Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004092.1 Hibiscus syriacus cultivar Beakdansim tig00008952_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 139210
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2796 original size:91 final size:91
Alignment explanation
Indices: 2580--2845 Score: 454
Period size: 91 Copynumber: 3.0 Consensus size: 91
2570 AATCTCTCTC
* *
2580 TATATATATATATATTAGTG-AA--ATTATTGGATATTGAACATATGTTTTTGTTGTATCAGACC
1 TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAAC-TATGTTTTTGTTGTATCAGACC
2642 TGA-TTTCAGTTAGTAATTAG--TATA
65 TGATTTTCAGTTAGTAATTAGTATATA
2666 TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAACTATGTTTTTGTTGTATCAGACCT
1 TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAACTATGTTTTTGTTGTATCAGACCT
2731 GATTTTCAGTTAGTAATTAGTATATA
66 GATTTTCAGTTAGTAATTAGTATATA
2757 TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAACTATGTTTTTGTTGTATCAGACCT
1 TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAACTATGTTTTTGTTGTATCAGACCT
*
2822 GATTTTCAGTTGGTAATTAGTATA
66 GATTTTCAGTTAGTAATTAGTATA
2846 GTGGTTTGGA
Statistics
Matches: 171, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
86 18 0.11
87 2 0.01
88 25 0.15
89 34 0.20
91 92 0.54
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.46
Consensus pattern (91 bp):
TATATATATGTAAATTAGTGAAATTATTATTGGATATTGAACTATGTTTTTGTTGTATCAGACCT
GATTTTCAGTTAGTAATTAGTATATA
Found at i:9796 original size:20 final size:19
Alignment explanation
Indices: 9749--9796 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
9739 TGAAACACTA
*
9749 AAATTAACAA-TATAAAAT
1 AAATTAATAATTATAAAAT
*
9767 TAATTAATAATTATAAAGAT
1 AAATTAATAATTATAAA-AT
*
9787 AAATTTATAA
1 AAATTAATAA
9797 ACTTATTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 8 0.33
19 6 0.25
20 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATTAATAATTATAAAAT
Found at i:17603 original size:19 final size:19
Alignment explanation
Indices: 17574--17622 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
17564 TTAATTTTTT
* * *
17574 CTTCTTTTTCTCCTGTTTA
1 CTTCTTCTTCTCCAGGTTA
*
17593 TTTCTTCTTCTCCAGGTTA
1 CTTCTTCTTCTCCAGGTTA
17612 CTTCTTCTTCT
1 CTTCTTCTTCT
17623 TCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.59
Consensus pattern (19 bp):
CTTCTTCTTCTCCAGGTTA
Found at i:23546 original size:35 final size:37
Alignment explanation
Indices: 23480--23548 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
23470 AAATAACGTG
* *
23480 ATTTTATATCTTTAAAAGAATTGAAATTTAAATCGTA
1 ATTTTACATCTCTAAAAGAATTGAAATTTAAATCGTA
23517 ATTTTACATCTCTAAAA-AA-TGAAATTTAAATC
1 ATTTTACATCTCTAAAAGAATTGAAATTTAAATC
23549 AAAACGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 13 0.43
36 2 0.07
37 15 0.50
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (37 bp):
ATTTTACATCTCTAAAAGAATTGAAATTTAAATCGTA
Found at i:32370 original size:24 final size:23
Alignment explanation
Indices: 32343--32400 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
32333 ACATAGGGGA
32343 GAGGAAATTACACGAAAAAATAGC
1 GAGGAAATTACACGAAAAAATA-C
* *
32367 GAGGAAAATACACGAGAAAATAC
1 GAGGAAATTACACGAAAAAATAC
*
32390 GA-GAGATTACA
1 GAGGAAATTACA
32401 TACGAAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 7 0.23
23 3 0.10
24 20 0.67
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (23 bp):
GAGGAAATTACACGAAAAAATAC
Found at i:33054 original size:16 final size:16
Alignment explanation
Indices: 33033--33071 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
33023 GTATATGTTC
33033 CATATTTCATTTTAAT
1 CATATTTCATTTTAAT
33049 CATATTTCATTTTAAT
1 CATATTTCATTTTAAT
33065 CATATTT
1 CATATTT
33072 ATATTAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (16 bp):
CATATTTCATTTTAAT
Found at i:33095 original size:31 final size:32
Alignment explanation
Indices: 33033--33095 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
33023 GTATATGTTC
* *
33033 CATATTTCATTTTAATCATATTTCATTTTAAT
1 CATATTTCATATTAATCATATTTAATTTTAAT
*
33065 CATATTT-ATATTAATGAT-TTTAATTATTAAT
1 CATATTTCATATTAATCATATTTAATT-TTAAT
33096 TTTGTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.22
31 14 0.52
32 7 0.26
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (32 bp):
CATATTTCATATTAATCATATTTAATTTTAAT
Found at i:33413 original size:4 final size:4
Alignment explanation
Indices: 33404--33443 Score: 62
Period size: 4 Copynumber: 9.5 Consensus size: 4
33394 TTTTATATAA
33404 TATT TATT TATT TATT TATT TATT TATTT TGATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA-TT T-ATT TATT TA
33444 ATATTCGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.79
5 6 0.18
6 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:35214 original size:7 final size:7
Alignment explanation
Indices: 35202--35230 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
35192 CTAAGATATT
35202 TCATGCA
1 TCATGCA
35209 TCATGCA
1 TCATGCA
35216 TCATGCA
1 TCATGCA
35223 TCATGCA
1 TCATGCA
35230 T
1 T
35231 TTAGACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (7 bp):
TCATGCA
Found at i:36353 original size:16 final size:16
Alignment explanation
Indices: 36334--36366 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36324 TAAAAACAGT
36334 AAATAAAAAGAAAATA
1 AAATAAAAAGAAAATA
*
36350 AAATAAAAAGAAGATA
1 AAATAAAAAGAAAATA
36366 A
1 A
36367 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:36888 original size:23 final size:23
Alignment explanation
Indices: 36843--36891 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
36833 ATAAAGAACC
*
36843 AAAATAAACTTAAATATATCATT
1 AAAATAAACTTAAATACATCATT
*
36866 AAAATAAAGTTAAA-ACATCCATT
1 AAAATAAACTTAAATACAT-CATT
36889 AAA
1 AAA
36892 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAACTTAAATACATCATT
Found at i:40512 original size:84 final size:82
Alignment explanation
Indices: 40355--41353 Score: 828
Period size: 84 Copynumber: 12.2 Consensus size: 82
40345 TTTAAGACAA
* * * * * *
40355 CATTTGCAGCATAACTCAA-TGCTAGAAGGGTTTTATGCCAACAAAGACCTTTGAGTTCGACTA-
