Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 190 of 208
Found at i:58059535 original size:13 final size:13
Alignment explanation
Indices: 58059512--58059575 Score: 65
Period size: 13 Copynumber: 4.5 Consensus size: 13
58059502 GGCACGGTGG
58059512 AATGGGAAATGGGA
1 AATGGG-AATGGGA
58059526 AATGGGAATGGGA
1 AATGGGAATGGGA
*
58059539 AATGAGAATGGGTA
1 AATGGGAATGGG-A
*
58059553 TTGCATGGGAATGGGA
1 ---AATGGGAATGGGA
58059569 AATGGGA
1 AATGGGA
58059576 GAAGGATACG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
13 24 0.57
14 7 0.17
16 1 0.02
17 10 0.24
ACGTcount: A:0.38, C:0.02, G:0.42, T:0.19
Consensus pattern (13 bp):
AATGGGAATGGGA
Found at i:58059681 original size:30 final size:30
Alignment explanation
Indices: 58059645--58060006 Score: 408
Period size: 30 Copynumber: 12.1 Consensus size: 30
58059635 TGTATTTAAA
* *
58059645 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
58059675 ATTTTAAAAATAAAAAAAATACATGTATTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
*
58059706 ATTTTAAAAATAAAAAAA-ATATGTAGTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
58059735 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
*
58059766 ATTTT-AAAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
58059791 ATTTT-AAAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
58059816 ATTTTAAAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
58059846 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
58059875 ATTTTAAAAATAAAAATATATAAAAAAATATATGTAGTGT
1 A-TTT-----T--AAA-A-ATAAAAAAATATATGTAGTGT
* *
58059915 ATTTTATAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
58059945 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * *
58059974 ATTATAAAAATAAAAAAAAATATGTAGTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
58060004 ATT
1 ATT
58060007 CGGCGTATTC
Statistics
Matches: 294, Mismatches: 18, Indels: 40
0.84 0.05 0.11
Matches are distributed among these distances:
25 43 0.15
26 5 0.02
29 72 0.24
30 99 0.34
31 43 0.15
32 2 0.01
34 1 0.00
35 1 0.00
37 3 0.01
38 1 0.00
39 5 0.02
40 19 0.06
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:58059714 original size:25 final size:26
Alignment explanation
Indices: 58059686--58059895 Score: 181
Period size: 25 Copynumber: 7.5 Consensus size: 26
58059676 TTTTAAAAAT
* *
58059686 AAAAAAAATACATGTATTGTATTTTAAA
1 AAAAAAAATATATGTAGTGTATTTT--A
* *
58059714 AATAAAAAAAATATGTAGTATATTTTAAAA
1 AA-AAAAAATATATGTAGTGTATTTT---A
58059744 ATAAAAAATATATATGTAGTGTATTTT-
1 A-AAAAAA-ATATATGTAGTGTATTTTA
* *
58059771 AAAATATATATATGTAGTGTATTTT-
1 AAAAAAAATATATGTAGTGTATTTTA
* *
58059796 AAAATATATATATGTAGTGTATTTTAAA
1 AAAAAAAATATATGTAGTGTATTTT--A
58059824 AGTAAAAAAATATATGTAGTGTATTTTAAA
1 A--AAAAAAATATATGTAGTGTATTTT--A
58059854 AATAAAAAATATATGTAGTGTATTTTAA
1 AA-AAAAAATATATGTAGTGTATTTT-A
58059882 AAATAAAAATATAT
1 AAA-AAAAATATAT
58059896 AAAAAAATAT
Statistics
Matches: 161, Mismatches: 10, Indels: 22
0.83 0.05 0.11
Matches are distributed among these distances:
25 43 0.27
26 4 0.02
27 2 0.01
28 18 0.11
29 42 0.26
30 35 0.22
31 17 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (26 bp):
AAAAAAAATATATGTAGTGTATTTTA
Found at i:58059730 original size:29 final size:29
Alignment explanation
Indices: 58059645--58060006 Score: 301
Period size: 29 Copynumber: 12.1 Consensus size: 29
58059635 TGTATTTAAA
* *
58059645 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAA-ATATGTAGTGT
*
58059675 ATTTTAAAAATAAAAAAAATACATGTATTGT
1 ATTTTAAAAATAAAAAAAAT--ATGTAGTGT
*
58059706 ATTTTAAAAATAAAAAAAATATGTAGTAT
1 ATTTTAAAAATAAAAAAAATATGTAGTGT
58059735 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-A-ATATGTAGTGT
* *
58059766 ATTTT-AAAAT---ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAAATATGTAGTGT
* *
58059791 ATTTT-AAAAT---ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAAATATGTAGTGT
*
58059816 ATTTTAAAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAA-ATATGTAGTGT
*
58059846 ATTTTAAAAATAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAAATATGTAGTGT
* *
58059875 ATTTTAAAAATAAAAATATATAAAAAAATATA-TGT
1 ATTTTAAAAAT----A-A-A-AAAAATATGTAGTGT
* * ***
58059910 AGTGTATTTTATAAGTAAAAAAATATATGTAGTGT
1 ATTTTA-AAAATAA--AAAA--A-ATATGTAGTGT
*
58059945 ATTTTAAAAATAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAAATATGTAGTGT
* *
58059974 ATTATAAAAATAAAAAAAAATATGTAGTAT
1 ATTTTAAAAAT-AAAAAAAATATGTAGTGT
58060004 ATT
1 ATT
58060007 CGGCGTATTC
Statistics
Matches: 278, Mismatches: 31, Indels: 46
0.78 0.09 0.13
Matches are distributed among these distances:
25 41 0.15
26 4 0.01
27 2 0.01
29 71 0.26
30 70 0.25
31 46 0.17
32 7 0.03
33 2 0.01
34 10 0.04
35 15 0.05
36 10 0.04
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (29 bp):
ATTTTAAAAATAAAAAAAATATGTAGTGT
Found at i:58059909 original size:40 final size:40
Alignment explanation
Indices: 58059857--58059936 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
58059847 TTTTAAAAAT
*
58059857 AAAAAATATATGTAGTGTATTTTAAAAATAAAAATATATA
1 AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATA
* *
58059897 AAAAAATATATGTAGTGTATTTTATAAGTAAAAAAATATA
1 AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATA
58059937 TGTAGTGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (40 bp):
AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATA
Found at i:58059913 original size:99 final size:99
Alignment explanation
Indices: 58059803--58059989 Score: 356
Period size: 99 Copynumber: 1.9 Consensus size: 99
58059793 TTTAAAATAT
58059803 ATATATGTAGTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATAT
1 ATATATGTAGTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATAT
*
58059868 GTAGTGTATTTTAAAAATAAAAATATATAAAAAA
66 GTAGTGTATTATAAAAATAAAAATATATAAAAAA
*
58059902 ATATATGTAGTGTATTTTATAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATAT
1 ATATATGTAGTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATAT
58059967 GTAGTGTATTATAAAAATAAAAA
66 GTAGTGTATTATAAAAATAAAAA
58059990 AAAATATGTA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (99 bp):
ATATATGTAGTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATAT
GTAGTGTATTATAAAAATAAAAATATATAAAAAA
Found at i:58060365 original size:39 final size:39
Alignment explanation
Indices: 58060322--58060399 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
58060312 AAAGTGAAAT
*
58060322 GAAAACAATAGTTTAAGTAAAGCTTTAAAGATGAACAAA
1 GAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAACAAA
58060361 GAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAACAAA
1 GAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAACAAA
58060400 TCGATTGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (39 bp):
GAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAACAAA
Found at i:58062623 original size:2 final size:2
Alignment explanation
Indices: 58062616--58062686 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
58062606 AATTGTTTGG
58062616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
58062658 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
58062687 TTTAAATATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58064574 original size:20 final size:20
Alignment explanation
Indices: 58064549--58064590 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
58064539 TATCCAAACA
58064549 AAGGTTAGAAAAATAGAACG
1 AAGGTTAGAAAAATAGAACG
* * *
58064569 AAGGTTGGAAAATTAGAGCG
1 AAGGTTAGAAAAATAGAACG
58064589 AA
1 AA
58064591 TGCAGATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.29, T:0.17
Consensus pattern (20 bp):
AAGGTTAGAAAAATAGAACG
Found at i:58067437 original size:7 final size:7
Alignment explanation
Indices: 58067425--58067473 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
58067415 TCTGAGTCAA
58067425 AAAAATG
1 AAAAATG
58067432 AAAAATG
1 AAAAATG
*
58067439 -AGAATG
1 AAAAATG
58067445 AAAAATG
1 AAAAATG
58067452 AAAAATG
1 AAAAATG
58067459 -AAAATG
1 AAAAATG
58067465 AAAAATG
1 AAAAATG
58067472 AA
1 AA
58067474 GAGGCTAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:58067446 original size:13 final size:14
Alignment explanation
Indices: 58067425--58067473 Score: 75
Period size: 13 Copynumber: 3.6 Consensus size: 14
58067415 TCTGAGTCAA
58067425 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
58067439 -AGAATGAAAAATG
1 AAAAATGAAAAATG
58067452 AAAAATG-AAAATG
1 AAAAATGAAAAATG
58067465 AAAAATGAA
1 AAAAATGAA
58067474 GAGGCTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:58067448 original size:20 final size:20
Alignment explanation
Indices: 58067425--58067473 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
58067415 TCTGAGTCAA
*
58067425 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
58067445 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
58067465 AAAAATGAA
1 AAAAATGAA
58067474 GAGGCTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:58068963 original size:44 final size:44
Alignment explanation
Indices: 58068897--58070073 Score: 396
Period size: 44 Copynumber: 26.7 Consensus size: 44
58068887 TCGTATCCGG
*
58068897 TCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCTAGTAA
* * ** *
58068941 TCCTATCTCCCTG-AGATTACAGTGGAGTGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCT--AGTAA
* * * * * *
58068985 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC-AG--G
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
* ** * *
58069026 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAAG-AATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-GT-A-A
* * *
58069072 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA-AAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTA-A
* ** *
58069116 TCTTATCTCCCTG-AGATTACAGCGGAGTAGATCCAAGAC-ACT-A
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAG-CTAGTAA
* ** ** *
58069159 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCT--AGTAA
* * ** * * * *
58069203 TCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCA-TTAG--G
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
** * *
58069244 TCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-GT-A-A
* * * *
58069290 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
* ** ** *
58069334 TCCTATCTCCCTG-AGATTACAGTGGAGCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCT--AGTAA
* * * *
58069378 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGATTGAAGCCAATAA
1 TCTTATCTCCCTGAAGTTACAG-TG-G-AG------T-AGATTGAAGCTAGTAA
* * * * * *
58069432 TCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCA-CAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTA-A
* * * * * * * *
58069476 TCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATC-CG--G
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
* *
58069517 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCTAGTAA
* * ** *
58069561 TCCTATCTCCCTG-AGATTACAGTGGAGTGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCT--AGTAA
* ** * * * *
58069605 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC-AG--G
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
* * ** * *
58069646 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-GT-A-A
* * * *
58069692 TCTTATCTCCCTGAGGTTATAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTA-A
* * ** *
58069736 TCTTATCTCCCTG-AGTTTACAGCGGAGCAGATCCAAGAC-ACT-A
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAG-CTAGTAA
* ** ** *
58069779 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCT--AGTAA
* * * * * * *
58069823 TCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TTAG--G
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
