATTAT
1 TTAATATATATTATATTAAATTATACTTAATTAATTAGTTAAGTATATATATTATATTATATTAT
*
9872970 AATAAAATAAATAAATAAAAGAAAAA
66 AATAAAACAAATAAATAAAAGAAAAA
9872996 GGGAAAGAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 36 0.41
96 52 0.59
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (96 bp):
TTAATATATATTATATTAAATTATACTTAATTAATTAGTTAAGTATATATATTATATTATATTAT
AATAAAACAAATAAATAAAAGAAAAAAAAAG
Found at i:9875589 original size:38 final size:42
Alignment explanation
Indices: 9875545--9875639 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 42
9875535 ATGGATATGA
*
9875545 TATTTCAAATA-T-T-TTTAT-TGTGAAATATTTCAATTAAT
1 TATTTCAAATACTATGTTTATATGTGAAATATTTCAAATAAT
*
9875583 TATTTCAAATATCCTTATGTTTATATGTTAAATATTTCAAATAAT
1 TATTTCAAATA--C-TATGTTTATATGTGAAATATTTCAAATAAT
9875628 TATTTCAAATAC
1 TATTTCAAATAC
9875640 ACATATAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
38 11 0.23
42 1 0.02
43 2 0.04
44 5 0.10
45 29 0.60
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.49
Consensus pattern (42 bp):
TATTTCAAATACTATGTTTATATGTGAAATATTTCAAATAAT
Found at i:9880375 original size:12 final size:12
Alignment explanation
Indices: 9880354--9880385 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9880344 CCAAAAGTTC
9880354 TTTCATTTTGAT
1 TTTCATTTTGAT
*
9880366 TTTGATTTTGAT
1 TTTCATTTTGAT
9880378 TTTCATTT
1 TTTCATTT
9880386 AAAACTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (12 bp):
TTTCATTTTGAT
Found at i:9885759 original size:2 final size:2
Alignment explanation
Indices: 9885752--9885777 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9885742 TTTTATTACA
9885752 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
9885778 TGTAATATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9886869 original size:124 final size:124
Alignment explanation
Indices: 9886658--9887007 Score: 646
Period size: 124 Copynumber: 2.8 Consensus size: 124
9886648 TTATTTCGGG
9886658 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
9886723 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
9886782 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
9886847 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
9886906 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
9886971 AAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
9887008 TAAGTTTGGG
Statistics
Matches: 217, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 217 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:9893964 original size:51 final size:51
Alignment explanation
Indices: 9893908--9894016 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 51
9893898 TTTAAAAAAT
*
9893908 GAAATTGAGGGGAAATTGAAATTAAATAT-GGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGG-TTTGAGAGAATTTTGGAAG
9893959 GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGGAAG
9894010 GAAATTG
1 GAAATTG
9894017 GAACAGTGGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 54 0.96
52 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGGAAG
Found at i:9895589 original size:23 final size:23
Alignment explanation
Indices: 9895542--9895600 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
9895532 TTATGCTTAA
* *
9895542 ATGCTGCCC-AATTGATGTATTT
1 ATGCTGCCCAAATTGATATATAT
9895564 ATGCTGCCCAAATTG-TCATATAT
1 ATGCTGCCCAAATTGAT-ATATAT
*
9895587 ATGCTGTCCAAATT
1 ATGCTGCCCAAATT
9895601 TTTGATGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
ATGCTGCCCAAATTGATATATAT
Found at i:9895663 original size:23 final size:22
Alignment explanation
Indices: 9895612--9896041 Score: 166
Period size: 23 Copynumber: 18.4 Consensus size: 22
9895602 TTGATGTAAA
** * *
9895612 AATGCTGTCCAATTTTGTATAC
1 AATGCTGTTAAATTTTGTGTAT
9895634 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
9895657 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
9895680 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** *
9895705 CAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTTAAATTTTGTGTAT
9895728 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
9895751 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
9895774 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** *
9895799 CAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTTAAATTTTGTGTAT
*
9895822 ACATGCTGCTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
9895845 AAGTGCTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
9895868 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** *
9895893 CAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTTAAATTTTGTGTAT
9895916 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
9895939 AAGTGCTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
9895962 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** * *
9895987 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
9896010 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
9896033 AAGTGCTGT
1 AA-TGCTGT
9896042 CCAAATTGAT
Statistics
Matches: 290, Mismatches: 88, Indels: 59
0.66 0.20 0.14
Matches are distributed among these distances:
22 10 0.03
23 194 0.67
24 44 0.15
25 42 0.14
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (22 bp):
AATGCTGTTAAATTTTGTGTAT
Found at i:9895722 original size:94 final size:94
Alignment explanation
Indices: 9895565--9896079 Score: 881
Period size: 94 Copynumber: 5.5 Consensus size: 94
9895555 GATGTATTTA
* * * * *
9895565 TGCTGCCCAAATT-GTCATATATATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTT
1 TGCTGTCCAAATTGGT-ATATGTATGCTG-CCTAATTTTTGGTG-AATCAATGCTGTCCAATTTT
*
9895628 GTATACACATGCTGTTAAATTTTGTGTATAAG
63 GTATATACATGCTGTTAAATTTTGTGTATAAG
*
9895660 TGCTGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
1 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
9895725 TATACATGCTGTTAAATTTTGTGTATAAG
66 TATACATGCTGTTAAATTTTGTGTATAAG
*
9895754 TGCTGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
1 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
*
9895819 TATACATGCTGCTAAATTTTGTGTATAAG
66 TATACATGCTGTTAAATTTTGTGTATAAG
9895848 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
1 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
9895913 TATACATGCTGTTAAATTTTGTGTATAAG
66 TATACATGCTGTTAAATTTTGTGTATAAG
9895942 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
1 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
*
9896007 TACACATGCTGTTAAATTTTGTGTATAAG
66 TATACATGCTGTTAAATTTTGTGTATAAG
* *
9896036 TGCTGTCCAAATTGATATATGTATACTGCCTAATTTTTGGTGAA
1 TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAA
9896080 AAAAAAAATG
Statistics
Matches: 405, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
93 2 0.00
94 379 0.94
95 22 0.05
96 2 0.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (94 bp):
TGCTGTCCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTA
TATACATGCTGTTAAATTTTGTGTATAAG
Found at i:9896046 original size:282 final size:286
Alignment explanation
Indices: 9895565--9896146 Score: 906
Period size: 282 Copynumber: 2.0 Consensus size: 286
9895555 GATGTATTTA
*
9895565 TGCTGCCCAAATTGTCATATATATGCTGTCCAAATTTTTGATGTAAAAATGCTGTCCAATTTTGT
1 TGCTGTCCAAATTGTCATATATATGCTGTCCAAATTTTTGATGTAAAAATGCTGTCCAATTTTGT
*
9895630 ATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCTAATT
66 ATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCTAATT
*
9895695 TTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGT
131 TTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCTGT
* * * ** * *
9895760 CCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATAC
196 CCAAATTGATATATGTATACTGCCTAATTTTTGGTGAAAAAAATGCTGTCCAATTTTATACATAC
9895824 ATGCTGCT-AAATTTTG-TGTATAAG
261 ATGCTGCTCAAATTTTGATGTATAAG
* * * *
9895848 TGCTGTCCAAATTGGT-ATATGTATGCTG-CCTAATTTTTGGTG-AATCAATGCTGTCCAATTTT
1 TGCTGTCCAAATT-GTCATATATATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTT
*
9895910 GTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCTAA
64 GTATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCTAA
9895975 TTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCT
129 TTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCT
*
9896040 GTCCAAATTGATATATGTATACTGCCTAATTTTTGGTGAAAAAAAAAATGCTGTCTAATTTTATA
194 GTCCAAATTGATATATGTATACTGCCTAATTTTTGGTG---AAAAAAATGCTGTCCAATTTTATA
* *
9896105 CATATATGCTGCTCAATTTTTGATGTATAAG
256 CATACATGCTGCTCAAATTTTGATGTATAAG
*
9896136 AGCTGTCCAAA
1 TGCTGTCCAAA
9896147 CAGGGTAGAT
Statistics
Matches: 272, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
281 2 0.01
282 190 0.70
283 23 0.08
284 2 0.01
286 30 0.11
287 7 0.03
288 18 0.07
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (286 bp):
TGCTGTCCAAATTGTCATATATATGCTGTCCAAATTTTTGATGTAAAAATGCTGTCCAATTTTGT
ATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCTAATT
TTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCTGT
CCAAATTGATATATGTATACTGCCTAATTTTTGGTGAAAAAAATGCTGTCCAATTTTATACATAC
ATGCTGCTCAAATTTTGATGTATAAG
Found at i:9896341 original size:2 final size:2
Alignment explanation
Indices: 9896334--9896362 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9896324 TTTAAAATTG
9896334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9896363 GGAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9897212 original size:18 final size:19
Alignment explanation
Indices: 9897189--9897224 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9897179 TCTTTTTACG
*
9897189 TAATTAA-TATAAAAATAA
1 TAATTAATTACAAAAATAA
9897207 TAATTAATTACAAAAATA
1 TAATTAATTACAAAAATA
9897225 GTATGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATTAATTACAAAAATAA
Found at i:9900058 original size:37 final size:37
Alignment explanation
Indices: 9900008--9900100 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
9899998 TAATAAGTTG
*
9900008 ACACCCAGTGTCTCATCGGTTAAACCGAAGAAAATTA
1 ACACCCAGTGTCTCATCGATTAAACCGAAGAAAATTA
* * * *
9900045 ACACCTAGTGTCTCATCGATTAAACTGAAGCAAATTG
1 ACACCCAGTGTCTCATCGATTAAACCGAAGAAAATTA
*
9900082 ACACCCAGTGCCTCATCGA
1 ACACCCAGTGTCTCATCGA
9900101 CTCATAGTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (37 bp):
ACACCCAGTGTCTCATCGATTAAACCGAAGAAAATTA
Found at i:9902469 original size:27 final size:27
Alignment explanation
Indices: 9902402--9902469 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
9902392 CTGGTAGTCC
* *
9902402 GTGTTTATTGTCTCGGTGAACTACCCT
1 GTGTTTATTGTCCCGGTGAACTACACT
* * * *
9902429 GTGTTTACTATCCCGGT-AGGCTACATT
1 GTGTTTATTGTCCCGGTGA-ACTACACT
9902456 GTGTTTATTGTCCC
1 GTGTTTATTGTCCC
9902470 AACAGACTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (27 bp):
GTGTTTATTGTCCCGGTGAACTACACT
Found at i:9906069 original size:18 final size:18
Alignment explanation
Indices: 9906042--9906076 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9906032 ATAAAATATT
*
9906042 ATAGGCCCAATCTATTAG
1 ATAGGCCCAATATATTAG
*
9906060 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
9906077 TGTAAGTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:9919097 original size:30 final size:30
Alignment explanation
Indices: 9919040--9919097 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
9919030 AATTTTTAAA
* *
9919040 ATTTCGGAAATCCTAGTATCTATTGGTAGT
1 ATTTCGGAAATCCTAATATCTACTGGTAGT
* * *
9919070 ATTTTGGACATCCTAATGTCTACTGGTA
1 ATTTCGGAAATCCTAATATCTACTGGTA
9919098 ACATAGAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (30 bp):
ATTTCGGAAATCCTAATATCTACTGGTAGT
Found at i:9925196 original size:25 final size:24
Alignment explanation
Indices: 9925168--9925355 Score: 64
Period size: 24 Copynumber: 7.6 Consensus size: 24
9925158 ATCCGGGCAA
*
9925168 TATAACGGGAAGCTCATAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
* *
9925193 TATAATGGGTAGCTCCAAAGAG-C
1 TATAACGGGAAGCTCCAAAGAGCC
* * * * *
9925216 AATTAACAGGTAGCTTCGAAGAG--
1 TA-TAACGGGAAGCTCCAAAGAGCC
* * * *
9925239 TAATTAATGGGAAGCACCGAATAGCC
1 T-A-TAACGGGAAGCTCCAAAGAGCC
* *
9925265 ATATAACGGGAAG-TTCAAGTGAG-C
1 -TATAACGGGAAGCTCCAA-AGAGCC
*
9925289 -ACTAATGGGAAGCTCACAAAGAGCC
1 TA-TAACGGGAAGCTC-CAAAGAGCC
* *
9925314 TTTAATCAGGAAGCTCACAAAGAGCC
1 TATAA-CGGGAAGCTC-CAAAGAGCC
* *
9925340 ATATAACAGGACGCTC
1 -TATAACGGGAAGCTC
9925356 ATAAGAGTTG
Statistics
Matches: 121, Mismatches: 29, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 11 0.09
24 45 0.37
25 31 0.26
26 28 0.23
27 5 0.04
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:9925227 original size:24 final size:24
Alignment explanation
Indices: 9925200--9925245 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9925190 GCCTATAATG
9925200 GGTAGCTCCAAAGAGCAATTAACA
1 GGTAGCTCCAAAGAGCAATTAACA
* * *
9925224 GGTAGCTTCGAAGAGTAATTAA
1 GGTAGCTCCAAAGAGCAATTAA
9925246 TGGGAAGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (24 bp):
GGTAGCTCCAAAGAGCAATTAACA
Found at i:9925325 original size:26 final size:26
Alignment explanation
Indices: 9925296--9925356 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
9925286 AGCACTAATG
*
9925296 GGAAGCTCACAAAGAGCC-TTTAATCA
1 GGAAGCTCACAAAGAGCCATATAA-CA
9925322 GGAAGCTCACAAAGAGCCATATAACA
1 GGAAGCTCACAAAGAGCCATATAACA
*
9925348 GGACGCTCA
1 GGAAGCTCA
9925357 TAAGAGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATAACA
Found at i:9925947 original size:2 final size:2
Alignment explanation
Indices: 9925940--9925969 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9925930 AGATATTTTC
9925940 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
9925970 CAANNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9926156 original size:21 final size:21
Alignment explanation
Indices: 9926114--9926157 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9926104 NNNNCATGAA
* *
9926114 TTCCATGAAATTTTAGAATTT
1 TTCCATGAAATTTAAAAATTT
*
9926135 TTCCATG-AATTTAAAAACTT
1 TTCCATGAAATTTAAAAATTT
9926155 TTC
1 TTC
9926158 AATTTAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (21 bp):
TTCCATGAAATTTAAAAATTT
Found at i:9927510 original size:91 final size:91
Alignment explanation
Indices: 9927351--9927536 Score: 302
Period size: 91 Copynumber: 2.1 Consensus size: 91
9927341 CAACCTATCA
* *
9927351 AAAT-GTCAAAAATGTAATTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATCTCCATT
1 AAATAGTCAAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATT
** *
9927415 TAAGATTGCATCAGTCAAACACATCC
66 TAAGATTGCATCAACCAAAAACATCC
* *
9927441 AAATAGTCAAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCTAAAATCTTCATT
1 AAATAGTCAAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATT
9927506 TAAGATTGCATCAACCAAAAACATCC
66 TAAGATTGCATCAACCAAAAACATCC
9927532 AAATA
1 AAATA
9927537 ACAGAAGGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 4 0.05
91 84 0.95
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (91 bp):
AAATAGTCAAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATT
TAAGATTGCATCAACCAAAAACATCC
Found at i:9931235 original size:3 final size:3
Alignment explanation
Indices: 9931227--9931261 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9931217 ATGTGCAATT
9931227 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
9931262 TATAGATTAG
