Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:307138 original size:25 final size:26
Alignment explanation
Indices: 307091--307140 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
307081 GCCTAGAACT
* *
307091 TTATAAGTTCGCTCTCATCTAAAATA
1 TTATAAGTTCGATCTCATATAAAATA
307117 TTATAAGTTC-ATCTCATATAAAAT
1 TTATAAGTTCGATCTCATATAAAAT
307141 CTTGCATTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (26 bp):
TTATAAGTTCGATCTCATATAAAATA
Found at i:308010 original size:2 final size:2
Alignment explanation
Indices: 308003--308035 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
307993 AACTTAATCT
308003 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
308036 TAGTGAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:315292 original size:2 final size:2
Alignment explanation
Indices: 315285--315318 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
315275 TTATCCTTTA
315285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
315319 TTGTTGTCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:315634 original size:15 final size:16
Alignment explanation
Indices: 315609--315639 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
315599 ATCATCCAAC
315609 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
315625 AAAG-AAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
315640 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:318231 original size:114 final size:114
Alignment explanation
Indices: 317907--318246 Score: 549
Period size: 114 Copynumber: 3.0 Consensus size: 114
317897 AAGTGCCATG
*
317907 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
** *
317972 TGATTTGGTATGAACCCCAAAACCAATCATTAAATTTGAAAGATGAATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
318021 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAA-TGTTCTTTGAGTTATCTGAT
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCT-GAAAGTGTTCTTTGAGTTATCTGAT
318085 CTGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
65 CTGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
* *
318135 TGCTCATAGTAGAAATAAGGAGACCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
* * * * *
318200 TGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATT-AAAAGATGAA
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAA-ATGAA
318247 CTGCATGATC
Statistics
Matches: 212, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
113 8 0.04
114 201 0.95
115 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
Found at i:320583 original size:22 final size:22
Alignment explanation
Indices: 320552--320606 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
320542 CATCTACTTC
*
320552 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
320574 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
320596 TTCAAAGATGA
1 TTCAAAGATGA
320607 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:321207 original size:113 final size:113
Alignment explanation
Indices: 321012--321656 Score: 884
Period size: 113 Copynumber: 5.8 Consensus size: 113
321002 GATTCAAATC
* * *
321012 CATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGA
1 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
*
321077 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
* * * *
321125 CATCATTCGATGGATCAAAATTGCCAGGTCGAGTTCATAATGAGAATAACTCATCTGAAGAAAGA
1 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
* *
321190 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
* * * * **
321238 CATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAA-AAAG
1 CATCATTCAATGGATCAACATTACCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
321301 AAAGAAGAAGTTCATAAT--G-AGAA----TTCAACTTTTTGCTTGAATT
65 -AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
* * * * *
321344 CATGATTCAATGGATCAGCGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
321409 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
* *** * *
321457 CATGATTCAATGGATCAGTGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
*
321522 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
* * * *
321570 CATCATTCAATAGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCT---G-AAGA
1 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
*
321631 AGAAGAATTTCATAATGAGAAGAACT
66 AGAAGAAGTTCATAATGAGAAGAACT
321657 CATTTGAAAG
Statistics
Matches: 489, Mismatches: 32, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
106 84 0.17
107 3 0.01
108 1 0.00
109 32 0.07
110 5 0.01
111 1 0.00
112 4 0.01
113 358 0.73
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
Found at i:321404 original size:219 final size:220
Alignment explanation
Indices: 321012--321656 Score: 847
Period size: 219 Copynumber: 2.9 Consensus size: 220
321002 GATTCAAATC
* * *
321012 CATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGA
1 CATCATTCGATGGATCAACTTTACCAGG-CGAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA
* *
321077 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCA
64 AGAAGAAGTTCATAAT-AGAAGAA--T-TTCAACTTTTTGCTTGAATTCATCATTCAATGGATCA
** * * *
321142 AAATTGCCAGGTCGAGTTCATAATGAGAATAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
125 GCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
321207 AGAAGAACTTGTTCAACTTTTCGCTCGAATT
190 AGAAGAACTTGTTCAACTTTTCGCTCGAATT
* * **
321238 CATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAA
1 CATCATTCGATGGATCAACTTTACCAG-GCGAGTTCATAATGAGAAGAACTCATCTGAAAAAG-A
* *
321303 AGAAGAAGTTCATAAT-G-AGAA-TTCAACTTTTTGCTTGAATTCATGATTCAATGGATCAGCGT
64 AGAAGAAGTTCATAATAGAAGAATTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCAT
*
321365 TACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
129 TACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
* *
321430 GAACTTGTTCAACTTTTTGCTTGAATT
194 GAACTTGTTCAACTTTTCGCTCGAATT
* * * * *
321457 CATGATTCAATGGATC-AGTGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTCGATGGATCAACT-TTACCAG-GCGAGTTCATAATGAGAAGAACTCATCTGAA-AAAG
* *
321521 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATAGATC
63 AAGAAGAAGTTCATAAT-AGAAGAA--T-TTCAACTTTTTGCTTGAATTCATCATTCAATGGATC
* *
321586 AGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCT---G-AAGAAGAAGAATTTCATAAT
124 AGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAT
321647 GAGAAGAACT
189 GAGAAGAACT
321657 CATTTGAAAG
Statistics
Matches: 373, Mismatches: 35, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
218 2 0.01
219 185 0.50
220 3 0.01
221 1 0.00
222 32 0.09
223 5 0.01
224 1 0.00
225 4 0.01
226 139 0.37
227 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (220 bp):
CATCATTCGATGGATCAACTTTACCAGGCGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAG
AAGAAGTTCATAATAGAAGAATTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTA
CCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
ACTTGTTCAACTTTTCGCTCGAATT
Found at i:321627 original size:332 final size:328
Alignment explanation
Indices: 321016--321651 Score: 948
Period size: 332 Copynumber: 1.9 Consensus size: 328
321006 CAAATCCATC
* *
321016 ATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
1 ATTCAATGGATCAACATTACCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
*
321081 GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAAAAT
66 GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCAATGGATCAAAAT
* *
321146 TGCCAGGTCGAGTTCATAATGAGAATAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
131 TACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
* * * * *
321211 GAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCAT
196 GAACTTGTTCAACTTTTCACTCGAATTCATCACTCAATAGATCAACATTACCAGAGAAAGTTCAT
*
321276 AATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAATTCAACTTTTTGCTTGA
261 AATAAGAAGAACTCATCTG---AAG-AAGAAGAAGTTCATAATGAGAATTCAACTTTTTGCTTGA
321341 ATTCATG
322 ATTCATG
* * * * *
321348 ATTCAATGGATCAGCGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ATTCAATGGATCAACATTACCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
* * ***
321413 GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATGATTCAATGGATCAGTGT
66 GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCAATGGATCAAAAT
* *
321478 TACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
131 TACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
* * * * ****
321543 GAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATAGATCAGCATTACCAGTTCGAGTTCAT
196 GAACTTGTTCAACTTTTCACTCGAATTCATCACTCAATAGATCAACATTACCAGAGAAAGTTCAT
*
321608 AATAAGAAGAACTCATCTGAAGAAGAAGAATTTCATAATGAGAA
261 AATAAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAA
321652 GAACTCATTT
Statistics
Matches: 272, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
328 21 0.08
329 3 0.01
332 248 0.91
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (328 bp):
ATTCAATGGATCAACATTACCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCAATGGATCAAAAT
TACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACTTTTCACTCGAATTCATCACTCAATAGATCAACATTACCAGAGAAAGTTCAT
AATAAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAATTCAACTTTTTGCTTGAATTC
ATG
Found at i:321653 original size:17 final size:17
Alignment explanation
Indices: 321631--321691 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
321621 CATCTGAAGA
321631 AGAAGAATTTCATAATG
1 AGAAGAATTTCATAATG
* *
321648 AGAAGAA-CTCAT-TTG
1 AGAAGAATTTCATAATG
*
321663 AAAGAAGAAATTCATAATG
1 --AGAAGAATTTCATAATG
321682 AGAAGAATTT
1 AGAAGAATTT
321692 GTTCAACTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.06
16 4 0.11
17 23 0.66
18 4 0.11
19 2 0.06
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (17 bp):
AGAAGAATTTCATAATG
Found at i:321677 original size:34 final size:36
Alignment explanation
Indices: 321603--321688 Score: 131
Period size: 34 Copynumber: 2.4 Consensus size: 36
321593 CCAGTTCGAG
* *
321603 TTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAT
1 TTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAA
*
321639 TTCATAATGAGAAGAACTCATTTG-A-AAGAAGAAA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAA
321673 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
321689 TTTGTTCAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 24 0.51
35 1 0.02
36 22 0.47
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.23
Consensus pattern (36 bp):
TTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAA
Found at i:321759 original size:143 final size:143
Alignment explanation
Indices: 321488--321979 Score: 646
Period size: 143 Copynumber: 3.4 Consensus size: 143
321478 TACCAGTTCG
*
321488 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTC
* * * ** * * * * **** *
321553 AACTTTTTACTT-GAATTCATCA-TTCAATAGATCAGCATTACCAGTTCGAGTTCATAATAAGAA
60 AACCTTTT-GTTCAAAACCATCACTT-GATAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
321616 GAACTCATCTGAAGAAGAAGA
123 GAACTCATCTGAAGAAGAAGA
* * *
321637 ATTTCATAATGAGAAGAACTCATTTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
* *
321702 TTGTTCAAAACCATCACTTGATGGATCAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCAT
66 TTGTTCAAAACCATCACTTGATAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
321767 CTGAAGAAGAAGA
131 CTGAAGAAGAAGA
321780 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
* *
321845 TTGTTCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
66 TTGTTCAAAACCATCACTTGATAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
321910 CTGAAGAAGAAGAAGA
131 CT---GAAGAAGAAGA
*
321926 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGAAATTCATAATGAGAAGAA
321980 CTCATCTGAA
Statistics
Matches: 310, Mismatches: 26, Indels: 15
0.88 0.07 0.04
Matches are distributed among these distances:
142 2 0.01
143 210 0.68
144 4 0.01
145 1 0.00
146 41 0.13
147 3 0.01
148 25 0.08
149 24 0.08
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (143 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
TTGTTCAAAACCATCACTTGATAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
CTGAAGAAGAAGA
Found at i:321820 original size:34 final size:36
Alignment explanation
Indices: 321740--322018 Score: 194
Period size: 36 Copynumber: 7.6 Consensus size: 36
321730 ACTTTTCTAG
321740 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAA-TTCATAATGAGAAGAACTCATCTGAAGAAGA
*
321777 AGAAGTTCATAATGAGAAGAACTCATCTG-A-AAGA
1 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
* ** * *** *
321811 AGAAATTCATAATGAGAAGAATTTGT-TCAACCTTTTGT
1 AGAAATTCATAATGAGAAGAACTCATCTGAA---GAAGA
** * * * * *****
321849 TCAAATCCATCACTTGA-TAG-A-TCAGCTTTTCCAG-
1 AGAAATTCAT-A-ATGAGAAGAACTCATCTGAAGAAGA
321883 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAA-TTCATAATGAGAAGAACTCATCTGAAGAAGA
321920 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AG-A-AA-TTCATAATGAGAAGAACTCATCTGAAGAAGA
*
321959 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 AGAAATTCATAATGAGAAGAACTCATCTGAAGAA-GA
321996 AGAAGAAGTTCATAATGAGAAGA
1 AG-A-AA-TTCATAATGAGAAGA
322019 GCTTGTTCAA
Statistics
Matches: 187, Mismatches: 36, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
33 4 0.02
34 33 0.18
35 7 0.04
36 60 0.32
37 12 0.06
38 13 0.07
39 40 0.21
40 18 0.10
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (36 bp):
AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:321929 original size:39 final size:39
Alignment explanation
Indices: 321886--322018 Score: 236
Period size: 36 Copynumber: 3.5 Consensus size: 39
321876 TTTCCAGAGA
321886 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
321925 AAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
321961 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAG
322001 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
322019 GCTTGTTCAA
Statistics
Matches: 90, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.40
39 29 0.32
40 25 0.28
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
Found at i:321942 original size:17 final size:17
Alignment explanation
Indices: 321920--321979 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
321910 CTGAAGAAGA
321920 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
*
321937 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA--T-AATG
321955 AAGAAGAAGTTCATAATG
1 -AGAAGAAGTTCATAATG
321973 AGAAGAA
1 AGAAGAA
321980 CTCATCTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 3 0.09
17 16 0.46
18 4 0.11
19 9 0.26
20 3 0.09
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.18
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:321951 original size:182 final size:196
Alignment explanation
Indices: 321743--322181 Score: 602
Period size: 182 Copynumber: 2.3 Consensus size: 196
321733 TTTCTAGAGA
321743 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTG-A
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAA
*
321807 -AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACC-T-TTTG-TTCAAATC-C-ATCA-
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGTTTGATTC-AATCACAATCAG
* * * * *
321861 CTTGAT-AG-ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGA
130 ATAGATCAGTATCAGCATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
321923 AG
195 AG
321925 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAA
* * *
321990 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAGAATG
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTGTTTGATTCAATCAC--AATC
*
322055 AGATAGATCAGTATCAGCATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAA
128 AGATAGATCAGTATCAGCATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAA
322120 GAAG
193 GAAG
*
322124 AAGTTCATAATGAGAAGAACTAATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGA
322182 GCTTGTTCAA
Statistics
Matches: 224, Mismatches: 11, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
182 63 0.28