1 CATTTACAGCATAACTCAAGT-CGAGAAGGGTTATCT-CCACCAAAGACCTTCGAGTTCGACTAC
*
40418 AGCTCAGCTCCAAGGCATAT
64 A-CTCAGCTCCAAGGCACAT
* *
40438 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCT-CC-ACCAAAGACCTTCGAGTTCGACTAC
*
40503 ACTCAGCTCCAAGGCACCT
64 ACTCAGCTCCAAGGCACAT
* * * * * ** * *
40522 TATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGTA--AAAGATCATT-GAGTTCGATTACA
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGA-CCTTCGAGTTCGACTACA
* * *
40584 CTCAGCTTCGAGGGCACAA
65 CTCAGC-TCCAAGGCACAT
* * * * *
40603 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTTCCA--AAAGACCTTCAAGTTCGACTACG
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATC-TCCACCAAAGACCTTCGAGTTCGACTACA
40666 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * * * * *
40684 CATTTACAACATAGCTTAAGTCGAGAAGGGTTATCT--GCCAAAGACCTTCTAGATCGATTACAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGACCTTCGAGTTCGACTACAC
* * *
40747 TCAACTTCGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
* ** * * *
40765 TATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCT-CCACC-AAAGACCTTCGAGTTCGACTAC
* * *
40830 GCTAAGCTCTAAGGCACAT
64 ACTCAGCTCCAAGGCACAT
* * * * * **
40849 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT--GCCAAAGACCCCCGAGTTCGACTACAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGACCTTCGAGTTCGACTACAC
* * * *
40912 TCAACTTCGAGGGCACCT
66 TCAGC-TCCAAGGCACAT
* *
40930 CATTTACAGCATAACTCAA-TGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTA
1 CATTTACAGCATAACTCAAGT-CGAGAAGGGTTATCT-CCACC-AAAGACCTTCGAGTTCGACTA
* * *
40994 CGCTCAGCTCTAAGGCATAT
63 CACTCAGCTCCAAGGCACAT
** * * *
41014 CATTTACAGCATAACTTTAGTCGAGAAGGGTTATCTGCCAACTAAAGACATTTGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCT-CC-ACCAAAGACCTTCGAGTTCGACTAC
* *
41079 GCTCAACT-CAAGGCACAT
64 ACTCAGCTCCAAGGCACAT
* * * * * * * *
41097 CATTTACAACATAGCTTAAGTCGAGAAGGGCTATCT--GCCAAAGACCTTCGAGTTTGGCTACGC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGACCTTCGAGTTCGACTACAC
* *
41160 TCAGCTTCGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
* * * * * * * *
41178 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACATTTGAGTTCGATTACA
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCT-CCACCAAAGACCTTCGAGTTCGACTACA
*
41243 CTCAGCT-TAACGGCACAT
65 CTCAGCTCCAA-GGCACAT
* * * * * * *
41261 CATTTGCGGTATAACTCAAGGCTAGAAGGGTTATCT-C-CCAAAGACCTTTGAGTTCGACTACGC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGACCTTCGAGTTCGACTACAC
*
41324 TCAGCTCTAAGGCACAT
66 TCAGCTCCAAGGCACAT
41341 CATTTACAGCATA
1 CATTTACAGCATA
41354 GTCCAAGACA
Statistics
Matches: 740, Mismatches: 147, Indels: 61
0.78 0.16 0.06
Matches are distributed among these distances:
79 25 0.03
80 119 0.16
81 201 0.27
82 25 0.03
83 113 0.15
84 205 0.28
85 52 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (82 bp):
CATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTCCACCAAAGACCTTCGAGTTCGACTACAC
TCAGCTCCAAGGCACAT
Found at i:40886 original size:165 final size:162
Alignment explanation
Indices: 40431--41354 Score: 1018
Period size: 165 Copynumber: 5.6 Consensus size: 162
40421 TCAGCTCCAA
* * * * * * **
40431 GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC--CCAAAGACCTTCGAGTT
* * * * * * **
40496 CGACTACACTCAGCTCCAAGGCACCTTATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGTA
64 CGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
* *
40561 AAAGATCATTGAGTTCGATTACACTCAGCTTCGAG
129 AAAGA-CATTTAGTTCGATTACACTCAACTTCGAG
* * *
40596 GGCACAACATTTACAGTATAACTCAAGGCTAGAAGGGTTATCT-TCCAAAAGACCTTCAAGTTCG
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCCCAAAGACCTTCGAGTTCG
* *
40660 ACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
66 ACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
* *
40725 AGACCTTCTAGATCGATTACACTCAACTTCGAG
131 AGACATT-TAGTTCGATTACACTCAACTTCGAG
* *
40758 GGCACATTATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC-CC-AAAGACCTTCGAGTT
* * *
40823 CGACTACGCTAAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
64 CGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
**** *
40888 AAAGACCCCCGAGTTCGACTACACTCAACTTCGAG
129 AAAGA-CATTTAGTTCGATTACACTCAACTTCGAG
* * *
40923 GGCACCTCATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC-CC-AAAGACCTTCGAGTT
* * *
40988 CGACTACGCTCAGCTCTAAGGCATATCATTTACAGCATAACTTTAGTCGAGAAGGGTTATCTGCC
64 CGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C
* * *
41053 AACTAAAGACATTTGAGTTCGACTACGCTCAAC-TC-AA
128 --C-AAAGACATTT-AGTTCGATTACACTCAACTTCGAG
** * * * * * *
41090 GGCACATCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCTTCGAGTTTG
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCCCAAAGACCTTCGAGTTCG
* * * * * * * * *
41153 GCTACGCTCAGCTTCGAGGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCA
66 ACTACGCTCAGC-TCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C-
* * *
41218 ACAAAGACATTTGAGTTCGATTACACTCAGCTT-AAC
128 -CAAAGACATTT-AGTTCGATTACACTCAACTTCGAG
* * *
41254 GGCACATCATTTGCGGTATAACTCAAGGCTAGAAGGGTTATC--TCCCAAAGACCTTTGAGTTCG
1 GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCCCAAAGACCTTCGAGTTCG
41317 ACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAG
66 ACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAG
41355 TCCAAGACAA
Statistics
Matches: 650, Mismatches: 94, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
161 3 0.00
162 139 0.21
163 76 0.12
164 112 0.17
165 254 0.39
166 3 0.00
167 37 0.06
168 4 0.01
169 22 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (162 bp):
GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCCCAAAGACCTTCGAGTTCG
ACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
AGACATTTAGTTCGATTACACTCAACTTCGAG
Found at i:41346 original size:327 final size:324
Alignment explanation
Indices: 40355--41353 Score: 1179
Period size: 327 Copynumber: 3.0 Consensus size: 324
40345 TTTAAGACAA
* * * * * *
40355 CATTTGCAGCATAACTCAA-TGCTAGAAGGGTTTTATGCCAACAAAGACCTTTGAGTTCGACTAA
1 CATTTACAGCATAACTTAAGT-CGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTAC