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:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:9941093 original size:22 final size:21
Alignment explanation
Indices: 9941068--9941130 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
9941058 CTATTAACTA
9941068 ATTAGCACTTCGATGCTCTCTG
1 ATTAGCACTTCGATGC-CTCTG
*
9941090 ATTAGCACTTTGATGCCTCTG
1 ATTAGCACTTCGATGCCTCTG
*
9941111 -TTTGCACTTC-AGTGCCTCTG
1 ATTAGCACTTCGA-TGCCTCTG
9941131 TACAACACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.43
21 5 0.14
22 15 0.41
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (21 bp):
ATTAGCACTTCGATGCCTCTG
Found at i:9941147 original size:21 final size:21
Alignment explanation
Indices: 9941123--9941163 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9941113 TGCACTTCAG
*
9941123 TGCCTCTGTACAACACTATGA
1 TGCCTCTATACAACACTATGA
9941144 TGCCTCTATACAACACTATG
1 TGCCTCTATACAACACTATG
9941164 GTGCTTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
TGCCTCTATACAACACTATGA
Found at i:9946633 original size:17 final size:19
Alignment explanation
Indices: 9946600--9946636 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
9946590 TAATTTTAAA
9946600 AAAATAAATACAAAAAATT
1 AAAATAAATACAAAAAATT
9946619 AAAA-AAATA-AAAAAATT
1 AAAATAAATACAAAAAATT
9946636 A
1 A
9946637 TATTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAATACAAAAAATT
Found at i:9946694 original size:30 final size:29
Alignment explanation
Indices: 9946630--9946774 Score: 159
Period size: 29 Copynumber: 4.9 Consensus size: 29
9946620 AAAAAATAAA
* * * *
9946630 AAAATTATATTTTAATCACTAAACTTTTT
1 AAAATTATATTTTGACCCCTAAATTTTTT
9946659 AAAATTATATTTTGACCCCTAAATTTTTCT
1 AAAATTATATTTTGACCCCTAAATTTTT-T
*
9946689 AAAATTATATTTTGACCCTTAAACTTTTTT
1 AAAATTATATTTTGACCCCTAAA-TTTTTT
* * *
9946719 -AAATTACATTTTGA-CCATAAATTTTCT
1 AAAATTATATTTTGACCCCTAAATTTTTT
*
9946746 AGAAATTATATTTTGGCCCCCTAAATTTT
1 A-AAATTATATTTT-GACCCCTAAATTTT
9946775 GTTACATTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
27 5 0.05
28 6 0.06
29 48 0.48
30 25 0.25
31 15 0.15
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCTAAATTTTTT
Found at i:9946701 original size:59 final size:57
Alignment explanation
Indices: 9946630--9946759 Score: 172
Period size: 59 Copynumber: 2.2 Consensus size: 57
9946620 AAAAAATAAA
* *
9946630 AAAATTATATTTTAATCAC-TAAACTTTTTAAAATTATATTTTGACCCCTAAATTTTTCT
1 AAAATTATATTTTAA-CACTTAAACTTTTTAAAATTACATTTTGA-CCATAAA-TTTTCT
* * *
9946689 AAAATTATATTTTGACCCTTAAACTTTTTTAAATTACATTTTGACCATAAATTTTCT
1 AAAATTATATTTTAACACTTAAACTTTTTAAAATTACATTTTGACCATAAATTTTCT
9946746 AGAAATTATATTTT
1 A-AAATTATATTTT
9946760 GGCCCCCTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
57 7 0.11
58 20 0.31
59 37 0.58
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (57 bp):
AAAATTATATTTTAACACTTAAACTTTTTAAAATTACATTTTGACCATAAATTTTCT
Found at i:9947139 original size:12 final size:12
Alignment explanation
Indices: 9947103--9947135 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9947093 TAGGGTTTCG
9947103 AGAAGAGGAAGA
1 AGAAGAGGAAGA
9947115 AGAAGAGGAAGA
1 AGAAGAGGAAGA
9947127 AGAA-AGGAA
1 AGAAGAGGAA
9947136 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
AGAAGAGGAAGA
Found at i:9947147 original size:21 final size:19
Alignment explanation
Indices: 9947123--9947184 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 19
9947113 GAAGAAGAGG
*
9947123 AAGAAGAAAGGAAAGAAAAAA
1 AAGAA-AAAAGAAA-AAAAAA
9947144 AAGAAAAAAG--AAAAAAA
1 AAGAAAAAAGAAAAAAAAA
* *
9947161 AAGAAAAAAGAGAGAAAAA
1 AAGAAAAAAGAAAAAAAAA
9947180 AAGAA
1 AAGAA
9947185 TTTTTAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 16 0.43
18 1 0.03
19 11 0.30
20 4 0.11
21 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAGAAAAAAAAA
Found at i:9947160 original size:17 final size:17
Alignment explanation
Indices: 9947134--9947184 Score: 77
Period size: 17 Copynumber: 2.9 Consensus size: 17
9947124 AGAAGAAAGG
9947134 AAAG-AAAAAAAAGAAA
1 AAAGAAAAAAAAAGAAA
9947150 AAAGAAAAAAAAAGAAA
1 AAAGAAAAAAAAAGAAA
9947167 AAAGAGAGAAAAAAAGAA
1 AAAGA-A-AAAAAAAGAA
9947185 TTTTTAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.12
17 17 0.53
18 1 0.03
19 10 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAA
Found at i:9947447 original size:10 final size:10
Alignment explanation
Indices: 9947434--9947502 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
9947424 AGCCCAGTCC
9947434 AGAAAAAAAA
1 AGAAAAAAAA
* *
9947444 AGAAAAAGAG
1 AGAAAAAAAA
*
9947454 AGGAAAAAAA
1 AGAAAAAAAA
*
9947464 AGGAAAAAAA
1 AGAAAAAAAA
*
9947474 GGAAAAAAGAA
1 AGAAAAAA-AA
9947485 A-AAAAAAGAA
1 AGAAAAAA-AA
*
9947495 GGAAAAAA
1 AGAAAAAA
9947503 GCTCAAGTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
10 40 0.83
11 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:9947472 original size:30 final size:30
Alignment explanation
Indices: 9947437--9947502 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
9947427 CCAGTCCAGA
**
9947437 AAAAAAAAGAAAAAGAGAGGAAAAAA-AAGG
1 AAAAAAAAGAAAAA-AGAAAAAAAAAGAAGG
*
9947467 AAAAAAAGGAAAAAAGAAAAAAAAAGAAGG
1 AAAAAAAAGAAAAAAGAAAAAAAAAGAAGG
9947497 AAAAAA
1 AAAAAA
9947503 GCTCAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (30 bp):
AAAAAAAAGAAAAAAGAAAAAAAAAGAAGG
Found at i:9947500 original size:9 final size:9
Alignment explanation
Indices: 9947437--9947489 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
9947427 CCAGTCCAGA
*
9947437 AAAAAAAAG
1 AAAAAAAGG
9947446 AAAAAGAGAGG
1 AAAAA-A-AGG
9947457 AAAAAAAAGG
1 -AAAAAAAGG
9947467 AAAAAAAGG
1 AAAAAAAGG
9947476 -AAAAAA-G
1 AAAAAAAGG
9947483 AAAAAAA
1 AAAAAAA
9947490 AAGAAGGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
7 1 0.03
8 12 0.31
9 14 0.36
10 4 0.10
11 3 0.08
12 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:9947503 original size:21 final size:20
Alignment explanation
Indices: 9947435--9947502 Score: 93
Period size: 21 Copynumber: 3.4 Consensus size: 20
9947425 GCCCAGTCCA
9947435 GAAAAAAAAAGAAAAAGAGAG
1 GAAAAAAAAAGAAAAAGA-AG
*
9947456 GAAAAAAAAGGAAAAA-AAG
1 GAAAAAAAAAGAAAAAGAAG
*
9947475 GAAAAAAGAAAAAAAAAGAAG
1 GAAAAAA-AAAGAAAAAGAAG
9947496 GAAAAAA
1 GAAAAAA
9947503 GCTCAAGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.21
20 8 0.19
21 25 0.60
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAAGAAAAAGAAG
Found at i:9947673 original size:22 final size:23
Alignment explanation
Indices: 9947648--9947691 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9947638 TTTTTTAAGC
9947648 ATTTT-TTTATATTTCA-TATTTA
1 ATTTTATTTA-ATTTCATTATTTA
9947670 ATTTTATTTAATTTCATTATTT
1 ATTTTATTTAATTTCATTATTT
9947692 TTAATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTTATTTAATTTCATTATTTA
Found at i:9947972 original size:18 final size:18
Alignment explanation
Indices: 9947923--9948112 Score: 87
Period size: 18 Copynumber: 9.9 Consensus size: 18
9947913 GTAATTTATC
* *
9947923 AAAATTTTCATGTTTTAA
1 AAAAATTTCGTGTTTTAA
* *
9947941 AAAAATTCCATGTTTTAA
1 AAAAATTTCGTGTTTTAA
9947959 AAAAATTTCGTGTTTTCGTATTTTCA
1 AAAAATTTCGTG-TTT--TA-----A
*
9947985 ACAAATTTTCGTGTTTTAA
1 A-AAAATTTCGTGTTTTAA
* * *
9948004 AAAATTTTCATGTTTTCA
1 AAAAATTTCGTGTTTTAA
* *
9948022 ACAAATTTTGTGTTTTCAAA
1 AAAAATTTCGTGTTTT--AA
*
9948042 AAAAATTCTCGTG-TTTCA
1 AAAAATT-TCGTGTTTTAA
* * * *
9948060 CAAATTTTCGTATTTTCA
1 AAAAATTTCGTGTTTTAA
*
9948078 AAAAATTTC-TCGTGTTTCA
1 AAAAATTTCGT-GT-TTTAA
*
9948097 AAAATTTTCGTGTTTT
1 AAAAATTTCGTGTTTT
9948113 TTTTCTAAAT
Statistics
Matches: 134, Mismatches: 22, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.04