183 1 0.00
184 2 0.01
185 4 0.02
186 1 0.00
187 2 0.01
188 25 0.11
190 1 0.00
191 7 0.03
192 4 0.02
195 3 0.01
196 4 0.02
197 2 0.01
198 45 0.20
199 32 0.14
202 3 0.01
203 25 0.11
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (196 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGTTTGATTCAATCACAATCAGA
TAGATCAGTATCAGCATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
G
Found at i:321997 original size:20 final size:19
Alignment explanation
Indices: 321898--321999 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 19
321888 GTTCATAATG
321898 AGAAGAACTCATCTGAAGA
1 AGAAGAACTCATCTGAAGA
**
321917 AGAAGAA-GAAGTTCAT-AATG-
1 AGAAGAACTCA--TC-TGAA-GA
321937 AGAAGAACTCATCTGAAGA
1 AGAAGAACTCATCTGAAGA
*
321956 AGAAGAAGT--TCAT-AATG-
1 AGAAGAACTCATC-TGAA-GA
321973 AGAAGAACTCATCTGAAGA
1 AGAAGAACTCATCTGAAGA
321992 AGGAAGAA
1 A-GAAGAA
322000 GAAGTTCATA
Statistics
Matches: 63, Mismatches: 6, Indels: 27
0.66 0.06 0.28
Matches are distributed among these distances:
17 12 0.19
18 7 0.11
19 24 0.38
20 17 0.27
21 3 0.05
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.17
Consensus pattern (19 bp):
AGAAGAACTCATCTGAAGA
Found at i:322018 original size:20 final size:20
Alignment explanation
Indices: 321917--321979 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
321907 CATCTGAAGA
321917 AGAAGAAGAAGTTCATAAT-
1 AGAAGAAGAAGTTCATAATG
* *
321936 -G-AGAAGAA-CTCAT-CTG
1 AGAAGAAGAAGTTCATAATG
321952 AAGAAGAAGAAGTTCATAATG
1 -AGAAGAAGAAGTTCATAATG
321973 AGAAGAA
1 AGAAGAA
321980 CTCATCTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 7 0.21
18 2 0.06
19 7 0.21
20 11 0.32
21 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.17
Consensus pattern (20 bp):
AGAAGAAGAAGTTCATAATG
Found at i:322140 original size:20 final size:20
Alignment explanation
Indices: 322117--322181 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
322107 TCTGAAGAAG
322117 GAAGAAGAAGTTCATAATGA
1 GAAGAAGAAGTTCATAATGA
* *
322137 GAAGAACTAA--TC-TAAAGAA
1 GAAGAA-GAAGTTCATAATG-A
322156 GGAAGAAGAAGTTCATAATGA
1 -GAAGAAGAAGTTCATAATGA
322177 GAAGA
1 GAAGA
322182 GCTTGTTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 17 0.49
21 5 0.14
22 4 0.11
ACGTcount: A:0.52, C:0.06, G:0.25, T:0.17
Consensus pattern (20 bp):
GAAGAAGAAGTTCATAATGA
Found at i:322140 original size:40 final size:40
Alignment explanation
Indices: 322084--322181 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
322074 TTTCCATAAA
* * *
322084 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTAAAGAAGGAAGAAG
322124 AAGTTCATAATGAGAAGAACTAATCTAAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTAAAGAAGGAAGAAG
322164 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
322182 GCTTGTTCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.18
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTAATCTAAAGAAGGAAGAAG
Found at i:322157 original size:163 final size:163
Alignment explanation
Indices: 321925--322284 Score: 647
Period size: 163 Copynumber: 2.2 Consensus size: 163
321915 GAAGAAGAAG
* *
321925 AAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGAACTCATC
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTAATC
*
321986 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAG
66 TAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAG
*
322051 AATGAGATAGATCAGTATCAGCATTTCCATAAA
131 AATGAGATAGATCAGTATCAACATTTCCATAAA
322084 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTAATC
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTAATC
322149 TAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAG
66 TAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAG
*
322214 AATGAGATTGATCAGTATCAACATTTCCATAAA
131 AATGAGATAGATCAGTATCAACATTTCCATAAA
322247 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
322285 GAATTTGTTC
Statistics
Matches: 192, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
159 25 0.13
162 3 0.02
163 164 0.85
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (163 bp):
AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTAATC
TAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAG
AATGAGATAGATCAGTATCAACATTTCCATAAA
Found at i:322483 original size:103 final size:101
Alignment explanation
Indices: 322183--322488 Score: 316
Period size: 102 Copynumber: 3.0 Consensus size: 101
322173 ATGAGAAGAG
* * * *
322183 CTTGTTCAACC-TTTGTTTGATTCTATCACAGAATGAGATTGATCAGTATCAACATTTCCATAAA
1 CTTGTTCAACCTTTTGCTTGATTCTATCACAGAA-G-G-TAGATCA-AATCAAC-TTTCCAGAAA
322247 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAGAA
61 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAGAA
* * * * * * *** **
322288 TTTGTTCAACTTTTTTCTAGATTAC-ATTACAGAA-GAAGAT-AAATTGTCATCCCCAGCGAAAA
1 CTTGTTCAACCTTTTGCTTGATT-CTATCACAGAAGGTAGATCAAATCAAC-TTTCCA--GAAAA
*
322350 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAGGAGAA
62 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAGAA
*
322390 CTTGTTCAACCTTTTGCTTGATTCTATCACATAAGGTAGATCAACATCAACTTTGCCAGAAAAAG
1 CTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAGATCAA-ATCAACTTT-CCAGAAAAAG
*
322455 TTCATAATGAGAAGAACTCATCTGAAGAA-GAAGA
64 TTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
322489 AGTTCGTAAT
Statistics
Matches: 162, Mismatches: 30, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
100 8 0.05
101 2 0.01
102 76 0.47
103 41 0.25
104 3 0.02
105 15 0.09
106 16 0.10
107 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (101 bp):
CTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAGATCAAATCAACTTTCCAGAAAAAGTT
CATAATAAGAAGAACTCATCTGAAGAAGGAAGAGAA
Found at i:324249 original size:22 final size:23
Alignment explanation
Indices: 324219--324270 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
324209 CATATTAGTC
*
324219 ATATAAATATATATTT-GTTTAA
1 ATATTAATATATATTTAGTTTAA
* * *
324241 ATATTAATATTTATTTATTTTTA
1 ATATTAATATATATTTAGTTTAA
324264 ATATTAA
1 ATATTAA
324271 GAAATGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTAATATATATTTAGTTTAA
Found at i:325112 original size:35 final size:35
Alignment explanation
Indices: 325042--325119 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
325032 GAATCTTAAC
* * * * *
325042 CCCTAAACCTTAAATCATAAATCCTAAATTTTAAA
1 CCCTAAACATTAAACCATAAATCATAAACTATAAA
* *
325077 CTCTAAACATTAAACCATAAATCATACACTATAAA
1 CCCTAAACATTAAACCATAAATCATAAACTATAAA
325112 CCCTAAAC
1 CCCTAAAC
325120 CCTAAATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (35 bp):
CCCTAAACATTAAACCATAAATCATAAACTATAAA
Found at i:325197 original size:7 final size:7
Alignment explanation
Indices: 325185--325247 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
325175 CAATGAATCC
325185 TAAACCT
1 TAAACCT
325192 TAAACCT
1 TAAACCT
*
325199 TAAATCT
1 TAAACCT
*
325206 TAAACCA
1 TAAACCT
* *
325213 TACACCA
1 TAAACCT
325220 TAAA-CT
1 TAAACCT
*
325226 ATAAACCA
1 -TAAACCT
325234 TAAACCT
1 TAAACCT
325241 TAAACCT
1 TAAACCT
325248 AATTATGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
6 1 0.02
7 44 0.96
8 1 0.02
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:325209 original size:21 final size:21
Alignment explanation
Indices: 325180--325244 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
325170 ATTTGCAATG
* *
325180 AATCCTAAACCTTAAACCTTA
1 AATCTTAAACCATAAACCTTA
* *
325201 AATCTTAAACCATACACCATA
1 AATCTTAAACCATAAACCTTA
325222 AA-CTATAAACCATAAACCTTA
1 AATCT-TAAACCATAAACCTTA
325243 AA
1 AA
325245 CCTAATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (21 bp):
AATCTTAAACCATAAACCTTA
Found at i:326107 original size:20 final size:20
Alignment explanation
Indices: 326082--326126 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
326072 CCCTTTAGGA
326082 TTAAATATATTTTTGAACTT
1 TTAAATATATTTTTGAACTT
326102 TTAAATATATTTTTGAACTT
1 TTAAATATATTTTTGAACTT
326122 TTAAA
1 TTAAA
