Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 186 of 199
Found at i:59259991 original size:12 final size:11
Alignment explanation
Indices: 59259974--59260020 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
59259964 TCTTCCCTTC
59259974 TCCTTCTTTTCT
1 TCCTT-TTTTCT
*
59259986 TCCTTCTCTTCT
1 TCCTT-TTTTCT
*
59259998 TCCTTTTTTCC
1 TCCTTTTTTCT
59260009 TCCTTTTTTCT
1 TCCTTTTTTCT
59260020 T
1 T
59260021 TTCCCTTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 15 0.48
12 16 0.52
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
TCCTTTTTTCT
Found at i:59259991 original size:23 final size:23
Alignment explanation
Indices: 59259965--59260013 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
59259955 GCGTCCCCTT
*
59259965 CTTCCCTTC-TCCTTCTTTTCTTC
1 CTTCCCTTCTTCCTT-TTTTCCTC
*
59259988 CTTCTCTTCTTCCTTTTTTCCTC
1 CTTCCCTTCTTCCTTTTTTCCTC
59260011 CTT
1 CTT
59260014 TTTTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (23 bp):
CTTCCCTTCTTCCTTTTTTCCTC
Found at i:59260034 original size:27 final size:27
Alignment explanation
Indices: 59259992--59260065 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
59259982 TTCTTCCTTC
* *
59259992 TCTTCTTCCTT-T-TTTCCTCCTTTTT
1 TCTTGTTCCTTCTCTTTCCTCCTTGTT
* *
59260017 TCTT-TTCCCTTCTCTTTCTTTCTTGTT
1 TCTTGTT-CCTTCTCTTTCCTCCTTGTT
* *
59260044 TCTTGTTTCTTCTCTTTTCTCC
1 TCTTGTTCCTTCTCTTTCCTCC
59260066 CCTTTTTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 1 0.03
27 25 0.66
28 2 0.05
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (27 bp):
TCTTGTTCCTTCTCTTTCCTCCTTGTT
Found at i:59260040 original size:20 final size:20
Alignment explanation
Indices: 59259966--59260040 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 20
59259956 CGTCCCCTTC
* *
59259966 TTCCCTTCTCCTTCTTT-TC
1 TTCCCTTCTCTTTCTTTCTT
*
59259985 TT-CCTTCTC-TTCTTCCTTT
1 TTCCCTTCTCTTTCTTTC-TT
*
59260004 TTTCC-TC-CTTT-TTTCTT
1 TTCCCTTCTCTTTCTTTCTT
59260021 TTCCCTTCTCTTTCTTTCTT
1 TTCCCTTCTCTTTCTTTCTT
59260041 GTTTCTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
17 11 0.24
18 13 0.29
19 13 0.29
20 8 0.18
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCCCTTCTCTTTCTTTCTT
Found at i:59260875 original size:76 final size:75
Alignment explanation
Indices: 59260698--59261722 Score: 1232
Period size: 76 Copynumber: 13.3 Consensus size: 75
59260688 TTTCTTTCTG
* * * * * * * * *
59260698 TTTGAAAAATAGAAATCGAAAATAGCC-CAGTGTGCGACCTGAAGCTCAACTCATCTATCGGATT
1 TTTGAAAAACAGAAATTGAAAATA-CCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59260762 ATGAG-T--TT
65 ATGAGTTGATT
* *
59260770 TTTGAAAATAAACAGAAATTGAAAATACCTCAGCCTGTGACCCGAGGCTCAACTCACCTCTCGGA
1 TTTG--AA-AAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCA
*
59260835 TTATGATTTGATT
63 TTATGAGTTGATT
* * * *
59260848 TTTGAAAAAACAGAAATTGAAAATACCTCTGCATGTGACCCGAGGCTCAACTCACCTCTTGAATT
1 TTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59260913 ATGAGTTGATT
65 ATGAGTTGATT
* * * * *
59260924 TTTGAAAAAATAGAAATTGAAAGTACCTTAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATT
1 TTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59260989 ATGAGTTGATT
65 ATGAGTTGATT
* * * *
59261000 TTTGAAAAAATAGAAATTGAAAATACCTCAACGTGCGACCCGAGGATCAACTCACCTCTCGCATT
1 TTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
* *
59261065 TTGAGTTCATTTT
65 ATGAGTTGA--TT
* * * * *
59261078 TTTGAAAAACATAAAATGAAAAATACCTCGGCGTGTGACCCAAGGCTCAACTCATCTCTCGCATT
1 TTTGAAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59261143 ATGAGTTGATTTT
65 ATGAGTTGA--TT
* *
59261156 CTTTTAAAAACA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCATCTCTCGCATT
1 -TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59261220 ATGAGTTGATT
65 ATGAGTTGATT
* *
59261231 TTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAT
1 TTTG-AAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAT
59261296 TATGAGTTGATT
64 TATGAGTTGATT
* *
59261308 TTTGAAAAACATAAATTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59261373 ATGAGTTGATTTTTT
65 ATGAGTTGA----TT
* * * * * *
59261388 TTTGTAAAACAGAAATTAAAAATACCTCGGTGTGCGACCCGAGGCTCAACTCACCTCTAGCATTA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATTA
59261453 TGAGTTGATT
66 TGAGTTGATT
* * * **
59261463 TTTGAAAAAACTGAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAACAT
1 TTTG-AAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAT
*
59261528 TAAGAGTTGATT
64 TATGAGTTGATT
* * *
59261540 TTTGAAAAATAGAAATTGAAAAATACCCCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATT
59261605 ATGAGTTGATTTTT
65 ATGAGTTGA---TT
* * *
59261619 TTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAACTCACCTCTCGCATTA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATTA
* *
59261684 GGAGTTGTTTTTT
66 TGAGTTG---ATT
59261697 TTTGAAAAACAGAAATTGAAAATACC
1 TTTGAAAAACAGAAATTGAAAATACC
59261723 ATAGCATTGT
Statistics
Matches: 843, Mismatches: 84, Indels: 46
0.87 0.09 0.05
Matches are distributed among these distances:
72 4 0.00
74 7 0.01
75 65 0.08
76 345 0.41
77 181 0.21
78 144 0.17
79 80 0.09
80 17 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCATTA
TGAGTTGATT
Found at i:59261458 original size:232 final size:230
Alignment explanation
Indices: 59260698--59262441 Score: 1632
Period size: 232 Copynumber: 7.4 Consensus size: 230
59260688 TTTCTTTCTG
* * * * * * *
59260698 TTTGAAAAATAGAAATCGAAAATAGCC-CAGTGTGCGACCTGAAGCTCAACTCATCTATCGGATT
1 TTTGAAAAACAGAAATTGAAAATA-CCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATT
*
59260762 ATGAG-T--TTTTTGAAAATAAACAGAAATTGAAAATACCTCAGCCTGTGACCCGAGGCTCAACT
65 ATGAGTTGATTTTTG-AAA-AAACAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACT
* * * *
59260824 CACCTCTCGGATTATGATTTGATTTTTGAAAAAACAGAAATTG-AAAATACCTCTGCATGTGACC
128 CACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATACCTCGGCGTGTGACC
* *
59260888 CGAGGCTCAACTCACCTCTTGAATTATGAGTTGA---TT
192 CGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
* * *
59260924 TTTGAAAAAATAGAAATTGAAAGTACCTTAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATT
1 TTTG-AAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATT
* * * * *
59260989 ATGAGTTGATTTTTGAAAAAATAGAAATTGAAAATACCTCAACGTGCGACCCGAGGATCAACTCA
65 ATGAGTTGATTTTTGAAAAAACAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCA
* * * *
59261054 CCTCTCGCATTTTGAGTTCATTTTTTTGAAAAACATAAAATGAAAAATACCTCGGCGTGTGACCC
130 CCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGACCC
* *
59261119 AAGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTCT
193 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT-T
* * *
59261158 TTT-AAAAACA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCATCTCTCGCATTA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATTA
*
59261221 TGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACTCGAGGCTCAACTCA
66 TGAGTTGATTTTTGAAAAAACAGAAATTG-AAAATACCTCAGCATGTGACCCGAGGCTCAACTCA
*
59261286 CCTCTCGCATTATGAGTTGATTTTTGAAAAACATAAATTGAAAAATACCTCGGCGTGTGACCCGA
130 CCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGACCCGA
59261351 GGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTT
195 GGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTT
* * * *
59261388 TTTGTAAAACAGAAATTAAAAATACCTCGGTGTGCGACCCGAGGCTCAACTCACCTCTAGCATTA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATTA
* *
59261453 TGAGTTGATTTTTGAAAAAACTGAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCA
66 TGAGTTGATTTTTGAAAAAACAGAAATTG-AAAATACCTCAGCATGTGACCCGAGGCTCAACTCA
** * * *
59261518 CCTCTAACATTAAGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCCCGGCGTGTGACCCGA
130 CCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGACCCGA
59261583 GGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
195 GGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
* * *
59261619 TTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAACTCACCTCTCGCATTA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATTA
* *
59261684 GGAGTTGTTTTTTTTTG-AAAAACAGAAATTGAAAATACCAT-AGCATTGTTTTTTTTTTTTGAA
66 TGAGTTG---ATTTTTGAAAAAACAGAAATTGAAAATACC-TCAGCA-TG-----------TG--
* * *** * * * * * *
59261747 AAACAGAAATTGAAAAT-ACCATAGCATGCGACCCGAGGCTCAACTCACCTCTCGCA-TTATGAG
113 -ACCCGAGGCT-CAACTCACC-T--C-T-CG---C-A---T-TA-TGA-GT-T-G-ATTTTTGA-
*** ***** * * *
59261810 TTGA-TTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAACT
157 AAAACAGAAATT--------G--A---AAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCT
59261874 CTCGCATTATGAGTTGATTTTT
209 CTCGCATTATGAGTTGATTTTT
* * * *
59261896 TTTGAAAAACATAAATTGAAAATAGCTCAGCGTACGACCCGAGGCTCAACTCACCTCTCGCATT-
1 TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATTA
* * * * * *
59261960 TGAGTTGATTTTTTTG-AAAAACATAAATTG-AAATACCTCAGCGTGCGGCCCGAGACTCAACCC
66 TGAGTTGA--TTTTTGAAAAAACAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTC
* * * * *
59262023 ACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACATAAATT-TACAATACCTCAGCGTGCGACC
129 ACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGACC
* *
59262087 AGAGGCTCAACTCACCTCTCGCATTATAAGTTGA---TT
192 CGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
* * * *
59262123 TTTGAAAAACAGAAATTAAAAAAATACCCCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATT--GAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCAT
* * *
59262188 TATGAGTTGATTTTTGGAAAAAAAACAAAAATTAAAAAATACCTCGGCATGTG-CCCGAGGCTCA
64 TATGAGTTGATTTTT-G--AAAAAACAGAAATT-GAAAATACCTCAGCATGTGACCCGAGGCTCA
* * * *
59262252 ACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGCGA
125 ACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGA
* *
59262317 CCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTC
190 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
* * * * ** * *
59262356 TTGGAAAAGAACATAAATTAAAAAATACCTCGGCATG-TACCCGAGGCTCAACTCACCTCTCACA
1 TTTG-AAA-AACAGAAATT-GAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCA
*
59262420 TTATGAGTTGACTTTTGAAAAA
63 TTATGAGTTGATTTTTGAAAAA
59262442 CATAAAAAGA
Statistics
Matches: 1274, Mismatches: 155, Indels: 174
0.79 0.10 0.11
Matches are distributed among these distances:
226 6 0.00
227 72 0.06
228 64 0.05
229 58 0.05
230 202 0.16
231 173 0.14
232 329 0.26
233 94 0.07
234 42 0.03
235 9 0.01
241 1 0.00
242 1 0.00
243 2 0.00
244 11 0.01
245 2 0.00
246 1 0.00
247 9 0.01
248 4 0.00
250 2 0.00
251 2 0.00
254 2 0.00
255 2 0.00
256 2 0.00
258 3 0.00
259 9 0.01
260 1 0.00
261 1 0.00
262 2 0.00
263 1 0.00
264 8 0.01
265 2 0.00
272 1 0.00
273 3 0.00
274 11 0.01
275 19 0.01
276 6 0.00
277 117 0.09
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (230 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGCGACCCGAGGCTCAACTCACCTCTCGCATTA
TGAGTTGATTTTTGAAAAAACAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCAC
CTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGTGACCCGAG
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
Found at i:59261743 original size:122 final size:121
Alignment explanation
Indices: 59261614--59261843 Score: 381
Period size: 122 Copynumber: 1.9 Consensus size: 121
59261604 TATGAGTTGA
* *
59261614 TTTTTTTTGAAAAACATAAATTGAAAATACC-TCAGCGTGCGACCAGAGGCTCAACTCACCTCTC
1 TTTTTTTTGAAAAACAGAAATTGAAAATACCAT-AGCATGCGACCAGAGGCTCAACTCACCTCTC
*
59261678 GCATTAGGAGTTGTTTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGTTTT
65 GCATTAGGAGTTG-ATTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGTTTT
*
59261736 TTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATGCGACCCGAGGCTCAACTCACCTCTCG
1 TTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATGCGACCAGAGGCTCAACTCACCTCTCG
* *
59261801 CATTATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACC
66 CATTAGGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
59261844 TCAGCGTGCG
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
121 29 0.29
122 71 0.70
123 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (121 bp):
TTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATGCGACCAGAGGCTCAACTCACCTCTCG
CATTAGGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGTTTT
Found at i:59261864 original size:77 final size:77
Alignment explanation
Indices: 59261737--59262447 Score: 908
Period size: 77 Copynumber: 9.2 Consensus size: 77
59261727 CATTGTTTTT
* *
59261737 TTTTTTTGAAAAACAGAAATTGAAAATACCAT-AGCATGCGACCCGAGGCTCAACTCACCTCTCG
1 TTTTTTTGAAAAACATAAATTGAAAATACC-TCAGCGTGCGACCCGAGGCTCAACTCACCTCTCG
59261801 CATTATGAGTTGA
65 CATTATGAGTTGA
* * *
59261814 TTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAACTCTCGC
1 TTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGC
59261879 ATTATGAGTTGA
66 ATTATGAGTTGA
* *
59261891 TTTTTTTTGAAAAACATAAATTGAAAATAGCTCAGCGTACGACCCGAGGCTCAACTCACCTCTCG
1 -TTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCG
59261956 CATT-TGAGTTGA
65 CATTATGAGTTGA
* * *
59261968 TTTTTTTGAAAAACATAAATTG-AAATACCTCAGCGTGCGGCCCGAGACTCAACCCACCTCTCGC
1 TTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGC
59262032 ATTATGAGTTGA
66 ATTATGAGTTGA
* * *
59262044 TTTTTTTGAAAAACATAAATTTACAATACCTCAGCGTGCGACCAGAGGCTCAACTCACCTCTCGC
1 TTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGC
*
59262109 ATTATAAGTTGA
66 ATTATGAGTTGA
* * * *
59262121 --TTTTTGAAAAACAGAAATTAAAAAAATACCCCAGCGTGTGACCCGAGGCTCAACTCACCTCTC
1 TTTTTTTGAAAAACATAAATT--GAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC
59262184 GCATTATGAGTTGA
64 GCATTATGAGTTGA
* * * * * *
59262198 -TTTTTGGAAAAAAAACAAAAATTAAAAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTC
1 TTTTTTTG---AAAAACATAAATT-GAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTC
*
59262261 TCGTATTATGAGTTGA
62 TCGCATTATGAGTTGA
* *
59262277 --TTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCG
1 TTTTTTTGAAAAACATAAATTG-AAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCG
59262340 CATTATGAGTTGA
65 CATTATGAGTTGA
* * * * * *
59262353 -TTCTTGGAAAAGAACATAAATTAAAAAATACCTCGGCATG-TACCCGAGGCTCAACTCACCTCT
1 TTTTTTTG-AAA-AACATAAATT-GAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCT
*
59262416 CACATTATGAGTTGA
63 CGCATTATGAGTTGA
*
59262431 --CTTTTGAAAAACATAAA
1 TTTTTTTGAAAAACATAAA
59262448 AAGAAATAAT
Statistics
Matches: 566, Mismatches: 52, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
75 94 0.17
76 89 0.16
77 185 0.33
78 111 0.20
79 58 0.10
80 17 0.03
81 12 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (77 bp):
TTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGC
ATTATGAGTTGA
Found at i:59261880 original size:199 final size:201
Alignment explanation
Indices: 59261538--59261919 Score: 633
Period size: 199 Copynumber: 1.9 Consensus size: 201
59261528 TAAGAGTTGA
* * * * *
59261538 TTTTTGAAAAATAGAAATTGAAAAATACCCCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTGAAAAATACCACAGCATGCGACCCGAGGCTCAACTCACCTCTCGCA
*
59261603 TTATGAGTTGATTTTTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAA
66 TTATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAA
* *
59261668 CTCACCTCTCGCATTAGGAGTTGTTTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGT
131 CTCAACTCTCGCATTAGGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGT
59261733 TTTTTT
196 TTTTTT
*
59261739 TTTTTGAAAAACAGAAATTG-AAAATACCATAGCATGCGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTGAAAAATACCACAGCATGCGACCCGAGGCTCAACTCACCTCTCGCA
* *
59261803 TTATGAGTTGA-TTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAA
66 TTATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAA
* *
59261867 CTCAACTCTCGCATTATGAGTTGATTTTTTTTGAAAAACATAAATTGAAAATA
131 CTCAACTCTCGCATTAGGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATA
59261920 GCTCAGCGTA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 99 0.59
200 50 0.30
201 19 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (201 bp):
TTTTTGAAAAACAGAAATTGAAAAATACCACAGCATGCGACCCGAGGCTCAACTCACCTCTCGCA
TTATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCAGAGGCTCAA
CTCAACTCTCGCATTAGGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCATAGCATTGT
TTTTTT
Found at i:59266151 original size:25 final size:25
Alignment explanation
Indices: 59266098--59266151 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
59266088 TAGAGTCTTG
***
59266098 TGTTTATAAAATCTCTTCAGTGTTG
1 TGTTTATAAAATCTCTTCAGTGAAC
**
59266123 TGTTTATAAAATCTCTTCTTTGAAC
1 TGTTTATAAAATCTCTTCAGTGAAC
59266148 TGTT
1 TGTT
59266152 GCCCCCAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (25 bp):
TGTTTATAAAATCTCTTCAGTGAAC
Found at i:59271445 original size:20 final size:20
Alignment explanation
Indices: 59271420--59271470 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
59271410 TTGTTTTAAA
*
59271420 TAAATTTTTAGTTTAGGATT
1 TAAATTTTTAGTTTAGGATC
* * *
59271440 TAAATTTATAATTTAGGGTC
1 TAAATTTTTAGTTTAGGATC
*
59271460 TAAAATTTTAG
1 TAAATTTTTAG
59271471 GATATAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (20 bp):
TAAATTTTTAGTTTAGGATC
Found at i:59271471 original size:15 final size:15
Alignment explanation
Indices: 59271451--59271499 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
59271441 AAATTTATAA
*
59271451 TTTAGGGTCTAAAAT
1 TTTAGGGTATAAAAT
*
59271466 TTTAGGATATAAAA-
1 TTTAGGGTATAAAAT
59271480 TTTAGGGTTATAAAAT
1 TTTAGGG-TATAAAAT
59271496 TTTA
1 TTTA
59271500 TAAAAACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 19 0.66
16 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (15 bp):
TTTAGGGTATAAAAT
Found at i:59271898 original size:14 final size:14
Alignment explanation
Indices: 59271879--59271918 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
59271869 TTGATTGTCA
59271879 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
59271893 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
59271907 GGAAAATGTTTT
1 GTAAAATGTTTT
59271919 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:59271927 original size:20 final size:20
Alignment explanation
Indices: 59271902--59271941 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59271892 CGTAAAATGA
*
59271902 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
59271922 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
59271942 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:59271931 original size:34 final size:35
Alignment explanation
Indices: 59271887--59271953 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
59271877 CAGTAAAATG
* *
59271887 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
59271921 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
59271954 CTGCTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:59276995 original size:20 final size:20
Alignment explanation
Indices: 59276970--59277007 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
59276960 CTTTTCGTTC
59276970 ACAATCACAATACGTAATAG
1 ACAATCACAATACGTAATAG
59276990 ACAATCACAATACGTAAT
1 ACAATCACAATACGTAAT
59277008 TTAGGAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (20 bp):
ACAATCACAATACGTAATAG
Found at i:59280557 original size:27 final size:27
Alignment explanation
Indices: 59280518--59280611 Score: 134
Period size: 27 Copynumber: 3.5 Consensus size: 27
59280508 AAAGGTTGTT
* * *
59280518 AAATAATCGTAATGCCCCTGTAGGATA
1 AAATGATCGTAATGCCCCTATAGGGTA
*
59280545 AAATGATCATAATGCCCCTATAGGGTA
1 AAATGATCGTAATGCCCCTATAGGGTA
* *
59280572 AAATGACCGTAATACCCCTATAGGGTA
1 AAATGATCGTAATGCCCCTATAGGGTA
59280599 AAATGATCGTAAT
1 AAATGATCGTAAT
59280612 ATTCTCGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AAATGATCGTAATGCCCCTATAGGGTA
Found at i:59280690 original size:24 final size:25
Alignment explanation
Indices: 59280649--59280695 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
59280639 CTATGGTTAA
*
59280649 ATGACTGATTTATCTGTG-TTTGGT
1 ATGACCGATTTATCTGTGATTTGGT
* *
59280673 ATGACCGATTTGTTTGTGATTTG
1 ATGACCGATTTATCTGTGATTTG
59280696 AATGACTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.49
Consensus pattern (25 bp):
ATGACCGATTTATCTGTGATTTGGT
Found at i:59280938 original size:32 final size:32
Alignment explanation
Indices: 59280892--59281079 Score: 214
Period size: 32 Copynumber: 5.9 Consensus size: 32
59280882 GCTGTGATGC
* *
59280892 TACTAATGGCTTTGTGCCGGTCATATTATTGT
1 TACTGATGGCTTTGTGCCGATCATATTATTGT
* * *
59280924 TACTGATGGCTTTGTACTGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTATTGT
* * *
59280956 TACTGATGGCTTTATGCTGATCATATTATCGT
1 TACTGATGGCTTTGTGCCGATCATATTATTGT
* * **
59280988 TACTGATGGCTTTATGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTATTGT
* * * *
59281020 TACTGATGGCTGTGTACCGATCATATCATTGC
1 TACTGATGGCTTTGTGCCGATCATATTATTGT
* *
59281052 TACTGATGGCTTTGTGCCAAACATATTA
1 TACTGATGGCTTTGTGCCGATCATATTA
59281080 CTATACTTAT
Statistics
Matches: 131, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 131 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTATTGT
Found at i:59281077 original size:96 final size:96
Alignment explanation
Indices: 59280892--59281079 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 96
59280882 GCTGTGATGC
* * ** * * * *
59280892 TACTAATGGCTTTGTGCCGGTCATATTATTGTTACTGATGGCTTTGTACTGATCATATTACTGTT
1 TACTAATGGCTTTATGCCGATCATATTACCGTTACTGATGGCTGTGTACCGATCATATCACTGCT
** *
59280957 ACTGATGGCTTTATGCTGATCATATTATCGT
66 ACTGATGGCTTTATGCCAAACATATTATCGT
* * *
59280988 TACTGATGGCTTTATGTCGATCATATTACCGTTACTGATGGCTGTGTACCGATCATATCATTGCT
1 TACTAATGGCTTTATGCCGATCATATTACCGTTACTGATGGCTGTGTACCGATCATATCACTGCT
*
59281053 ACTGATGGCTTTGTGCCAAACATATTA
66 ACTGATGGCTTTATGCCAAACATATTA
59281080 CTATACTTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (96 bp):
TACTAATGGCTTTATGCCGATCATATTACCGTTACTGATGGCTGTGTACCGATCATATCACTGCT
ACTGATGGCTTTATGCCAAACATATTATCGT
Found at i:59284896 original size:23 final size:25
Alignment explanation