* ** * *
58069864 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-GT-A-A
* *
58069910 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTA-A
* * **
58069954 TCTTAGCTCCCT-AAGATTATAACGGAGTAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGTAGATTGAAGCTAGTAA
* * * * ** *
58069998 TCCTAACTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCT--AGTAA
* * *
58070042 TCTTATCTCTCTGAAGTTATAGTAGAGTAGAT
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGAT
58070074 CACATCAGAT
Statistics
Matches: 847, Mismatches: 205, Indels: 162
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.00
41 150 0.18
42 13 0.02
43 73 0.09
44 410 0.48
45 27 0.03
46 134 0.16
47 6 0.01
51 2 0.00
52 1 0.00
53 2 0.00
54 25 0.03
55 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTAGTAA
Found at i:58069213 original size:218 final size:218
Alignment explanation
Indices: 58068897--58069361 Score: 722
Period size: 218 Copynumber: 2.1 Consensus size: 218
58068887 TCGTATCCGG
** *
58068897 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAGCTACTAATCCTATCTCCCTGAGATTACA
* * *
58068962 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGT
66 GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAGGT
*
58069027 CTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTAC
131 CTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTAC
*
58069092 AGTGGAGCAGATTGAAGCCAAAG-A
196 AGCGGAGCAGATTGAAG--AAAGAA
* *
58069116 TCTTATCTCCCTGAGATTACAGCGGAGTAGATCCAAGAC-ACT-ATCCTATCTCCCTGA-AGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAG-CTACTAATCCTATCTCCCTGAGA-TTA
*
58069178 CAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCATTAG
64 CAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAG
* *
58069243 GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
129 GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTT
*
58069308 ACAGCGGAGCAGATTGAAGATAGTAA
194 ACAGCGGAGCAGATTGAAGAAAG-AA
*
58069334 TCCTATCTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
58069362 GGATTAAAAT
Statistics
Matches: 225, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
216 3 0.01
217 1 0.00
218 185 0.82
219 35 0.16
220 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAGCTACTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAGGT
CTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTAC
AGCGGAGCAGATTGAAGAAAGAA
Found at i:58069363 original size:175 final size:171
Alignment explanation
Indices: 58069072--58069410 Score: 493
Period size: 175 Copynumber: 2.0 Consensus size: 171
58069062 GAATTTCAGA
**
58069072 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAAAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-CAAAGATCTTATCTCCCTGAGATTACA
*
58069137 GCGGAGTAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
65 GCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
*
58069202 ATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCGCATTAGG
130 ATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATTAGG
* *
58069244 TCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGCAA----AGATCTTATCTCCCTGAGATT
** * *
58069308 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAAT
62 ACAGCGGAGCAGATCCAAGACACT-ATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAAT
* *
58069372 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC
125 AAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATC
58069411 ACATCAGATT
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
170 2 0.01
172 34 0.23
174 41 0.28
175 72 0.48
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (171 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGCAAAGATCTTATCTCCCTGAGATTACAG
CGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGA
TCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATTAGG
Found at i:58069486 original size:98 final size:98
Alignment explanation
Indices: 58069317--58069508 Score: 280
Period size: 98 Copynumber: 2.0 Consensus size: 98
58069307 TACAGCGGAG
* * *
58069317 CAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGACAATAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTT
58069382 ATCTCTCTGAAGTTACAGCAGAGTAGATCACAT
66 ATCTCTCTGAAGTTACAGCAGAGTAGATCACAT
* * *
58069415 CAGATTGAAGCCAATAATCCTATCTCCCTGA-AGTTACAGTGGAGTGGATTAAAACCACA-GATC
1 CAGATTGAAGACAATAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAAA-CAAAGGATC
* *
58069478 TTATCTCTCTGAAGTTATAGTAGAGTAGATC
64 TTATCTCTCTGAAGTTACAGCAGAGTAGATC
58069509 GTATCCGGTC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
97 1 0.01
98 81 0.96
99 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (98 bp):
CAGATTGAAGACAATAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTT
ATCTCTCTGAAGTTACAGCAGAGTAGATCACAT
Found at i:58069648 original size:129 final size:129
Alignment explanation
Indices: 58069415--58069660 Score: 388
Period size: 129 Copynumber: 1.9 Consensus size: 129
58069405 TAGATCACAT
*
58069415 CAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTT
1 CAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCAAAGATCTT
* * * *
58069480 ATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAGATTACAGCGGAG
66 ATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGGAG
* * *
58069544 CAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTGGATTAAAA-TAAAGGATC
1 CAGATTGAAGCCAATAATCCTATCTCCCTGAAG-TTACAGTGGAGTGGATTAAAACCAAA-GATC
58069607 TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
64 TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
58069661 GTTGCAGTGG
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 4 0.04
129 103 0.96
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
CAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCAAAGATCTT
ATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGGAG
Found at i:58069833 original size:218 final size:219
Alignment explanation
Indices: 58069472--58070081 Score: 926
Period size: 218 Copynumber: 2.8 Consensus size: 219
58069462 ATTAAAACCA
* * * * * *
58069472 CAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCC-G-G-TCTTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
58069534 TACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTGGATTAAAA
66 TACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAG-TTACAGTGGAGTGGATTAAAA
*
58069598 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
130 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
*
58069663 TGCAGTGGAGTAGACCGAAGAATTT
195 TACAGTGGAGTAGACCGAAGAATTT
* *
58069688 CAGATCTTATCTCCCTGAGGTTATAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGTT
1 CAGATCTTATCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
** * *
58069753 TACAGCGGAGCAGATCCAAGAC-ACT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
66 TACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAA
* *
58069816 TAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGT
130 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
58069881 TACAGTGGAGTAGACCGAAGAATTT
195 TACAGTGGAGTAGACCGAAGAATTT
* * *
58069906 CAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTAGCTCCCTAAGAT
1 CAGATCTTATCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
* * * * *
58069971 TATAACGGAGTAGATTGAAGCTAGTAATCCTAACTCTCTGAAGTTACAGTGGAGTGGATTAAAAT
66 TACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAT
* *
58070036 AAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCACATCAG
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
58070082 ATTGAAGCCG
Statistics
Matches: 353, Mismatches: 34, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
216 36 0.10
217 2 0.01
218 198 0.56
219 116 0.33
220 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (219 bp):
CAGATCTTATCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
TACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAT
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTT
ACAGTGGAGTAGACCGAAGAATTT
Found at i:58069897 original size:620 final size:620
Alignment explanation
Indices: 58068717--58069946 Score: 2271
Period size: 620 Copynumber: 2.0 Consensus size: 620
58068707 TTTCAGATCT
* *
58068717 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTAAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCA
* * **
58068782 GAGTAGATCACATCAGATTGAAGCCGATAATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAA
66 GAGTAGATCACATCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAA
*
58068847 AATCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAG
131 AACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAG
*
58068912 ATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
196 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
*
58068977 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
58069042 TTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
326 TTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
*
58069107 AGCCAAAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCCAAGACACTATCCTATCTCCCTG
391 AGCCAAAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTG
58069172 AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCG
456 AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCG
58069237 CATTAGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
521 CATTAGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
58069302 GAGGTTACAGCGGAGCAGATTGAAGATAGTAATCC
586 GAGGTTACAGCGGAGCAGATTGAAGATAGTAATCC
*
58069337 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCA
58069402 GAGTAGATCACATCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAA
66 GAGTAGATCACATCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAA
58069467 AACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAG
131 AACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAG
58069532 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
196 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
58069597 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
* * * *
58069662 TTGCAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTATAGTGGAGCAGATTGA
326 TTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
* *
58069727 AGCCAGAGATCTTATCTCCCTGAGTTTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTG
391 AGCCAAAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTG
*
58069792 AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCG
456 AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCG
*
58069857 CATTAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
521 CATTAGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
* *
58069922 GAGGTTACAGTGGAGTAGATTGAAG
586 GAGGTTACAGCGGAGCAGATTGAAG
58069947 CCAGAGATCT
Statistics
Matches: 589, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
620 589 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (620 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCA
GAGTAGATCACATCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAA
AACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCCGGTCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
TTACAGTGGAGTAGACAGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
AGCCAAAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTG
AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAAAGTAGATCG
CATTAGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
GAGGTTACAGCGGAGCAGATTGAAGATAGTAATCC
Found at i:58070949 original size:8 final size:8
Alignment explanation
Indices: 58070938--58070968 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
58070928 TTTGTTTTGC
58070938 ATTTTTTT
1 ATTTTTTT
58070946 ATTTTTTT