18 75 0.56
19 20 0.15
20 11 0.08
21 6 0.04
24 2 0.01
26 5 0.04
27 10 0.07
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (18 bp):
AAAAATTTCGTGTTTTAA
Found at i:9948021 original size:37 final size:37
Alignment explanation
Indices: 9947979--9948112 Score: 161
Period size: 37 Copynumber: 3.6 Consensus size: 37
9947969 TGTTTTCGTA
9947979 TTTTCAACAAATTTTCGTGTTTT-AAAAAATTTTCATG
1 TTTTCAACAAATTTTCGTGTTTTCAAAAAATTTTC-TG
**
9948016 TTTTCAACAAATTTT-GTGTTTTCAAAAAAAATTCTCG
1 TTTTCAACAAATTTTCGTGTTTTCAAAAAATTTTCT-G
*
9948053 TGTTTC-ACAAATTTTCGTATTTTCAAAAAA-TTTCTCG
1 T-TTTCAACAAATTTTCGTGTTTTCAAAAAATTTTCT-G
9948090 TGTTTCAA-AAATTTTCGTGTTTT
1 T-TTTCAACAAATTTTCGTGTTTT
9948113 TTTTCTAAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.09
37 61 0.70
38 18 0.21
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.48
Consensus pattern (37 bp):
TTTTCAACAAATTTTCGTGTTTTCAAAAAATTTTCTG
Found at i:9948085 original size:19 final size:19
Alignment explanation
Indices: 9947971--9948112 Score: 152
Period size: 18 Copynumber: 7.6 Consensus size: 19
9947961 AAATTTCGTG
* *
9947971 TTTTCGTATTTTCAACAAA
1 TTTTCGTGTTTTCAAAAAA
9947990 TTTTCGTGTTTT-AAAAAA
1 TTTTCGTGTTTTCAAAAAA
* *
9948008 TTTTCATGTTTTCAACAAA
1 TTTTCGTGTTTTCAAAAAA
9948027 TTTT-GTGTTTTCAAAAAAAA
1 TTTTCGTGTTTTC--AAAAAA
* *
9948047 TTCTCGTG-TTTC-ACAAA
1 TTTTCGTGTTTTCAAAAAA
*
9948064 TTTTCGTATTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
9948083 TTTCTCGTG-TTTC-AAAAA
1 TTT-TCGTGTTTTCAAAAAA
9948101 TTTTCGTGTTTT
1 TTTTCGTGTTTT
9948113 TTTTCTAAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
17 15 0.15
18 38 0.37
19 31 0.30
20 16 0.16
21 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:9948134 original size:15 final size:17
Alignment explanation
Indices: 9948114--9948148 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
9948104 TCGTGTTTTT
9948114 TTTCT-AAATTTC-GTG
1 TTTCTAAAATTTCTGTG
9948129 TTTCTAAAATTTCTGTG
1 TTTCTAAAATTTCTGTG
9948146 TTT
1 TTT
9948149 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 7 0.39
17 6 0.33
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTCTAAAATTTCTGTG
Found at i:9948154 original size:17 final size:16
Alignment explanation
Indices: 9947972--9948154 Score: 57
Period size: 18 Copynumber: 10.0 Consensus size: 16
9947962 AATTTCGTGT
*
9947972 TTTCGTATTTTCAACAAA
1 TTTCGTGTTTTC-A-AAA
*
9947990 TTTTCGTGTTTTAAAAAA
1 -TTTCGTGTTTT-CAAAA
*
9948008 TTTTCATGTTTTCAACAAA
1 -TTTCGTGTTTTC-A-AAA
*
9948027 TTTTGTGTTTTCAAAAAAAA
1 TTTCGTGTTTTC----AAAA
9948047 TTCTCGTG-TTTCACAAA
1 TT-TCGTGTTTTCA-AAA
*
9948064 TTTTCGTATTTTCAAAAAA
1 -TTTCGTGTTTTC--AAAA
9948083 TTTC-TCGTGTTTCAAAAA
1 TTTCGT-GT-TTTC-AAAA
*
9948101 TTTTCGTGTTTTTTTTCTAAA
1 -TTTCGTG----TTTTCAAAA
9948122 TTTCGTG-TTTCTAAAA
1 TTTCGTGTTTTC-AAAA
9948138 TTTCTGTGTTTTCAAAA
1 TTTC-GTGTTTTCAAAA
9948155 AAAAATATTG
Statistics
Matches: 130, Mismatches: 11, Indels: 48
0.69 0.06 0.25
Matches are distributed among these distances:
15 4 0.03
16 8 0.06
17 15 0.12
18 45 0.35
19 26 0.20
20 18 0.14
21 9 0.07
22 4 0.03
23 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (16 bp):
TTTCGTGTTTTCAAAA
Found at i:9950365 original size:20 final size:21
Alignment explanation
Indices: 9950340--9950382 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9950330 ATATTTTAAA
* *
9950340 TTCTTTTTATTTTAT-TTTAT
1 TTCTTTTAATATTATATTTAT
9950360 TTCTTTTAATATTATATTTAT
1 TTCTTTTAATATTATATTTAT
9950381 TT
1 TT
9950383 AAATACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTAATATTATATTTAT
Found at i:9950701 original size:18 final size:18
Alignment explanation
Indices: 9950678--9950713 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9950668 GCTGAAAAGG
9950678 TCCTTTCTTAGAAAGACC
1 TCCTTTCTTAGAAAGACC
9950696 TCCTTTCTTAGAAAGACC
1 TCCTTTCTTAGAAAGACC
9950714 GACTGGTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
TCCTTTCTTAGAAAGACC
Found at i:9955906 original size:14 final size:14
Alignment explanation
Indices: 9955887--9955913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9955877 GTTTGTTTCA
9955887 CAGAAAATGACTTT
1 CAGAAAATGACTTT
9955901 CAGAAAATGACTT
1 CAGAAAATGACTT
9955914 ACTAAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
CAGAAAATGACTTT
Found at i:9957429 original size:17 final size:17
Alignment explanation
Indices: 9957349--9957432 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 17
9957339 ATCCAAAAAC
9957349 AAATATATAAAAAATTCA
1 AAAT-TATAAAAAATTCA
* * *
9957367 AAAGTAGAAAAAATTAGA
1 AAATTATAAAAAATT-CA
*
9957385 AAATTATAAGAAAAAT-A
1 AAATTATAA-AAAATTCA
*
9957402 TAAATTCTAAAAAATTCA
1 -AAATTATAAAAAATTCA
*
9957420 AAACTATAAAAAA
1 AAATTATAAAAAA
9957433 ATTAGTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
17 27 0.52
18 20 0.38
19 5 0.10
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AAATTATAAAAAATTCA
Found at i:9958545 original size:28 final size:28
Alignment explanation
Indices: 9958491--9958545 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
9958481 GCGGAGGTTG
* * * *
9958491 TTTTACATATAGATTTATATTTTTATAA
1 TTTTACAAATAGATATATATATATATAA
*
9958519 TTTTACAAATTGATATATATATATATA
1 TTTTACAAATAGATATATATATATATA
9958546 TATAGATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (28 bp):
TTTTACAAATAGATATATATATATATAA
Found at i:9961227 original size:37 final size:37
Alignment explanation
Indices: 9961177--9961250 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
9961167 TACCAATCCT
9961177 AGTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
1 AGTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
9961214 AGTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
1 AGTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
9961251 CAATCCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (37 bp):
AGTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
Found at i:9964506 original size:12 final size:12
Alignment explanation
Indices: 9964489--9964513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9964479 ACGAGTCTTA
9964489 ATCGAGCTTACG
1 ATCGAGCTTACG
9964501 ATCGAGCTTACG
1 ATCGAGCTTACG
9964513 A
1 A
9964514 AACTCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (12 bp):
ATCGAGCTTACG
Found at i:9967693 original size:27 final size:27
Alignment explanation
Indices: 9967382--9967694 Score: 337
Period size: 27 Copynumber: 11.7 Consensus size: 27
9967372 CTTGGGCTAT
9967382 AAATTACCGAAATA-CCTTCGATGGGTA
1 AAATTACCGAAATACCCTT-GATGGGTA
* * *
9967409 AAATTACCAAAATACCCTTAATAGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* *
9967436 AAATTATCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
** * *
9967463 AAATTACTAAAACACCC-GGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* *
9967489 AAATTACAGAAA-AACCTTGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* ** *
9967515 AAATTACCAAAATACCCTAAATTGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* *
9967542 AAATGACTGAAATACCCTTGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
*
9967569 AAATTACCAAAATACCCTTGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* *
9967596 AAATTACCAAAATACCCTCT-ATGGATA
1 AAATTACCGAAATACCCT-TGATGGGTA
*
9967623 AAATTATCGAAATACCCTTGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
* * **
9967650 AAATTTCTGAAATACCCCCGATGGGTA
1 AAATTACCGAAATACCCTTGATGGGTA
**
9967677 AAATTATTGAAATACCCT
1 AAATTACCGAAATACCCT
9967695 AGATAGAATA
Statistics
Matches: 237, Mismatches: 44, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
25 3 0.01
26 37 0.16