* * * * *
40419 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAA
65 GCTCAACT-CAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCT----GCCAAA
* * *
40484 GACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACCTTATTTGCAGCATAGCTTAAGTCGAGAA
125 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* * *
40549 GGGTTATTTGTA-AAAGATCATTGAGTTCGATTACACTCAGCTTCGAGGGCACAACATTTACAGT
190 GGGTTATCTGCACAAAGA-CATTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGT
* * *
40613 ATAACTCAAGGCTAGAAGGGTTATCTTCCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAG
254 ATAACTCAAGGCTAGAAGGGTTATCTTCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
40678 GCACAT
319 GCACAT
* * * *
40684 CATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTG-C--CAAAGACCTTCT-AGATCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTT-TGAGTTCGACTAC
* * * * * * *
40745 ACTCAACTTCGAGGGCACATTATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
65 GCTCAAC-TC-AAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTG---CC-AA
* *
40810 AGACCTTCGAGTTCGACTACGCTAAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
124 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* *** * * *
40875 AGGGCTATCTGC-CAAAGACCCCCGAGTTCGACTACACTCAACTTCGAGGGCACCTCATTTACAG
189 AGGGTTATCTGCACAAAGA-CATTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
40939 CATAACTCAATGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
253 TATAACTCAAGGCTAGAAGGGTTATCT-TC-CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
41004 TAAGGCATAT
315 TAAGGCACAT
* *
41014 CATTTACAGCATAACTTTAGTCGAGAAGGGTTATCTGCCAACTAAAGACATTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTAC
* *
41079 GCTCAACTCAAGGCACATCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCT
65 GCTCAACTCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCT
* * * * * * * * *
41144 TCGAGTTTGGCTACGCTCAGCTTCGAGGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGT
130 TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGT
* * * *
41209 TATCTGCCAACAAAGACATTTGAGTTCGATTACACTCAGCTT-AACGGCACATCATTTGCGGTAT
194 TATCTG-C-ACAAAGACA-TTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTAT
*
41273 AACTCAAGGCTAGAAGGGTTATC-TCCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCTAAGGC
256 AACTCAAGGCTAGAAGGGTTATCTTCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGC
41337 ACAT
321 ACAT
41341 CATTTACAGCATA
1 CATTTACAGCATA
41354 GTCCAAGACA
Statistics
Matches: 564, Mismatches: 84, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
326 26 0.05
327 229 0.41
328 31 0.05
329 74 0.13
330 74 0.13
331 40 0.07
332 63 0.11
333 4 0.01
334 23 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (324 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACG
CTCAACTCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTT
CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTA
TCTGCACAAAGACATTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTC
AAGGCTAGAAGGGTTATCTTCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACAT
Found at i:42435 original size:24 final size:23
Alignment explanation
Indices: 42408--42466 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
42398 ACATAGGGGA
42408 GAGGAAATTACATGAAAAAATAGC
1 GAGGAAATTACATGAAAAAATA-C
* * *
42432 GAGGAAAATACACGAGAAAATAC
1 GAGGAAATTACATGAAAAAATAC
*
42455 GA-GAGATTACAT
1 GAGGAAATTACAT
42467 ACGAAATACG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 7 0.24
23 3 0.10
24 19 0.66
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.15
Consensus pattern (23 bp):
GAGGAAATTACATGAAAAAATAC
Found at i:43117 original size:16 final size:16
Alignment explanation
Indices: 43096--43134 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
43086 GTATATGTTC
43096 CATATTTCATTTTAAT
1 CATATTTCATTTTAAT
43112 CATATTTCATTTTAAT
1 CATATTTCATTTTAAT
43128 CATATTT
1 CATATTT
43135 ATATTAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (16 bp):
CATATTTCATTTTAAT
Found at i:43158 original size:31 final size:32
Alignment explanation
Indices: 43096--43158 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
43086 GTATATGTTC
* *
43096 CATATTTCATTTTAATCATATTTCATTTTAAT
1 CATATTTCATATTAATCATATTTAATTTTAAT
*
43128 CATATTT-ATATTAATGAT-TTTAATTATTAAT
1 CATATTTCATATTAATCATATTTAATT-TTAAT
43159 TTTGTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.22
31 14 0.52
32 7 0.26
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (32 bp):
CATATTTCATATTAATCATATTTAATTTTAAT
Found at i:43492 original size:18 final size:18
Alignment explanation
Indices: 43469--43537 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
43459 TTATCTAATA
43469 TTTATTTATTTATTT-TAT
1 TTTATTTATTTATTTCT-T
43487 TTTATTTTATTT-TTTCTT
1 TTTA-TTTATTTATTTCTT
43505 TTTGATTTATTTAATATTCGTT
1 TTT-ATTTATTT-AT-TTC-TT
43527 TATTATTTATT
1 T-TTATTTATT
43538 ATCTAACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
18 18 0.42
19 9 0.21
20 1 0.02
21 3 0.07
22 10 0.23
23 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTATTTCTT
Found at i:45044 original size:14 final size:14
Alignment explanation
Indices: 45025--45051 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45015 AATTCTAATT
45025 TTTTAAAAATATTA
1 TTTTAAAAATATTA
45039 TTTTAAAAATATT
1 TTTTAAAAATATT
45052 TGAAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAAAAATATTA
Found at i:45905 original size:20 final size:20
Alignment explanation
Indices: 45880--45956 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
45870 ATTCGCGTTG
45880 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* * *
45900 CATTTCGCGTTGCTATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* **
45921 AAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
45941 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
45957 AGTCTACAAT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:45973 original size:41 final size:41
Alignment explanation
Indices: 45887--46015 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
45877 TTGCATTTCG