Indices: 59284848--59284903 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
59284838 TATAGTTATG
59284848 AAAAATAATTACATATATAAAATAA
1 AAAAATAATTACATATATAAAATAA
**
59284873 AAAAATAATTACATA-AT-ATTTAA
1 AAAAATAATTACATATATAAAATAA
59284896 AAAAATAA
1 AAAAATAA
59284904 ATATGCGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 12 0.41
24 2 0.07
25 15 0.52
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATAATTACATATATAAAATAA
Found at i:59286661 original size:128 final size:130
Alignment explanation
Indices: 59286384--59286671 Score: 295
Period size: 128 Copynumber: 2.2 Consensus size: 130
59286374 CTTCAATCTA
* * * *
59286384 CTCCTCTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTATGCAACTTCAGAGAATAAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTATACAACTTCAAAGAATAAG
* *
59286449 ATCCAAGATTTGTGGTTCTAATCCGCTCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
66 ATCCAAGA--TGT-GTTCTAATCCGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTA-TTAA
*
59286514 TCTG
127 CCTG
* ** * *
59286518 CTCCACTACCTCTTCAGAGAGATAAGACTAGATGCGATCTGCTC-ACTACAACTTCAAAGAGTTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTA-TACAACTTCAAAGA-ATA
* * *
59286582 TGATCCAA-A-GT-TT-TAATCCGCTCCACTGCAACTTCAGG-GAGATAGGATTATCGGC-T-TT
64 AGATCCAAGATGTGTTCTAATCCGCTCCACTGCAACTTCAGGAG-GATAAGACT-T--GCTTATT
59286640 AACCTG
125 AACCTG
59286646 CTCCACTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
59286672 GTTTCCAATC
Statistics
Matches: 129, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
127 1 0.01
128 59 0.46
129 3 0.02
130 1 0.01
131 4 0.03
133 1 0.01
134 51 0.40
135 9 0.07
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (130 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTATACAACTTCAAAGAATAAG
ATCCAAGATGTGTTCTAATCCGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTATTAACCTG
Found at i:59286748 original size:44 final size:44
Alignment explanation
Indices: 59286601--59286763 Score: 142
Period size: 44 Copynumber: 3.7 Consensus size: 44
59286591 GTTTTAATCC
* * * *
59286601 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC-TTTA-A-CCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT-TC--CATCTACAGTCT
**
59286645 GCTCCACTGCAACTTCAGGGAGATAAGGTTTCCAATCTACAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTCC-ATCTACAGTCT
*
59286690 GC-CTCACTGCAACTTCA-GGAGGATAAGACTTGC-T-TACTTAGTCT
1 GCTC-CACTGCAACTTCAGGGA-GATAAGACTTCCATCTAC--AGTCT
59286734 GCTCCACTGCAACTTCAGGGAGATAAGACT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT
59286764 AGATGGGATA
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 6 0.06
44 62 0.61
45 30 0.29
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTCCATCTACAGTCT
Found at i:59286857 original size:217 final size:217
Alignment explanation
Indices: 59286480--59287070 Score: 905
Period size: 217 Copynumber: 2.7 Consensus size: 217
59286470 TCCGCTCCAT
** *
59286480 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACCTCTTCAGAGAGATAAGA
1 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
* * * * *
59286545 CTAGATGCGATCTGCTCACTACAACTTCAAAG-AGTTATGATCCAAAGTTTTAATCCGCTCCACT
66 CTAGATGGGATCTGCTCTCTACAACTTCAGAGAAATAAT-ATCCAAAGTTTTAATCCGCTCCACT
* *
59286609 GCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
130 GCAACTTCAGGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGAAGATAAGGT
59286674 TTCCAATCTACAGTCTGCCTCAC
195 TTCCAATCTACAGTCTGCCTCAC
*
59286697 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
* * * *
59286762 CTAGATGGGATATGCTCTCTACAACTTCAGAGAAATAATATCCAAGGTTCTAATCCGCTCCACTA
66 CTAGATGGGATCTGCTCTCTACAACTTCAGAGAAATAATATCCAAAGTTTTAATCCGCTCCACTG
* *
59286827 CAACTTCAGGGAGATAGGACTATTGGCTTTAACCTGCTCTACTGCAACTTCAGGAAGATAAGGTT
131 CAACTTCAGGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTT
* *
59286892 TGCAATCTTCAGTCTGCCTCAC
196 TCCAATCTACAGTCTGCCTCAC
* * *
59286914 TGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCCCTACAACTTCAAGGAGATAAGA
1 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
* * * * * *
59286979 CTAGATGGGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAATCCTCTCCACTG
66 CTAGATGGGATCTGCTCTCTACAACTTCAGAGAAATAATATCCAAAGTTTTAATCCGCTCCACTG
*
59287044 CAACTTCAGGGAAATAGGATTATTGGC
131 CAACTTCAGGGAGATAGGATTATTGGC
59287071 CACCGATCCG
Statistics
Matches: 339, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
217 335 0.99
218 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (217 bp):
TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
CTAGATGGGATCTGCTCTCTACAACTTCAGAGAAATAATATCCAAAGTTTTAATCCGCTCCACTG
CAACTTCAGGGAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTT
TCCAATCTACAGTCTGCCTCAC
Found at i:59291573 original size:23 final size:23
Alignment explanation
Indices: 59291547--59291593 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
59291537 GTAATTATAA
59291547 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
59291570 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
59291593 A
1 A
59291594 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:59292911 original size:45 final size:45
Alignment explanation
Indices: 59292841--59292941 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
59292831 GCCGACTACT
* * * *
59292841 GTTACTGTTTCCGATTCGGCGCTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* * *
59292886 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
59292931 GTTACTGTTAC
1 GTTACTGTTAC
59292942 TACTTCCGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:59294069 original size:17 final size:17
Alignment explanation
Indices: 59294028--59294070 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
59294018 ACGTGGCATG
* *
59294028 TACCTAAATAATGTATA
1 TACCTAAGTAATATATA
59294045 TACCTAAGTAATATATA
1 TACCTAAGTAATATATA
59294062 TACCTAAGT
1 TACCTAAGT
59294071 GATGTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATATATA
Found at i:59302409 original size:20 final size:20
Alignment explanation
Indices: 59302384--59302426 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
59302374 AACGTGTTGA
59302384 ATTCCCAATAATGAGTTCTT
1 ATTCCCAATAATGAGTTCTT
59302404 ATTCCCAATAATGAGTTCTT
1 ATTCCCAATAATGAGTTCTT
59302424 ATT
1 ATT
59302427 TTTTGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (20 bp):
ATTCCCAATAATGAGTTCTT
Found at i:59303032 original size:14 final size:14
Alignment explanation
Indices: 59302983--59303047 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
59302973 GCATATACAT
59302983 ATATATAAAAA-AA
1 ATATATAAAAATAA
59302996 AT-TGATTAAAAATATCA
1 ATAT-A-TAAAAATA--A
* * *
59303013 ATATATATACATAC
1 ATATATAAAAATAA
59303027 ATATATAAAAATAA
1 ATATATAAAAATAA
59303041 ATATATA
1 ATATATA
59303048 CGTATAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.03
13 3 0.08
14 24 0.60
15 1 0.03
16 6 0.15
17 4 0.10
18 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (14 bp):
ATATATAAAAATAA
Found at i:59303109 original size:23 final size:25
Alignment explanation
Indices: 59303061--59303116 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
59303051 ATAGATTATG
59303061 AAAAATAATTACATATATAAAATAA
1 AAAAATAATTACATATATAAAATAA
**
59303086 AAAAATAATTACATA-AT-ATTTAA
1 AAAAATAATTACATATATAAAATAA
59303109 AAAAATAA
1 AAAAATAA
59303117 ATATGCGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 12 0.41
24 2 0.07
25 15 0.52
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATAATTACATATATAAAATAA
Found at i:59308980 original size:21 final size:19
Alignment explanation
Indices: 59308953--59309002 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
59308943 ATTCATGAAA
*
59308953 ATAAAAATATGTATATATAT
1 ATAAAAATATGTATACA-AT
* *
59308973 ATTAAAAAAATTTATACAAT
1 A-TAAAAATATGTATACAAT
59308993 ATAAAAATAT
1 ATAAAAATAT
59309003 ACGTAAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAAATATGTATACAAT
Found at i:59309224 original size:18 final size:18
Alignment explanation
Indices: 59309203--59309237 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59309193 TAAATATATG
* *
59309203 TATATATAAATTATAAAA
1 TATATAAAAAATATAAAA
59309221 TATATAAAAAATATAAA
1 TATATAAAAAATATAAA
59309238 TAAGTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TATATAAAAAATATAAAA
Found at i:59309226 original size:20 final size:19
Alignment explanation
Indices: 59309175--59309255 Score: 60
Period size: 22 Copynumber: 4.2 Consensus size: 19
59309165 AAAAATTTAG
* *
59309175 AAAATATGTATATAGATAT
1 AAAATATATATATAAATAT
59309194 AAATATATGTATATATAAATTAT
1 AAA-ATA--TATATATAAA-TAT
*
59309217 AAAATATATA-AAAAATAT
1 AAAATATATATATAAATAT
*
59309235 -AAATA-AGTATATATATAT
1 AAAATATA-TATATAAATAT
59309253 AAA
1 AAA
59309256 TCAAAGATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.14
18 9 0.18
19 9 0.18
20 7 0.14
22 11 0.22
23 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATATATATATAAATAT
Found at i:59309251 original size:51 final size:51
Alignment explanation
Indices: 59309096--59309252 Score: 131
Period size: 51 Copynumber: 3.1 Consensus size: 51
59309086 ATGGATGTAA
** * * * * *
59309096 ATATGTATATGCAAATTAGAAAGTATA-AAAAATATATAAGTACGTACATAT
1 ATATGTATATATAAATTATAAAATATATAAAAA-ATATAAATAAGTATATAT
* * * * * ** *
59309147 AAATATATATAT-ACTTATAAAA-ATTTAGAAAATATGTATATAGATATAAAT
1 ATATGTATATATAAATTATAAAATATATAAAAAATATAAATA-AG-TATATAT
59309198 ATATGTATATATAAATTATAAAATATATAAAAAATATAAATAAGTATATAT
1 ATATGTATATATAAATTATAAAATATATAAAAAATATAAATAAGTATATAT
59309249 ATAT
1 ATAT
59309253 AAATCAAAGA
Statistics
Matches: 78, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
49 8 0.10
50 12 0.15
51 33 0.42
52 11 0.14
53 14 0.18
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (51 bp):
ATATGTATATATAAATTATAAAATATATAAAAAATATAAATAAGTATATAT
Found at i:59309550 original size:3 final size:3
Alignment explanation
Indices: 59309480--59309534 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
59309470 GAAATATAGC
* *
59309480 AAT AAT AAC AAT AAT -AT AGAT AAT AAT ACT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
59309525 AAT AAT AAT A
1 AAT AAT AAT A
59309535 TATTAGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59320822 original size:27 final size:27
Alignment explanation
Indices: 59320781--59320848 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
59320771 ATACATGAAT
*
59320781 TCATTTCA-ATATTCATATCCCATTTCA
1 TCATTTCATAT-TTCATATCCCATCTCA
* *
59320808 TCATTTCATATTTCATTTCTCATCTCA
1 TCATTTCATATTTCATATCCCATCTCA
*
59320835 T-A-TTCATTTTTCAT
1 TCATTTCATATTTCAT
59320849 CCTTGTCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.31
26 1 0.03
27 22 0.61
28 2 0.06
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (27 bp):
TCATTTCATATTTCATATCCCATCTCA
Found at i:59320835 original size:19 final size:18
Alignment explanation
Indices: 59320801--59320849 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
59320791 ATTCATATCC
*
59320801 CATTTCATCATTTCATATTT