1 ATTTTTTT
58070954 A-TTTTTT
1 ATTTTTTT
58070961 ATTTTTTT
1 ATTTTTTT
58070969 CTTCATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
ATTTTTTT
Found at i:58070958 original size:15 final size:15
Alignment explanation
Indices: 58070940--58070968 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58070930 TGTTTTGCAT
58070940 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
58070955 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
58070969 CTTCATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:58074440 original size:13 final size:13
Alignment explanation
Indices: 58074422--58074447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58074412 TGCTTGTAAA
58074422 TTTACTTGTATAT
1 TTTACTTGTATAT
58074435 TTTACTTGTATAT
1 TTTACTTGTATAT
58074448 ATATTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTACTTGTATAT
Found at i:58078731 original size:21 final size:21
Alignment explanation
Indices: 58078707--58078755 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
58078697 CATTGTCTCT
*
58078707 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
58078728 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
58078749 AATCTCA
1 AATCTCA
58078756 TCGCCACCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:58082702 original size:6 final size:6
Alignment explanation
Indices: 58082691--58082717 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
58082681 AAATCTTAAA
58082691 AATCCT AATCCT AATCCT AATCCT AAT
1 AATCCT AATCCT AATCCT AATCCT AAT
58082718 TCAGAGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (6 bp):
AATCCT
Found at i:58084287 original size:27 final size:27
Alignment explanation
Indices: 58084243--58084295 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
58084233 ATTGAATATG
58084243 AAGGGGTTGCTAAATGCTGATTCCCCC
1 AAGGGGTTGCTAAATGCTGATTCCCCC
* *
58084270 AAGGGGTTGTTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAATGCTGATTCCCC
58084296 GATTTATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (27 bp):
AAGGGGTTGCTAAATGCTGATTCCCCC
Found at i:58084317 original size:33 final size:34
Alignment explanation
Indices: 58084274--58084484 Score: 131
Period size: 33 Copynumber: 5.8 Consensus size: 34
58084264 TCCCCCAAGG
*
58084274 GGTTGTTAAGTGCTGATTCC-CCGATTTATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTTATTGGT
*
58084307 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--TTT--AT-T---GGT
* * *
58084350 GGTTGCTAAGTGCTGATTCC-CCCAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTTATTGGT
* * *
58084383 GGTTGCTAAGTGCTGATTCCACCATAACTTTGAATGCGAAAG
1 GGTTGCTAAGTGCTGATTCCACC--GA-TTT-ATTG-G---T
* * *
58084425 GGATTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GG-TTGCTAAGTGCTGATTCCACCGATTTATTGGT
*
58084459 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCCACCGAT
58084485 AACGGTTAAC
Statistics
Matches: 139, Mismatches: 18, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
33 58 0.42
34 11 0.08
35 1 0.01
36 2 0.01
37 7 0.05
38 6 0.04
39 5 0.04
40 2 0.01
41 1 0.01
42 6 0.04
43 40 0.29
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTTATTGGT
Found at i:58084398 original size:76 final size:76
Alignment explanation
Indices: 58084270--58084487 Score: 310
Period size: 76 Copynumber: 2.9 Consensus size: 76
58084260 TGATTCCCCC
* * * *
58084270 AAGGGGTTGTTAAGTGCTGATTCCCCGATTTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
*
58084335 TTTAAATGTGA
66 TTTAAATGCGA
* * * *
58084346 AGGGGGTTGCTAAGTGCTGATTCCCCCAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATAAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
*
58084411 TTTGAATGCGA
66 TTTAAATGCGA
* * *
58084422 AAGGGATTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCGATAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG-TAA
58084487 C
65 C
58084488 GGTTAACATT
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 121 0.97
77 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
TTTAAATGCGA
Found at i:58091740 original size:27 final size:27
Alignment explanation
Indices: 58091702--58091753 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
58091692 ATTGAATATG
58091702 AAGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCCC
58091729 AAGGGGTTGCTAAGTGCTGATTCCC
1 AAGGGGTTGCTAAGTGCTGATTCCC
58091754 TGATTCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:58091772 original size:33 final size:33
Alignment explanation
Indices: 58091706--58092003 Score: 190
Period size: 33 Copynumber: 8.8 Consensus size: 33
58091696 AATATGAAGG
*
58091706 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
58091733 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
58091766 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
58091799 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---TT-CAT-TG--GT
*
58091841 GGATTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GG-TTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
58091869 GGTTGCTAAGTGCTGATTCCCCGAATGATTAGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
58091902 GGTTGCTAAGTGTTGATTCCACC-ATATCTTTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
* *
58091939 GAAAGGGATTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 -----GG-TTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
58091978 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
58092004 AACGGTTAAC
Statistics
Matches: 215, Mismatches: 21, Indels: 63
0.72 0.07 0.21
Matches are distributed among these distances:
27 41 0.19
28 2 0.01
29 1 0.00
31 4 0.02
32 3 0.01
33 90 0.42
34 14 0.07
35 1 0.00
37 2 0.01
38 2 0.01
39 4 0.02
40 2 0.01
42 13 0.06
43 36 0.17
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:58091876 original size:27 final size:28
Alignment explanation
Indices: 58091837--58091890 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
58091827 TTTGAATGTG
58091837 AAGGGGATTGCTAAGTGCTGATTCCCCC
1 AAGGGGATTGCTAAGTGCTGATTCCCCC
58091865 AAGGGG-TTGCTAAGTGCTGATTCCCC
1 AAGGGGATTGCTAAGTGCTGATTCCCC
58091891 GAATGATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (28 bp):
AAGGGGATTGCTAAGTGCTGATTCCCCC
Found at i:58091890 original size:103 final size:103
Alignment explanation
Indices: 58091766--58091966 Score: 348
Period size: 103 Copynumber: 2.0 Consensus size: 103
58091756 ATTCATTGGT
* * *
58091766 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCATATCTTTG
*
58091831 AATGTGAAGGGGATTGCTAAGTGCTGATTCCCCCAAGG
66 AATGTGAAAGGGATTGCTAAGTGCTGATTCCCCCAAGG
* *
58091869 GGTTGCTAAGTGCTGATTCCCCGAATGATTAGTGGTTGCTAAGTGTTGATTCCACCATATCTTTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCATATCTTTG
58091934 AATGTGAAAGGGATTGCTAAGTGCTGATTCCCC
66 AATGTGAAAGGGATTGCTAAGTGCTGATTCCCC
58091967 GAATCACTGG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCATATCTTTG
AATGTGAAAGGGATTGCTAAGTGCTGATTCCCCCAAGG
Found at i:58099205 original size:21 final size:22
Alignment explanation
Indices: 58099179--58099226 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
58099169 TTCCAACGTT
58099179 AACCACCACCTGCAAGGA-AAA
1 AACCACCACCTGCAAGGACAAA
*
58099200 AACCACCACCTGGAAGGACAAA
1 AACCACCACCTGCAAGGACAAA
58099222 AACCA
1 AACCA
58099227 AACACGCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.48, C:0.33, G:0.15, T:0.04
Consensus pattern (22 bp):
AACCACCACCTGCAAGGACAAA
Found at i:58102188 original size:24 final size:24
Alignment explanation
Indices: 58102156--58102204 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
58102146 ATGTTTTGAG
*
58102156 TGTGAAGGCGATCCCGTATATGTA
1 TGTGAAGGCGATCCCGTACATGTA
58102180 TGTGAAGGCGATCCCGTACATGTA
1 TGTGAAGGCGATCCCGTACATGTA
58102204 T
1 T
58102205 CCATTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (24 bp):
TGTGAAGGCGATCCCGTACATGTA
Found at i:58108775 original size:4 final size:4
Alignment explanation
Indices: 58108766--58108799 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
58108756 CATGAAAGTT
* *
58108766 TTTA TTTA TTTT TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
58108800 CATTGATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:58108888 original size:3 final size:3
Alignment explanation
Indices: 58108882--58108940 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
58108872 CTTCTTCTTC
* * * *
58108882 TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA
58108929 TTTA TTA TTA TT
1 -TTA TTA TTA TT
58108941 TAAATTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 37 0.82
4 8 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58108953 original size:9 final size:9
Alignment explanation
Indices: 58108939--58108964 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58108929 TTTATTATTA
58108939 TTTAAATTT
1 TTTAAATTT
58108948 TTTAAATTT
1 TTTAAATTT
58108957 TTTAAATT
1 TTTAAATT
58108965 ATTCTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTAAATTT
Found at i:58110924 original size:18 final size:18
Alignment explanation
Indices: 58110901--58110936 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58110891 ATCGAAAAGT
58110901 GCGTCGAGTTCAGAACTC
1 GCGTCGAGTTCAGAACTC
58110919 GCGTCGAGTTCAGAACTC
1 GCGTCGAGTTCAGAACTC
58110937 TAGTACAGAG
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:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (18 bp):
GCGTCGAGTTCAGAACTC
Found at i:58115848 original size:16 final size:17
Alignment explanation
Indices: 58115810--58115850 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
58115800 CCTACTCCCT
58115810 CCCAATTTAAAACCCAA
1 CCCAATTTAAAACCCAA
* *
58115827 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAA
58115843 CCCAATTT
1 CCCAATTT
58115851 TCTCTTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAA
Found at i:58116774 original size:16 final size:16
Alignment explanation
Indices: 58116753--58116786 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
58116743 AATTATTGAA
58116753 TATATTGTAATTAATG
1 TATATTGTAATTAATG
58116769 TATATTGTAATTAATG
1 TATATTGTAATTAATG
58116785 TA
1 TA
58116787 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TATATTGTAATTAATG
Found at i:58118812 original size:26 final size:26
Alignment explanation
Indices: 58118775--58118824 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
58118765 AATGGAGATA
*
58118775 TTTTGGAGAGATGAAATGAATATATT
1 TTTTGGAAAGATGAAATGAATATATT
*
58118801 TTTTGGAAAGATGAAATGGATATA
1 TTTTGGAAAGATGAAATGAATATA
58118825 AATGGAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (26 bp):
TTTTGGAAAGATGAAATGAATATATT
Found at i:58118823 original size:24 final size:24
Alignment explanation
Indices: 58118764--58118824 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
58118754 GGTTTAATGC
* *
58118764 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
58118788 AAATGAATATATTTTTTGGAAAGATG
1 AAATGGATATA--TTTTGGAAAGATG
58118814 AAATGGATATA
1 AAATGGATATA
58118825 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.29
26 22 0.71
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.33
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:58118896 original size:17 final size:17
Alignment explanation
Indices: 58118874--58118971 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
58118864 AATTCAAGAC
58118874 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
58118891 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
58118910 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* ***
58118928 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
58118947 TTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
58118965 TTATGTA
1 TTATGTA
58118972 GTGATTTAAT