* *
45887 CGTTGCGATTTTCCATTTCGCGTTGCTATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAAT-GT
45928 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAATGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAATGT
* * *
45969 CGTTGCAATTTTCCAAATT--CGTTGCGAAAGTCTAC-A-GT
1 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAATGT
46007 CGTTGCGAT
1 CGTTGCGAT
46016 AGTTAAAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
38 10 0.13
39 1 0.01
40 16 0.20
41 48 0.61
42 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAATGT
Found at i:46126 original size:5 final size:5
Alignment explanation
Indices: 46116--46146 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
46106 GACCACGACC
46116 CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
46147 GCGGCGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.35, C:0.23, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:46659 original size:6 final size:6
Alignment explanation
Indices: 46638--46674 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
46628 TCTCGTCTCG
46638 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
46675 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:46855 original size:21 final size:21
Alignment explanation
Indices: 46829--46882 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
46819 GAAATGGAAA
46829 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
46850 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
46871 ATCGCAACGCGA
1 ATCGCAACGCGA
46883 AATGCAACGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:49449 original size:3 final size:3
Alignment explanation
Indices: 49441--49466 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49431 AATGAATAAT
49441 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
49467 GATAAATAGT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:55135 original size:58 final size:58
Alignment explanation
Indices: 55043--55153 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
55033 CGAATCTAGT
*
55043 TAGATTTAGATCCAGACCCAATTTTATATCTTGGATTCAAACTTACCCAGGATCCAGC
1 TAGATTTAGATCCAGACCCAATTTTATATATTGGATTCAAACTTACCCAGGATCCAGC
*
55101 TAGATTTAGATCCAGACCCAATTTTATATATTGGATTCAAACTTACCCCGGAT
1 TAGATTTAGATCCAGACCCAATTTTATATATTGGATTCAAACTTACCCAGGAT
55154 ACGTGGGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (58 bp):
TAGATTTAGATCCAGACCCAATTTTATATATTGGATTCAAACTTACCCAGGATCCAGC
Found at i:60851 original size:21 final size:21
Alignment explanation
Indices: 60814--60853 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60804 TACTGAGTTC
*
60814 GTATATAAATAATTTTTTTGA
1 GTATATAAATAAATTTTTTGA
60835 GTATAT-AATGAAATTTTTT
1 GTATATAAAT-AAATTTTTT
60854 TACACTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (21 bp):
GTATATAAATAAATTTTTTGA
Found at i:61701 original size:21 final size:21
Alignment explanation
Indices: 61640--61694 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
61630 ACCGTAAATG
61640 TTTCAGATGCCACCATAGCCA
1 TTTCAGATGCCACCATAGCCA
** * *
61661 GGTCAGACGCCACCGTAGCCA
1 TTTCAGATGCCACCATAGCCA
61682 TTTCAGATGCCAC
1 TTTCAGATGCCAC
61695 TACAGCCGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (21 bp):
TTTCAGATGCCACCATAGCCA
Found at i:62239 original size:13 final size:14
Alignment explanation
Indices: 62177--62236 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
62167 ATTTTGTTTG
*
62177 TTAATGTTTTTATT
1 TTAATGTTTGTATT
*
62191 AGTTAATTGTTTGAATT
1 --TTAA-TGTTTGTATT
*
62208 GT-ATCGTTTGTATT
1 TTAAT-GTTTGTATT
62222 TTAATGTTTGTATT
1 TTAATGTTTGTATT
62236 T
1 T
62237 AATTATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 1 0.03
14 20 0.56
15 3 0.08
16 4 0.11
17 8 0.22
ACGTcount: A:0.22, C:0.02, G:0.15, T:0.62
Consensus pattern (14 bp):
TTAATGTTTGTATT
Found at i:64832 original size:39 final size:38
Alignment explanation
Indices: 64789--64864 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 38
64779 TCTAAAATCC
*
64789 TAATTTCTTAAA-ATTTGACACCATAATGTTTTAAATTCT
1 TAATTTATTAAATATTTGACA--ATAATGTTTTAAATTCT
* *
64828 TAATTTATTAAATTATTTTACATTAATGTTTTAAATT
1 TAATTTATTAAA-TATTTGACAATAATGTTTTAAATT
64865 ATTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 25 0.78
41 7 0.22
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (38 bp):
TAATTTATTAAATATTTGACAATAATGTTTTAAATTCT
Found at i:67711 original size:21 final size:21
Alignment explanation
Indices: 67682--67735 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
67672 CTCTACAGTT
67682 TTTTCAGATGCCATCACCTCTA
1 TTTT-AGATGCCATCACCTCTA
67704 TTTTAGATGCCATCACCTCTA
1 TTTTAGATGCCATCACCTCTA
67725 TTTTAGA-GCCA
1 TTTTAGATGCCA
67736 CCACAACAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (21 bp):
TTTTAGATGCCATCACCTCTA
Found at i:76714 original size:15 final size:15
Alignment explanation
Indices: 76696--76769 Score: 96
Period size: 15 Copynumber: 5.0 Consensus size: 15
76686 GAAAATGAAT
*
76696 TGGAATTTGAATTAT
1 TGGAATTTGAATTAC
76711 TGGAATTTGAATTAC
1 TGGAATTTGAATTAC
**
76726 TGGAAAATGAATTAC
1 TGGAATTTGAATTAC
76741 TGGAATTTGAATT-C
1 TGGAATTTGAATTAC
**
76755 TGGAAAATGAATTAC
1 TGGAATTTGAATTAC
76770 ATTTCTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.24
15 39 0.76
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (15 bp):
TGGAATTTGAATTAC
Found at i:76767 original size:29 final size:30
Alignment explanation
Indices: 76703--76769 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
76693 AATTGGAATT
*
76703 TGAATTATTGGAATTTGAATTACTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
76733 TGAATTACTGGAATTTGAATT-CTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
76762 TGAATTAC
1 TGAATTAC
76770 ATTTCTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTGGAAAA
Found at i:76775 original size:20 final size:20
Alignment explanation
Indices: 76752--76821 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
76742 GGAATTTGAA
76752 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
76772 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