27 192 0.81
28 5 0.02
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGATGGGTA
Found at i:9967889 original size:27 final size:27
Alignment explanation
Indices: 9967847--9967912 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
9967837 GGCTCTACCA
* *
9967847 CACACATACTGATACTAGTGGCTTTGC
1 CACATATACTGTTACTAGTGGCTTTGC
*
9967874 CACA-ATTACTGTTACTGGTGGCTTTGC
1 CACATA-TACTGTTACTAGTGGCTTTGC
9967901 CACATATACTGT
1 CACATATACTGT
9967913 ATTGGAAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (27 bp):
CACATATACTGTTACTAGTGGCTTTGC
Found at i:9989278 original size:11 final size:10
Alignment explanation
Indices: 9989260--9989310 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
9989250 TTTATATCAA
9989260 TTTTAATATT
1 TTTTAATATT
9989270 TTTTAA-A-T
1 TTTTAATATT
* *
9989278 ATTTAATAAT
1 TTTTAATATT
9989288 TTTT-ATGATT
1 TTTTAAT-ATT
9989298 TTTTAATATT
1 TTTTAATATT
9989308 TTT
1 TTT
9989311 ATGAGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 6 0.18
9 4 0.12
10 22 0.65
11 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTAATATT
Found at i:9989311 original size:19 final size:19
Alignment explanation
Indices: 9989260--9989314 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
9989250 TTTATATCAA
*
9989260 TTTTAATATTTTT-TAAAT
1 TTTTAATATTTTTATGAAT
* *
9989278 ATTTAATAATTTTTATGATT
1 TTTTAAT-ATTTTTATGAAT
9989298 TTTTAATATTTTTATGA
1 TTTTAATATTTTTATGA
9989315 GATAATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 6 0.19
19 16 0.52
20 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTAATATTTTTATGAAT
Found at i:9991899 original size:2 final size:2
Alignment explanation
Indices: 9991892--9991918 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9991882 TCACATGCAA
9991892 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
9991919 GAAGAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9996844 original size:9 final size:9
Alignment explanation
Indices: 9996830--9996863 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9996820 TCATCTTCTA
*
9996830 AAAAAATAT
1 AAAAAACAT
9996839 AAAAAACAT
1 AAAAAACAT
9996848 AAGAAAACAT
1 AA-AAAACAT
9996858 AAAAAA
1 AAAAAA
9996864 TTTAATAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAACAT
Found at i:10003972 original size:42 final size:42
Alignment explanation
Indices: 10003921--10004209 Score: 323
Period size: 42 Copynumber: 6.8 Consensus size: 42
10003911 TAAGGAAAAA
* * *
10003921 CGCCACTAAAGAACATGATCTTTAGCGACGTTTTCCCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTCCTTAAG
* *
10003963 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTCCTTAAG
*
10004005 CGCCGCTAAAGATCATGTTCTTTAGC-AGCGTTTTTCCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGA-CGTTTTTCCTTAAG
* * * *
10004047 TGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAC
1 CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTCCTTAAG
* * * *
10004089 CACCACTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTCCT-TAAG
* * * *
10004131 CGCCTCTAAAGAAAATGTTCTTTAGC-AGCGCTTTTTCTTTGAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGA-CG-TTTTTCCTTAAG
* * *
10004174 CACCGCTAAAGAACATGCTCTTTAGCGGCGCTTTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGACG-TTTTT
10004210 TACAAAAACG
Statistics
Matches: 215, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.00
42 174 0.81
43 38 0.18
44 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTCCTTAAG
Found at i:10004106 original size:126 final size:127
Alignment explanation
Indices: 10003926--10004209 Score: 383
Period size: 126 Copynumber: 2.2 Consensus size: 127
10003916 AAAAACGCCA
* * * * * *
10003926 CTAAAGAACATGATCTTTAGCGACGTTTTCCCTTAAGCGCCGCTAAAGATCATGTTCTTTAGCGG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAACCACCACTAAAGAACATGTTCTTTAGCGG
** **
10003991 CGTTTTTC-CTTAAGCGCCGCTAAAGATCATGTTCTTTAGCAGCG-TTTTTCCTTAAGTGCCG
66 CGTTTTTCTC-TAAGCGCCGCTAAAGAAAATGTTCTTTAGCAGCGCTTTTTCCTTAAGCACCG
* *
10004052 CTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAACCACCACTAAAGAACATGTTCTTTAGCGG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAACCACCACTAAAGAACATGTTCTTTAGCGG
* * * *
10004117 CGTTTTTTTCTAAGCGCCTCTAAAGAAAATGTTCTTTAGCAGCGCTTTTTCTTTGAGCACCG
66 CGTTTTTCTCTAAGCGCCGCTAAAGAAAATGTTCTTTAGCAGCGCTTTTTCCTTAAGCACCG
*
10004179 CTAAAGAACATGCTCTTTAGCGGCGCTTTTT
1 CTAAAGAACATGATCTTTAGCGGCG-TTTTT
10004210 TACAAAAACG
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 95 0.69
127 37 0.27
128 5 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (127 bp):
CTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAACCACCACTAAAGAACATGTTCTTTAGCGG
CGTTTTTCTCTAAGCGCCGCTAAAGAAAATGTTCTTTAGCAGCGCTTTTTCCTTAAGCACCG
Found at i:10004614 original size:21 final size:21
Alignment explanation
Indices: 10004590--10004629 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10004580 TTCTTTTGAA
*
10004590 CCTCTACTTCTCTCGCTGCAG
1 CCTCTACTTCCCTCGCTGCAG
*
10004611 CCTCTGCTTCCCTCGCTGC
1 CCTCTACTTCCCTCGCTGC
10004630 CGCATTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.47, G:0.15, T:0.33
Consensus pattern (21 bp):
CCTCTACTTCCCTCGCTGCAG
Found at i:10004639 original size:21 final size:21
Alignment explanation
Indices: 10004596--10004640 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10004586 TGAACCTCTA
* *
10004596 CTTCTCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCATCTG
* *
10004617 CTTCCCTCGCTGCCGCATTTG
1 CTTCCCTCGCTGCAGCATCTG
10004638 CTT
1 CTT
10004641 TAAGTTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.04, C:0.42, G:0.18, T:0.36
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCATCTG
Found at i:10010155 original size:9 final size:9
Alignment explanation
Indices: 10010141--10010272 Score: 110
Period size: 9 Copynumber: 14.8 Consensus size: 9
10010131 AAGTTCTGTA
10010141 TTATGTAAG
1 TTATGTAAG
10010150 TTATGTAAG
1 TTATGTAAG
*
10010159 TTGTGT-A-
1 TTATGTAAG
*
10010166 TTATGTGAG
1 TTATGTAAG
10010175 TTATGTAAG
1 TTATGTAAG
10010184 TTATGTAAG
1 TTATGTAAG
* *
10010193 TTATTTAAT
1 TTATGTAAG
10010202 TTATGTAAG
1 TTATGTAAG
*
10010211 TTTATATATAAG
1 --T-TATGTAAG
*
10010223 TTATGTAGG
1 TTATGTAAG
* *
10010232 CTATG-CA-
1 TTATGTAAG
* *
10010239 TTATCTAAA
1 TTATGTAAG
*
10010248 TAATGTAAG
1 TTATGTAAG
10010257 TTATGTAAG
1 TTATGTAAG
10010266 TTATGTA
1 TTATGTA
10010273 GGCCATGTAT
Statistics
Matches: 96, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
7 8 0.08
8 3 0.03
9 76 0.79
10 1 0.01
11 1 0.01
12 7 0.07
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10010165 original size:25 final size:25
Alignment explanation
Indices: 10010106--10010339 Score: 142
Period size: 25 Copynumber: 9.3 Consensus size: 25
10010096 TGATATATTT
*
10010106 TTATGTATTATGTAATTTATGTACTAAG
1 TTATGTATTATGTAAGTTATG---TAAG
*
10010134 TTCTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
10010159 TTGTGTATTATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
10010184 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
10010211 -T-T-TA-TATATAAGTTATGTAGG
1 TTATGTATTATGTAAGTTATGTAAG
* * * * *
10010232 CTATGCATTATCTAAATAATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* **
10010257 TTATGTAAGTTATGTAGGCCATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
10010282 TTATGTTATTATATAAGTTATGCAAG
1 TTATG-TATTATGTAAGTTATGTAAG
* * *
10010308 TT-TATA-TATTGTATGTTATTTAAG
1 TTATGTATTA-TGTAAGTTATGTAAG
10010332 TTATGTAT
1 TTATGTAT
10010340 AAGTTATTAT
Statistics
Matches: 158, Mismatches: 34, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
21 14 0.09