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
17 23 0.40
18 10 0.17
19 9 0.16
20 16 0.28
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:58118916 original size:20 final size:19
Alignment explanation
Indices: 58118890--58118954 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
58118880 AATATTTTTA
58118890 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
58118909 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
58118927 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
58118946 ATTTATGTA
1 A-TTATGTA
58118955 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:58118919 original size:37 final size:37
Alignment explanation
Indices: 58118865--58118977 Score: 201
Period size: 37 Copynumber: 3.1 Consensus size: 37
58118855 TTATGTTTTA
58118865 ATTC-AAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
58118901 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
58118938 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
58118975 ATT
1 ATT
58118978 TAATTTGGGT
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 4 0.05
37 70 0.95
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:58118996 original size:9 final size:9
Alignment explanation
Indices: 58118978--58119076 Score: 117
Period size: 9 Copynumber: 10.6 Consensus size: 9
58118968 TGTAGTGATT
*
58118978 TAATTTGGG
1 TAATTCGGG
58118987 TAATTCGGG
1 TAATTCGGG
*
58118996 TAATTTGGG
1 TAATTCGGG
58119005 TAATTTTCGGG
1 TAA--TTCGGG
58119016 TAATTTTCGGG
1 TAA--TTCGGG
*
58119027 TAATTTGGG
1 TAATTCGGG
*
58119036 TAATTTGGG
1 TAATTCGGG
58119045 TAATTCGGG
1 TAATTCGGG
*
58119054 TAAGTCGGG
1 TAATTCGGG
58119063 TAATTCGGG
1 TAATTCGGG
58119072 TAATT
1 TAATT
58119077 TTTAACCAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
9 62 0.77
11 19 0.23
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:58119001 original size:18 final size:18
Alignment explanation
Indices: 58118978--58119077 Score: 137
Period size: 18 Copynumber: 5.3 Consensus size: 18
58118968 TGTAGTGATT
58118978 TAATTTGGGTAATTCGGG
1 TAATTTGGGTAATTCGGG
58118996 TAATTTGGGTAATTTTCGGG
1 TAATTTGGGTAA--TTCGGG
*
58119016 TAATTTTCGGGTAATTTGGG
1 TAA-TTT-GGGTAATTCGGG
58119036 TAATTTGGGTAATTCGGG
1 TAATTTGGGTAATTCGGG
* *
58119054 TAAGTCGGGTAATTCGGG
1 TAATTTGGGTAATTCGGG
58119072 TAATTT
1 TAATTT
58119078 TTAACCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
18 43 0.60
19 3 0.04
20 17 0.24
21 3 0.04
22 6 0.08
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (18 bp):
TAATTTGGGTAATTCGGG
Found at i:58119423 original size:42 final size:41
Alignment explanation
Indices: 58119266--58119423 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 41
58119256 ACCCCTACTT
* * * * * *
58119266 TTAGCGGCGCTTTTCCCACAAACGCTGCTATATATCATCACTT
1 TTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACA-GAC-A
* *
58119309 TTAGCGACGCTTTTCCCACAAACGTCGCTGTAGAACAGATCA
1 TTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACAGA-CA
* ** * * *
58119351 TTAGCGACCCTTTTTCGTACAAATGTCGCTATAGAACAGACC
1 TTAGCGACGC-TTTTCCCACAAACGCCGCTATAGAACAGACA
*
58119393 TTCAGC-AGCGCTTTTCACACAAACGCCGCTA
1 TT-AGCGA-CGCTTTTCCCACAAACGCCGCTA
58119424 AAAGCATATC
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 30 0.33
43 62 0.67
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (41 bp):
TTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACAGACA
Found at i:58119482 original size:24 final size:25
Alignment explanation
Indices: 58119449--58119500 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
58119439 AAAAAATTTC
*
58119449 AAATAATAT-TTAT-TTCT-ATGAT
1 AAATATTATATTATGTTCTAATGAT
*
58119471 AAATATTATATTATGTTTTAATGAT
1 AAATATTATATTATGTTCTAATGAT
58119496 AAATA
1 AAATA
58119501 AAAAATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 4 0.16
24 3 0.12
25 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
AAATATTATATTATGTTCTAATGAT
Found at i:58119758 original size:43 final size:43
Alignment explanation
Indices: 58119686--58119776 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
58119676 ACATATGCAA
** * *
58119686 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATAAATTTACTTAATCAAGGAAATCTT
* *
58119729 GGTAATAAAAGATATAATAAATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATAAATTTACTTAATCAAGGAAATCTT
58119772 -GTAAT
1 GGTAAT
58119777 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATAAATTTACTTAATCAAGGAAATCTT
Found at i:58120594 original size:13 final size:13
Alignment explanation
Indices: 58120576--58120642 Score: 91
Period size: 13 Copynumber: 5.1 Consensus size: 13
58120566 AGTTCTTCAT
58120576 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
58120589 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
58120602 TGC-TGTGAAAAAAG
1 TGCTTTTG--AAAAG
*
58120616 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
58120629 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
58120642 T
1 T
58120643 TTGGTTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 3 0.06
13 33 0.70
14 8 0.17
15 3 0.06
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:58120640 original size:27 final size:27
Alignment explanation
Indices: 58120576--58120640 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
58120566 AGTTCTTCAT
58120576 TGCTTTTG-AAAAGTGCTTTTGAAAAG
1 TGCTTTTGAAAAAGTGCTTTTGAAAAG
* *
58120602 TGC-TGTGAAAAAAGTGCTTTTGAGAAG
1 TGCTTTTG-AAAAAGTGCTTTTGAAAAG
58120629 TGCTTTTGAAAA
1 TGCTTTTGAAAA
58120641 GTTTGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 3 0.09
26 3 0.09
27 24 0.73
28 3 0.09
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (27 bp):
TGCTTTTGAAAAAGTGCTTTTGAAAAG
Found at i:58128802 original size:12 final size:12
Alignment explanation
Indices: 58128779--58128804 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58128769 TGAAAGCTTA
58128779 ATAGAAAACTTG
1 ATAGAAAACTTG
58128791 ATAGAAAACTTG
1 ATAGAAAACTTG
58128803 AT
1 AT
58128805 TAATGACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
ATAGAAAACTTG
Found at i:58130662 original size:22 final size:21
Alignment explanation
Indices: 58130637--58130685 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
58130627 GTAAGAAAAC
58130637 AAAAACAAAAACAAAAAAATTT
1 AAAAACAAAAA-AAAAAAATTT
** *
58130659 AAAATATGAAAAAAAAAACTTT
1 AAAA-ACAAAAAAAAAAAATTT
58130681 AAAAA
1 AAAAA
58130686 ACTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAACAAAAAAAAAAAATTT
Found at i:58131274 original size:15 final size:15
Alignment explanation
Indices: 58131241--58131287 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
58131231 TCTCAACCCT
58131241 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
58131255 T-AATCCCTAATCCC
1 TAAATCCATAATCCC
*
58131269 TAAATCCATACTCCC
1 TAAATCCATAATCCC
58131284 TAAA
1 TAAA
58131288 CCTTACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:58131731 original size:41 final size:41
Alignment explanation
Indices: 58131672--58131908 Score: 264
Period size: 41 Copynumber: 5.9 Consensus size: 41
58131662 AAATGTTTTT
**
58131672 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** * *
58131713 GCGGCGCTTCTTGGAAAACGCCGCTACAGCCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
58131754 GCGGTGCTTTTTCAAAAACACCGCTAAATCCCCGAGCACTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** *
58131795 GCGGCACTTTTTGGAAAATGCCGCTAAAGCCCCGAG---TA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** * *
58131833 GCGGCGCTTCTTGGAAAACACCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
58131874 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
58131909 AAGGTCATAA
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
38 33 0.20
41 128 0.80
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:58131818 original size:82 final size:79
Alignment explanation
Indices: 58131672--58131908 Score: 285
Period size: 79 Copynumber: 3.0 Consensus size: 79
58131662 AAATGTTTTT
* ** *
58131672 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTTCGAGCATTAGCGGCGCTTCTTGGAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGGAAAACGCCGC
* *
58131737 TACAGCCTCGAGCATTA
66 TAAAGCCCCGAG---TA
* * * * *
58131754 GCGGTGCTTTTTCAAAAACACCGCTAAATCCCCGAGCACTAGCGGCACTTTTTGGAAAATGCCGC
1 GCGGCGCTTTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGGAAAACGCCGC
58131819 TAAAGCCCCGAGTA
66 TAAAGCCCCGAGTA
* ** * ** *
58131833 GCGGCGCTTCTTGGAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCAC
1 GCGGCGCTTTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGGAAAACGCCGC
58131898 TAAAGCCCCGA
66 TAAAGCCCCGA
58131909 AAGGTCATAA
Statistics
Matches: 132, Mismatches: 23, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
79 66 0.50
82 66 0.50
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (79 bp):
GCGGCGCTTTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGGAAAACGCCGC
TAAAGCCCCGAGTA
Found at i:58131963 original size:29 final size:29
Alignment explanation
Indices: 58131931--58131986 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
58131921 CGATGCCGCT
58131931 GGGCTTAGGTTTTTTGCGGCGTTTTTTTG
1 GGGCTTAGGTTTTTTGCGGCGTTTTTTTG
58131960 GGGCTTAGGTTTTTTGCGGCGTTTTTT
1 GGGCTTAGGTTTTTTGCGGCGTTTTTT
58131987 CCAAAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.04, C:0.11, G:0.34, T:0.52
Consensus pattern (29 bp):
GGGCTTAGGTTTTTTGCGGCGTTTTTTTG
Found at i:58131974 original size:16 final size:16
Alignment explanation
Indices: 58131931--58131975 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 16
58131921 CGATGCCGCT
58131931 GGGCTTAGGTTTTTTG
1 GGGCTTAGGTTTTTTG
* *
58131947 CGGC---GTTTTTTTG
1 GGGCTTAGGTTTTTTG
58131960 GGGCTTAGGTTTTTTG
1 GGGCTTAGGTTTTTTG
58131976 CGGCGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 6
0.69 0.12 0.19
Matches are distributed among these distances:
13 11 0.50
16 11 0.50
ACGTcount: A:0.04, C:0.09, G:0.36, T:0.51
Consensus pattern (16 bp):
GGGCTTAGGTTTTTTG
Found at i:58132732 original size:44 final size:44
Alignment explanation
Indices: 58132645--58132732 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
58132635 AAAACAAAAA
* * *
58132645 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAGCTCAT
1 TTGAATACAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* *
58132689 TTGAATACAACCATGAGATCATCTTTGATCTTTCTCCAACTCAT
1 TTGAATACAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
58132733 CTTTCTTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.36
Consensus pattern (44 bp):
TTGAATACAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:58136086 original size:2 final size:2
Alignment explanation
Indices: 58136075--58136112 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
58136065 CTCTCTTTTA
* *
58136075 AT AT AC AT AT AT AT AC A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58136113 AAGGGGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:58136096 original size:17 final size:17
Alignment explanation
Indices: 58136074--58136106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58136064 GCTCTCTTTT
58136074 AATATACATATATATAC
1 AATATACATATATATAC
*
58136091 AATATATATATATATA
1 AATATACATATATATA
58136107 TATATAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATACATATATATAC
Found at i:58137140 original size:24 final size:24
Alignment explanation
Indices: 58137057--58137141 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
58137047 ACGTACATAC
* * *
58137057 TTATATTTCATATATTTTTGTATT
1 TTATAATTCATATATTTTTATATG
** *
58137081 TTATAA-TCTATATACATATATATG
1 TTATAATTC-ATATATTTTTATATG
* *
58137105 -TA-AATACTTATATTTTTATATG
1 TTATAATTCATATATTTTTATATG
58137127 TTATAATTCATATAT
1 TTATAATTCATATAT