326127 ATTTCCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAAATATATTTTTGAACTT
Found at i:326648 original size:35 final size:35
Alignment explanation
Indices: 326578--326655 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
326568 GAATCTTAAC
* * * * *
326578 CCCTAAACCTTAAATCATAAATCCTAAATTTTAAA
1 CCCTAAACATTAAACCATAAATCATAAACTATAAA
* *
326613 CTCTAAACATTAAACCATAAATCATACACTATAAA
1 CCCTAAACATTAAACCATAAATCATAAACTATAAA
326648 CCCTAAAC
1 CCCTAAAC
326656 CCTAAATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (35 bp):
CCCTAAACATTAAACCATAAATCATAAACTATAAA
Found at i:326733 original size:7 final size:7
Alignment explanation
Indices: 326721--326783 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
326711 CAATGAATCC
326721 TAAACCT
1 TAAACCT
326728 TAAACCT
1 TAAACCT
*
326735 TAAATCT
1 TAAACCT
*
326742 TAAACCA
1 TAAACCT
* *
326749 TACACCA
1 TAAACCT
326756 TAAA-CT
1 TAAACCT
*
326762 ATAAACCA
1 -TAAACCT
326770 TAAACCT
1 TAAACCT
326777 TAAACCT
1 TAAACCT
326784 AATTATGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
6 1 0.02
7 44 0.96
8 1 0.02
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:326745 original size:21 final size:21
Alignment explanation
Indices: 326716--326780 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
326706 ATTTGCAATG
* *
326716 AATCCTAAACCTTAAACCTTA
1 AATCTTAAACCATAAACCTTA
* *
326737 AATCTTAAACCATACACCATA
1 AATCTTAAACCATAAACCTTA
326758 AA-CTATAAACCATAAACCTTA
1 AATCT-TAAACCATAAACCTTA
326779 AA
1 AA
326781 CCTAATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (21 bp):
AATCTTAAACCATAAACCTTA
Found at i:329363 original size:10 final size:10
Alignment explanation
Indices: 329331--329386 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
329321 TTGGAAACTG
329331 GTTTTG-ACC
1 GTTTTGAACC
*
329340 GGTTT-AACC
1 GTTTTGAACC
329349 GGTTTTGAACC
1 -GTTTTGAACC
329360 GTTTTG-ACC
1 GTTTTGAACC
329369 GGTTTTGAACC
1 -GTTTTGAACC
329380 GTTTTGA
1 GTTTTGA
329387 CCGGTCACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 10 0.25
10 23 0.57
11 7 0.17
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (10 bp):
GTTTTGAACC
Found at i:329369 original size:20 final size:20
Alignment explanation
Indices: 329330--329391 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
329320 GTTGGAAACT
* *
329330 GGTTTTG-ACCGGTTTAACC
1 GGTTTTGAACCGTTTTGACC
329349 GGTTTTGAACCGTTTTGACC
1 GGTTTTGAACCGTTTTGACC
329369 GGTTTTGAACCGTTTTGACC
1 GGTTTTGAACCGTTTTGACC
329389 GGT
1 GGT
329392 CACGACCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 7 0.17
20 33 0.82
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.39
Consensus pattern (20 bp):
GGTTTTGAACCGTTTTGACC
Found at i:329480 original size:29 final size:29
Alignment explanation
Indices: 329420--329494 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
329410 CCGTTGACCA
*** *
329420 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
329449 GTGCTATTCTGGGAATTAATTCGAAATGG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
* *
329478 GTGCTATTTTGGTAATT
1 GTGCTATTCTGGGAATT
329495 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (29 bp):
GTGCTATTCTGGGAATTAATTCGAAATGG
Found at i:336610 original size:13 final size:13
Alignment explanation
Indices: 336568--336599 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
336558 GACCGGTCAT
*
336568 GACCCGTTTACCC
1 GACCCGTTGACCC
336581 GACCCGTTGACCC
1 GACCCGTTGACCC
336594 GACCCG
1 GACCCG
336600 ACCCGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGTTGACCC
Found at i:336679 original size:29 final size:29
Alignment explanation
Indices: 336618--336714 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
336608 ACCGTTGACC
* * *** *
336618 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTTTGGGAATTAATTTGAAATG
336647 GGTGCTATTTTGGGAATTAATTTGAAATG
1 GGTGCTATTTTGGGAATTAATTTGAAATG
* ** * *
336676 GGTGCTATTTTGGTAATTTTTTTAAAAAG
1 GGTGCTATTTTGGGAATTAATTTGAAATG
336705 GGTGCTATTT
1 GGTGCTATTT
336715 GTGTAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTTGAAATG
Found at i:339258 original size:24 final size:23
Alignment explanation
Indices: 339200--339289 Score: 99
Period size: 24 Copynumber: 3.8 Consensus size: 23
339190 AAATTCTAGT
* * **
339200 TCGAGTTTGAATCGAGCTCAAAA
1 TCGAGCTTCAATCGAGCTCAATC
339223 TCGAGCTTCAATCGAGCTCAAGTC
1 TCGAGCTTCAATCGAGCTCAA-TC
* *
339247 TCAAGCTTCAATCGAGCTCGATTC
1 TCGAGCTTCAATCGAGCTC-AATC
*
339271 TCGAGCTTCAATTGAGCTC
1 TCGAGCTTCAATCGAGCTC
339290 CTGAAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 19 0.33
24 37 0.65
25 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (23 bp):
TCGAGCTTCAATCGAGCTCAATC
Found at i:339711 original size:20 final size:20
Alignment explanation
Indices: 339686--339751 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
339676 TTCGATTTGC
339686 AAAAAAACCGGTTTTTTTAA
1 AAAAAAACCGGTTTTTTTAA
**
339706 AAAAAAACCGGATTTTTTCGGA
1 AAAAAAACCGG-TTTTTT-TAA
* * *
339728 TAAAAATCCAGTTTTTTTAA
1 AAAAAAACCGGTTTTTTTAA
339748 AAAA
1 AAAA
339752 CCGGATTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 15 0.42
21 12 0.33
22 9 0.25
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAAAAACCGGTTTTTTTAA
Found at i:339750 original size:41 final size:41
Alignment explanation
Indices: 339687--339785 Score: 139
Period size: 41 Copynumber: 2.4 Consensus size: 41
339677 TCGATTTGCA
339687 AAAAAACCGGTTTTTTTAAAAAAAAACCGGA-TTTTTTCGGAT
1 AAAAAACCGGTTTTTTT--AAAAAAACCGGATTTTTTTCGGAT
* *
339729 AAAAATCCAGTTTTTTT-AAAAAACCGGATTTTTTTTCGGAT
1 AAAAAACCGGTTTTTTTAAAAAAACCGGA-TTTTTTTCGGAT
339770 AAAAAACCGGTTTTTT
1 AAAAAACCGGTTTTTT
339786 ATCCGGTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 11 0.22
41 25 0.49
42 15 0.29
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (41 bp):
AAAAAACCGGTTTTTTTAAAAAAACCGGATTTTTTTCGGAT
Found at i:339783 original size:20 final size:20
Alignment explanation
Indices: 339687--339784 Score: 58
Period size: 20 Copynumber: 4.8 Consensus size: 20
339677 TCGATTTGCA
*** *
339687 AAAAAACCGGTTTTTTTAAA
1 AAAAAACCGGTTTTTCGGAT
339707 AAAAAACCGGATTTTTTCGGAT
1 AAAAAACCGG--TTTTTCGGAT
* * *
339729 AAAAATCCAGTTTTT---TT
1 AAAAAACCGGTTTTTCGGAT
339746 AAAAAACCGGATTTTTTTTCGGAT
1 AAAAAACCGG----TTTTTCGGAT
339770 AAAAAACCGGTTTTT
1 AAAAAACCGGTTTTT
339785 TATCCGGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
17 9 0.15
20 20 0.34
21 5 0.08
22 14 0.24
24 11 0.19
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (20 bp):
AAAAAACCGGTTTTTCGGAT
Found at i:339828 original size:24 final size:26
Alignment explanation
Indices: 339770--339831 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
339760 TTTTTCGGAT
*
339770 AAAAAACCGGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTAATCCGG-TTGA
339797 AAAAAACCGGTTTTTAATCCGG-T-A
1 AAAAAACCGGTTTTTAATCCGGTTGA
339821 AAAAAACCGGT
1 AAAAAACCGGT
339832 CGTTCAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.35
25 1 0.03
27 21 0.62
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (26 bp):
AAAAAACCGGTTTTTAATCCGGTTGA
Found at i:340361 original size:2 final size:2
Alignment explanation
Indices: 340354--340437 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
340344 ATATCTGATA
340354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
340396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
340438 TAGTTCCAAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:344422 original size:31 final size:31
Alignment explanation
Indices: 344305--344423 Score: 139
Period size: 32 Copynumber: 3.8 Consensus size: 31
344295 AAGGTGACCA
* *
344305 TTGGGTAAGCTCTTAGGCCCCAAGATATTCC
1 TTGGGTAGGCTCTAAGGCCCCAAGATATTCC
* * * *
344336 TTTGGGTAGGCTCTCAGGCCCTAAGGTTCTTCC
1 -TTGGGTAGGCTCTAAGGCCCCAA-GATATTCC
* *
344369 TTGGGTAGGCTCTGAGGGCCCAAGATATTCC
1 TTGGGTAGGCTCTAAGGCCCCAAGATATTCC
*
344400 TTGGGTAGGCTCTAAGTCCCCAAG
1 TTGGGTAGGCTCTAAGGCCCCAAG