22 1 0.01
23 4 0.03
24 27 0.17
25 61 0.39
26 7 0.04
27 25 0.16
28 19 0.12
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:10010332 original size:33 final size:34
Alignment explanation
Indices: 10010290--10010362 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
10010280 TATTATGTTA
*
10010290 TTATATAAGTTATG-CAAGTT-TATATATTGTATG
1 TTATTTAAGTTATGACAAGTTAT-TATATTGTATG
*
10010323 TTATTTAAGTTATGTATAAGTTATTATATTGTATG
1 TTATTTAAGTTATG-ACAAGTTATTATATTGTATG
10010358 TTATT
1 TTATT
10010363 ATATAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 13 0.37
35 21 0.60
36 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (34 bp):
TTATTTAAGTTATGACAAGTTATTATATTGTATG
Found at i:10010372 original size:12 final size:12
Alignment explanation
Indices: 10010323--10010378 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
10010313 ATATTGTATG
*
10010323 TTATTTAAGTTA
1 TTATATAAGTTA
*
10010335 -TGTATAAGTTA
1 TTATATAAGTTA
*
10010346 TTATATTGTATGTTA
1 TTATA---TAAGTTA
10010361 TTATATAAGTTA
1 TTATATAAGTTA
10010373 TTATAT
1 TTATAT
10010379 GAGATTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 9 0.26
12 15 0.43
15 11 0.31
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (12 bp):
TTATATAAGTTA
Found at i:10010550 original size:17 final size:16
Alignment explanation
Indices: 10010509--10010552 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
10010499 TAAATTTTGA
* *
10010509 AAAAATTATAGATTTT
1 AAAAATTATATATATT
10010525 AAAAA-TATATATATT
1 AAAAATTATATATATT
10010540 AAAAATGTATATA
1 AAAAAT-TATATA
10010553 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAAATTATATATATT
Found at i:10010799 original size:23 final size:23
Alignment explanation
Indices: 10010749--10010799 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
10010739 TTATTAATAA
*
10010749 AATATGAATATAGGTTATATGTC
1 AATATGAATATAGGTTATATATC
* * * *
10010772 CATATTAATATATGTTATATATT
1 AATATGAATATAGGTTATATATC
10010795 AATAT
1 AATAT
10010800 ATGTCCCAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (23 bp):
AATATGAATATAGGTTATATATC
Found at i:10013937 original size:14 final size:14
Alignment explanation
Indices: 10013899--10013937 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10013889 TCCAAAATTA
10013899 AACCCTAAACCCGT
1 AACCCTAAACCCGT
*
10013913 GACCCGT-AACCCGT
1 AACCC-TAAACCCGT
10013927 AACCCTAAACC
1 AACCCTAAACC
10013938 TATTTTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.33, C:0.44, G:0.10, T:0.13
Consensus pattern (14 bp):
AACCCTAAACCCGT
Found at i:10014722 original size:14 final size:15
Alignment explanation
Indices: 10014703--10014735 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10014693 CTTAAACCAG
10014703 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
10014717 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
10014732 AATC
1 AATC
10014736 TATAAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:10015695 original size:114 final size:114
Alignment explanation
Indices: 10015276--10015683 Score: 450
Period size: 114 Copynumber: 3.6 Consensus size: 114
10015266 TTTTTCCTAG
* * * * * * *
10015276 CGCCACTAATTCTAATCTACCTCAAGACTAAACGCTACATTTTAGATAAGATATTTTGCAACGCG
1 CGCCACTAATTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGC--GGCG
* ** *
10015341 C-TC-AG-ACAGGCGCCGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAA
64 CTTCTTGTA-AAACGCAGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAA
* *
10015390 CGCCACTAACTT-TATTCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCAC
1 CGCCACTAA-TTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGC
* * *
10015454 TTCTTGTAAAACGCCGCTAATAATGTGCTTTAGCGGCGTGTTCTCCCAAG
65 TTCTTGTAAAACGCAGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAA
* * * * *
10015504 CGCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCATTTTGGTTAAGATCTTTTGCGGTGCT
1 CGCCACTAATTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT
* * * *
10015569 TTTTGTAAAACGCAGCTAATACTGTTCTTTAGCGGCGCT-TGC-CCGTAAA
66 TCTTGTAAAACGCAGCTAATACTGTGCTTTAGCGGCG-TGTTCTCC-CAAA
* * * * *
10015618 CGCCACTAATTCTAATATACCTCAAAACCAAATGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCT
1 CGCCACTAATTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT
10015683 T
66 T
10015684 ACAAATAAAC
Statistics
Matches: 250, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
112 3 0.01
113 5 0.02
114 238 0.95
115 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (114 bp):
CGCCACTAATTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT
TCTTGTAAAACGCAGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAA
Found at i:10018868 original size:23 final size:24
Alignment explanation
Indices: 10018842--10018893 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
10018832 AATAAGAAAG
10018842 CAAATAAAAGA-AAAGT-AAATAAA
1 CAAATAAAAGAGAAA-TCAAATAAA
* *
10018865 CAAA-AAATGAGAAATCAAATAAT
1 CAAATAAAAGAGAAATCAAATAAA
10018888 CAAATA
1 CAAATA
10018894 TGTATCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 6 0.25
23 17 0.71
24 1 0.04
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (24 bp):
CAAATAAAAGAGAAATCAAATAAA
Found at i:10022937 original size:55 final size:54
Alignment explanation
Indices: 10022829--10022945 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 54
10022819 GCCTCAAACG
* ***
10022829 GCTGTATCACATGCCCATGTCCCCAACCGTGTAACTCTCTCAGTAGGGTCACAC
1 GCTGTGTCACATGCCCATGTCCCCAACCGTGTAACTCTCTCAGTAGCCCCACAC
* * * *
10022883 AGCTGTGTCACATGCTCATGT-GCCAAGCCGTGTAACTCTCTGAGTTGCCCCACAC
1 -GCTGTGTCACATGCCCATGTCCCCAA-CCGTGTAACTCTCTCAGTAGCCCCACAC
10022938 GCTTGTGT
1 GC-TGTGT
10022946 GCCAAGCCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
54 6 0.12
55 46 0.88
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.26
Consensus pattern (54 bp):
GCTGTGTCACATGCCCATGTCCCCAACCGTGTAACTCTCTCAGTAGCCCCACAC
Found at i:10025330 original size:21 final size:22
Alignment explanation
Indices: 10025286--10025330 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
10025276 CAGTATGCTT
*
10025286 CATCTTCAGGGGTGTGTCGCGA
1 CATCTTCAGGGGTGTGTCACGA
* *
10025308 CATCTTCA-GGTTGTGTCATGA
1 CATCTTCAGGGGTGTGTCACGA
10025329 CA
1 CA
10025331 CCAAAGATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (22 bp):
CATCTTCAGGGGTGTGTCACGA
Found at i:10026086 original size:16 final size:17
Alignment explanation
Indices: 10026055--10026087 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10026045 AGTAAGCATC
10026055 AAATAGTTTCAAGCACAA
1 AAATAGTTTC-AGCACAA
10026073 AAATAGTTTC-GCACA
1 AAATAGTTTCAGCACA
10026088 TCATATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAATAGTTTCAGCACAA
Found at i:10027703 original size:25 final size:25
Alignment explanation
Indices: 10027675--10027738 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
10027665 TTAAGTGTTT
*
10027675 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTATCTATAGCAGTC
*
10027700 TCAGTATATACTATCTATAGCAGTT
1 TCAGTATATACTATCTATAGCAGTC
*
10027725 TCAGGATATACTAT
1 TCAGTATATACTAT
10027739 TAAAGACAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (25 bp):
TCAGTATATACTATCTATAGCAGTC
Found at i:10027748 original size:25 final size:25
Alignment explanation
Indices: 10027685--10027753 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
10027675 TCAGTATAGT
* * * *
10027685 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTAAAGCAGTTTCAGGATATA
*
10027710 CTATCTATAGCAGTTTCAGGATATA
1 CTATCTAAAGCAGTTTCAGGATATA
10027735 CTAT-TAAAGACAGTTTCAG
1 CTATCTAAAG-CAGTTTCAG