58137142 ATCTTTTATT
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
22 13 0.30
23 7 0.16
24 24 0.55
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TTATAATTCATATATTTTTATATG
Found at i:58142961 original size:45 final size:45
Alignment explanation
Indices: 58142899--58143219 Score: 189
Period size: 44 Copynumber: 7.2 Consensus size: 45
58142889 GCCAGCCTTA
* *
58142899 CCTTCCT-TACTGACAGCGGAGCAGACTTAAGATAGCATATCATG
1 CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCACATCATG
* * *
58142943 CCTTCCTGTACTGGCAGCGAAGCAGA-TCAA-ATA-CACCAGCCATG
1 CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCA-CA-TCATG
* * * * *
58142987 CCTTCCTGTACTAACAGCAGAGCAGACTGAAGATAGCAGATCTTG
1 CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCACATCATG
* * * * * *
58143032 CCTTCCTGTACTGGCAGCGAAGTAGA-TCGAAGACA-C-CAGCCTTG
1 CCTTCCTGTACTGACAGCGGAGCAGACTC-AAGATAGCACA-TCATG
* * ** * *
58143076 CCTTCCTGTACTGACAGCGGAGTAGACTGAAGATAATAGATCTTG
1 CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCACATCATG
* * * * *
58143121 CCTT-CTCGTACTGAC-GATGAAGCAGA-TCAA-AGA-CACCAGCCTTG
1 CCTTCCT-GTACTGACAG-CGGAGCAGACTCAAGATAGCA-CA-TCATG
* * * * * *
58143165 CCTTCCTGTACTGACAGTGGAGCGGACTGAAGATAACAGATCTTG
1 CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCACATCATG
58143210 CCTTCCTGTA
1 CCTTCCTGTA
58143220 TTGATGGCGA
Statistics
Matches: 214, Mismatches: 43, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
42 3 0.01
43 8 0.04
44 100 0.47
45 91 0.43
46 8 0.04
47 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (45 bp):
CCTTCCTGTACTGACAGCGGAGCAGACTCAAGATAGCACATCATG
Found at i:58142987 original size:44 final size:44
Alignment explanation
Indices: 58142852--58143181 Score: 203
Period size: 44 Copynumber: 7.5 Consensus size: 44
58142842 ACAACAGATA
* * ** ** * *
58142852 TTGCCTTCTTGTACTGGCAATGAAGCAGATTGAAGACGCCAGCC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCAAATACACCAGCC
* * * * *
58142896 TTACCTTCCT-TACTGACAGCGGAGCAGACTTAAGATAGCA-TA-TC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGA-TCAA-ATA-CACCAGCC
* *
58142940 ATGCCTTCCTGTACTGGCAGCGAAGCAGATCAAATACACCAGCC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCAAATACACCAGCC
* * * * *
58142984 ATGCCTTCCTGTACTAACAGC-AGAGCAGACTGAAGAT--AGCAGATC
1 TTGCCTTCCTGTACTGACAGCGA-AGCAGA-TCAA-ATACACCAG-CC
* * * *
58143029 TTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGACACCAGCC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGATCAAATACACCAGCC
* * * * *
58143073 TTGCCTTCCTGTACTGACAGCGGAGTAGACTGAAGATA-A-TAGATC
1 TTGCCTTCCTGTACTGACAGCGAAGCAGA-TCAA-ATACACCAG-CC
* *
58143118 TTGCCTT-CTCGTACTGAC-GATGAAGCAGATCAAAGACACCAGCC
1 TTGCCTTCCT-GTACTGACAG-CGAAGCAGATCAAATACACCAGCC
58143162 TTGCCTTCCTGTACTGACAG
1 TTGCCTTCCTGTACTGACAG
58143182 TGGAGCGGAC
Statistics
Matches: 218, Mismatches: 46, Indels: 43
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.01
43 22 0.10
44 108 0.50
45 80 0.37
46 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (44 bp):
TTGCCTTCCTGTACTGACAGCGAAGCAGATCAAATACACCAGCC
Found at i:58143038 original size:89 final size:89
Alignment explanation
Indices: 58142839--58143219 Score: 489
Period size: 89 Copynumber: 4.3 Consensus size: 89
58142829 CAGATCAATT
* * * ** ** * *
58142839 AAGACAACAGATATTGCCTTCTTGTACTGGCAATGAAGCAGATTGAAGACGCCAGCCTTACCTTC
1 AAGATAACAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
*
58142904 CT-TACTGACAGCGGAGCAGACTT
66 CTGTACTGACAGCGGAGCAGACTG
* * * * *
58142927 AAGATAGCATATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCAAATACACCAGCCATGCCTTC
1 AAGATAACAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
* *
58142992 CTGTACTAACAGCAGAGCAGACTG
66 CTGTACTGACAGCGGAGCAGACTG
* * *
58143016 AAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTTC
1 AAGATAACAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
*
58143081 CTGTACTGACAGCGGAGTAGACTG
66 CTGTACTGACAGCGGAGCAGACTG
* * *
58143105 AAGATAATAGATCTTGCCTT-CTCGTACTGAC-GATGAAGCAGATCAAAGACACCAGCCTTGCCT
1 AAGATAACAGATCTTGCCTTCCT-GTACTGGCAG-CGAAGCAGATCAAAGACACCAGCCTTGCCT
* *
58143168 TCCTGTACTGACAGTGGAGCGGACTG
64 TCCTGTACTGACAGCGGAGCAGACTG
58143194 AAGATAACAGATCTTGCCTTCCTGTA
1 AAGATAACAGATCTTGCCTTCCTGTA
58143220 TTGATGGCGA
Statistics
Matches: 253, Mismatches: 36, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
88 56 0.22
89 195 0.77
90 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (89 bp):
AAGATAACAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
CTGTACTGACAGCGGAGCAGACTG
Found at i:58143436 original size:50 final size:50
Alignment explanation
Indices: 58143265--58143754 Score: 306
Period size: 50 Copynumber: 9.8 Consensus size: 50
58143255 CAGCAGAGTG
* * * * * * ** * *
58143265 GATTGAGGCCACAATGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
* ** * * *
58143315 GATCGAAGCTACAACGGTGAATCTCGCTTCCCCGACATTGTAAT-TAAAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
* *** * * *
58143364 GATTGAAGCCACAACAACGAATCTTACTTCCCTGACAATGTGGTGGAACA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
* * * * **
58143414 GATTGAAGCTACAAGGGTGAATCTTGCTTCCCTGACATTGCAATTTAAAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
* * * ** *
58143464 GATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCGGTGTAGCGGAACAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAA-AA
* * ** * ** * **
58143515 -ATTGTAGCTACAATGACGAATCTTACTTCCCCGACATTACAATTTAAAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
* * * * * *
58143564 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGA-TGCAATGGAATA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCT-GACATTGTAGTGGAAAA
* * * * *
58143614 GATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAGT-TAAATA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAA-A
* * ** * * * **
58143664 GATTGAAGTTACAACAGCAAATCTTATTTTCCTGGCGGTGTAGT-GAAATA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAA-A
* *
58143714 GATTGAAGCTACGACGGTGAATCTTACTTCCCCGACATTGT
1 GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGT
58143755 GTTAAACAGA
Statistics
Matches: 321, Mismatches: 113, Indels: 12
0.72 0.25 0.03
Matches are distributed among these distances:
49 43 0.13
50 273 0.85
51 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
GATTGAAGCTACAACGGTGAATCTTACTTCCCTGACATTGTAGTGGAAAA
Found at i:58143524 original size:100 final size:100
Alignment explanation
Indices: 58143265--58143753 Score: 577
Period size: 100 Copynumber: 4.9 Consensus size: 100
58143255 CAGCAGAGTG
* * * * *
58143265 GATTGAGGCCACAATGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATCGAAGCTACAAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
* *
58143330 GGTGAATCTCGCTTCCCCGACATTGTAA-TTAAAA
66 GGTGAATCTTGCTTCCCCGACATTGCAATTTAAAA
** * ** * *
58143364 GATTGAAGCCACAACAACGAATCTTACTTCCCTGACAATGTGGTGGAACAGATTGAAGCTACAAG
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
*
58143429 GGTGAATCTTGCTTCCCTGACATTGCAATTTAAAA
66 GGTGAATCTTGCTTCCCCGACATTGCAATTTAAAA
* * * * * *
58143464 GATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCGGTGTAGCGGAACAAATTGTAGCTACAAT
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
** * *
58143529 GACGAATCTTACTTCCCCGACATTACAATTTAAAA
66 GGTGAATCTTGCTTCCCCGACATTGCAATTTAAAA
* * * * * *
58143564 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGATGCAATGGAATAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
*
58143629 GGTGAATCTTGCTTCCCCGACATTGC-AGTTAAATA
66 GGTGAATCTTGCTTCCCCGACATTGCAATTTAAA-A
** * * * * * * *
58143664 GATTGAAGTTACAACAGCAAATCTTATTTTCCTGGCGGTGTAGTGAAATAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
*
58143729 GGTGAATCTTACTTCCCCGACATTG
66 GGTGAATCTTGCTTCCCCGACATTG
58143754 TGTTAAACAG
Statistics
Matches: 327, Mismatches: 61, Indels: 3
0.84 0.16 0.01
Matches are distributed among these distances:
99 84 0.26
100 243 0.74
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
GGTGAATCTTGCTTCCCCGACATTGCAATTTAAAA
Found at i:58143677 original size:150 final size:149
Alignment explanation
Indices: 58143265--58143689 Score: 395
Period size: 150 Copynumber: 2.8 Consensus size: 149
58143255 CAGCAGAGTG
* * * * * * * *
58143265 GATTGAGGCCACAATGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATCGAAGCTACAAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGATGCAATGGAAAAGATTGAAGCTACAAC
* * *
58143330 GGTGAATCTCGCTTCCCCGACATTGTAATTAAAAGATTGAAGCCACAACAACGAATCTTACTTCC
66 GGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAGATTGAAGCTACAACAACGAATCTTACTTCC
* **** *
58143395 CTGACAATGTGGTGGAACA
131 CCGACAATACAATGGAAAA
* * * * * ** *
58143414 GATTGAAGCTACAAGGGTGAATCTTGCTTCCCT-GACATTGCAATTTAAAAGATTGAAGCCACAA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGA-TGCAATGGAAAAGATTGAAGCTACAA
* * * * ** ** * **
58143478 CGGTGAATCTTACTTTCCTGGCGGTGTAGCGGAACAA-ATTGTAGCTACAATGACGAATCTTACT
65 CGGTGAATCTTGCTTCCCCGACATTGTAG-TTAA-AAGATTGAAGCTACAACAACGAATCTTACT
* **
58143542 TCCCCGACATTACAATTTAAAA
128 TCCCCGACAATACAATGGAAAA
* *
58143564 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGATGCAATGGAATAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGATGCAATGGAAAAGATTGAAGCTACAAC
* * * *
58143629 GGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGTTACAACAGCAAATCTTA
66 GGTGAATCTTGCTTCCCCGACATTGTAGTTAAA-AGATTGAAGCTACAACAACGAATCTTA
58143690 TTTTCCTGGC
Statistics
Matches: 207, Mismatches: 63, Indels: 11
0.74 0.22 0.04
Matches are distributed among these distances:
148 2 0.01
149 71 0.34
150 129 0.62
151 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (149 bp):
GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGAGATGCAATGGAAAAGATTGAAGCTACAAC
GGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAGATTGAAGCTACAACAACGAATCTTACTTCC
CCGACAATACAATGGAAAA
Found at i:58144025 original size:129 final size:129
Alignment explanation
Indices: 58143781--58144025 Score: 323
Period size: 129 Copynumber: 1.9 Consensus size: 129
58143771 ATGACAGATA
* * * *
58143781 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGAGGA
1 TTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGAGGA
* *
58143846 ACAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAAACTCAAATC
66 ACAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAATGAAGAAGATTAAAAACTCAAATC
* *
58143910 TTATCTCTCTGACGTTACAGCAGAGCAGATCGCATCCAGTCTTGTCTCCCTGAAGTTGCA-ATGG
1 TTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGA-GG
* ** * * * *
58143974 AGCAGGTTA-AAGATACCAATCTTATCTCCCTAAAGTTACAGTGGAGAAGATT
65 AACA-GACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAATGAAGAAGATT
58144026 GCATATGAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 1 0.01
129 96 0.97
130 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (129 bp):
TTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGAGGA
ACAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAATGAAGAAGATTAAAAACTCAAATC
Found at i:58145549 original size:28 final size:28
Alignment explanation
Indices: 58145481--58145551 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
58145471 TTTAATTTTA
* *
58145481 TTTTTCTTTC-AACTTAGTCCCTTTCGC
1 TTTTTATTTCTAATTTAGTCCCTTTCGC
*
58145508 GTTTTATTTCTAATTTAGTCCCTTTCGC
1 TTTTTATTTCTAATTTAGTCCCTTTCGC
58145536 TTTTTATTTCTAATTT
1 TTTTTATTTCTAATTT
58145552 GGGCTCTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTTTATTTCTAATTTAGTCCCTTTCGC
Found at i:58145970 original size:24 final size:24
Alignment explanation
Indices: 58145887--58145971 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
58145877 ACGTACATAC
* *
58145887 TTATATTTCATATATTTTTGTATT