344424 GTACTCCCTT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
31 27 0.37
32 40 0.55
33 6 0.08
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (31 bp):
TTGGGTAGGCTCTAAGGCCCCAAGATATTCC
Found at i:344443 original size:63 final size:64
Alignment explanation
Indices: 344308--344443 Score: 175
Period size: 63 Copynumber: 2.1 Consensus size: 64
344298 GTGACCATTG
* * * * * * *
344308 GGTAAGCTCTTAGGCCCCAAGATATTCCTTTGGGTAGGCTCTCAGGCCCTAAGGTTCTTCCTTG
1 GGTAGGCTCTGAGGCCCCAAGATATTCCTTTGGGTAGGCTCTAAGGCCCCAAGGTACTCCCTTA
* *
344372 GGTAGGCTCTGAGGGCCCAAGATATTCC-TTGGGTAGGCTCTAAGTCCCCAAGGTACTCCCTTA
1 GGTAGGCTCTGAGGCCCCAAGATATTCCTTTGGGTAGGCTCTAAGGCCCCAAGGTACTCCCTTA
*
344435 GGTTGGCTC
1 GGTAGGCTC
344444 CTACGCCCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
63 37 0.60
64 25 0.40
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (64 bp):
GGTAGGCTCTGAGGCCCCAAGATATTCCTTTGGGTAGGCTCTAAGGCCCCAAGGTACTCCCTTA
Found at i:345948 original size:60 final size:60
Alignment explanation
Indices: 345867--345979 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
345857 TATGGAGGTT
* * **
345867 ATTCTAAATTAATCCTCAAACTTTTTAATATTTTAATTTCATCCCTAAACTATCATTCTC
1 ATTCTAAATTAATCCTCAAACTTTTGAACATTCCAATTTCATCCCTAAACTATCATTCTC
* *
345927 ATTCTAAATTAGTGCCT-AAACTTTTGAGCATTCCAATTTCATCCCTAAACTAT
1 ATTCTAAATTAAT-CCTCAAACTTTTGAACATTCCAATTTCATCCCTAAACTAT
345980 GACCCTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 43 0.93
61 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.42
Consensus pattern (60 bp):
ATTCTAAATTAATCCTCAAACTTTTGAACATTCCAATTTCATCCCTAAACTATCATTCTC
Found at i:345992 original size:60 final size:60
Alignment explanation
Indices: 345901--346013 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
345891 TTAATATTTT
** * * *
345901 AATTTCATCCCTAAACTATCATTCTCATTCTAAATTAGTGCCTAAACTTTTGAGCATTCC
1 AATTTCATCCCTAAACTATCACCCTCATTCTAAATTAGTCCCAAAACATTTGAGCATTCC
* *
345961 AATTTCATCCCTAAACTATGACCCT-AGTTCTATATTAGTCCCAAAACATTTGA
1 AATTTCATCCCTAAACTATCACCCTCA-TTCTAAATTAGTCCCAAAACATTTGA
346014 AATTATATCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 44 0.98
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (60 bp):
AATTTCATCCCTAAACTATCACCCTCATTCTAAATTAGTCCCAAAACATTTGAGCATTCC
Found at i:346823 original size:2 final size:2
Alignment explanation
Indices: 346816--346841 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
346806 AATTATTTGA
346816 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
346842 TACAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:347172 original size:6 final size:7
Alignment explanation
Indices: 347155--347179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
347145 ATATTTATTA
347155 AAAAACT
1 AAAAACT
347162 AAAAACT
1 AAAAACT
347169 AAAAACT
1 AAAAACT
347176 AAAA
1 AAAA
347180 TATTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAACT
Found at i:348617 original size:42 final size:42
Alignment explanation
Indices: 348538--348626 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
348528 GCCGAAACAT
* * * * *
348538 CCACCCAGGCCTCCGGTTATTAGCCCTCCTTATCATCCCAAA
1 CCACCCAGGCCTCCGGTGATTAACCCGCCGTACCATCCCAAA
* *
348580 CCACCCAGGCCTCCGGTGGTTAACCCGCCGTACCATCCTAAA
1 CCACCCAGGCCTCCGGTGATTAACCCGCCGTACCATCCCAAA
348622 CCACC
1 CCACC
348627 TAAACATCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.45, G:0.15, T:0.19
Consensus pattern (42 bp):
CCACCCAGGCCTCCGGTGATTAACCCGCCGTACCATCCCAAA
Found at i:348831 original size:114 final size:114
Alignment explanation
Indices: 348678--349406 Score: 1352
Period size: 114 Copynumber: 6.4 Consensus size: 114
348668 CCCCCTATGT
* * * *
348678 ACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
348743 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
*
348792 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAACCACCCTACGTACCGGTGCCCA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
348857 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
*
348906 ACCCAGGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
348971 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
349020 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
349085 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
349134 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
349199 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
*
349248 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCAA
1 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
* *
349313 ACCCACCTTACGTACCCAAACCTCCGGTCATAAAGCCTCCGCCGTATAC
66 ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
*
349362 ACCCAAGCCTCCTC-TTGTAAATCCTCCGCCTTATACACCCAAGCC
1 ACCCAAGCCTCC-CGTTGTAAATCCTCCGCCTTACACACCCAAGCC
349407 TCCTGTTGTA
Statistics
Matches: 602, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
114 601 1.00
115 1 0.00
ACGTcount: A:0.24, C:0.45, G:0.13, T:0.18
Consensus pattern (114 bp):
ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACACACCCAAGCCACCCTACGTACCGGTGCCCA
ACCCACCTTACGTACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
Found at i:349286 original size:36 final size:36
Alignment explanation
Indices: 349212--349442 Score: 169
Period size: 36 Copynumber: 6.2 Consensus size: 36
349202 CACCTTACGT
* * * *
349212 ACCCAAACCTCCGGTCGTAAAGCCTCCGCCTTATAC
1 ACCCAAGCCTCCCGTCGTAAATCCTCCGCCTTACAC
*
349248 ACCCAAGCCTCCCGTTGTAAATCCTCCGCCTTACAC
1 ACCCAAGCCTCCCGTCGTAAATCCTCCGCCTTACAC
* ** * * **
349284 ACCCAAGCCACCC-TACGTACCGGTGCCAAACCCACCTTACGT
1 ACCCAAGCCTCCCGT-CGTA--AAT-CC---TCCGCCTTACAC
* * * * * *
349326 ACCCAAACCTCCGGTCATAAAGCCTCCGCCGTATAC
1 ACCCAAGCCTCCCGTCGTAAATCCTCCGCCTTACAC
* *
349362 ACCCAAGCCTCCTC-TTGTAAATCCTCCGCCTTATAC
1 ACCCAAGCCTCC-CGTCGTAAATCCTCCGCCTTACAC
* * *
349398 ACCCAAGCCTCCTGTTGTAAATCCTCCCCCTTACAC
1 ACCCAAGCCTCCCGTCGTAAATCCTCCGCCTTACAC
349434 ACCCAAGCC
1 ACCCAAGCC
349443 ACCTTACGTA
Statistics
Matches: 150, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
35 1 0.01
36 122 0.81
38 1 0.01
39 4 0.03
42 21 0.14
43 1 0.01
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.20
Consensus pattern (36 bp):
ACCCAAGCCTCCCGTCGTAAATCCTCCGCCTTACAC
Found at i:349408 original size:21 final size:21
Alignment explanation
Indices: 349345--349409 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 21
349335 TCCGGTCATA
*
349345 AAGCCTCCGCCGTATACACCC
1 AAGCCTCCGCCTTATACACCC
* *
349366 AAGCCTCC-TCTTGT--A---
1 AAGCCTCCGCCTTATACACCC
*
349381 AATCCTCCGCCTTATACACCC
1 AAGCCTCCGCCTTATACACCC
349402 AAGCCTCC
1 AAGCCTCC
349410 TGTTGTAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
18 2 0.06
20 3 0.10
21 15 0.48
ACGTcount: A:0.23, C:0.45, G:0.11, T:0.22
Consensus pattern (21 bp):
AAGCCTCCGCCTTATACACCC
Found at i:350508 original size:16 final size:17
Alignment explanation
Indices: 350476--350508 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
350466 TTATTGTTAT
*
350476 TTTATTATTTCAAATAA
1 TTTAATATTTCAAATAA
350493 TTTAATATTT-AAATAA
1 TTTAATATTTCAAATAA
350509 ATAATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATATTTCAAATAA
Found at i:352283 original size:2 final size:2
Alignment explanation
Indices: 352276--352310 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
352266 CATTTGAGTT
*
352276 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
352311 ATTAGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:352534 original size:17 final size:17
Alignment explanation
Indices: 352501--352534 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
352491 CTTAGCATTG
* *
352501 ATATATATGTATGTTAT
1 ATATATATATATATTAT
352518 ATATATATATATATTAT
1 ATATATATATATATTAT
352535 GTTGAGTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATATATATATTAT
Found at i:356443 original size:20 final size:20
Alignment explanation
Indices: 356414--356452 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
356404 TTTCAATAAC
*