10027754 TTTAAACAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.10
25 35 0.90
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (25 bp):
CTATCTAAAGCAGTTTCAGGATATA
Found at i:10031262 original size:18 final size:18
Alignment explanation
Indices: 10031239--10031280 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10031229 TTGAGAAATC
10031239 TTGCTTCAGGGAACATTT
1 TTGCTTCAGGGAACATTT
*
10031257 TTGCTTTAGGGAACATTT
1 TTGCTTCAGGGAACATTT
10031275 TTGCTT
1 TTGCTT
10031281 GATTAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.45
Consensus pattern (18 bp):
TTGCTTCAGGGAACATTT
Found at i:10039511 original size:11 final size:11
Alignment explanation
Indices: 10039495--10039581 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
10039485 TCAATTATTT
10039495 TCTCAATTTCC
1 TCTCAATTTCC
* *
10039506 TCTCAAATTGC
1 TCTCAATTTCC
10039517 TCTCAATTTCC
1 TCTCAATTTCC
10039528 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
10039539 TCTCAA-ATCC
1 TCTCAATTTCC
* **
10039549 -AT--ATTTAA
1 TCTCAATTTCC
*
10039557 TCTCAATTTGC
1 TCTCAATTTCC
10039568 TCTCAATTTCC
1 TCTCAATTTCC
10039579 TCT
1 TCT
10039582 TAAATCCCTA
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.07
11 40 0.73
12 6 0.11
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:10039522 original size:22 final size:22
Alignment explanation
Indices: 10039495--10039544 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10039485 TCAATTATTT
10039495 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
10039517 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
10039539 TCTCAA
1 TCTCAA
10039545 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:10041374 original size:18 final size:18
Alignment explanation
Indices: 10041351--10041392 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10041341 GCCAAGTGCA
* *
10041351 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
10041369 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
10041387 TTTCCT
1 TATCCT
10041393 TTTACTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:10041865 original size:49 final size:49
Alignment explanation
Indices: 10041812--10042021 Score: 375
Period size: 49 Copynumber: 4.3 Consensus size: 49
10041802 GTTTATATTA
*
10041812 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
*
10041861 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
10041910 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
* *
10041959 ATTTAATAAAATACAAATTAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
*
10042008 ATTTAATAAAATAC
1 ATGTAATAAAATAC
10042022 GGAATATTTT
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 158 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
Found at i:10042475 original size:23 final size:23
Alignment explanation
Indices: 10042445--10042494 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
10042435 AATTTAAGGG
10042445 GAGTAAGCTTTGACACTCAATGT
1 GAGTAAGCTTTGACACTCAATGT
10042468 GAGTAAGCTTTGACACTCAATGT
1 GAGTAAGCTTTGACACTCAATGT
10042491 GAGT
1 GAGT
10042495 TCATTTACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (23 bp):
GAGTAAGCTTTGACACTCAATGT
Found at i:10043409 original size:27 final size:27
Alignment explanation
Indices: 10043367--10043432 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
10043357 GGCTCTACCA
* *
10043367 CACACATACTGATACTAGTGGCTTTGC
1 CACATATACTGTTACTAGTGGCTTTGC
*
10043394 CACA-ATTACTGTTACTGGTGGCTTTGC
1 CACATA-TACTGTTACTAGTGGCTTTGC
10043421 CACATATACTGT
1 CACATATACTGT
10043433 ATTGGAAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (27 bp):
CACATATACTGTTACTAGTGGCTTTGC
Found at i:10050417 original size:38 final size:40
Alignment explanation
Indices: 10050344--10050431 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 40
10050334 TAAAAATTAT
*
10050344 TTATATTAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
*
10050384 TTATATTAAAAACAC-A-AATAAATATAATGAATATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
* *
10050422 CTGTATTAAA
1 TTATATTAAA
10050432 TGTAATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 28 0.64
39 1 0.02
40 15 0.34
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:10051413 original size:21 final size:22
Alignment explanation
Indices: 10051389--10051435 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
10051379 TTATATATTT
*
10051389 TTAATATCAAA-T-ATTTTAAAA
1 TTAATATAAAATTGATTTT-AAA
10051410 TTAA-ATAAAATTGATTTTAAA
1 TTAATATAAAATTGATTTTAAA
10051431 TTAAT
1 TTAAT
10051436 CAAGCGTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAATATAAAATTGATTTTAAA
Found at i:10051888 original size:14 final size:14
Alignment explanation
Indices: 10051864--10051897 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10051854 CTACTTATAT
*
10051864 TATTCAACATTTTA
1 TATTAAACATTTTA
*
10051878 TGTTAAACATTTTA
1 TATTAAACATTTTA
10051892 TATTAA
1 TATTAA
10051898 GTAAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTAAACATTTTA
Found at i:10052394 original size:18 final size:19
Alignment explanation
Indices: 10052373--10052419 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10052363 AAAAAATAAT
10052373 AAATAATAAATTTT-AGAA
1 AAATAATAAATTTTAAGAA
* *
10052391 AAATTATTAAATTTTAATAA
1 AAA-TAATAAATTTTAAGAA
10052411 AAAT-ATAAA
1 AAATAATAAA
10052420 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAAGAA
Found at i:10052705 original size:59 final size:60
Alignment explanation
Indices: 10052668--10052777 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 60
10052658 TTGTGTAATT
* * *
10052668 TTTTTACGA-CTTTATAAAATTTTATAATTTTTT-TATATTTCTATATATTTTATAATAC
1 TTTTTACGATCTTTATAAAATTTCACAATTTTTTATATATTTCTACATATTTTATAATAC
* *
10052726 TTTTTACGATTTTTATAAAATTTCACAATTTTTTATATATTTTTACA-ATTTT
1 TTTTTACGATCTTTATAAAATTTCACAATTTTTTATATATTTCTACATATTTT
10052778 TATGATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 9 0.20
59 26 0.58
60 10 0.22
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (60 bp):
TTTTTACGATCTTTATAAAATTTCACAATTTTTTATATATTTCTACATATTTTATAATAC
Found at i:10052742 original size:28 final size:28
Alignment explanation
Indices: 10052663--10052742 Score: 65
Period size: 29 Copynumber: 2.8 Consensus size: 28
10052653 ACATTTTGTG
* * *
10052663 TAATTTTTTTACGACTTTATAAAATTTTA
1 TAATCTTTTTACGA-TTTATTATATTTTA
* * *
10052692 TAATTTTTTTA-TATTTCTATATATTTTA
1 TAATCTTTTTACGATTTAT-TATATTTTA
10052720 TAATACTTTTTACGATTT-TTATA
1 TAAT-CTTTTTACGATTTATTATA
10052743 AAATTTCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 4 0.10
28 16 0.38
29 18 0.43
30 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (28 bp):
TAATCTTTTTACGATTTATTATATTTTA
Found at i:10052760 original size:20 final size:20
Alignment explanation
Indices: 10052735--10052778 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10052725 CTTTTTACGA
10052735 TTTTTATAAAATTTCACAAT
1 TTTTTATAAAATTTCACAAT
* * *
10052755 TTTTTATATATTTTTACAAT
1 TTTTTATAAAATTTCACAAT
10052775 TTTT
1 TTTT
10052779 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTATAAAATTTCACAAT
Found at i:10052787 original size:19 final size:18
Alignment explanation
Indices: 10052726--10052787 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
10052716 TTTATAATAC
* *
10052726 TTTTTACGATTTTTATAAA
1 TTTTTACAATTTTTAT-AT
* *
10052745 ATTTCACAATTTTTTATAT
1 TTTTTACAA-TTTTTATAT
10052764 ATTTTTACAATTTTTATGAT
1 -TTTTTACAATTTTTAT-AT
10052784 TTTT
1 TTTT
10052788 AAATATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTACAATTTTTATAT
Found at i:10052797 original size:20 final size:19
Alignment explanation