76792 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
76812 TTCTGGAAAA
1 TTCTGGAAAA
76822 CATCTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:77031 original size:28 final size:27
Alignment explanation
Indices: 76976--77065 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 27
76966 TTTACTAAAA
*
76976 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAATATTAT
77004 TCATTATTAAATATATAAAAAAATTTATTAT
1 T-ATTATTAAATATAT-AAAAAA--TATTAT
* *
77035 ATATTATTAAA-ATA-AAAATATAATA-
1 -TATTATTAAATATATAAAAAATATTAT
77060 TATTAT
1 TATTAT
77066 ATTATTATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
24 6 0.11
26 4 0.07
28 14 0.26
29 11 0.20
30 3 0.06
31 15 0.28
32 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAATATTAT
Found at i:77033 original size:24 final size:28
Alignment explanation
Indices: 76976--77034 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
76966 TTTACTAAAA
76976 TATTATTGAAATATATAAATAATATTATT
1 TATTATTGAAATATATAAATAATA-TATT
*
77005 CATTATT-AAATATATAAA-AA-A-ATT
1 TATTATTGAAATATATAAATAATATATT
77029 TATTAT
1 TATTAT
77035 ATATTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 8 0.29
26 1 0.04
27 2 0.07
28 11 0.39
29 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATTGAAATATATAAATAATATATT
Found at i:77081 original size:23 final size:22
Alignment explanation
Indices: 77051--77100 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
77041 TTAAAATAAA
77051 AATATAATAT-ATTATATTATTAT
1 AATATAAT-TGATTATATTA-TAT
*
77074 AATATAATTGATTATTTTATAT
1 AATATAATTGATTATATTATAT
77096 AATAT
1 AATAT
77101 TAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATATAATTGATTATATTATAT
Found at i:77088 original size:78 final size:81
Alignment explanation
Indices: 76994--77144 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 81
76984 AAATATATAA
* * *
76994 ATAATATTATTCATTATTAAATAT-ATA-AAAAAATTTATTA-TATATTATTA-AAATAAAAATA
1 ATAATATAATTCATTATTAAATATAATATAAAAAATATAATATTATATTATTATAAATAAAAATA
77055 TAATATATTATATTATT
66 -AATATATTATATTATT
* ** * **
77072 ATAATATAATTGATTATTTTATATAATATTAAAAATATAATATTATATTATTATAAATATTAATA
1 ATAATATAATTCATTATTAAATATAATATAAAAAATATAATATTATATTATTATAAATAAAAATA
77137 AATATATT
66 AATATATT
77145 TTAAATATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 20 0.33
79 3 0.05
80 10 0.17
81 18 0.30
82 9 0.15
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (81 bp):
ATAATATAATTCATTATTAAATATAATATAAAAAATATAATATTATATTATTATAAATAAAAATA
AATATATTATATTATT
Found at i:77118 original size:22 final size:23
Alignment explanation
Indices: 77093--77136 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
77083 GATTATTTTA
77093 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
77115 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
77137 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:77141 original size:22 final size:22
Alignment explanation
Indices: 77097--77153 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
77087 ATTTTATATA
* *
77097 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
77118 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
77140 ATATTTTAAATATT
1 ATATTATAAATATT
77154 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:77152 original size:52 final size:52
Alignment explanation
Indices: 77033--77153 Score: 135
Period size: 52 Copynumber: 2.3 Consensus size: 52
77023 AAAATTTATT
**
77033 ATATATTATTAAA-A-TAAAAATATAATATATTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATATATTATATTATTATAATATAATAA
77084 AT-TATTTTATATAATATTAAAAATAT-A-ATATTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATATATTATATTATTAT-AATA-TAATAA
77138 ATATATTTTAAATATT
1 ATATATTTTAAATATT
77154 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 23 0.38
53 8 0.13
54 18 0.30
55 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (52 bp):
ATATATTTTAAATATTAAAAATATAATATATTATATTATTATAATATAATAA
Found at i:77400 original size:42 final size:42
Alignment explanation
Indices: 77341--77452 Score: 206
Period size: 42 Copynumber: 2.7 Consensus size: 42
77331 ATGAATTACA
*
77341 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
77383 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
77425 TTCCGAAAAACGAATTACGTGAAACAAA
1 TTCCGGAAAACGAATTACGTGAAACAAA
77453 TACAGGAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:84312 original size:42 final size:42
Alignment explanation
Indices: 84259--84354 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
84249 CCTCTATTCT
*
84259 TGCATATGATCAGTAATGGAGGGTGCAAAATGGATGCCTCTA
1 TGCATACGATCAGTAATGGAGGGTGCAAAATGGATGCCTCTA
84301 TGCATACGATCAGTAATGGAGGGTGCAAAATGGATGCCTCTA
1 TGCATACGATCAGTAATGGAGGGTGCAAAATGGATGCCTCTA
84343 TGCATACGATCA
1 TGCATACGATCA
84355 ATTAATTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (42 bp):
TGCATACGATCAGTAATGGAGGGTGCAAAATGGATGCCTCTA
Found at i:87868 original size:2 final size:2
Alignment explanation
Indices: 87861--87891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87851 AAAAGACCCT
87861 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
87892 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:87896 original size:2 final size:2
Alignment explanation
Indices: 87891--87948 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
87881 TCTCTCTCTC
87891 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
87933 TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA T
87949 CAAACCCCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88508 original size:35 final size:35
Alignment explanation
Indices: 88455--88536 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
88445 TGGCAACCAA
88455 TTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTT
1 TTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTT
*
88491 TCTTTGAAAAATG-TTTTCAAAGTTTGGTAGATGTT
1 T-TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTT
*
88526 TGTTGAAAAAT
1 TTTTGAAAAAT
88537 TGTAATGGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 9 0.21
35 22 0.51
36 8 0.19
37 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTT
Found at i:92944 original size:36 final size:36
Alignment explanation
Indices: 92904--92981 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 36
92894 CAACTTTGAA
* *
92904 AAAAAT-GATTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGATTTTAAAAGTTTGGTAAATGTTT-GTTG
* *
92940 AAAAATGGTTTTTAAAAGTTTGGTAGATGTTTGTTG
1 AAAAATGGATTTTAAAAGTTTGGTAAATGTTTGTTG
92976 AAAAAT
1 AAAAAT
92982 TGTAATGGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 15 0.41
37 22 0.59
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (36 bp):
AAAAATGGATTTTAAAAGTTTGGTAAATGTTTGTTG
Found at i:94128 original size:29 final size:29
Alignment explanation
Indices: 94086--94158 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
94076 CAAAATATAA
*
94086 TTTT-ATATTAATTATAG-G-ATTCAATTAT
1 TTTTAATATTTATTATAGTGTATTCAA-T-T
* *
94114 TTTTAATATTTATTATTGTGTGTTCAATT
1 TTTTAATATTTATTATAGTGTATTCAATT
94143 TTTTAATATTTATTAT
1 TTTTAATATTTATTAT
94159 TAGGGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.10
29 28 0.72
30 2 0.05
31 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTTAATATTTATTATAGTGTATTCAATT
Found at i:94171 original size:29 final size:29
Alignment explanation
Indices: 94113--94181 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
94103 GATTCAATTA
*
94113 TTTTTAATATTTATTATTGTGTGTTCAAT
1 TTTTTAATATTTATTATTGTGGGTTCAAT
*
94142 TTTTTAATATTTATTATTAG-GGGTTTAAT
1 TTTTTAATATTTATTATT-GTGGGTTCAAT
*
94171 TTTAT-ATATTT
1 TTTTTAATATTT
94182 TTTCTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.17
29 29 0.81
30 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTTTAATATTTATTATTGTGGGTTCAAT
Found at i:98107 original size:27 final size:28
Alignment explanation
Indices: 98032--98107 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
98022 TGAGATCTCT
*
98032 CCAAAAATCACGATTGAGAAATAAAATC
1 CCAAAAATCACGATTGAGAAACAAAATC
* *
98060 TC-AAAATCACGACTGAGAAACAAAATC
1 CCAAAAATCACGATTGAGAAACAAAATC
* *
98087 CCAAAAAT-ACAATTGATAAAC
1 CCAAAAATCACGATTGAGAAAC
98108 TCTCCCAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.17
Consensus pattern (28 bp):
CCAAAAATCACGATTGAGAAACAAAATC
Found at i:109022 original size:17 final size:18
Alignment explanation
Indices: 109000--109033 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
108990 ATTATTTAAT
109000 AAATTAAATATA-ATTTA
1 AAATTAAATATATATTTA
*
109017 AAATTATATATATATTT
1 AAATTAAATATATATTT
109034 TTGGTTGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTAAATATATATTTA
Found at i:117611 original size:76 final size:77
Alignment explanation
Indices: 117462--117660 Score: 280
Period size: 76 Copynumber: 2.6 Consensus size: 77
117452 AATTACATAT
* * **
117462 TGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACAGATT-CCCCCTAAATGGTTTTGGCCCC
1 TGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCC
*
117526 GAGATTTCCAGAA
65 GAGAATTCCAGAA
*
117539 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTT-GCTCCG
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCG
*
117603 AGAATTCCAGTA
66 AGAATTCCAGAA
* *
117615 TGCTCGGAGGGAACCGATCCCCCCCA-AGG-GGTACCGATTCCCCCCT
1 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
117661 TGTACAACGG
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
74 16 0.14
75 3 0.03
76 61 0.54
77 32 0.29
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (77 bp):
TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCG
AGAATTCCAGAA
Found at i:123454 original size:21 final size:20
Alignment explanation
Indices: 123428--123490 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 20
123418 TTTTGGTGCA
*
123428 GAGGGAATCGATCTCCCCCCT
1 GAGGGAACCGAT-TCCCCCCT
*
123449 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-CT
123470 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
123491 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.17
21 13 0.36
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCCT
Found at i:126272 original size:75 final size:76
Alignment explanation
Indices: 126070--126270 Score: 282
Period size: 76 Copynumber: 2.7 Consensus size: 76
126060 CCAAAAATTA
* * * **
126070 CAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACTGATTCCCCCTAAATGGTTTTGGC
1 CAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGC
126135 CCCGAGATATC
66 CCCGAGATATC
126146 CAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTT-GC
1 CAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGC
*
126210 TCCGAGA-ATTC
66 CCCGAGATA-TC
* * * *
126221 CAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 CAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
126271 CTTGTACAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 18 0.16
75 39 0.34
76 57 0.50
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (76 bp):
CAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGC
CCCGAGATATC
Found at i:127398 original size:12 final size:12
Alignment explanation
Indices: 127357--127403 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
127347 ACTATACCGT
*
127357 ATGAACAATACT
1 ATGAACAATACC
127369 ATGAACAATA--
1 ATGAACAATACC
*
127379 ATGAACAGTACC
1 ATGAACAATACC
*
127391 ATGAACAGTACC
1 ATGAACAATACC
127403 A
1 A
127404 AATGTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 9 0.28
12 23 0.72
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:128370 original size:12 final size:12
Alignment explanation
Indices: 128353--128377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128343 ATATATATAG
128353 TTTTTGAAAACA
1 TTTTTGAAAACA
128365 TTTTTGAAAACA
1 TTTTTGAAAACA
128377 T
1 T
128378 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:128393 original size:35 final size:36
Alignment explanation
Indices: 128267--128497 Score: 199
Period size: 35 Copynumber: 6.4 Consensus size: 36
128257 TTTTTAAAAT
** * *
128267 TATATAATATATAGTATTAAAAAACATTTTAGAAAATA
1 TATAT-ATATATAGT-TTTGAAAACATTTTGGAAAACA
* * *
128305 TATA-ATATATAATTTTTAAAATCA-TTTGGAAAACT
1 TATATATATATAGTTTTGAAAA-CATTTTGGAAAACA
*