356414 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
356434 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
356453 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:360191 original size:44 final size:44
Alignment explanation
Indices: 360143--360253 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 44
360133 TTCATATAAA
* * * * *
360143 ATGTCCCGAAAGACCACGTAGAATTGTACCGAATGACCACATAT
1 ATGTCCCGAAGGACCTCGTAGAATTGCACCAAAGGACCACATAT
* * *
360187 ATGTCCCGAAGGAGCTCATAGAATTGCCCCAAAGGACCACATAT
1 ATGTCCCGAAGGACCTCGTAGAATTGCACCAAAGGACCACATAT
360231 ATGTCCCGAAGGACCTCGTAGAA
1 ATGTCCCGAAGGACCTCGTAGAA
360254 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (44 bp):
ATGTCCCGAAGGACCTCGTAGAATTGCACCAAAGGACCACATAT
Found at i:360206 original size:21 final size:21
Alignment explanation
Indices: 360143--360245 Score: 80
Period size: 23 Copynumber: 4.7 Consensus size: 21
360133 TTCATATAAA
* * *
360143 ATGTCCCGAAAGACCACGTAGA
1 ATGTCCCGAAGGACCACATA-T
* *
360165 ATTGTACCGAATGACCACATAT
1 A-TGTCCCGAAGGACCACATAT
* * *
360187 ATGTCCCGAAGGAGCTCATAGA
1 ATGTCCCGAAGGACCACATA-T
* *
360209 ATTGCCCCAAAGGACCACATAT
1 A-TGTCCCGAAGGACCACATAT
360231 ATGTCCCGAAGGACC
1 ATGTCCCGAAGGACC
360246 TCGTAGAACC
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
21 27 0.44
22 4 0.06
23 31 0.50
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:368067 original size:26 final size:26
Alignment explanation
Indices: 368038--368102 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
368028 TTTTGTTCGG
*
368038 TTCGGGTCGGGTTTTTAACTGTGATA
1 TTCGGGTCGGGTCTTTAACTGTGATA
*
368064 TTCGAGTCGGGTCTTTAACTGTGATA
1 TTCGGGTCGGGTCTTTAACTGTGATA
*
368090 TTCAGGTCGGGTC
1 TTCGGGTCGGGTC
368103 GGGTTTGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (26 bp):
TTCGGGTCGGGTCTTTAACTGTGATA
Found at i:368721 original size:18 final size:17
Alignment explanation
Indices: 368684--368730 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
368674 TATGGAATTG
*
368684 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
368701 GATTCTAATTCCTTCACA
1 GATTCCAATTCC-TCACA
368719 GATTCCAATTCC
1 GATTCCAATTCC
368731 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:371349 original size:21 final size:22
Alignment explanation
Indices: 371316--371356 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
371306 CCAGGACAGG
371316 GAGTATCAATAC-TCCTTTAAT
1 GAGTATCAATACTTCCTTTAAT
**
371337 GAGTATCGGTACTTCCTTTA
1 GAGTATCAATACTTCCTTTA
371357 TAATGTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (22 bp):
GAGTATCAATACTTCCTTTAAT
Found at i:372087 original size:3 final size:3
Alignment explanation
Indices: 372079--372165 Score: 68
Period size: 3 Copynumber: 28.0 Consensus size: 3
372069 AAATTTAAAT
** **
372079 TTA TTA TTA TTA TTA AAA AAA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
372125 TTTA TTA TAA TTA TT- TAA TTA ATA TTA TATA TTA TTTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
372166 AATATTACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.01
3 56 0.81
4 12 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:372131 original size:20 final size:19
Alignment explanation
Indices: 372077--372165 Score: 88
Period size: 21 Copynumber: 4.4 Consensus size: 19
372067 TTAAATTTAA
**
372077 ATTTATTATTATTATTAAAAA
1 ATTTATTATTATTATT--ATT
*
372098 AATTATTATTATTATTATT
1 ATTTATTATTATTATTATT
*
372117 ATTTATTATTTATTATAATT
1 ATTTATTA-TTATTATTATT
*
372137 ATTTAATTAATATTATATATT
1 ATTT-ATTATTATTAT-TATT
372158 ATTTATTA
1 ATTTATTA
372166 AATATTACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.14
20 24 0.41
21 26 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATTATTATTATTATT
Found at i:372151 original size:34 final size:35
Alignment explanation
Indices: 372098--372172 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 35
372088 TTATTAAAAA
* * *
372098 AATTATTATTATTATTATTATTTATTATTTATTAT
1 AATTATTATAATTAATATTATATATTATTTATTAT
372133 AATTATT-TAATTAATATTATATATTATTTATTA-
1 AATTATTATAATTAATATTATATATTATTTATTAT
372166 AA-TATTA
1 AATTATTA
372173 CAAAGCCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 4 0.11
33 2 0.06
34 23 0.64
35 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
AATTATTATAATTAATATTATATATTATTTATTAT
Found at i:372166 original size:20 final size:20
Alignment explanation
Indices: 372100--372172 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
372090 ATTAAAAAAA
*
372100 TTATTATTATTAT-TATTAT
1 TTATTAATATTATATATTAT
*
372119 TTATTATTTATTATA-ATTAT
1 TTATTA-ATATTATATATTAT
372139 TTAATTAATATTATATATTAT
1 TT-ATTAATATTATATATTAT
372160 TTATTAAATATTA
1 TTATT-AATATTA
372173 CAAAGCCCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
19 6 0.12
20 24 0.50
21 18 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTAATATTATATATTAT
Found at i:372362 original size:32 final size:33
Alignment explanation
Indices: 372317--372386 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 33
372307 TCCAGAAGAT
372317 CCCA-GCTGCTGCCTCCAGACACTGCCAG-TGC
1 CCCACGCTGCTGCCTCCAGACACTGCCAGCTGC
372348 CCCACGCTGCTGCCTCCAGACACTGCCAGCTGC
1 CCCACGCTGCTGCCTCCAGACACTGCCAGCTGC
372381 CCCACG
1 CCCACG
372387 ACGACGACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 4 0.11
32 24 0.65
33 9 0.24
ACGTcount: A:0.16, C:0.49, G:0.21, T:0.14
Consensus pattern (33 bp):
CCCACGCTGCTGCCTCCAGACACTGCCAGCTGC
Found at i:373444 original size:2 final size:2
Alignment explanation
Indices: 373437--373466 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
373427 CATTATTCTT
373437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
373467 GTTTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:374393 original size:2 final size:2
Alignment explanation
Indices: 374386--374425 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
374376 TTTCAAAATT
374386 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
374426 TTTCATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:374436 original size:21 final size:20
Alignment explanation
Indices: 374384--374450 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
374374 CTTTTCAAAA
374384 TTTATATATATATATATATAT
1 TTTATA-ATATATATATATAT
* *
374405 ATATATTATATATATATATAT
1 -TTTATAATATATATATATAT
*
374426 TTTCATAATATTTATAT-TAT
1 TTT-ATAATATATATATATAT
374446 TTTAT
1 TTTAT
374451 TAATGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.05
20 8 0.21
21 25 0.64
22 4 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATAATATATATATATAT
Found at i:379729 original size:17 final size:17
Alignment explanation
Indices: 379707--379779 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
379697 CTCATCCAGC
* *
379707 AAAGAAAGAAGAAGGAA
1 AAAGAAAAAAGAAAGAA
379724 AAAGAAAAAAGAAAGAA
1 AAAGAAAAAAGAAAGAA
379741 AACA-AAAAAAGAAAAGAA
1 AA-AGAAAAAAG-AAAGAA
379759 AAAGAAAAGAA-AAATGAA
1 AAAGAAAA-AAGAAA-GAA
379777 AAA
1 AAA
379780 AAGGAGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
17 28 0.57
18 19 0.39
19 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (17 bp):
AAAGAAAAAAGAAAGAA
Found at i:379738 original size:11 final size:11
Alignment explanation
Indices: 379707--379778 Score: 67
Period size: 11 Copynumber: 6.3 Consensus size: 11
379697 CTCATCCAGC
379707 AAAGAAAGAAG-
1 AAAGAAA-AAGA
*
379718 AAGGAAAAAGA
1 AAAGAAAAAGA
379729 AAA-AAGAAAGAA
1 AAAGAA-AAAG-A
*
379741 AACAAAAAAAGA
1 AA-AGAAAAAGA
379753 AAAGAAAAAGA
1 AAAGAAAAAGA
379764 AAAGAAAAATGA
1 AAAGAAAAA-GA
379776 AAA
1 AAA
379779 AAAGGAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
10 5 0.10
11 29 0.56
12 11 0.21
13 5 0.10
14 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:379739 original size:24 final size:23
Alignment explanation
Indices: 379707--379780 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
379697 CTCATCCAGC
379707 AAAGAAAGAAGAAGGAAAAAGAAA
1 AAAGAAAGAAGAA-GAAAAAGAAA
* *
379731 AAAGAAAGAAAACAAAAAAAGAAA