1 CATTTC-TCATCTCATA-TT
59320821 CATTTCTCATCTCATATT
1 CATTTCTCATCTCATATT
*
59320839 CATTTTTCATC
1 CATTTCTCATC
59320850 CTTGTCATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 9 0.33
20 6 0.22
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (18 bp):
CATTTCTCATCTCATATT
Found at i:59325964 original size:27 final size:27
Alignment explanation
Indices: 59325942--59326078 Score: 85
Period size: 27 Copynumber: 5.1 Consensus size: 27
59325932 TGACAAACAT
***
59325942 TACTCTTACATATTTCGCCACAATGGC
1 TACTCTTACATATTTCGCCACAAAAAC
* *
59325969 TACTATTACATATTTTGCCACAAAAAC
1 TACTCTTACATATTTCGCCACAAAAAC
* * ** ** ***
59325996 AACTCTTTCATATTTTACGGCAATGGC
1 TACTCTTACATATTTCGCCACAAAAAC
* * *
59326023 TATTCTTTCATATTTCACCACAAAAAC
1 TACTCTTACATATTTCGCCACAAAAAC
* * * *
59326050 TAATCTTTCATATTTTGCCACAAATAC
1 TACTCTTACATATTTCGCCACAAAAAC
59326077 TA
1 TA
59326079 GCCTTTCCTG
Statistics
Matches: 84, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (27 bp):
TACTCTTACATATTTCGCCACAAAAAC
Found at i:59326020 original size:54 final size:54
Alignment explanation
Indices: 59325962--59326065 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
59325952 TATTTCGCCA
**
59325962 CAATGGCTACTATTACATATTTTGCCACAAAAAC-AACTCTTTCATATTTTACGG
1 CAATGGCTACTATTACATATTTCACCACAAAAACTAA-TCTTTCATATTTTACGG
* * *
59326016 CAATGGCTATTCTTTCATATTTCACCACAAAAACTAATCTTTCATATTTT
1 CAATGGCTACTATTACATATTTCACCACAAAAACTAATCTTTCATATTTT
59326066 GCCACAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
CAATGGCTACTATTACATATTTCACCACAAAAACTAATCTTTCATATTTTACGG
Found at i:59326084 original size:27 final size:27
Alignment explanation
Indices: 59326027--59326085 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
59326017 AATGGCTATT
*
59326027 CTTTCATATTTCACCACAAAAACTAAT
1 CTTTCATATTTCACCACAAAAACTAAC
** * *
59326054 CTTTCATATTTTGCCACAAATACTAGC
1 CTTTCATATTTCACCACAAAAACTAAC
59326081 CTTTC
1 CTTTC
59326086 CTGACATGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.37
Consensus pattern (27 bp):
CTTTCATATTTCACCACAAAAACTAAC
Found at i:59328857 original size:11 final size:11
Alignment explanation
Indices: 59328841--59328871 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
59328831 GAGGGAGTAG
59328841 TTTATTTTTGA
1 TTTATTTTTGA
*
59328852 TTTATTTTAGA
1 TTTATTTTTGA
59328863 TTTATTTTT
1 TTTATTTTT
59328872 TTAAGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (11 bp):
TTTATTTTTGA
Found at i:59335866 original size:22 final size:22
Alignment explanation
Indices: 59335841--59335883 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59335831 CGATTTGAGT
*
59335841 GCATGAATGATTAAAGCAAATA
1 GCATGAATGATTAAAACAAATA
59335863 GCATGAATGATTAAAACAAAT
1 GCATGAATGATTAAAACAAAT
59335884 TTGATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.23
Consensus pattern (22 bp):
GCATGAATGATTAAAACAAATA
Found at i:59338481 original size:13 final size:13
Alignment explanation
Indices: 59338463--59338489 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59338453 TTCAACCAAT
59338463 TTTCAATTGCAGC
1 TTTCAATTGCAGC
59338476 TTTCAATTGCAGC
1 TTTCAATTGCAGC
59338489 T
1 T
59338490 CTATATCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTCAATTGCAGC
Found at i:59339460 original size:21 final size:21
Alignment explanation
Indices: 59339431--59339472 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59339421 TAACAAAACC
*
59339431 TTTGATATAATAATAATTTTA
1 TTTGATATAATAACAATTTTA
*
59339452 TTTGGTATAATAACAATTTTA
1 TTTGATATAATAACAATTTTA
59339473 GTCCTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTGATATAATAACAATTTTA
Found at i:59339612 original size:28 final size:29
Alignment explanation
Indices: 59339564--59339622 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
59339554 AGAACATTAT
*
59339564 AAATTTAAAATTAAATAAAAGT-AGATAA
1 AAATTTAAAATTAAATAAAAGTGAGAGAA
59339592 AAATTTCAAAATTAAAT-AAAGTGAGAGAA
1 AAATTT-AAAATTAAATAAAAGTGAGAGAA
59339621 AA
1 AA
59339623 TTAAGGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (29 bp):
AAATTTAAAATTAAATAAAAGTGAGAGAA
Found at i:59342439 original size:24 final size:24
Alignment explanation
Indices: 59342407--59342533 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 24
59342397 GAGCCTATAT
* *
59342407 CAGGTAGCTCCGAATAGCACTTAA
1 CAGGAAGCTCCGAAGAGCACTTAA
59342431 CAGGAAGCTCCGAAGAGCACTTTAA
1 CAGGAAGCTCCGAAGAGCAC-TTAA
* * *
59342456 CA-GAGAGCACTGAATAGTCA-TATAA
1 CAGGA-AGCTCCGAAGAG-CACT-TAA
* *
59342481 CGGGAAGCT-C-AAGCGAACAC-TAA
1 CAGGAAGCTCCGAA--GAGCACTTAA
*
59342504 CGGGAAGCTCCGAAGAGCACTTTAA
1 CAGGAAGCTCCGAAGAGCAC-TTAA
59342529 CAGGA
1 CAGGA
59342534 GGTTCACAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
23 19 0.24
24 24 0.30
25 32 0.41
26 4 0.05
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (24 bp):
CAGGAAGCTCCGAAGAGCACTTAA
Found at i:59353571 original size:25 final size:26
Alignment explanation
Indices: 59353535--59353585 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
59353525 GTTGTGTTTA
59353535 AAAATTTAACATTTTAGTCAATATTT
1 AAAATTTAACATTTTAGTCAATATTT
59353561 AAAA-TTAACATTTTAGTCAATATTT
1 AAAATTTAACATTTTAGTCAATATTT
59353586 TTATTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAATTTAACATTTTAGTCAATATTT
Found at i:59357234 original size:22 final size:22
Alignment explanation
Indices: 59357198--59357243 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
59357188 AAAAAAAATG
*
59357198 AAAATAGAAACAAAATAATAAA
1 AAAATAGAAACAAAACAATAAA
* * *
59357220 AAAATAGCAAGAAAACAGTAAA
1 AAAATAGAAACAAAACAATAAA
59357242 AA
1 AA
59357244 GAACAACAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAATAGAAACAAAACAATAAA
Found at i:59362247 original size:73 final size:74
Alignment explanation
Indices: 59362091--59362272 Score: 185
Period size: 72 Copynumber: 2.5 Consensus size: 74
59362081 CGCAGCTATT
* * * *
59362091 ATGAACGTCCCGTTAAATGGCTCTTCGTGAGCTTCCTAATTATTGGATCTCCGAAGCTTCCCGAT
1 ATGAACTTCCCGATAAATGGCTATTCGTGAGCTTCCTAATTAATGGATCTCCGAAGCTTCCCGAT
59362156 ATGGCTCGC
66 ATGGCTCGC
* * * * *
59362165 TTGAACTTCCCGATAAATGGCTATTCG-GAGCTTCCT-ATTAATGGCTCTTCGGAG-TTACCCGT
1 ATGAACTTCCCGATAAATGGCTATTCGTGAGCTTCCTAATTAATGGATCTCCGAAGCTT-CCCGA
59362227 TATTGGCTCGC
65 TA-TGGCTCGC
* * * * *
59362238 ATGAGCTTCCTGAT-TATGGCTCTT-ATGAGCTTCCT
1 ATGAACTTCCCGATAAATGGCTATTCGTGAGCTTCCT
59362273 GTTATACAGC
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
71 2 0.02
72 37 0.41
73 28 0.31
74 23 0.26
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (74 bp):
ATGAACTTCCCGATAAATGGCTATTCGTGAGCTTCCTAATTAATGGATCTCCGAAGCTTCCCGAT
ATGGCTCGC
Found at i:59362257 original size:24 final size:23
Alignment explanation
Indices: 59362225--59362277 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
59362215 GGAGTTACCC
59362225 GTTATTGGCTCGCATGAGCTTCCT
1 GTTA-TGGCTCGCATGAGCTTCCT
**
59362249 GATTATGGCTCTTATGAGCTTCCT
1 G-TTATGGCTCGCATGAGCTTCCT
59362273 GTTAT
1 GTTAT
59362278 ACAGCCCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 19 0.73
25 3 0.12
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (23 bp):
GTTATGGCTCGCATGAGCTTCCT
Found at i:59367542 original size:13 final size:13
Alignment explanation
Indices: 59367524--59367548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59367514 AAAAAAACAT
59367524 AAAAGTTATAAAC
1 AAAAGTTATAAAC
59367537 AAAAGTTATAAA
1 AAAAGTTATAAA
59367549 AATTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAGTTATAAAC
Found at i:59373513 original size:27 final size:28
Alignment explanation
Indices: 59373475--59373542 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
59373465 ATAAAAATTA
59373475 ACCAAAATATTATAATTTTTT-TTATTT
1 ACCAAAATATTATAATTTTTTATTATTT
59373502 ACCAAAATATTACT--TTTTTTATTATTT
1 ACCAAAATATTA-TAATTTTTTATTATTT
*
59373529 ACGAAAATA-TATAA
1 ACCAAAATATTATAA
59373543 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 1 0.03
26 8 0.22
27 26 0.72
28 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAATTTTTTATTATTT
Found at i:59373635 original size:27 final size:27
Alignment explanation
Indices: 59373597--59373675 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
59373587 GGCTAATCAC
59373597 ATTGGCGGCACCAAAT-GTGCCAAAGAG
1 ATTGGCGGCACC-AATGGTGCCAAAGAG
* *
59373624 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
*
59373651 ATTGCCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
59373676 GACTAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:59373776 original size:19 final size:19
Alignment explanation
Indices: 59373749--59373818 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
59373739 TCAACTCATT
*
59373749 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
**
59373768 TTTTAATTTAATAA-AATA
1 TTTTAATTTAATAACTCTA
* *
59373786 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
59373805 TTTTAATTTAATAA
1 TTTTAATTTAATAA
59373819 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:59373797 original size:37 final size:37
Alignment explanation
Indices: 59373754--59373824 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
59373744 TCATTTTTTT
59373754 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
*
59373791 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
59373825 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:59374077 original size:18 final size:19
Alignment explanation
Indices: 59374040--59374078 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59374030 TCAACTCATT
* *
59374040 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
59374059 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
59374077 TT
1 TT
59374079 CTCATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:59374085 original size:18 final size:19
Alignment explanation
Indices: 59374045--59374087 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
59374035 TCATTTTTTT
* *
59374045 ATTTAATAACTCTATTTTA
1 ATTTAATAACACTATTCTA
*
59374064 ATTTAATAA-ACTATTCTC
1 ATTTAATAACACTATTCTA
59374082 ATTTAA
1 ATTTAA
59374088 ATTAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATAACACTATTCTA
Found at i:59374123 original size:18 final size:18
Alignment explanation
Indices: 59374100--59374163 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
59374090 TAAAATAGAG
59374100 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* * *
59374118 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
59374137 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
59374155 TTATTAAAT
1 TTATTAAAT
59374164 TAAAATAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:59374134 original size:37 final size:37
Alignment explanation
Indices: 59374084--59374179 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
59374074 CTATTCTCAT
59374084 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
59374121 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
59374158 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