128340 TATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATATATATAG-TTTTGAAAACATTTTGGAAAACA
*
128377 TATATAT-TATAGTTTTGAAAGCATTTT-GAAAACA
1 TATATATATATAGTTTTGAAAACATTTTGGAAAACA
* *
128411 TTTAT-TATATAGTTTT-AAAACATTTTGGGAAA-A
1 TATATATATATAGTTTTGAAAACATTTTGGAAAACA
* ** *
128444 TTTATATA-ATCTTTTTTGAAAACATGTTGGAAAACA
1 TATATATATAT-AGTTTTGAAAACATTTTGGAAAACA
*
128480 TTCGTATATATATAGTTT
1 -T-ATATATATATAGTTT
128498 AAAAAAAAAA
Statistics
Matches: 159, Mismatches: 21, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
33 18 0.11
34 30 0.19
35 46 0.29
36 25 0.16
37 25 0.16
38 13 0.08
39 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (36 bp):
TATATATATATAGTTTTGAAAACATTTTGGAAAACA
Found at i:128409 original size:34 final size:35
Alignment explanation
Indices: 128219--128497 Score: 187
Period size: 36 Copynumber: 7.8 Consensus size: 35
128209 ATATATACAT
* * *
128219 ATTTTGAAACTACGTATATAATATATAGTTTTTAATA-
1 ATTTTGAAA--ACATATAT-ATATATAGTTTTGAAAAC
* * * **
128256 GTTTTTAAAATTATATA-ATATATAGTATTAAAAAAC
1 ATTTTGAAAA-CATATATATATATAGT-TTTGAAAAC
* * *
128292 ATTTTAGAAAATATATA-ATATATAATTTTTAAAATC
1 ATTTT-GAAAACATATATATATATAGTTTTGAAAA-C
* *
128328 ATTTGGAAAACTTATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAACATATATATATATAG-TTTTGAAAAC
*
128364 ATTTTTGAAAACATATATAT-TATAGTTTTGAAAGC
1 A-TTTTGAAAACATATATATATATAGTTTTGAAAAC
*
128399 ATTTTGAAAACATTTAT-TATATAGTTTT-AAAAC
1 ATTTTGAAAACATATATATATATAGTTTTGAAAAC
* * **
128432 ATTTTGGGAAA-ATTTATATA-ATCTTTTTTGAAAAC
1 ATTTT-GAAAACATATATATATAT-AGTTTTGAAAAC
* *
128467 ATGTTGGAAAACATTCGTATATATATAGTTT
1 AT-TTTGAAAACA-T-ATATATATATAGTTT
128498 AAAAAAAAAA
Statistics
Matches: 194, Mismatches: 30, Indels: 35
0.75 0.12 0.14
Matches are distributed among these distances:
33 18 0.09
34 43 0.22
35 42 0.22
36 44 0.23
37 36 0.19
38 9 0.05
39 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (35 bp):
ATTTTGAAAACATATATATATATAGTTTTGAAAAC
Found at i:128568 original size:3 final size:3
Alignment explanation
Indices: 128560--128594 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
128550 TATGTATATA
128560 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
128595 TTCATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:131493 original size:19 final size:19
Alignment explanation
Indices: 131459--131503 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
131449 ATTTAGACAT
131459 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
131477 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
131496 TTTGCATT
1 TTTGCATT
131504 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:135019 original size:83 final size:83
Alignment explanation
Indices: 134856--135765 Score: 1052
Period size: 83 Copynumber: 10.9 Consensus size: 83
134846 TCTGTCCACC
* * **
134856 AAGACCTTCGAGTTCGACTACGTTCAGCTTTGAAGGCACATCATTTGCAGCATAACTTAAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
134921 GAAGGGTTATCTGCTAACAA
65 GAAGGGTTATCTGCTAAC-A
134941 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT-ACTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
135005 AAGGGTTATCTGCTAACAA
66 AAGGGTTATCTGCTAAC-A
*
135024 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
*
135089 AAGGGTTATCTGCCAACTA
66 AAGGGTTATCTGCTAAC-A
* * * * * * * * * *
135108 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
135173 GAAGGGTTATCTG-TAACCA
65 GAAGGGTTATCTGCTAA-CA
* * *
135192 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
*
135257 AAGGGCTATCTGC---CA
66 AAGGGTTATCTGCTAACA
* * * * *
135272 AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
*
135337 GAAGGGTTATCTGCCAACTA
65 GAAGGGTTATCTGCTAAC-A
* * * * * * * * * *
135357 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
135422 GAAGGGTTATCTG-TAACCA
65 GAAGGGTTATCTGCTAA-CA
* *
135441 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
135506 AAGGGTTATCTGC---CA
66 AAGGGTTATCTGCTAACA
* * * * * * * * * * *
135521 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
*
135586 GAA-GGTTATCTGTTAACAA
65 GAAGGGTTATCTGCTAAC-A
* * * * * *
135605 AAGACCTTTGAGTTTGACTACGCTCAGCT-CAACGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
*
135669 GAAGGGTTATCTG-TCATCA
65 GAAGGGTTATCTGCT-AACA
* * * *
135688 AAGACCTTCGAGTGCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
*
135753 AAGGGCTATCTGC
66 AAGGGTTATCTGC
135766 CAAAGACCCC
Statistics
Matches: 706, Mismatches: 98, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
80 66 0.09
81 71 0.10
83 258 0.37
84 182 0.26
85 129 0.18
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (83 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
AAGGGTTATCTGCTAACA
Found at i:135372 original size:249 final size:248
Alignment explanation
Indices: 134890--135798 Score: 1329
Period size: 249 Copynumber: 3.6 Consensus size: 248
134880 CAGCTTTGAA
* * * * * *
134890 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTT
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTT
* *
134955 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA-CTTAAGTCAAGAAGGGTTATCTGCT
65 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGC-
* *
135019 AACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
129 --C-AAAGACCCTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAG
*
135084 TCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
191 TCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
135142 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
*
135207 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
* * *
135272 AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAA
131 AAGACCCTTGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCAA
135337 GAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
195 GAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
135391 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
*
135456 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
* * * * * * * * *
135521 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
131 AAGACCCTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