1 AAAGAAAGAAGA-AGAAAAAGAAA
379755 AGAA-AAAGAA-AAGAAAAATGAAA
1 A-AAGAAAGAAGAAGAAAAA-GAAA
379778 AAA
1 AAA
379781 AGGAGAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.18
23 6 0.14
24 27 0.61
25 3 0.07
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (23 bp):
AAAGAAAGAAGAAGAAAAAGAAA
Found at i:384569 original size:22 final size:22
Alignment explanation
Indices: 384543--384619 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
384533 ATCTACACTC
*
384543 TTCAAAGATGATAGATTCTCTT
1 TTCAAAAATGATAGATTCTCTT
384565 TTCAAAAATGATAGATTCTCTT
1 TTCAAAAATGATAGATTCTCTT
* *
384587 TTTAAAGATGATAGATTCTCTT
1 TTCAAAAATGATAGATTCTCTT
384609 TTCAAAAATGA
1 TTCAAAAATGA
384620 AAGCTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
TTCAAAAATGATAGATTCTCTT
Found at i:385415 original size:167 final size:168
Alignment explanation
Indices: 385134--385462 Score: 545
Period size: 167 Copynumber: 2.0 Consensus size: 168
385124 AAAATGAGCA
*
385134 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATATAATGAGAAAAC
1 TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATATAATGAGAAAAC
**
385199 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTT
66 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTT
*
385264 CCTTAG-TTTTTTACTTAGTAAATTATTTCCAACAGCC
131 CCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
**
385301 TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTTGAAAAAA-ATAATGAGAAAAC
1 TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATATAATGAGAAAAC
* *
385365 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAATGATT
66 GATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTATTGAAAAGTAAGAAAACGATT
*
385430 TCCTTAGTTTTTTTTACTTATTAAACTATTTCC
130 TCCTTAG-TTTTTTTACTTAGTAAACTATTTCC
385463 TTCATCTGTA
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
166 42 0.28
167 86 0.57
169 22 0.15
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (168 bp):
TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATATAATGAGAAAAC
GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTT
CCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:385564 original size:76 final size:76
Alignment explanation
Indices: 385464--386618 Score: 2139
Period size: 76 Copynumber: 15.2 Consensus size: 76
385454 ACTATTTCCT
*
385464 TCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385529 AAGCCTTAGGG
66 AAGCCTTAGGG
385540 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385605 AAGCCTTAGGG
66 AAGCCTTAGGG
* * * *
385616 TCATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGACTTCGAGAGCTTTATGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385681 AAGCCTTAGGG
66 AAGCCTTAGGG
*
385692 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385757 AAGCCTTAGGG
66 AAGCCTTAGGG
385768 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385833 AAGCCTTAGGG
66 AAGCCTTAGGG
385844 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385909 AAGCCTTAGGG
66 AAGCCTTAGGG
385920 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
385985 AAGCCTTAGGG
66 AAGCCTTAGGG
* * *
385996 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAATCCTTTGGGAGATTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386061 AAGCCTTAGGG
66 AAGCCTTAGGG
* * * *
386072 TCATCTATAAGTCCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386137 AAGCCTTAGGG
66 AAGCCTTAGGG
386148 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386213 AAGCCTTAGGG
66 AAGCCTTAGGG
*
386224 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
386289 AAGCCTTAGGT
66 AAGCCTTAGGG
386300 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386365 AAGCCTTAGGG
66 AAGCCTTAGGG
* *
386376 TCATCTGTAAGTCCTACAGTACATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386441 AAGCCTTAGGG
66 AAGCCTTAGGG
*
386452 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386517 AAGCCTTAGGG
66 AAGCCTTAGGG
*
386528 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCA
1 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
386593 AAGCCTTAGGG
66 AAGCCTTAGGG
386604 TCATCTGTAAGTCCT
1 TCATCTGTAAGTCCT
386619 TCGGGTCATC
Statistics
Matches: 1046, Mismatches: 33, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 1046 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTAGGG
Found at i:386624 original size:20 final size:20
Alignment explanation
Indices: 386596--386640 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
386586 GTTTTCAAAG
*
386596 CCTTAGGGTCATCTGTAAGT
1 CCTTCGGGTCATCTGTAAGT
386616 CCTTCGGGTCATCTGTAAGT
1 CCTTCGGGTCATCTGTAAGT
386636 CCTTC
1 CCTTC
386641 AGTGCATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (20 bp):
CCTTCGGGTCATCTGTAAGT
Found at i:386685 original size:45 final size:45
Alignment explanation
Indices: 386616--386703 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
386606 ATCTGTAAGT
* *
386616 CCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAA
*
386661 CCTTTGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAA
1 CCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAA
386704 CATTTCCATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (45 bp):
CCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAA
Found at i:386845 original size:3 final size:3
Alignment explanation
Indices: 386837--386913 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
386827 AAATTTAAAT
** *
386837 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
386885 TTA ATA TTA ATA TTA TTTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA -TTA TTA
386914 AATATTACAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
3 56 0.90
4 6 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:386863 original size:21 final size:21
Alignment explanation
Indices: 386837--386920 Score: 109
Period size: 21 Copynumber: 4.0 Consensus size: 21
386827 AAATTTAAAT
386837 TTATTATTATTATTAAAATTA
1 TTATTATTATTATTAAAATTA
*
386858 TTATTATTATTATTATAATTA
1 TTATTATTATTATTAAAATTA
* *
386879 TTATTATTAATATTAATATTA
1 TTATTATTATTATTAAAATTA
386900 -T-TTATTATTTATTAAATATTA
1 TTATTATTA-TTATTAAA-ATTA
386921 CAAAGCCCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
19 6 0.11
20 7 0.13
21 42 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATTATTATTAAAATTA
Found at i:388084 original size:29 final size:27
Alignment explanation
Indices: 388012--388086 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 27
388002 ATTTTAATCA
*
388012 TTAAT-TTTTATTTTTAACTATGAATTT
1 TTAATATTTTATTTTAAACTAT-AATTT
388039 TTAATATTTTACCTTTTAACACTAT-ATTT
1 TTAATATTTTA--TTTTAA-ACTATAATTT
388068 TTAATACCTTTTATTTTAA
1 TTAATA--TTTTATTTTAA
388087 TCATTATTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 16 0.39
30 5 0.12
31 10 0.24
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (27 bp):
TTAATATTTTATTTTAAACTATAATTT
Found at i:389256 original size:11 final size:10
Alignment explanation
Indices: 389228--389252 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
389218 ATGATGAACT
389228 AAAAATTATC
1 AAAAATTATC
389238 AAAAATTATC
1 AAAAATTATC
389248 AAAAA
1 AAAAA
389253 ATTAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTATC
Found at i:390209 original size:18 final size:18
Alignment explanation
Indices: 390186--390240 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
390176 ACCGGTCATA
390186 ACCCGACCCATTGACCCG
1 ACCCGACCCATTGACCCG
** *
390204 ACCCGACCTGTTTACCCG
1 ACCCGACCCATTGACCCG
390222 ACCCGTTGACCCATTGACC
1 ACCC---GACCCATTGACC
390241 GTTGACCGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 19 0.68
21 9 0.32
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (18 bp):
ACCCGACCCATTGACCCG
Found at i:391698 original size:26 final size:26
Alignment explanation
Indices: 391668--391720 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
391658 TTACCCAAGA
*
391668 ATATCATCAAGCTCAGAAATGATTGG
1 ATATCATCAAGCTCAGAAATGAATGG
* * *