59374180 CTTAATTAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:59374184 original size:18 final size:19
Alignment explanation
Indices: 59374084--59374179 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
59374074 CTATTCTCAT
59374084 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
59374103 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
59374121 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
59374140 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
59374158 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
59374177 TTA
1 TTA
59374180 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:59374401 original size:20 final size:19
Alignment explanation
Indices: 59374362--59374402 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59374352 TTAATAAACT
* *
59374362 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
59374381 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
59374401 TT
1 TT
59374403 GAAGGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:59374537 original size:27 final size:27
Alignment explanation
Indices: 59374469--59374539 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
59374459 ATTTTAGTCA
* **
59374469 TTTGGCACCATTGGAGCCGGCAATCAC
1 TTTGGCACCATTGGTGCCACCAATCAC
*
59374496 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCACCAATCAC
*
59374523 TTTGGCACCTTTGGTGC
1 TTTGGCACCATTGGTGC
59374540 AGCCAATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCACCAATCAC
Found at i:59374554 original size:27 final size:27
Alignment explanation
Indices: 59374470--59374556 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
59374460 TTTTAGTCAT
* ** * *
59374470 TTGGCACCATTGGAGCCGGCAATCACT
1 TTGGCACCATTGGTGCCACCAATCTCA
*
59374497 TTGGCACCATTGGTGCCACCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * *
59374524 TTGGCACCTTTGGTG-CAGCCAATGTGA
1 TTGGCACCATTGGTGCCA-CCAATCTCA
59374551 TTGGCA
1 TTGGCA
59374557 TGATCAGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.04
27 49 0.96
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:59374615 original size:13 final size:12
Alignment explanation
Indices: 59374596--59374627 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
59374586 CTTTTGCAGG
59374596 TTTTTTTTTGTT
1 TTTTTTTTTGTT
59374608 TTTGTTTTTTGTT
1 TTT-TTTTTTGTT
59374621 TTTTTTT
1 TTTTTTT
59374628 GTATATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:59374676 original size:24 final size:25
Alignment explanation
Indices: 59374644--59374693 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
59374634 TTTCGTAAAT
59374644 AATAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAGTTAATATTTTGGTA
59374668 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAG-T-TAATATTTTGGT
59374694 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
27 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAAAAAAAGTTAATATTTTGGTA
Found at i:59375306 original size:19 final size:20
Alignment explanation
Indices: 59375284--59375323 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
59375274 ATAATTTTTT
*
59375284 AATATTTATATTAA-ATAAA
1 AATAATTATATTAATATAAA
59375303 AATAATTATATTAATATAAA
1 AATAATTATATTAATATAAA
59375323 A
1 A
59375324 TGAAATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTATATTAATATAAA
Found at i:59376382 original size:18 final size:19
Alignment explanation
Indices: 59376355--59376396 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
59376345 AATTTTAATT
*
59376355 TTTTTATATATTATTTAG-A
1 TTTTTATATAAT-TTTAGAA
59376374 TTTTT-TATAATTTTAGAA
1 TTTTTATATAATTTTAGAA
59376392 TTTTT
1 TTTTT
59376397 GTAAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTATATAATTTTAGAA
Found at i:59376411 original size:19 final size:18
Alignment explanation
Indices: 59376339--59376437 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
59376329 TTTAGAAAAA
59376339 TTTTAAA-ATTTT-AATTT
1 TTTTAAATATTTTGAA-TT
* *
59376356 TTTTATATATTATTTAGATT
1 TTTTAAATATT-TTGA-ATT
*
59376376 TTTTATAAT-TTTAGAATT
1 TTTTA-AATATTTTGAATT
59376394 TTTGTAAATATTTTGAATT
1 TTT-TAAATATTTTGAATT
***
59376413 TAAAAAATTATTTTGAATT
1 TTTTAAA-TATTTTGAATT
59376432 ATTTTA
1 -TTTTA
59376438 TATTTTTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 15
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.10
18 15 0.24
19 26 0.42
20 12 0.19
21 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTAAATATTTTGAATT
Found at i:59377795 original size:15 final size:15
Alignment explanation
Indices: 59377751--59377789 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
59377741 AACTAAACCC
*
59377751 CAAA-AACCCAAAAA
1 CAAAGAACCCGAAAA
59377765 CAAAGAACCCGAAAA
1 CAAAGAACCCGAAAA
59377780 CAAAGAACCC
1 CAAAGAACCC
59377790 TCAAACGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.62, C:0.31, G:0.08, T:0.00
Consensus pattern (15 bp):
CAAAGAACCCGAAAA
Found at i:59378564 original size:37 final size:37
Alignment explanation
Indices: 59378458--59378566 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 37
59378448 TTTTTCTTTT
** * *
59378458 TTTTGAAAACACGAAATTTTTTTAAAAATACAAG-AAT
1 TTTTG-AAACACGAAATTTTTTTTTAAATACACGAAAA
* *
59378495 TTTTGAAACACGAAACTTTTTTTTAAAAACACGAAAA
1 TTTTGAAACACGAAATTTTTTTTTAAATACACGAAAA
* *
59378532 TTTTGAAACACGAGATTTTTTTTTGAATACACGAA
1 TTTTGAAACACGAAATTTTTTTTTAAATACACGAA
59378567 TTTTCTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
36 23 0.38
37 38 0.62
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (37 bp):
TTTTGAAACACGAAATTTTTTTTTAAATACACGAAAA
Found at i:59378681 original size:18 final size:18
Alignment explanation
Indices: 59378658--59379016 Score: 201
Period size: 18 Copynumber: 20.1 Consensus size: 18
59378648 GAGGATTTAA
59378658 GAAAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
*
59378676 GAAAATTTTT---TA-A-
1 GAAAATTTTTGAAAACAC
59378689 GAAAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
**
59378707 GAAAATTTTTTAAGAAAACGG
1 GAAAA-TTTTT--GAAAACAC
**
59378728 GAATTTTTTTTGAAAACAC
1 GAA-AATTTTTGAAAACAC
*
59378747 -AGAAATTTATG-AAACAC
1 GA-AAATTTTTGAAAACAC
** *
59378764 GGAATTTTTTTGAAAATAC
1 -GAAAATTTTTGAAAACAC
*
59378783 -AGAAATTTATG-AAACAC
1 GA-AAATTTTTGAAAACAC
*** *
59378800 GGATTTTTTTTGAAAACAA
1 -GAAAATTTTTGAAAACAC
* *
59378819 GAAAATTTTCG-AAATAC
1 GAAAATTTTTGAAAACAC
* *
59378836 GAAAACTTTTGAAAACAAA
1 GAAAATTTTTGAAAAC-AC
* *
59378855 GCAAATTTTTTTGAAAACAT
1 G-AAA-ATTTTTGAAAACAC
**
59378875 GAGGATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
*** *
59378892 AGATTTTTTTTGAAAATAC
1 -GAAAATTTTTGAAAACAC
* *
59378911 GAAAATTTCTGAAAATAC
1 GAAAATTTTTGAAAACAC
59378929 -AGAAATTTTT-AAAACAC
1 GA-AAATTTTTGAAAACAC
**
59378946 GGGAATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
59378963 TG-AAATTTTTGAAAACAC
1 -GAAAATTTTTGAAAACAC
*
59378981 GAGAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
59378999 GAAAATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
59379016 G
1 G
59379017 GGAATTTTTT
Statistics
Matches: 256, Mismatches: 56, Indels: 59
0.69 0.15 0.16
Matches are distributed among these distances:
13 10 0.04
14 1 0.00
15 1 0.00
16 1 0.00
17 67 0.26
18 115 0.45
19 32 0.12
20 5 0.02
21 24 0.09
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (18 bp):
GAAAATTTTTGAAAACAC
Found at i:59378691 original size:31 final size:31
Alignment explanation
Indices: 59378653--59378724 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
59378643 AACACGAGGA
59378653 TTTAAGAAAATTTTTGAAAACACGAAAATTT
1 TTTAAGAAAATTTTTGAAAACACGAAAATTT
59378684 TTTAAGAAAATTTTTGAAAACACGAAAATTT
1 TTTAAGAAAATTTTTGAAAACACGAAAATTT
59378715 TTTAAGAAAA
1 TTTAAGAAAA
59378725 CGGGAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (31 bp):
TTTAAGAAAATTTTTGAAAACACGAAAATTT
Found at i:59378763 original size:17 final size:17
Alignment explanation
Indices: 59378741--59378799 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
59378731 TTTTTTTTGA
59378741 AAACACAGAAATTTATG
1 AAACACAGAAATTTATG
* * *
59378758 AAACACGGAATTTTTTTG
1 AAACACAGAA-ATTTATG
*
59378776 AAAATACAGAAATTTATG
1 -AAACACAGAAATTTATG
59378794 AAACAC
1 AAACAC
59378800 GGATTTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 14 0.44
18 10 0.31
19 8 0.25
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
AAACACAGAAATTTATG
Found at i:59379026 original size:18 final size:17
Alignment explanation
Indices: 59378932--59379025 Score: 116
Period size: 17 Copynumber: 5.4 Consensus size: 17
59378922 AAAATACAGA
*
59378932 AATTTTTAAAACACGGG
1 AATTTTTGAAACACGGG
* *
59378949 AATTTTTGAAACACTGA
1 AATTTTTGAAACACGGG
*
59378966 AATTTTTGAAAACACGAG
1 AATTTTTG-AAACACGGG
**
59378984 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGGG
59379002 AATTTTTGAAACACGGG
1 AATTTTTGAAACACGGG
59379019 AATTTTT
1 AATTTTT
59379026 TTTACACAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
17 36 0.54
18 31 0.46
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (17 bp):
AATTTTTGAAACACGGG
Found at i:59379202 original size:19 final size:18
Alignment explanation
Indices: 59379180--59379247 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
59379170 AAACACGAGA
59379180 AAAATTTTTTGAAGACATG
1 AAAATTTTTTGAA-ACATG
* *
59379199 AAAA-ATTTTGAAAGAT-
1 AAAATTTTTTGAAACATG
59379215 AGAAATTTTTTGAAATCATG
1 A-AAATTTTTTGAAA-CATG
* *
59379235 AGATTTTTTTGAA
1 AAAATTTTTTGAA
59379248 TATTTTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 6 0.15
18 15 0.38
19 16 0.41
20 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (18 bp):
AAAATTTTTTGAAACATG
Found at i:59379203 original size:21 final size:20
Alignment explanation
Indices: 59379163--59379207 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
59379153 ACACGACTAT
59379163 TTTTTTGAAACACGAGAAAAA
1 TTTTTTGAAACACG-GAAAAA
*
59379184 TTTTTTGAAGACA-TGAAAAA
1 TTTTTTGAA-ACACGGAAAAA
59379204 TTTT
1 TTTT
59379208 GAAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 9 0.41
22 3 0.14
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTTTGAAACACGGAAAAA
Found at i:59379584 original size:17 final size:16
Alignment explanation
Indices: 59379544--59379586 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
59379534 AATTGAACCT
*
59379544 TTTTTTTCGTTTTTCC
1 TTTTTTTCTTTTTTCC
59379560 TTTTTTTCTTTTTTCTC
1 TTTTTTTCTTTTTTC-C
59379577 TTTTTTTCTT
1 TTTTTTTCTT
59379587 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTTTTTCC
Found at i:59379586 original size:8 final size:8
Alignment explanation
Indices: 59379544--59379586 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
59379534 AATTGAACCT
59379544 TTTTTTTC
1 TTTTTTTC
* *
59379552 GTTTTTCC
1 TTTTTTTC
59379560 TTTTTTTC
1 TTTTTTTC
59379568 TTTTTTCTC
1 TTTTTT-TC
59379577 TTTTTTTC
1 TTTTTTTC
59379585 TT
1 TT
59379587 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:59379594 original size:13 final size:13
Alignment explanation