1 TTATAATTCATATATTTTTATATT
***
58145911 TTATAA-TC-TATATACATATATAT
1 TTATAATTCATATATTTTTATAT-T
* * *
58145934 GTA-AATACTTATATTTTTATATT
1 TTATAATTCATATATTTTTATATT
58145957 TTATAATTCATATAT
1 TTATAATTCATATAT
58145972 ATCTTTTATT
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
22 11 0.25
23 9 0.20
24 24 0.55
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATAATTCATATATTTTTATATT
Found at i:58148281 original size:19 final size:19
Alignment explanation
Indices: 58148265--58148299 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58148255 AATATATTGC
58148265 ATTT-TATACC-TTATATT
1 ATTTATATACCTTTATATT
58148282 ATTTATATACCTTTATAT
1 ATTTATATACCTTTATAT
58148300 ACATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATATACCTTTATATT
Found at i:58148388 original size:12 final size:12
Alignment explanation
Indices: 58148352--58148390 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58148342 TTTAATTTTG
58148352 ATATACATATAT
1 ATATACATATAT
* * *
58148364 TTATACCTTTAT
1 ATATACATATAT
58148376 ATATACATATAT
1 ATATACATATAT
58148388 ATA
1 ATA
58148391 CGTATACATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATACATATAT
Found at i:58160989 original size:100 final size:100
Alignment explanation
Indices: 58160854--58161430 Score: 740
Period size: 100 Copynumber: 5.8 Consensus size: 100
58160844 TTTCAGGTGA
* * * * ** * * * ** *
58160854 TGCAATGGAACAAATTAAAGCCGCAATGGTGAATCTTGCTTCCTTGAGAATACAGTTGAAATGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
* * * *
58160919 TGAAGCCACTACGGCGAATCTTACTTCCCTGACGG
66 TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
* * *
58160954 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGACATTACAGTCAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
* *
58161019 TGAAGACACAACGGTGAATCTTACTTCCCTGGTAG
66 TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
** *
58161054 TGCAGTGGAACAGATTGAAGCCGCAACGGCAAATCTTGTTTCCCCGACATTGCAGTCAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
*
58161119 TGAAGCCACAACAGTGAATCTTACTTCCCTGGCAG
66 TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
*
58161154 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGTTTCCCCGACATTGCAGTCAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
* *
58161219 TGAAGCCACAATGGTGAATCTTACTTCCCTAGCAG
66 TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
* * **
58161254 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
* ** * * *
58161319 TAAAGCTGCAACGGCGAATCCTACTTCCCTGGCGG
66 TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
* * * * * *
58161354 TGCAATGGAACAGATTGAAGCCACAATGGTGAATCTTGCTTCCCCGACATTACAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
* *
58161419 TAAAGCTACAAC
66 TGAAGCCACAAC
58161431 AGCGAATTTC
Statistics
Matches: 426, Mismatches: 51, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 426 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (100 bp):
TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGAT
TGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG
Found at i:58161419 original size:50 final size:50
Alignment explanation
Indices: 58160854--58161402 Score: 492
Period size: 50 Copynumber: 11.0 Consensus size: 50
58160844 TTTCAGGTGA
* * * * * * * *
58160854 TGCAATGGAACAA-ATTAAAGCCGCAATGGTGAATCTTGCTTCCTTGAGAA
1 TGCAGTGGAA-AAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* * * * * *
58160904 TACAGTTGAAATGATTGAAGCCACTACGGCGAATCTTACTTCCCTGACGG
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* * *
58160954 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGACAT
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* ** * **
58161004 TACAGTCAAAAAGATTGAAGACACAACGGTGAATCTTACTTCCCTGGTAG
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* * ** ** * *
58161054 TGCAGTGGAACAGATTGAAGCCGCAACGGCAAATCTTGTTTCCCCGACAT
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
** * *
58161104 TGCAGTCAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGGCAG
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* * ** * *
58161154 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGTTTCCCCGACAT
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
** *
58161204 TGCAGTCAAAAAGATTGAAGCCACAATGGTGAATCTTACTTCCCT-AGCAG
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGA-CAG
* * ** *
58161254 TGCAGTGGAACAGATTGAAGCCGCAACGGTGAATCTTGTTTCTCC-GACAT
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTC-CCTGACAG
* * ** * * * *
58161304 TGCAGTTGAAAAGATTAAAGCTGCAACGGCGAATCCTACTTCCCTGGCGG
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
* * * * *
58161354 TGCAATGGAACAGATTGAAGCCACAATGGTGAATCTTGCTTCCCCGACA
1 TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACA
58161403 TTACAATTAA
Statistics
Matches: 385, Mismatches: 109, Indels: 10
0.76 0.22 0.02
Matches are distributed among these distances:
49 4 0.01
50 378 0.98
51 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGACAG
Found at i:58162515 original size:3 final size:3
Alignment explanation
Indices: 58162509--58162553 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
58162499 TATGGTTTTA
58162509 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58162554 CATCATTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58163772 original size:3 final size:3
Alignment explanation
Indices: 58163764--58163809 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
58163754 GTGAGGTAAG
58163764 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58163810 GTTGTTGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58164643 original size:58 final size:59
Alignment explanation
Indices: 58164575--58164695 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 59
58164565 TATGCCTTAT
58164575 GTCGAAACCATTTTTTTGAAAACAAAAATTTAGTTATCGACTTTAAAAATAAAACTGG-
1 GTCGAAACCATTTTTTTGAAAACAAAAATTTAGTTATCGACTTTAAAAATAAAACTGGA
58164633 GTCGAAACCATTTTTTTGAAAACAAAAATTTAGTTATCGACTTTAAAAATAAAACTGGA
1 GTCGAAACCATTTTTTTGAAAACAAAAATTTAGTTATCGACTTTAAAAATAAAACTGGA
58164692 GTCG
1 GTCG
58164696 CCACCGATCC
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 58 0.94
59 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (59 bp):
GTCGAAACCATTTTTTTGAAAACAAAAATTTAGTTATCGACTTTAAAAATAAAACTGGA
Found at i:58165644 original size:38 final size:38
Alignment explanation
Indices: 58165601--58165673 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
58165591 TAAATATTAT
* *
58165601 TATAAAAA-AATATGA-ATGTATATATAACACATATAAAC
1 TATAAAAATAAAATGATATG-ATA-ATAAAACATATAAAC
58165639 TATAAAAATAAAATGATATGATAATAAAACATATA
1 TATAAAAATAAAATGATATGATAATAAAACATATA
58165674 TACGTACTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 19 0.61
39 9 0.29
40 3 0.10
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (38 bp):
TATAAAAATAAAATGATATGATAATAAAACATATAAAC
Found at i:58178453 original size:38 final size:39
Alignment explanation
Indices: 58178410--58178483 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
58178400 TAAATATTAT
58178410 TATAAAA-AAATATGA-ATG-TATATAAAACACATATAAAC
1 TATAAAATAAA-ATGATATGATA-ATAAAACACATATAAAC
*
58178448 TATAAAATAAAATGATATGATAATAAAACATATATA
1 TATAAAATAAAATGATATGATAATAAAACACATATA
58178484 CGTACTGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
38 11 0.34
39 19 0.59
40 2 0.06
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (39 bp):
TATAAAATAAAATGATATGATAATAAAACACATATAAAC
Found at i:58181643 original size:19 final size:19
Alignment explanation
Indices: 58181627--58181661 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58181617 AATATATTGC
58181627 ATTT-TATACC-TTATATT
1 ATTTATATACCTTTATATT
58181644 ATTTATATACCTTTATAT
1 ATTTATATACCTTTATAT
58181662 ACATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATATACCTTTATATT
Found at i:58181748 original size:12 final size:12
Alignment explanation
Indices: 58181712--58181750 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58181702 TTTAATTTTC
58181712 ATATACATATAT
1 ATATACATATAT
* * *
58181724 TTATACCTTTAT
1 ATATACATATAT
58181736 ATATACATATAT
1 ATATACATATAT
58181748 ATA
1 ATA
58181751 CGTATACATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATACATATAT
Found at i:58184497 original size:14 final size:14
Alignment explanation
Indices: 58184478--58184506 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58184468 TCTTCTTATG
58184478 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
58184492 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
58184506 T
1 T
58184507 ATCAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGGAC
Found at i:58186422 original size:20 final size:20
Alignment explanation
Indices: 58186399--58186444 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
58186389 TTATTTATAA
* *
58186399 TAATTATAATTAAGTAATAT
1 TAATTATAATTAAATAAAAT
*
58186419 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
58186439 T-ATTAT
1 TAATTAT
58186445 TTATAGTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:58186682 original size:27 final size:27
Alignment explanation
Indices: 58186612--58186684 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
58186602 AAAATTGAAA
* *
58186612 TAATTAATTAATAAAATATAATTATTT
1 TAATTAAATAATAAAATATAATAATTT
**
58186639 TAAGGAATATTAA-AAAATAT-ATAATTT
1 TAATTAA-A-TAATAAAATATAATAATTT
58186666 GTAATTAAATAATAAAATA
1 -TAATTAAATAATAAAATA
58186685 ACATTTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
TAATTAAATAATAAAATATAATAATTT
Found at i:58188968 original size:21 final size:22
Alignment explanation
Indices: 58188933--58188979 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
58188923 TTTTTTTAAA
58188933 AAAAAAAGAGAAATCG-AATAC
1 AAAAAAAGAGAAATCGAAATAC
*
58188954 GAAAAAAAG-GCAATCGAAATAC
1 -AAAAAAAGAGAAATCGAAATAC
58188976 AAAA
1 AAAA
58188980 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.66, C:0.11, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAAATAC
Found at i:58189825 original size:4 final size:4
Alignment explanation
Indices: 58189816--58189857 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
58189806 CATGAAAGTT
*
58189816 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
58189858 CATTGATTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:58194104 original size:12 final size:12
Alignment explanation
Indices: 58194072--58194106 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58194062 TTTGTTTTTC
58194072 TTCTTATTATTA
1 TTCTTATTATTA
*
58194084 TTCTCATTATTA
1 TTCTTATTATTA
*
58194096 TTGTTATTATT
1 TTCTTATTATT
58194107 TATTTTTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (12 bp):
TTCTTATTATTA
Found at i:58200550 original size:21 final size:20
Alignment explanation
Indices: 58200504--58200550 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
58200494 ACGATATCCA
58200504 AGCAAAGATTAGAGAAATAG
1 AGCAAAGATTAGAGAAATAG
* * *
58200524 AACAAAGGTTGGAGAAATTAG
1 AGCAAAGATTAGAGAAA-TAG
58200545 AGCAAA
1 AGCAAA
58200551 TGCAAATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.53, C:0.06, G:0.26, T:0.15
Consensus pattern (20 bp):
AGCAAAGATTAGAGAAATAG
Found at i:58201895 original size:27 final size:27
Alignment explanation
Indices: 58201864--58201917 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
58201854 TGGATTGTAG
58201864 CCTATCTTCGGACTTGTTGAGGATGGT
1 CCTATCTTCGGACTTGTTGAGGATGGT
58201891 CCTATCTTCGGACTTGTTGAGGATGGT
1 CCTATCTTCGGACTTGTTGAGGATGGT
58201918 AGAACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.30, T:0.37
Consensus pattern (27 bp):
CCTATCTTCGGACTTGTTGAGGATGGT
Found at i:58202736 original size:26 final size:27
Alignment explanation