** * * * * * * *
135586 GAA-GGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCAGC-TCAAC
195 GAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
* * * *
135638 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTGC
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
* *
135703 GACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
* * * * *
135768 AAGACCCCTGGGTTCGATTACACTCAACTTC
131 AAGACCCTTGAGTTCGACTACGCTCAGCTTC
135799 GAGGTCATAT
Statistics
Matches: 605, Mismatches: 49, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
247 154 0.25
248 66 0.11
249 267 0.44
251 57 0.09
252 61 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (248 bp):
GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
AAGACCCTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
Found at i:135541 original size:164 final size:166
Alignment explanation
Indices: 134836--135765 Score: 1026
Period size: 164 Copynumber: 5.6 Consensus size: 166
134826 GCTCAAGGCC
* * * * *
134836 AGAAGGGCTATCTGTCCACCAAGA-CCTTCGAGTTCGACTACGTTCAGCTTTGAAGGCACATCAT
1 AGAAGGGTTATCTG-ACACAAAGACCCTT-GAGTTCGACTACGCTCAGC-TTCAAGGCACATCAT
134900 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCT
63 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCT
134965 CAGCTCCAAGGCACATCATTTGCAGCAT-ACTTAAGTCA
128 CAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* *
135003 AGAAGGGTTATCTG-CTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGTTATCTGAC--AC-AAAGACCCTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCAT
* * * * * * *
135067 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACT
63 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCT
* * * * * *
135132 CAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCT
128 CAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCA
* *
135172 AGAAGGGTTATCTGTA-ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTG-ACA-CAAAGACCCTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATT
* * * * * * *
135236 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCTCGAGTTCGACTACGTTC
64 TGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTC
* *
135297 AGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCA
129 AGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* * * * *
135336 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGAC-AC-AAAGACCCTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCAT
* * * * *
135401 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTTCGACTACGCT
63 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCT
* *
135465 CAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCA
128 CAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* * * * *
135504 AGAAGGGTTATCTG-C-CAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
1 AGAAGGGTTATCTGACACAAAGACCCTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTT
* * * * * *
135567 ACAGCATAACTCAAGGCTAGAA-GGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCA
65 GCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCA
* * * * *
135631 GCT-CAACGGCATATCATTTACAGCATAACTCAAGGCT
130 GCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCA
* *
135668 AGAAGGGTTATCTGTCATCAAAGA-CCTTCGAGTGCGACTACGCTCAGC-TCTAAGGCACATCAT
1 AGAAGGGTTATCTGACA-CAAAGACCCTT-GAGTTCGACTACGCTCAGCTTC-AAGGCACATCAT
* *
135731 TTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGC
63 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGC
135766 CAAAGACCCC
Statistics
Matches: 659, Mismatches: 78, Indels: 52
0.84 0.10 0.07
Matches are distributed among these distances:
163 12 0.02
164 201 0.31
165 37 0.06
166 69 0.10
167 126 0.19
168 163 0.25
169 51 0.08
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (166 bp):
AGAAGGGTTATCTGACACAAAGACCCTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTG
CAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
Found at i:136507 original size:36 final size:35
Alignment explanation
Indices: 136435--136668 Score: 162
Period size: 36 Copynumber: 6.7 Consensus size: 35
136425 TGAAACTACG
* * * *
136435 TATATATATATAGTTTTT-AATA-GTTTT-TAAAT
1 TATATATATATAGTTTTTAAAAACATTTTAGAAAA
**
136467 TATATATATATAGTATTAAAAAAACATTTTAGAAAA
1 TATATATATATAGT-TTTTAAAAACATTTTAGAAAA
* * *
136503 TATATATATATAATTTTTAAAATCA-TTTGGAAAA
1 TATATATATATAGTTTTTAAAAACATTTTAGAAAA
* *
136537 CTTATATATATATAGTTTTTGAAAACATTTTTGAAAA
1 --TATATATATATAGTTTTTAAAAACATTTTAGAAAA
* * *
136574 CATATAT-TATAG-TTTTGAAAGCATTTT-GAAAACA
1 TATATATATATAGTTTTTAAAAACATTTTAG-AAA-A
* *
136608 TTTATATTATATAGTTTTT-AAAACATTTTGGGAAAA
1 TATATA-TATATAGTTTTTAAAAACATTTT-AGAAAA
* ** *
136644 TTTATATA-ATCTTTTTTGAAAACAT
1 TATATATATATAGTTTTTAAAAACAT
136669 GTTGGAAACA
Statistics
Matches: 165, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
32 15 0.09
33 19 0.12
34 28 0.17
35 28 0.17
36 59 0.36
37 15 0.09
38 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (35 bp):
TATATATATATAGTTTTTAAAAACATTTTAGAAAA
Found at i:136569 original size:12 final size:12
Alignment explanation
Indices: 136552--136576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136542 ATATATATAG
136552 TTTTTGAAAACA
1 TTTTTGAAAACA
136564 TTTTTGAAAACA
1 TTTTTGAAAACA
136576 T
1 T
136577 ATATTATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:136762 original size:3 final size:3
Alignment explanation
Indices: 136754--136791 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
136744 TTTATATATA
136754 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
136792 TTTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:136782 original size:22 final size:24
Alignment explanation
Indices: 136747--136792 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
136737 TGAAATATTT
136747 ATATATATATTATTATTATTATTT
1 ATATATATATTATTATTATTATTT
136771 AT-TAT-TATTATTATTATTATTT
1 ATATATATATTATTATTATTATTT
136793 TTCATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 3 0.14
24 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATATATTATTATTATTATTT
Done.