Indices: 59379576--59379609 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
59379566 TCTTTTTTCT
59379576 CTTTTTTTCTTCC
1 CTTTTTTTCTTCC
*
59379589 CTTTTTTTCTTCT
1 CTTTTTTTCTTCC
59379602 CTTTTTTT
1 CTTTTTTT
59379610 TCTGGCCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTCC
Found at i:59379879 original size:6 final size:6
Alignment explanation
Indices: 59379870--59379949 Score: 74
Period size: 6 Copynumber: 12.8 Consensus size: 6
59379860 TATTTTTTTC
*
59379870 TTCTTT TTCTTT TTCCTTT TTCCTTT TTCTTT CTTCTTT TTCTTC TTC--T
1 TTCTTT TTCTTT TT-CTTT TT-CTTT TTCTTT -TTCTTT TTCTTT TTCTTT
* *
59379919 TTCTTT CTCTTT TTCTTCT TTTTTCT TTCTT
1 TTCTTT TTCTTT TTCTT-T TTCTT-T TTCTT
59379950 CCTCCCCGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
4 3 0.05
6 30 0.48
7 30 0.48
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:59379890 original size:8 final size:7
Alignment explanation
Indices: 59379872--59379952 Score: 53
Period size: 7 Copynumber: 11.3 Consensus size: 7
59379862 TTTTTTTCTT
59379872 CTTTTT-
1 CTTTTTC
59379878 CTTTTTC
1 CTTTTTC
59379885 CTTTTTC
1 CTTTTTC
59379892 CTTTTT-
1 CTTTTTC
59379898 CTTTCTT-
1 CTTT-TTC
59379905 CTTTTT-
1 CTTTTTC
*
59379911 CTTCTTC
1 CTTTTTC
*
59379918 TTTCTTTC
1 CTT-TTTC
59379926 TCTTTTTC
1 -CTTTTTC
*
59379934 TTCTTTTTT
1 --CTTTTTC
59379943 CTTTCTTC
1 CTTT-TTC
59379951 CT
1 CT
59379953 CCCCGATCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
6 17 0.27
7 25 0.40
8 11 0.18
9 9 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
CTTTTTC
Found at i:59379890 original size:13 final size:12
Alignment explanation
Indices: 59379870--59379949 Score: 74
Period size: 13 Copynumber: 6.4 Consensus size: 12
59379860 TATTTTTTTC
59379870 TTCTTTTTCTTT
1 TTCTTTTTCTTT
59379882 TTCCTTTTTCCTTT
1 TT-CTTTTT-CTTT
59379896 TTCTTTCTTCTTT
1 TTCTTT-TTCTTT
*
59379909 TTCTTCTTC--T
1 TTCTTTTTCTTT
*
59379919 TTCTTTCTCTTT
1 TTCTTTTTCTTT
*
59379931 TTCTTCTTTTTTCT
1 TTCTT-TTTCTT-T
59379945 TTCTT
1 TTCTT
59379950 CCTCCCCGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
10 8 0.14
12 11 0.20
13 23 0.41
14 14 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:59379908 original size:33 final size:35
Alignment explanation
Indices: 59379862--59379952 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 35
59379852 AATATTATTA
59379862 TTTT-TTTCTTCTTTTTCTTTTTCCTT-TTTC-CT
1 TTTTCTTTCTTCTTTTTCTTTTTCCTTCTTTCTCT
* *
59379894 TTTTCTTTCTTCTTTTTCTTCTTCTTTCTTTCTCT
1 TTTTCTTTCTTCTTTTTCTTTTTCCTTCTTTCTCT
59379929 TTTTC-TTC-T-TTTTTCTTTCTTCCT
1 TTTTCTTTCTTCTTTTTCTTT-TTCCT
59379953 CCCCGATCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
32 12 0.24
33 25 0.49
34 7 0.14
35 7 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTTCTTTCTTCTTTTTCTTTTTCCTTCTTTCTCT
Found at i:59379931 original size:42 final size:44
Alignment explanation
Indices: 59379864--59379950 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 44
59379854 TATTATTATT
*
59379864 TTTTTCTTCTTTTTCTTTTTCCTTTTTC-C-TTTTTCTTTCTTC
1 TTTTTCTTCTTTTTCTTTCTCCTTTTTCTCTTTTTTCTTTCTTC
59379906 TTTTTCTTCTTCTTTCTTTCT-CTTTTTCTTCTTTTTTCTTTCTTC
1 TTTTTCTTCTT-TTTCTTTCTCCTTTTTC-TCTTTTTTCTTTCTTC
59379951 CTCCCCGATC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
42 18 0.45
43 8 0.20
44 1 0.03
45 13 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (44 bp):
TTTTTCTTCTTTTTCTTTCTCCTTTTTCTCTTTTTTCTTTCTTC
Found at i:59379932 original size:22 final size:21
Alignment explanation
Indices: 59379864--59379948 Score: 111
Period size: 22 Copynumber: 4.0 Consensus size: 21
59379854 TATTATTATT
*
59379864 TTTTTCTTCTTTTTCTTTTTCC
1 TTTTTCTTCTTTTTCTTTCT-C
59379886 TTTTTC--CTTTTTCTTTCTTC
1 TTTTTCTTCTTTTTCTTTC-TC
59379906 TTTTTCTTCTTCTTTCTTTCTC
1 TTTTTCTTCTT-TTTCTTTCTC
59379928 TTTTTCTTCTTTTTTCTTTCT
1 TTTTTCTTC-TTTTTCTTTCT
59379949 TCCTCCCCGA
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
20 17 0.30
21 1 0.02
22 29 0.51
23 10 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTCTTCTTTTTCTTTCTC
Found at i:59379934 original size:19 final size:19
Alignment explanation
Indices: 59379866--59379944 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
59379856 TTATTATTTT
59379866 TTTCTTCTTTTTCTT-TTTCC
1 TTTC-TCTTTTTCTTCTTT-C
* *
59379886 TTTTTC-CTTT-TTCTTTC
1 TTTCTCTTTTTCTTCTTTC
*
59379903 -TTCTTTTTCTTCTTCTTTC
1 TTTCTCTTT-TTCTTCTTTC
59379922 TTTCTCTTTTTCTTCTTT-
1 TTTCTCTTTTTCTTCTTTC
59379940 TTTCT
1 TTTCT
59379945 TTCTTCCTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.06
17 4 0.08
18 13 0.27
19 18 0.38
20 10 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTCTTTTTCTTCTTTC
Found at i:59380532 original size:59 final size:60
Alignment explanation
Indices: 59380450--59380580 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 60
59380440 TAATTTTGAG
** * * **
59380450 AAAGTTTA-GGGTCAAAATATAATTTTGAGAAATTTTAGAGGTTGAAATGTAATTTCA-A
1 AAAGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
* * *
59380508 AATA-TTTAGGGGTTTAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTTTAGA
1 AA-AGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
59380568 AAAGTTTAGGGGT
1 AAAGTTTAGGGGT
59380581 CAAAATGCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
58 6 0.10
59 42 0.70
60 12 0.20
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (60 bp):
AAAGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
Found at i:59380548 original size:30 final size:30
Alignment explanation
Indices: 59380419--59380587 Score: 166
Period size: 30 Copynumber: 5.7 Consensus size: 30
59380409 TAATGGCAGC
* * * *
59380419 AAAACTTTTGGGGTCGAAACGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
* *
59380449 GAAAGTTTA-GGGTCAAAATATAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
* * * ** *
59380478 GAAATTTTAGAGGTTGAAATGTAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
**
59380507 AAATA-TTTAGGGGTTTAAATGTAATTTTGA
1 AAA-AGTTTAGGGGTCAAAATGTAATTTTGA
59380537 AAAAGTTTAGGGGTCAAAATGTAATTTT-A
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
59380566 GAAAAGTTTAGGGGTCAAAATG
1 -AAAAGTTTAGGGGTCAAAATG
59380588 CAAAAAAAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 50 0.43
30 66 0.57
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.35
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTGA
Found at i:59380658 original size:25 final size:25
Alignment explanation
Indices: 59380630--59380680 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
59380620 AAAAATTCAG
59380630 TAATTATAGGGCCTATCTTGAACTA
1 TAATTATAGGGCCTATCTTGAACTA
59380655 TAATTATAGGGCCTATCTTGAACTA
1 TAATTATAGGGCCTATCTTGAACTA
59380680 T
1 T
59380681 GTAGGGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (25 bp):
TAATTATAGGGCCTATCTTGAACTA
Found at i:59383406 original size:10 final size:10
Alignment explanation
Indices: 59383391--59383420 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
59383381 ATGCCAAAAG
59383391 AAGAACAACA
1 AAGAACAACA
59383401 AAGAACAACA
1 AAGAACAACA
59383411 AAGAACAACA
1 AAGAACAACA
59383421 GAAAGAACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.20, G:0.10, T:0.00
Consensus pattern (10 bp):
AAGAACAACA
Found at i:59386379 original size:49 final size:49
Alignment explanation
Indices: 59386303--59386494 Score: 167
Period size: 49 Copynumber: 3.9 Consensus size: 49
59386293 CAAAATGTGG
* * *
59386303 AAAACCATCATTGAC-GGGCCACTCGGGATGGTAAATTGTGTAAATTGTA
1 AAAACCATCATT-ACTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
* ** *
59386352 AAAATCATCATTACTGAGCCACCCGGGATGGTAGAATAT-T-CAAATAATG
1 AAAACCATCATTACTGAGCCACCCGGGATGGTA-AAT-TGTGCAAATTGTA
* * * * *
59386401 AAAACCATCATTGCTGGGCCACTCGGGATGGTAAATTTTGTAAATTGTA
1 AAAACCATCATTACTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
* * * * *
59386450 AAAACTATCATT-GTCGAGCTATCCGGGATGGTAAAATGTGCAAAT
1 AAAACCATCATTACT-GAGCCACCCGGGATGGTAAATTGTGCAAAT
59386495 AATGAAAACT
Statistics
Matches: 113, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.01
48 7 0.06
49 100 0.88
50 4 0.04
51 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAACCATCATTACTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
Found at i:59386476 original size:98 final size:98
Alignment explanation
Indices: 59386302--59386876 Score: 376
Period size: 98 Copynumber: 5.9 Consensus size: 98
59386292 TCAAAATGTG
59386302 GAAAACCATCATTGAC-GGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAA-TCATCATT-
1 GAAAACCATCATTG-CTGGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAACT-ATCATTG
* * *
59386364 ACTGAGCCACCCGGGATGGTAGAATATTCAAATAAT
64 TC-GAGCCATCCGGGATGGTAGAATATGCAAATAAT
*
59386400 GAAAACCATCATTGCTGGGCCACTCGGGATGGTAAATTTTGTAAATTGTAAAAACTATCATTGTC
1 GAAAACCATCATTGCTGGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTC
* * *
59386465 GAGCTATCCGGGATGGTAAAATGTGCAAATAAT
66 GAGCCATCCGGGATGGTAGAATATGCAAATAAT
* ** * ** * * * *
59386498 GAAAA-C-T-ATTGCTGTCGTGCCAC-CTGGAATCATGAATTGCATAAACTATGAAAACCATCAT
1 GAAAACCATCATTGCTG--G-GCCACTC-GGGATGGTAAATTGTGTAAATTGTAAAAACTATCAT
** * * * * *
59386559 TGTTAAGACATCCGAGATGGTAGAATATACAGATAGT
62 TGTCGAGCCATCCGGGATGGTAGAATATGCAAATAAT
* * ** * * * * * * * *
59386596 GGAAGCCATTGTTGTTGGGCCA-TCTAGGATTGTAGAAAAT-CG--AA--GTGAGAACCATCATT
1 GAAAACCATCATTGCTGGGCCACTC-GGGATGGT--AAATTGTGTAAATTGTAAAAACTATCATT
** * *
59386655 ACCTG-GCCACCCGAGATGGTAGAATATGCAAATAAT
63 GTC-GAGCCATCCGGGATGGTAGAATATGCAAATAAT
* * * *
59386691 GAAAACCATCGTTGTTGGGTCACCCGGGAT-GTAAATTGTGTAAATTGTAAAAACTATCATTGTC
1 GAAAACCATCATTGCTGGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTC
* *
59386755 GAGCTATCCGGGATGGTAAAATATGCAAATAAT
66 GAGCCATCCGGGATGGTAGAATATGCAAATAAT
* * *** * * * **
59386788 GAAAA-C--CATTGCTGTCAGGCCACTCAGGATGATAAATTACATAAACTGTGAAAACCATTGTT
1 GAAAACCATCATTGCTG---GGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATT
* *
59386850 GTCGAGACATCCGAGATGGTAGAATAT
63 GTCGAGCCATCCGGGATGGTAGAATAT
59386877 ACAGATAGTG
Statistics
Matches: 367, Mismatches: 85, Indels: 50
0.73 0.17 0.10
Matches are distributed among these distances:
92 4 0.01
93 1 0.00
94 8 0.02
95 70 0.19
96 4 0.01
97 61 0.17
98 205 0.56
99 5 0.01
100 4 0.01
101 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (98 bp):
GAAAACCATCATTGCTGGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTC
GAGCCATCCGGGATGGTAGAATATGCAAATAAT
Found at i:59386715 original size:49 final size:47
Alignment explanation
Indices: 59386662--59386796 Score: 119
Period size: 48 Copynumber: 2.8 Consensus size: 47
59386652 ATTACCTGGC
* * * *
59386662 CACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCGTTGTTGGG
1 CACCCGGGATGGTA-AATATGCAAATAATGAAAACCATCATTGTCGAG
* * ** * *
59386710 TCACCCGGGAT-GTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAG
1 -CACCCGGGATGGTAAA-TATGCAAATAATGAAAACCATCATTGTCGAG
*
59386758 CTATCCGGGATGGTAAAATATGCAAATAATGAAAACCAT
1 C-ACCCGGGATGGT-AAATATGCAAATAATGAAAACCAT