Indices: 58202722--58202812 Score: 66
Period size: 26 Copynumber: 3.4 Consensus size: 27
58202712 TGAAAAAATG
58202722 AAAA-AAAAATC-AAAATCAAAAACAA
1 AAAAGAAAAATCAAAAATCAAAAACAA
*
58202747 AAAAGAAAAATC-AAAGTCAAAATA-AA
1 AAAAGAAAAATCAAAAATCAAAA-ACAA
** *
58202773 AAATATGAAAATGAT-AAAAAGAAAAAAGAA
1 AAA-A-GAAAA--ATCAAAAATCAAAAACAA
58202803 AAAAGAAAAA
1 AAAAGAAAAA
58202813 GAAAAGGAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
25 4 0.07
26 22 0.41
27 2 0.04
28 10 0.19
29 2 0.04
30 14 0.26
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (27 bp):
AAAAGAAAAATCAAAAATCAAAAACAA
Found at i:58202800 original size:7 final size:7
Alignment explanation
Indices: 58202788--58202817 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58202778 TGAAAATGAT
58202788 AAAAAGA
1 AAAAAGA
58202795 AAAAAGA
1 AAAAAGA
58202802 AAAAAG-
1 AAAAAGA
58202808 AAAAAGA
1 AAAAAGA
58202815 AAA
1 AAA
58202818 GGAGAGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:58202811 original size:13 final size:14
Alignment explanation
Indices: 58202788--58202817 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
58202778 TGAAAATGAT
58202788 AAAAAGAAAAAAGA
1 AAAAAGAAAAAAGA
58202802 AAAAAG-AAAAAGA
1 AAAAAGAAAAAAGA
58202815 AAA
1 AAA
58202818 GGAGAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:58205173 original size:88 final size:87
Alignment explanation
Indices: 58205010--58205175 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 87
58205000 GATCAGTGAT
* * *
58205010 GATAGCAGATCTTGTCTTCCTGCACTGACAGCGAAGTAGATCGAGGACACCAGTCTTGCCTCCCT
1 GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGTAGATCAAAGACACCAGTCTT-CCTCCCT
* *
58205075 TGGTTACAGTGGAGCAGGTTGAA
65 AGGTCACAGTGGAGCAGGTTGAA
* * * *
58205098 GATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGTAGATCAAAGATACCAATTCTAT-CTCCC
1 GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGTAGATCAAAGACACC-AGTCT-TCCTCCC
58205162 TAGG-CAGCAGTGGA
64 TAGGTCA-CAGTGGA
58205176 ATAGATTGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
87 1 0.02
88 60 0.91
89 4 0.06
90 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (87 bp):
GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGTAGATCAAAGACACCAGTCTTCCTCCCTA
GGTCACAGTGGAGCAGGTTGAA
Found at i:58205214 original size:44 final size:43
Alignment explanation
Indices: 58205153--58205273 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 43
58205143 GATACCAATT
* *
58205153 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCT-GGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * *
58205197 CTATTTCCCTGGTCAGCAGTAGAATAGGTTGAAGATGGTGAATT
1 CTATCTCCCTGG-CAGCAGTGGAATAGATTGAAGATGGTGAATC
*
58205241 CTATCTCCCTGGGCAGTAGTGGAATAGATTGAA
1 CTATCTCCCT-GGCAGCAGTGGAATAGATTGAA
58205274 AATCACAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 61 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
CTATCTCCCTGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
Found at i:58205347 original size:44 final size:42
Alignment explanation
Indices: 58205242--58205575 Score: 142
Period size: 44 Copynumber: 7.6 Consensus size: 42
58205232 TGGTGAATTC
* ** *
58205242 TATCTCCCTGGGCAGTAGTGGAATAGATTGAAAATC-ACAAATCT
1 TATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGA-CGAC-AATCT
* * *
58205286 TCTCTCCCTAAACAGTAGTGGAGCAGATTGAAGACGGCGAATCT
1 TATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGACGAC-AATCT
* * * *
58205330 TATCTTCCCTAGGAGTAG-GGAAGCAGATTTAAG-CCACAAGTCC
1 TATC-TCCCTAGCAGTAGTGG-AGCAGATTGAAGACGACAA-TCT
* * ** * **
58205373 TATCTCTCTAGTCAGCAGTGGAATAGGTTGGAA-ATTACAGATCT
1 TATCTCCCTAG-CAGTAGTGGAGCAGATT-GAAGACGACA-ATCT
* * *
58205417 TATCACCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGACGAC-AATCT
* * * * *
58205461 TATCTTCTCTAGGAGTAG-GGAAGCAGATTTAAG-CCACAAGTCC
1 TATC-TCCCTAGCAGTAGTGG-AGCAGATTGAAGACGACAA-TCT
* * ** * **
58205504 TATCTCCCTGGTTAGTAGTGGAATAGGTTGGAA-ATTACAGATCT
1 TATCTCCCTAG-CAGTAGTGGAGCAGATT-GAAGACGACA-ATCT
58205548 TATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TATCTCCCT-AGCAGTAGTGGAGCAGAT
58205576 CGACAATAGC
Statistics
Matches: 210, Mismatches: 59, Indels: 42
0.68 0.19 0.14
Matches are distributed among these distances:
42 15 0.07
43 43 0.20
44 138 0.66
45 14 0.07
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
TATCTCCCTAGCAGTAGTGGAGCAGATTGAAGACGACAATCT
Found at i:58205426 original size:131 final size:131
Alignment explanation
Indices: 58205241--58205599 Score: 533
Period size: 131 Copynumber: 2.7 Consensus size: 131
58205231 ATGGTGAATT
* * * * * * * * *
58205241 CTATCTCCCTGGGCAGTAGTGGAATAGATTGAAAATCACAAATCTTCTCTCCCTAAACAGTAGTG
1 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
*
58205306 GAGCAGATTGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
58205371 C
131 C
* *
58205372 CTATCTCTCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCACCCTAAGCAGTAGTG
1 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
*
58205437 GAGCAGATCGAAGACGGCGAATCTTATCTTCTCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
58205502 C
131 C
* * *
58205503 CTATCTCCCTGGTTAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
1 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
**
58205568 GAGCAGATCGACA-ATAGCGAATCTTA-CTTCCC
66 GAGCAGATCGA-AGACGGCGAATCTTATCTTCCC
58205600 AGGCGGTGTA
Statistics
Matches: 206, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
130 5 0.02
131 200 0.97
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (131 bp):
CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
C
Found at i:58205688 original size:49 final size:49
Alignment explanation
Indices: 58205617--58205866 Score: 195
Period size: 49 Copynumber: 5.1 Consensus size: 49
58205607 GTAGTGGAAC
* * *
58205617 AGATTAAAGCCACAAC-GACGAATATCACTTCCTCGACATTGCAGTTAAA
1 AGATTAAAGCTACAACAG-CGAATCTTACTTCCTCGACATTGCAGTTAAA
* * * * * * *
58205666 ATATTAAAGCTACAATAGCGAATCTTATTTCCT-GGCAGTGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGT-TAAA
* * * *
58205715 AGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTT-AA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAA
* * * *
58205763 AGATTAAAGCTACAACAGCGAATCTTATTTCCT-GAAAGTGCAG-CAGAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTA-AA
* * * ** * *
58205811 CAGATTAAAGCCACAACGGCCAATCTTGTTTCCCCGACATTGCAATTAAA
1 -AGATTAAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAA
58205861 CAGATT
1 -AGATT
58205867 GAAGACAGTA
Statistics
Matches: 155, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
47 8 0.05
48 40 0.26
49 81 0.52
50 25 0.16
51 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (49 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAA
Found at i:58205728 original size:98 final size:97
Alignment explanation
Indices: 58205578--58205828 Score: 349
Period size: 97 Copynumber: 2.6 Consensus size: 97
58205568 GAGCAGATCG
* * * *
58205578 ACAATAGCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGACGAATATC
1 ACAATAGCGAATCTTA-TTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATATC
*
58205643 ACTTCCTCGACATTGCAGTTAAAATATTAAAGCT
65 ACTTCCTCGACATTGCAGTT-AAAGATTAAAGCT
** * **
58205677 ACAATAGCGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG
1 ACAATAGCGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATATCA
58205742 CTTCCTCGACATTGCAGTTAAAGATTAAAGCT
66 CTTCCTCGACATTGCAGTTAAAGATTAAAGCT
* ** **
58205774 ACAACAGCGAATCTTATTTCCTGAAAGTGCAGCAGAACAGATTAAAGCCACAACG
1 ACAATAGCGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACG
58205829 GCCAATCTTG
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
97 62 0.45
98 59 0.43
99 16 0.12
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (97 bp):
ACAATAGCGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATATCA
CTTCCTCGACATTGCAGTTAAAGATTAAAGCT
Found at i:58205816 original size:97 final size:97
Alignment explanation
Indices: 58205613--58205860 Score: 352
Period size: 97 Copynumber: 2.5 Consensus size: 97
58205603 CGGTGTAGTG
* * ** *
58205613 GAACAGATTAAAGCCACAACGACGAATATCACTTCCTCGACATTGCAGTTAAAATATTAAAGCTA
1 GAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAGTT-AAAGATTAAAGCTA
* ** **
58205678 CAATAGCGAATCTTATTTCCTGGCAGTGCAGTG
65 CAACAGCGAATCTTATTTCCTGAAAGTGCAGCA
*
58205711 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAGATTAAAGCTAC
1 GAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAGTTAAAGATTAAAGCTAC
58205776 AACAGCGAATCTTATTTCCTGAAAGTGCAGCA
66 AACAGCGAATCTTATTTCCTGAAAGTGCAGCA
* * * *
58205808 GAACAGATTAAAGCCACAACGGCCAATCTTGTTTCCCCGACATTGCAATTAAA
1 GAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAGTTAAA
58205861 CAGATTGAAG
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
97 89 0.66
98 45 0.34
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (97 bp):
GAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAGTTAAAGATTAAAGCTAC
AACAGCGAATCTTATTTCCTGAAAGTGCAGCA
Found at i:58206116 original size:44 final size:44
Alignment explanation
Indices: 58205861--58206601 Score: 307
Period size: 44 Copynumber: 17.1 Consensus size: 44
58205851 TGCAATTAAA
* *
58205861 CAGATTGAAGACAGTAATCCTATCTCCCTGAAGTTACAGTGGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * *
58205905 TGGATT-AAAATAATAGATCTTATCTCTCTGAAGTTGCAGT--AG
1 CAGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
* ** * * *
58205947 -AG-TAGATCACA-TCAAGTCTTATCTCCCTGAGGTTGCAGCGAAG
1 CAGATTGAAGACAGT-AA-TCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * * * *
58205990 CAGACTG-AGAAAGCAAGTCTTATCCCCCTGAATTTACAATGGGG
1 CAGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAG
* *
58206034 TAGACTGAAGATC-GTGAATCTTATCTCCCTG-AGTTTGCAGTGGAG
1 CAGATTGAAGA-CAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAG
* * *
58206079 CAGATTGAAGCCAGTAATCCTATCTCTCTGAAGTTGCAGTGGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * * **
58206123 CAAATTCAA-ACAATAGATCTTCTATCTCTGAAGTTGCAGCAGAG
1 CAGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * * * *
58206167 TGGATCGCA-TCAG--GTCTTATCTCCCTGAGGTTGCAGCGGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * *
58206208 CAGA-CCAAGAAAGCAAGTCTTATC-CCTCTGAAGTTACAGTGGGG
1 CAGATTGAAGACAGTAA-TCTTATCTCC-CTGAAGTTGCAGTGGAG
* **
58206252 CAGACTGAAGATGGTGAATCTTATCTCCCTG-AGTTTGCAGTGGAG
1 CAGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAG
* * * *
58206297 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * **
58206341 CAGATT-CA-A-A-TAA--TTATCTCTCTGAAGTTACAGCAGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * * * **
58206379 TGGATCGCA-TCA--ATTCTTATCTCCCTGAGGTTGCAGCAGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
*** * * *
58206420 CA-AACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGG-G
1 CAGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAG
* **
58206463 ACAGACTGAAGATGGTGAATCTTATCTCCCTG-AGTTTGCAGTGGAG
1 -CAGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAG
* * * * *
58206509 CAGATTGAGGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAG
1 CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * *
58206553 CGGATT-AAAACAATAGATCTTATCTCTCTGAGGTTGCAGTAGAG
1 CAGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
*
58206597 TAGAT
1 CAGAT
58206602 CGTATCAGAT
Statistics
Matches: 510, Mismatches: 146, Indels: 82
0.69 0.20 0.11
Matches are distributed among these distances:
38 23 0.05
39 3 0.01
40 12 0.02
41 75 0.15
42 2 0.00
43 22 0.04
44 251 0.49
45 113 0.22
46 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:58206259 original size:218 final size:218
Alignment explanation
Indices: 58205861--58206608 Score: 1121