Indices: 10052752--10052809 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
10052742 AAAATTTCAC
* *
10052752 AATTTTTTATATATTTTTAC
1 AATTTTTTAT-CATTTTTAA
*
10052772 AA-TTTTTATGATTTTTAA
1 AATTTTTTATCATTTTTAA
*
10052790 ATATTTTTTCTCATTTTTAA
1 A-ATTTTTTATCATTTTTAA
10052810 TAAAAGCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 16 0.50
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTTTTTATCATTTTTAA
Found at i:10052984 original size:86 final size:88
Alignment explanation
Indices: 10052821--10052988 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 88
10052811 AAAAGCAGTG
* *
10052821 GCTTAATTGCTTTTTTTGAAAAAATTTGAGGGTCTTTTTTATACATTTTGAAAGTTGAAGTACCT
1 GCTTAATTGCTTTTTTTGAAAAAATTTAAGGATCTTTTTTATACATTTTGAAAGTTGAAGTACCT
* *
10052886 AATTGAGTGAAAAAAAAGTTGGA
66 AAATGAGCGAAAAAAAAGTTGGA
** * * * *
10052909 GCTTAATTGC-TTTTTT-AAAAGGTTTAAGGATTTTTTTTATGCATTTTGAAAGTTCTAA-TA-G
1 GCTTAATTGCTTTTTTTGAAAAAATTTAAGGATCTTTTTTATACATTTTGAAAGTT-GAAGTACC
10052970 TCAAATGAGCGAAAAAAAA
65 T-AAATGAGCGAAAAAAAA
10052989 AAGGCTTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
85 1 0.01
86 49 0.72
87 8 0.12
88 10 0.15
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (88 bp):
GCTTAATTGCTTTTTTTGAAAAAATTTAAGGATCTTTTTTATACATTTTGAAAGTTGAAGTACCT
AAATGAGCGAAAAAAAAGTTGGA
Found at i:10054994 original size:45 final size:45
Alignment explanation
Indices: 10054853--10055008 Score: 154
Period size: 45 Copynumber: 3.5 Consensus size: 45
10054843 TAAACTACCA
*
10054853 ATGGCTGTGGAA-ACACAAC-AAAATCTCGCAAATAGAATATGCTT
1 ATGGCTGT-GAATACACAACAAAAATCTCGCAAATAGAATATGCCT
** * * * * **
10054897 ATGGCTGTGAATACACAGTAAAAATCTTGCATATAAAATTTATCT
1 ATGGCTGTGAATACACAACAAAAATCTCGCAAATAGAATATGCCT
* * * *
10054942 TTAGCTGTGAATACACAACAAAAATCTCGCAGATAGAATCTGCCT
1 ATGGCTGTGAATACACAACAAAAATCTCGCAAATAGAATATGCCT
* *
10054987 CTGGCTGTGGATACACAACAAA
1 ATGGCTGTGAATACACAACAAA
10055009 TTTGCAAATA
Statistics
Matches: 88, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
43 3 0.03
44 13 0.15
45 72 0.82
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGGCTGTGAATACACAACAAAAATCTCGCAAATAGAATATGCCT
Found at i:10055204 original size:34 final size:34
Alignment explanation
Indices: 10055113--10055213 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 34
10055103 ATGTAATATG
*
10055113 ATATGCTTATAACAGATCAATACAATA-ACAATTA
1 ATATGCTTATAACAGATCAATACGATAGA-AATTA
* *
10055147 AAATGCTTATAATAGATCAATACGATAGAAATTA
1 ATATGCTTATAACAGATCAATACGATAGAAATTA
* * *
10055181 ATATGCTTATGACAGATCAATACGGTAGCAATT
1 ATATGCTTATAACAGATCAATACGATAGAAATT
10055214 TGTAACCTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 57 0.98
35 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.30
Consensus pattern (34 bp):
ATATGCTTATAACAGATCAATACGATAGAAATTA
Found at i:10060117 original size:19 final size:19
Alignment explanation
Indices: 10060095--10060163 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
10060085 TTAAAATTTG
*
10060095 TATTTATTCATAAATTTAA
1 TATTTATTAATAAATTTAA
* *
10060114 TATTTA-TAATGAATACTAA
1 TATTTATTAATAAAT-TTAA
* *
10060133 TATTTTTTTATAAATTT-A
1 TATTTATTAATAAATTTAA
10060151 -ATTTATTAATAAA
1 TATTTATTAATAAA
10060164 GAAACGATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 11 0.28
18 7 0.18
19 15 0.38
20 6 0.15
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (19 bp):
TATTTATTAATAAATTTAA
Found at i:10060648 original size:2 final size:2
Alignment explanation
Indices: 10060641--10060670 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10060631 AAATACATAC
10060641 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
10060671 TATTCACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10060786 original size:18 final size:18
Alignment explanation
Indices: 10060742--10060786 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
10060732 TTGAACCATT
10060742 TTTTATTT--TTTTAATA
1 TTTTATTTAATTTTAATA
* *
10060758 TTTT-TTAAATTTTAATG
1 TTTTATTTAATTTTAATA
10060775 TTTTATTTAATT
1 TTTTATTTAATT
10060787 GAACTAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 11 0.48
18 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATTTAATTTTAATA
Found at i:10061228 original size:10 final size:9
Alignment explanation
Indices: 10061185--10061520 Score: 120
Period size: 9 Copynumber: 35.6 Consensus size: 9
10061175 GGTTTAAATT
10061185 TTTTTAT-A
1 TTTTTATAA
10061193 TTATTTATATA
1 TT-TTTATA-A
10061204 TTATTTATGAA
1 TT-TTTAT-AA
10061215 TTTTTATAA
1 TTTTTATAA
*
10061224 GTTTTTTTAA
1 -TTTTTATAA
* *
10061234 TTTTAAATAT
1 TTTT-TATAA
10061244 TTTTTATTAA
1 TTTTTA-TAA
*
10061254 -TTTGATAAA
1 TTTTTAT-AA
10061263 TTTTTATATAA
1 -TTTT-TATAA
*
10061274 GTTTTTATGA
1 -TTTTTATAA
10061284 TTTTTATAA
1 TTTTTATAA
* *
10061293 GTTTTA-AG
1 TTTTTATAA
* *
10061301 TTTATAAGAA
1 TTT-TTATAA
*
10061311 TTTTAATAA
1 TTTTTATAA
10061320 -TTTT-TAA
1 TTTTTATAA
*
10061327 TGTTTA-ATA
1 TTTTTATA-A
*
10061336 TTTTTATGA
1 TTTTTATAA
10061345 TTTTTAATGAA
1 TTTTT-AT-AA
10061356 TTTTTTATAA
1 -TTTTTATAA
10061366 GTTTTTA-AGA
1 -TTTTTATA-A
*
10061376 TTTTTTTACA
1 TTTTTATA-A
*
10061386 TTATTATAAA
1 TTTTTAT-AA
* *
10061396 ATTTTAAATA
1 TTTTTATA-A
10061406 TTTTTATTAA
1 TTTTTA-TAA
10061416 -TTTTATAA
1 TTTTTATAA
*
10061424 TTGATTT-GAA
1 TT--TTTATAA
*
10061434 TTATTAT-A
1 TTTTTATAA
10061442 TTTTTATAA
1 TTTTTATAA
*
10061451 TATTTATAA
1 TTTTTATAA
*
10061460 GTTTATATCAA
1 -TTTTTAT-AA
* *
10061471 TTTTAATAT
1 TTTTTATAA
10061480 TTTTTA-AA
1 TTTTTATAA
*
10061488 TATTTAATAA
1 T-TTTTATAA
*
10061498 TTTTTATGA
1 TTTTTATAA
10061507 TTTTT-TAA
1 TTTTTATAA
10061515 TATTTT
1 T-TTTT
10061521 TATGAGATAA
Statistics
Matches: 245, Mismatches: 48, Indels: 69
0.68 0.13 0.19
Matches are distributed among these distances:
7 3 0.01
8 30 0.12
9 97 0.40
10 76 0.31
11 31 0.13
12 8 0.03
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10061265 original size:20 final size:19
Alignment explanation
Indices: 10061225--10061267 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
10061215 TTTTTATAAG
*
10061225 TTTTTTTAATTTTAAATAT
1 TTTTTTTAATTTGAAATAT
10061244 TTTTTATTAATTTGATAA-AT
1 TTTTT-TTAATTTGA-AATAT
10061264 TTTT
1 TTTT
10061268 ATATAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTAATTTGAAATAT
Found at i:10061421 original size:29 final size:29
Alignment explanation
Indices: 10061358--10061423 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
10061348 TTAATGAATT
* *
10061358 TTTTAT-AAGTTTTTAAGATTTTTTTACA
1 TTTTATAAAATTTTAAAGATTTTTTTACA
*
10061386 TTATTATAAAATTTTAAATATTTTTATTA-A
1 TT-TTATAAAATTTTAAAGATTTTT-TTACA
10061416 TTTTATAA
1 TTTTATAA
10061424 TTGATTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.06
29 10 0.31
30 17 0.53
31 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTATAAAATTTTAAAGATTTTTTTACA
Found at i:10061490 original size:37 final size:36
Alignment explanation
Indices: 10061395--10061521 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 36
10061385 ATTATTATAA
* * *
10061395 AATTTTAAATATTTTTATTAAT-TTTATAATTGATTTG
1 AATTTT-AATATTTTT-TAAATATTTATAATTTATATG
*
10061432 AATTATT-ATA-TTTTTATAATATTTATAAGTTTATATC
1 AATT-TTAATATTTTTTA-AATATTTATAA-TTTATATG
*
10061469 AATTTTAATATTTTTTAAATATTTAATAATTTTTATG
1 AATTTTAATATTTTTTAAATATTT-ATAATTTATATG
*
10061506 ATTTTTTAATATTTTT
1 A-ATTTTAATATTTTT
10061522 ATGAGATAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
34 1 0.01
35 7 0.09
36 12 0.16
37 30 0.40
38 25 0.33
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (36 bp):
AATTTTAATATTTTTTAAATATTTATAATTTATATG
Done.