59386797 TGCTGTCAGG
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
47 3 0.05
48 33 0.51
49 26 0.40
50 3 0.05
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (47 bp):
CACCCGGGATGGTAAATATGCAAATAATGAAAACCATCATTGTCGAG
Found at i:59386878 original size:290 final size:290
Alignment explanation
Indices: 59386357--59386955 Score: 952
Period size: 290 Copynumber: 2.1 Consensus size: 290
59386347 TTGTAAAAAT
* *
59386357 CATCATTACTGAGCCACCCGGGATGGTAGAATATTCAAATAATGAAAACCATCATTGCTGGGCCA
1 CATCATTACTG-GCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGCTGGGCCA
* *
59386422 CTCGGGATGGTAAATTTTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAAT
65 CCCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAAT
* * * * *
59386487 GTGCAAATAATGAAAACTATTGCTGTCGTGCCACCTGGAATCATGAATTGCATAAACTATGAAAA
130 ATGCAAATAATGAAAACCATTGCTGTCGTGCCACCAGGAATCATAAATTACATAAACTATGAAAA
*
59386552 CCATCATTGTTAAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCC
195 CCATCATTGTCAAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCC
* *
59386617 ATCTAGGATTGTAGAAAATCGAAGTGAGAAC
260 ATCTAGAATGGTAGAAAATCGAAGTGAGAAC
* * *
59386648 CATCATTACCTGGCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCGTTGTTGGGTCA
1 CATCATTA-CTGGCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGCTGGGCCA
59386713 CCCGGGAT-GTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAAT
65 CCCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAAT
* *
59386777 ATGCAAATAATGAAAACCATTGCTGTCAG-GCCACTCAGG-ATGATAAATTACATAAACTGTGAA
130 ATGCAAATAATGAAAACCATTGCTGTC-GTGCCAC-CAGGAATCATAAATTACATAAACTATGAA
** *
59386840 AACCATTGTTGTCGAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGG
193 AACCATCATTGTCAAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGG
59386905 CCATCTAGAATGGTAGAAAATCGAAGTGAGAAC
258 CCATCTAGAATGGTAGAAAATCGAAGTGAGAAC
59386938 CATCATTACTAGGCCACC
1 CATCATTACT-GGCCACC
59386956 TAGGATGGTG
Statistics
Matches: 284, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
289 2 0.01
290 212 0.75
291 67 0.24
292 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (290 bp):
CATCATTACTGGCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGCTGGGCCAC
CCGGGATGGTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATA
TGCAAATAATGAAAACCATTGCTGTCGTGCCACCAGGAATCATAAATTACATAAACTATGAAAAC
CATCATTGTCAAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCA
TCTAGAATGGTAGAAAATCGAAGTGAGAAC
Found at i:59388467 original size:3 final size:3
Alignment explanation
Indices: 59388459--59388500 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
59388449 CTGTTGTCAC
59388459 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59388501 CCTTTATCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:59394529 original size:22 final size:23
Alignment explanation
Indices: 59394504--59394557 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
59394494 AGTATAAAGG
59394504 ATATATATAGACATGAACTAA-A
1 ATATATATAGACATGAACTAACA
* * * *
59394526 ATATGTGTATACATGAATTAACA
1 ATATATATAGACATGAACTAACA
*
59394549 AAATATATA
1 ATATATATA
59394558 AAGTATATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
ATATATATAGACATGAACTAACA
Found at i:59395002 original size:3 final size:3
Alignment explanation
Indices: 59394994--59395040 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
59394984 AATAAATAGG
* * *
59394994 TAA TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
59395041 GGACTAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59396115 original size:15 final size:16
Alignment explanation
Indices: 59396089--59396118 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59396079 TAGTGTTTAG
59396089 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
59396105 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
59396119 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:59396535 original size:43 final size:43
Alignment explanation
Indices: 59396449--59396770 Score: 228
Period size: 43 Copynumber: 7.4 Consensus size: 43
59396439 CTCTACTGCC
* * * * * *
59396449 ACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTA
1 ACTTCAGGGAGATAAGATTATGT-CTTTAATCTGCTCCGCTGTA
* *
59396493 ACTTCAGGGAGATAGGATTATGTCTTTAATCTACTCCGCTGTA
1 ACTTCAGGGAGATAAGATTATGTCTTTAATCTGCTCCGCTGTA
* *
59396536 ACCTCAGGGAGATATGATTATGTCTTTAATCTGCTCCGCTGTA
1 ACTTCAGGGAGATAAGATTATGTCTTTAATCTGCTCCGCTGTA
* ** * *
59396579 ACCTCAGGGAGATAAGATCTGCAAT-TCTCCAGTCTACTCCGCTGTA
1 ACTTCAGGGAGATAAGAT-T---ATGTCTTTAATCTGCTCCGCTGTA
* * * * **
59396625 A-TCTCAGGGAAATAAGACCTGATG-C---GATCTACTCTACTGTA
1 ACT-TCAGGGAGATAAGA--TTATGTCTTTAATCTGCTCCGCTGTA
* * * * *
59396666 ACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTA
1 ACTTCAGGGAGATAAGAT--TATGTCTTTAATCTGCTCCGCTGTA
* * *
59396710 ACTTCAGGGAGATAGGATTATGTCTGTAATCTGCTCCGCTATA
1 ACTTCAGGGAGATAAGATTATGTCTTTAATCTGCTCCGCTGTA
59396753 A-TCTCAGGGAGATAAGAT
1 ACT-TCAGGGAGATAAGAT
59396771 CTGAAATTCT
Statistics
Matches: 220, Mismatches: 41, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.00
41 26 0.12
42 5 0.02
43 103 0.47
44 51 0.23
46 31 0.14
47 2 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
ACTTCAGGGAGATAAGATTATGTCTTTAATCTGCTCCGCTGTA
Found at i:59396719 original size:174 final size:174
Alignment explanation
Indices: 59396487--59396995 Score: 700
Period size: 174 Copynumber: 2.9 Consensus size: 174
59396477 AATCCGCTCC
* * * ** * *
59396487 ACTGTAACTTCAGGGAGATAGGAT--TATGTCTTTAATCTACTCCGCTGTAACCTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGT-TTTAATCCGCTCCACTGTAACTTCAGGGAGATA
* * * * *
59396550 TGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTCCAGTCTA
65 GGATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
* * **
59396615 CTCCGCTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCT
130 TTCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCT
*
59396660 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
* * *
59396725 GATTATGTCTGTAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTAT
66 GATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAT
59396790 TCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCT
131 TCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCT
* * * *
59396834 GCTGGAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCACTGCAA-TATCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACT-TCAGGGAGATA
* *
59396898 GGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTCGGTC
65 GGATTA-TGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC-TTCGGTC
* * *
59396963 TGTTCCAATGTAGTCTCAGGGAAATAAGACCTG
128 TATTCCACTGTAATCTCAGGGAAATAAGACCTG
59396996 TATAATGAAC
Statistics
Matches: 298, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
173 23 0.08
174 190 0.64
175 49 0.16
176 36 0.12
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (174 bp):
ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
GATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAT
TCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCT
Found at i:59409190 original size:22 final size:23
Alignment explanation
Indices: 59409165--59409218 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
59409155 AGTATAAAGG
59409165 ATATATATAGACATGAACTAA-A
1 ATATATATAGACATGAACTAACA
* * * *
59409187 ATATGTGTATACATGAATTAACA
1 ATATATATAGACATGAACTAACA
*
59409210 AAATATATA
1 ATATATATA
59409219 AAGTATATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
ATATATATAGACATGAACTAACA
Found at i:59409663 original size:3 final size:3
Alignment explanation
Indices: 59409655--59409710 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
59409645 AATAAATAGG
* * *
59409655 TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59409703 TAA TAA TA
1 TAA TAA TA
59409711 GGACTAATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59410785 original size:15 final size:16
Alignment explanation
Indices: 59410759--59410788 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59410749 TAGTGTTTAG
59410759 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
59410775 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
59410789 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:59412828 original size:13 final size:13
Alignment explanation
Indices: 59412810--59412834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59412800 AATCGATAAT
59412810 GGTGGTCAATGGC
1 GGTGGTCAATGGC
59412823 GGTGGTCAATGG
1 GGTGGTCAATGG
59412835 AGGCTGGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.48, T:0.24
Consensus pattern (13 bp):
GGTGGTCAATGGC
Found at i:59414443 original size:27 final size:28
Alignment explanation
Indices: 59414328--59414474 Score: 99
Period size: 27 Copynumber: 5.4 Consensus size: 28
59414318 ATTATCCTAG
** * *
59414328 GTTTACTGTCCCGACAGGCTACCTC-AT
1 GTTTACTGTCCCGACAGATTACCACTGT
* * *
59414355 GTTTACTGTTACGGA-AGATTA-CTCTGT
1 GTTTACTG-TCCCGACAGATTACCACTGT
* * * * **
59414382 GTTTACTATCCCAAAAGACTA-TTCTGT
1 GTTTACTGTCCCGACAGATTACCACTGT
**
59414409 GTTTACTGTCCCGATGGATTACC-CTGT
1 GTTTACTGTCCCGACAGATTACCACTGT
*
59414436 GTTTACTGTCCTGACAGATTACCAC-GT
1 GTTTACTGTCCCGACAGATTACCACTGT
59414463 GTTTACTGTCCC
1 GTTTACTGTCCC
59414475 AGCAGACTAT
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.06
27 83 0.88
28 5 0.05
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (28 bp):
GTTTACTGTCCCGACAGATTACCACTGT
Found at i:59417792 original size:17 final size:18
Alignment explanation
Indices: 59417759--59417792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59417749 ATTATATTAA
*
59417759 ATGAATTTTGACATATTT
1 ATGAACTTTGACATATTT
59417777 ATGAACTTTG-CATATT
1 ATGAACTTTGACATATT
59417793 CGATCTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (18 bp):
ATGAACTTTGACATATTT
Found at i:59427532 original size:5 final size:5
Alignment explanation
Indices: 59427509--59427583 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
59427499 TCTATTTTCC
*
59427509 TTTAT TGTTAT TATTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
59427560 GTTCA- TTTA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TTTAT TT
59427584 ATATGTCCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
4 19 0.31
5 29 0.48
6 13 0.21
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:59427535 original size:4 final size:4
Alignment explanation
Indices: 59427526--59427627 Score: 71
Period size: 4 Copynumber: 23.8 Consensus size: 4
59427516 TTATTATTAT
59427526 TTTA TTTA TTTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA TTTA -TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** * *
59427577 TTTA TTTA TATG TCCA TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
59427625 TTT
1 TTT
59427628 GTTGTTGTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
3 2 0.02
4 46 0.57
5 31 0.38
6 2 0.02
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:59427588 original size:28 final size:27