Period size: 218 Copynumber: 3.5 Consensus size: 218
58205851 TGCAATTAAA
* * ** *
58205861 CAGATTGAAGACAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAATAGATCTT
1 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAATAGATCTT
* * *
58205926 ATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAAGTCTTATCTCCCTGAGGTTGCAGCGAAGC
66 ATCTCTCTGAAGTTGCAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCGGAGC
** * * * *
58205991 AGACTGAGAAAGCAAGTCTTATCCCCCTGAATTTACAATGGGGTAGACTGAAGATCGTGAATCTT
131 AGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTACAGTGGGGCAGACTGAAGATGGTGAATCTT
58206056 ATCTCCCTGAGTTTGCAGTGGAG
196 ATCTCCCTGAGTTTGCAGTGGAG
* * * * *
58206079 CAGATTGAAGCCAGTAATCCTATCTCTCTGAAGTTGCAGTGGAGCAAATTCAAACAATAGATCTT
1 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAATAGATCTT
* * * *
58206144 CTATCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGC
66 ATCTCTCTGAAGTTGCAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCGGAGC
*
58206209 AGACCAAGAAAGCAAGTCTTATCCCTCTGAAGTTACAGTGGGGCAGACTGAAGATGGTGAATCTT
131 AGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTACAGTGGGGCAGACTGAAGATGGTGAATCTT
58206274 ATCTCCCTGAGTTTGCAGTGGAG
196 ATCTCCCTGAGTTTGCAGTGGAG
*
58206297 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATT--CA-AATA-A--TT
1 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAATAGATCTT
* * * *
58206356 ATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAATTCTTATCTCCCTGAGGTTGCAGCAGAGC
66 ATCTCTCTGAAGTTGCAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCGGAGC
* * *
58206421 AAACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGACAGACTGAAGATGGTGAATCTT
131 AGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTACAGTGGGGCAGACTGAAGATGGTGAATCTT
58206486 ATCTCCCTGAGTTTGCAGTGGAG
196 ATCTCCCTGAGTTTGCAGTGGAG
* *
58206509 CAGATTGAGGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACAATAGATCTT
1 CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAATAGATCTT
* * *
58206574 ATCTCTCTGAGGTTGCAGTAGAGTAGATCGTATCA
66 ATCTCTCTGAAGTTGCAGCAGAGTAGATCGCATCA
58206609 GATCTTACTT
Statistics
Matches: 479, Mismatches: 45, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
212 193 0.40
214 2 0.00
215 8 0.02
216 2 0.00
218 274 0.57
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (218 bp):
CAGATTGAAGCCAGTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAATAGATCTT
ATCTCTCTGAAGTTGCAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCGGAGC
AGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTACAGTGGGGCAGACTGAAGATGGTGAATCTT
ATCTCCCTGAGTTTGCAGTGGAG
Found at i:58206332 original size:89 final size:89
Alignment explanation
Indices: 58206181--58206344 Score: 206
Period size: 89 Copynumber: 1.8 Consensus size: 89
58206171 TCGCATCAGG
* *
58206181 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCTCTGAAGTTACA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCCTATCCCTCTAAAGTTACA
*
58206246 GTGGGGCAGACTGAAGATGGTGAA
66 GTGGAGCAGACTGAAGATGGTGAA
* * ** ** *
58206270 TCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAA-TCCTATCTCC-CTAAAGTTA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGA-CCAAGAAAGCAAGTCCTATC-CCTCTAAAGTTA
58206333 CAGTGGAGCAGA
64 CAGTGGAGCAGA
58206345 TTCAAATAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 54 0.86
90 9 0.14
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (89 bp):
TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCCTATCCCTCTAAAGTTACA
GTGGAGCAGACTGAAGATGGTGAA
Found at i:58206732 original size:50 final size:49
Alignment explanation
Indices: 58206614--58206732 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 49
58206604 TATCAGATCT
* * * *
58206614 TACTTCCCAGATGGTGTAGTAAAACAAATTTAAGCTACAACGGCGAATCT
1 TACTTCCC-GACGGTGTAGTAAAACAAATTGAAGCTACAACAGCGAATCA
* ** *
58206664 TTCTTTCCCGACATTGTAGTTAAAA-AGATTGAAGCTACAACAGCGAATCA
1 TAC-TTCCCGACGGTGTAG-TAAAACAAATTGAAGCTACAACAGCGAATCA
58206714 TACTTCCCTGACGGTGTAG
1 TACTTCCC-GACGGTGTAG
58206733 GGGAACATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
49 5 0.09
50 40 0.73
51 10 0.18
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (49 bp):
TACTTCCCGACGGTGTAGTAAAACAAATTGAAGCTACAACAGCGAATCA
Found at i:58207059 original size:23 final size:22
Alignment explanation
Indices: 58207025--58207071 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
58207015 TTTCTCGCCT
*
58207025 ATAATAAAAAAAATCAAATCAAA
1 ATAATAAAAAAAACCAAAT-AAA
58207048 ATAA-AAATAAAAACCAAATAAA
1 ATAATAAA-AAAAACCAAATAAA
58207070 AT
1 AT
58207072 CACAGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (22 bp):
ATAATAAAAAAAACCAAATAAA
Found at i:58208257 original size:18 final size:19
Alignment explanation
Indices: 58208234--58208269 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58208224 ATATTAGTTT
*
58208234 ATATATTTAC-TTATTTTC
1 ATATATATACATTATTTTC
58208252 ATATATATACATTATTTT
1 ATATATATACATTATTTT
58208270 ATTTTATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATATATACATTATTTTC
Found at i:58217523 original size:24 final size:24
Alignment explanation
Indices: 58217502--58217593 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
58217492 CCGTTAAGTT
* *
58217502 CTCTTCGAAGCTACCCGTTAAGTG
1 CTCTTCGAAGCTACCCATTAATTG
**
58217526 CTCTTTAAAGCTACCCATTAATTG
1 CTCTTCGAAGCTACCCATTAATTG
58217550 CTCTTCGAAGCTACCCATTAATTG
1 CTCTTCGAAGCTACCCATTAATTG
*
58217574 CTCTTCGGAGCTACCCATTA
1 CTCTTCGAAGCTACCCATTA
58217594 TAGGCTCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (24 bp):
CTCTTCGAAGCTACCCATTAATTG
Found at i:58231499 original size:60 final size:58
Alignment explanation
Indices: 58231435--58231556 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 58
58231425 AGTATTTTAG
* * * *
58231435 TATACCCAAATATGTAAAGGT-ACAATT-TTAGAAATTTTGATATTTTATTACAAATTTTGA
1 TATACCAAAATATCT-AAGGTCAC-ATTCTTA-AAATTTT-ATATTTCACTACAAATTTTGA
* *
58231495 TATACCAAAATATCTAAGGTCACATTCTTAAAATTTTCTATTTCACTATAAATTTTGA
1 TATACCAAAATATCTAAGGTCACATTCTTAAAATTTTATATTTCACTACAAATTTTGA
58231553 TATA
1 TATA
58231557 TAAAAGGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
58 21 0.39
59 15 0.28
60 18 0.33
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (58 bp):
TATACCAAAATATCTAAGGTCACATTCTTAAAATTTTATATTTCACTACAAATTTTGA
Found at i:58233383 original size:21 final size:19
Alignment explanation
Indices: 58233362--58233418 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
58233352 GGTTTTGAGT
58233362 TTTTTTTATAAATTTTTAAG
1 TTTTTTTATAAATTTTT-AG
*
58233382 TTTTTTTATATATTCTTTAG
1 TTTTTTTATAAATT-TTTAG
58233402 ATTTTTTTAT-AATTTTT
1 -TTTTTTTATAAATTTTT
58233419 TGAGATGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 3 0.09
20 18 0.55
21 12 0.36
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTTTATAAATTTTTAG
Found at i:58233424 original size:21 final size:21
Alignment explanation
Indices: 58233354--58233424 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
58233344 TTGTGAAGGG
* *
58233354 TTTTGAGTTTTTTTTATAAAT
1 TTTTGAGATTTTTTTATAATT
*
58233375 TTTTAAG-TTTTTTTATATATT
1 TTTTGAGATTTTTTTATA-ATT
*
58233396 CTTT-AGATTTTTTTATAATT
1 TTTTGAGATTTTTTTATAATT
58233416 TTTTGAGAT
1 TTTTGAGAT
58233425 GTAAAGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
20 18 0.42
21 25 0.58
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.66
Consensus pattern (21 bp):
TTTTGAGATTTTTTTATAATT
Found at i:58238129 original size:18 final size:19
Alignment explanation
Indices: 58238102--58238137 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58238092 AAAGATAGAG
58238102 TTGAGAGAGAAA-TAAAAT
1 TTGAGAGAGAAATTAAAAT
*
58238120 TTGAGTGAGAAATTAAAA
1 TTGAGAGAGAAATTAAAA
58238138 GGGAATTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
TTGAGAGAGAAATTAAAAT
Found at i:58247285 original size:3 final size:3
Alignment explanation
Indices: 58247279--58247304 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58247269 AAAAAAAAAA
58247279 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
58247305 CAAAGCAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58248535 original size:20 final size:20
Alignment explanation
Indices: 58248510--58248547 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58248500 GAGATTAGAT
58248510 AGATAAAATATCATTTTAAG
1 AGATAAAATATCATTTTAAG
*
58248530 AGATAAAATATTATTTTA
1 AGATAAAATATCATTTTA
58248548 TAATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (20 bp):
AGATAAAATATCATTTTAAG
Found at i:58248555 original size:15 final size:15
Alignment explanation
Indices: 58248532--58248566 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
58248522 ATTTTAAGAG
* *
58248532 ATAAAATATTATTTT
1 ATAATATATTAATTT
58248547 ATAATATATTAATTT
1 ATAATATATTAATTT
58248562 ATAAT
1 ATAAT
58248567 TTAAACACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATATATTAATTT
Found at i:58257335 original size:18 final size:19
Alignment explanation
Indices: 58257312--58257351 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
58257302 ATTTTAAATC
*
58257312 TATTTTAT-ACTAGTTTTT
1 TATTTTATCACAAGTTTTT
*
58257330 TATTTTATCACAATTTTTT
1 TATTTTATCACAAGTTTTT
58257349 TAT
1 TAT
58257352 ATTGGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTTATCACAAGTTTTT
Found at i:58257419 original size:22 final size:23
Alignment explanation
Indices: 58257366--58257419 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
58257356 GTTTGTTTAT
*
58257366 TTTATTTTTCTTGCCAATATTAG
1 TTTATTTTTATTGCCAATATTAG
*
58257389 TGTTA-TTTTATT-CCATTATTAG
1 T-TTATTTTTATTGCCAATATTAG
58257411 TTTATTTTT
1 TTTATTTTT
58257420 TTTAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 14 0.52
23 7 0.26
24 3 0.11
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTATTTTTATTGCCAATATTAG
Found at i:58257586 original size:12 final size:12
Alignment explanation
Indices: 58257569--58257599 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
58257559 GCAATGATTT
58257569 GCTTATTAATAC
1 GCTTATTAATAC
58257581 GCTTATTAATAC
1 GCTTATTAATAC
*
58257593 ACTTATT
1 GCTTATT
58257600 GTAATCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (12 bp):
GCTTATTAATAC
Found at i:58258561 original size:19 final size:19
Alignment explanation
Indices: 58258539--58258580 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
58258529 TGAGTTGTTT
* *
58258539 AATGCTCGAGCATGTAGGA
1 AATGCTAGAGCATATAGGA
*
58258558 AATGGTAGAGCATATAGGA
1 AATGCTAGAGCATATAGGA
58258577 AATG
1 AATG
58258581 GTAATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (19 bp):
AATGCTAGAGCATATAGGA
Found at i:58258581 original size:19 final size:19
Alignment explanation
Indices: 58258546--58258583 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58258536 TTTAATGCTC
*
58258546 GAGCATGTAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
58258565 GAGCATATAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
58258584 ATTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.21
Consensus pattern (19 bp):
GAGCATATAGGAAATGGTA
Found at i:58258690 original size:41 final size:42
Alignment explanation
Indices: 58258612--58258692 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
58258602 ATTTTAGGTC
58258612 CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
1 CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
* *
58258654 CACACGACTAGCACACAGGCGTATG-G-CTTGGCCGTGTGA
1 CACACGACTAG-ACACAGGAGCATGTGACTTGGCCGTGTGA
58258693 CCCAAGTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 13 0.36
42 12 0.33
43 11 0.31
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (42 bp):
CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
Done.