Alignment explanation
Indices: 59427535--59427627 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
59427525 TTTTATTTAT
59427535 TTTATTTTATTTTATTTTACTTTATGTTCA
1 TTTA-TTTA-TTTA-TTTACTTTATGTTCA
* *
59427565 TTTATTTATTTATTTATTTATATGTCCA
1 TTTATTTATTTATTTACTT-TATGTTCA
* * *
59427593 TTTTTTTATGT-TTTAGTTTAT-TT-A
1 TTTATTTATTTATTTACTTTATGTTCA
59427617 TTTATTTATTT
1 TTTATTTATTT
59427628 GTTGTTGTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
24 10 0.19
25 1 0.02
26 3 0.06
27 12 0.22
28 20 0.37
29 4 0.07
30 4 0.07
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTATTTATTTATTTACTTTATGTTCA
Found at i:59428001 original size:106 final size:106
Alignment explanation
Indices: 59427770--59428080 Score: 408
Period size: 106 Copynumber: 2.9 Consensus size: 106
59427760 AAATTTTTCT
* * * * *
59427770 AAATGAGGCAATATTTAGCTTTT-AGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCTTTTGA-AAATTCGAG-AAACGTGCCCTAAGGTGCTGGGTTTCGA-
* * * *
59427834 TTTTCTCGTTCAACAAAATTGCTTAATATTCTTTTAAAAAATTTCA
63 -TTTCTCGTTCAACCAAATTGCTAAATA-TCCTTTAAAAAATTACA
*
59427880 AAATAAGGCAATGTTTTGCTTTTGAAAATTCCAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTT
1 AAATAAGGCAATGTTTTGCTTTTGAAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTT
* *
59427945 CTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACA
66 CTCGTTCAACCAAATTGCTAAATATCCTTTAAAAAATTACA
* * * *
59427986 AAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTT
1 AAATAAGGCAATGTTTTGCTTTTGAAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTT
* *
59428051 CTCGTTTAACCAAATTGCCAAATATCCTTT
66 CTCGTTCAACCAAATTGCTAAATATCCTTT
59428081 TGAATTTAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
106 101 0.56
107 24 0.13
109 26 0.14
110 28 0.16
111 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (106 bp):
AAATAAGGCAATGTTTTGCTTTTGAAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTT
CTCGTTCAACCAAATTGCTAAATATCCTTTAAAAAATTACA
Found at i:59429501 original size:19 final size:20
Alignment explanation
Indices: 59429461--59429504 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
59429451 GTCTCTTTAG
* *
59429461 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
59429480 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
59429499 GCATTA
1 GCATTA
59429505 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:59431747 original size:274 final size:274
Alignment explanation
Indices: 59431144--59431962 Score: 1406
Period size: 274 Copynumber: 3.0 Consensus size: 274
59431134 CAAAGATGTC
* ** *
59431144 TTTGTATGATCATACCAGGGTATGCCTCGATTCTTATAATAAAATCTGCACAACAGCATGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
** * *
59431209 AGAAATTCGCAATGCGAACGATGCAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
* ** * * * **
59431274 AGCTTTGCCCATTTGAAGTCAAGTTCCCATCCCTTCAAGATGTTGCTGGATTTTATCCTAATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
* *
59431339 AGAGGAAGAT-CTAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
*
59431403 TATCAAAGAAGGTT
261 TATCAAAGAAGGAT
*
59431417 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCTTGCACAACAGCACGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
*
59431482 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAACAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
*
59431547 AGGTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
59431612 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
*
59431677 TATCAAAAAAGGAT
261 TATCAAAGAAGGAT
59431691 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
59431756 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
*
59431821 AGCTTTGCCCATTTAAAATTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
59431886 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
*
59431951 TACCAAAGAAGG
261 TATCAAAGAAGG
59431963 TTTCTCACAT
Statistics
Matches: 516, Mismatches: 29, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
273 185 0.36
274 331 0.64
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (274 bp):
TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
TATCAAAGAAGGAT
Found at i:59432115 original size:8 final size:8
Alignment explanation
Indices: 59432075--59432108 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
59432065 GTTTAGACTC
59432075 AAAAAC-A
1 AAAAACAA
59432082 AAAAACAA
1 AAAAACAA
59432090 AAAAACAA
1 AAAAACAA
59432098 AAAAACAA
1 AAAAACAA
59432106 AAA
1 AAA
59432109 TAAAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:59432139 original size:12 final size:12
Alignment explanation
Indices: 59432124--59432171 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
59432114 AATTGAAGTC
59432124 AAAAA-AAAAGAG
1 AAAAATAAAA-AG
*
59432136 AAAAA-AATAAG
1 AAAAATAAAAAG
59432147 AAAAAATAAAAAG
1 -AAAAATAAAAAG
59432160 AAAAATAAAAAG
1 AAAAATAAAAAG
59432172 GAGAGGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 2 0.06
12 25 0.78
13 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:59432140 original size:13 final size:12
Alignment explanation
Indices: 59432124--59432171 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
59432114 AATTGAAGTC
59432124 AAAAAAAAAGAGA
1 AAAAAAAAAGA-A
*
59432137 AAAAAATAAGAA
1 AAAAAAAAAGAA
59432149 AAAATAAAAAGAA
1 AAAA-AAAAAGAA
*
59432162 AAATAAAAAG
1 AAAAAAAAAG
59432172 GAGAGGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:59433018 original size:15 final size:14
Alignment explanation
Indices: 59432998--59433033 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59432988 TTTGAGTCAA
59432998 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
*
59433012 GAAAAATGAAAAAGT
1 -AAAAATGAAAAAAT
59433027 AAAAATG
1 AAAAATG
59433034 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:59434411 original size:50 final size:50
Alignment explanation
Indices: 59434357--59434623 Score: 184
Period size: 50 Copynumber: 5.3 Consensus size: 50
59434347 GCAGCGGAGC
* *
59434357 AGATTGAAGCTACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
** * ** **** **
59434407 AGATTAAAGCCACAACGGTAAATCTTACTT-CCAAAGCGA-TGCAGCGGAGC
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGA-C-ATTGCAATTCAAA
* * *
59434457 AGATTGAAGCTATAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
* * * * **** **
59434507 AGATTAAAGCCACAAC-AGTAAATCTTACTT-CTCAAGCGA-TGCAGCGGAGC
1 AGATTAAAGCCACAACGA-CAAATCTCACTTCCCCGA-C-ATTGCAATTCAAA
* * * *
59434557 AGATTGAAGCTATAACGGCAAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
59434607 AGATTAAAGCCACAACG
1 AGATTAAAGCCACAACG
59434624 TTAAAAAGAT
Statistics
Matches: 150, Mismatches: 57, Indels: 20
0.66 0.25 0.09
Matches are distributed among these distances:
49 9 0.06
50 133 0.89
51 8 0.05
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (50 bp):
AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
Found at i:59434468 original size:100 final size:99
Alignment explanation
Indices: 59434295--59434628 Score: 596
Period size: 100 Copynumber: 3.3 Consensus size: 99
59434285 AAACCATAGT
*
59434295 TTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTTACTTTCCAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTAC-TTCCAAGCGATGCAGCGGAGCAGA
*
59434360 TTGAAGCTACAACGACAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
59434395 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCAAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCC-AAGCGATGCAGCGGAGCAGA
59434460 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
*
59434495 TTGCAATTCAAAAGATTAAAGCCACAACAGTAAATCTTACTTCTCAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTC-CAAGCGATGCAGCGGAGCAGA
*
59434560 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
*
59434595 TTGCAATTCAAAAGATTAAAGCCACAACGTTAAA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAA
59434629 AAGATTAAAG
Statistics
Matches: 226, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
99 4 0.02
100 221 0.98
101 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (99 bp):
TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCAAGCGATGCAGCGGAGCAGAT
TGAAGCTATAACGACAAATCTCACTTCCCCGACA
Found at i:59434677 original size:25 final size:25
Alignment explanation
Indices: 59434631--59434680 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59434621 ACGTTAAAAA
* * * *
59434631 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59434656 GATTAAAGCAACAACAGCGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59434681 ACGCCCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
GATTAAAGCAACAACAGCGAATCTT
Found at i:59434994 original size:125 final size:125
Alignment explanation
Indices: 59434623--59435888 Score: 2317
Period size: 125 Copynumber: 10.2 Consensus size: 125
59434613 AAGCCACAAC
*
59434623 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59434687 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59434747 GTTAAAAAGATTAAAGCCATATCGGAGAATCTTGATTAAAGCTACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59434811 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGATATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* * *
59434871 GTTAAAAAGATTAAGGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTATGCCCT
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59434936 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59434996 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACGGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59435061 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59435121 GTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAACGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
* * *
59435186 AAGCGGTGTAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTATTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
59435246 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
* * *
59435311 AAGCGGTGCAGTGGAATAGATTAAAGCTAAATTGGTGAATTTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
59435371 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59435435 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
59435495 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59435560 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59435620 GTTAAAAAGATTAAAGCCACATCGGT-AATCTTGATTAAAGCTACAACAACGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59435683 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59435743 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTATAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59435808 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59435868 GTAAAAAAGATTAAAGCCACA
1 GTTAAAAAGATTAAAGCCACA
59435889 ATGACGAATC
Statistics
Matches: 1103, Mismatches: 35, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
123 89 0.08
124 363 0.33
125 651 0.59
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (125 bp):
GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
Done.