391694 ATATCCTCGAGCTCTGAAATGAATGG
1 ATATCATCAAGCTCAGAAATGAATGG
391720 A
1 A
391721 ATAAAATTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (26 bp):
ATATCATCAAGCTCAGAAATGAATGG
Found at i:392790 original size:24 final size:24
Alignment explanation
Indices: 392694--392805 Score: 129
Period size: 24 Copynumber: 4.7 Consensus size: 24
392684 TTCAATTTGA
*
392694 ATTCTGATCTGATACTTGACATTG
1 ATTCTGATCTGATACTTGACATGG
* **
392718 ATTCTGATCTGATA-TCTGATATAT
1 ATTCTGATCTGATACT-TGACATGG
*
392742 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
392766 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
392790 AGTT-TGATATGATACT
1 A-TTCTGATCTGATACT
392806 CGACCTGATT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
23 1 0.01
24 72 0.95
25 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:397102 original size:16 final size:16
Alignment explanation
Indices: 397078--397108 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
397068 TAATTTTATT
397078 TTTTCTTTTCATTTTA
1 TTTTCTTTTCATTTTA
*
397094 TTTTGTTTTCATTTT
1 TTTTCTTTTCATTTT
397109 TTGCATTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTCATTTTA
Found at i:397150 original size:104 final size:103
Alignment explanation
Indices: 396952--397160 Score: 373
Period size: 104 Copynumber: 2.0 Consensus size: 103
396942 ATTATTTCTT
* *
396952 TATAATTACTAACTAATTTTCTTTTTCCTTTTCCTTTTATTTTGTTTTCATTTTTGCATTGTACT
1 TATAATTACTAACTAATTTTATTTTTCCTTTTCATTTTATTTTGTTTTCATTTTTGCATTGTACT
397017 ATTCATTCCATGGTGTTGATCCATGATTGATGTCCATA
66 ATTCATTCCATGGTGTTGATCCATGATTGATGTCCATA
* *
397055 TATAATTATTAACTAATTTTATTTTTTCTTTTCATTTTATTTTGTTTTCATTTTTTGCATTGTAC
1 TATAATTACTAACTAATTTTATTTTTCCTTTTCATTTTATTTTGTTTTCA-TTTTTGCATTGTAC
397120 TATTCATTCCATGGTGTTGATCCATGATTGATGTCCATA
65 TATTCATTCCATGGTGTTGATCCATGATTGATGTCCATA
397159 TA
1 TA
397161 GAAGGCTAGT
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 46 0.46
104 55 0.54
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (103 bp):
TATAATTACTAACTAATTTTATTTTTCCTTTTCATTTTATTTTGTTTTCATTTTTGCATTGTACT
ATTCATTCCATGGTGTTGATCCATGATTGATGTCCATA
Found at i:399001 original size:19 final size:21
Alignment explanation
Indices: 398970--399011 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
398960 ATACCTTGCA
398970 TTTTGCATATGCATTTTA-CT
1 TTTTGCATATGCATTTTATCT
398990 TTTTGCAT-TGCATTTTATCT
1 TTTTGCATATGCATTTTATCT
399010 TT
1 TT
399012 CGCAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTTGCATATGCATTTTATCT
Found at i:406196 original size:21 final size:21
Alignment explanation
Indices: 406156--406207 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
406146 TAATTTTCCT
406156 AAAG-AAAAAAAGAATGAAAAA
1 AAAGAAAAAAAAGAA-GAAAAA
406177 AAAGAAAAAAAAG-AGAAAAA
1 AAAGAAAAAAAAGAAGAAAAA
*
406197 TAAATAAAAAA
1 -AAAGAAAAAA
406208 GGGTTCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.21
21 14 0.50
22 8 0.29
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAGAAAAA
Found at i:407822 original size:134 final size:133
Alignment explanation
Indices: 407593--408095 Score: 521
Period size: 134 Copynumber: 3.8 Consensus size: 133
407583 CCTAAGAAAA
* * * * * *
407593 AGTGGAACAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAGTAAATTAAGTTT
1 AGTGTAACAGA-TCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTC
* *
407658 GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGTTCAAAAAAATTTCGAGTCTGATCTCCCCTAAA
65 GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAAAATTTCGAGTCTGATCTCACCTAAA
407723 GAGT
130 GAGT
* * * * * *
407727 AGTGGAGCAGACCCGTCTTCTTTCAGATTTGGTCTTCTTGAAGAACAGTGAAGCAAATCAAGTTC
1 AGTGTAACAGA-TCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTC
* * * ** *
407792 GCTTCAGTCTTCCCTGAAGAGCAGCGAAGTGAATC-AAAATTTTTCAAGATCTGAT-T-ACCTGA
65 GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAAAATTTCGAG-TCTGATCTCACCT-A
*
407854 AA-A-A
128 AAGAGT
* * * * * *
407858 AGTGTAACAGGTTATTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCAAAACAAATCAAGTTC
1 AGTGTAACA-GATCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTC
* * * * * *
407923 GATTTAACCTTCCCTGAAGAGTAGCGAAGTGGATAAAAAAAATTTTGAGTCTGATCTCGCCTAAA
65 GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAAAATTTCGAGTCTGATCTCACCTAAA
407988 GAGT
130 GAGT
* ** * * *
407992 AGTGTAACAGATCTTCTTTCTTTCAGATTTGATCTTCCTGAAGAACAATGAAGCAAATCGACTTT
1 AGTGTAACAGATCTTC-TTCTTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTC
* * * * *
408057 GATTAAACCTTCCTTGAAGAGCAGTGAAGTGAATCAAAA
65 GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA
408096 TTTCCAGATA
Statistics
Matches: 297, Mismatches: 63, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
131 85 0.29
132 18 0.06
133 23 0.08
134 171 0.58
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (133 bp):
AGTGTAACAGATCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAACAGCGAAGCAAATCAAGTTCG
ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAAAATTTCGAGTCTGATCTCACCTAAAG
AGT
Found at i:408077 original size:265 final size:265
Alignment explanation
Indices: 407589--408098 Score: 707
Period size: 265 Copynumber: 1.9 Consensus size: 265
407579 TTTCCCTAAG
* * * * ** *
407589 AAAAAGTGGAACAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAGTAAATTAA
1 AAAAAGTGGAACAGATTATTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCAAAACAAATCAA
* * * *
407654 GTTTGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGTTCAAAAAAATTTCGAGTCTGATCTCCCC
66 GTTCGATTCAACCTTCCCTGAAGAGCAGCGAAGTGGATAAAAAAAATTTCGAGTCTGATCTCCCC
* * * *
407719 TAAAGAGTAGTGGAGCAGACCCGTCTTCTTTCAGATTTGGTCTTCTTGAAGAACAGTGAAGCAAA
131 TAAAGAGTAGTGGAACAGACCCGTCTTCTTTCAGATTTGATCTTCCTGAAGAACAATGAAGCAAA
* * * **
407784 TCAAGTTCGCTTCAGTCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTTCAAGATCTGATTA
196 TCAACTTCGATTAAACCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTTCAAGATCTGATTA
407849 CCTGA
261 CCTGA
* *
407854 AAAAAGTGTAACAGGTTATTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCAAAACAAATCAA
1 AAAAAGTGGAACAGATTATTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCAAAACAAATCAA
* * * *
407919 GTTCGATTTAACCTTCCCTGAAGAGTAGCGAAGTGGATAAAAAAAATTTTGAGTCTGATCTCGCC
66 GTTCGATTCAACCTTCCCTGAAGAGCAGCGAAGTGGATAAAAAAAATTTCGAGTCTGATCTCCCC
* * *
407984 TAAAGAGTAGTGTAACAGA-TCTTCTTTCTTTCAGATTTGATCTTCCTGAAGAACAATGAAGCAA
131 TAAAGAGTAGTGGAACAGACCCGTC-TTCTTTCAGATTTGATCTTCCTGAAGAACAATGAAGCAA
* * * *
408048 ATCGACTTTGATTAAACCTTCCTTGAAGAGCAGTGAAGTGAATCAAAATTT
195 ATCAACTTCGATTAAACCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTT
408099 CCAGATATGA
Statistics
Matches: 211, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
264 3 0.01
265 208 0.99
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (265 bp):
AAAAAGTGGAACAGATTATTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCAAAACAAATCAA
GTTCGATTCAACCTTCCCTGAAGAGCAGCGAAGTGGATAAAAAAAATTTCGAGTCTGATCTCCCC
TAAAGAGTAGTGGAACAGACCCGTCTTCTTTCAGATTTGATCTTCCTGAAGAACAATGAAGCAAA
TCAACTTCGATTAAACCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTTCAAGATCTGATTA
CCTGA
Found at i:408315 original size:2 final size:2
Alignment explanation
Indices: 408308--408342 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
408298 CGTTTGGGTT
408308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
408343 TATGATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:412263 original size:42 final size:40
Alignment explanation
Indices: 412145--412279 Score: 118
Period size: 42 Copynumber: 3.4 Consensus size: 40
412135 TTAGGTAATT
*
412145 TTGTGTTTGATAGTCGAAAAATATTTTTC----TTATTTTC
1 TTGTGTTTGATAGT-TAAAAATATTTTTCAAAATTATTTTC
* * * ** *
412182 TTGTATTTGATAATTGAATTTTTTTTTCAAAATATATTTTC
1 TTGTGTTTGATAGTTAAAAATATTTTTCAAAAT-TATTTTC
412223 TTGTGTTTGATAGTTAAAAAATATTTTTCGAAAATTATTTT-
1 TTGTGTTTGATAGTT-AAAAATATTTTTC-AAAATTATTTTC
*
412264 TCTATGTTTGATAGTT
1 T-TGTGTTTGATAGTT
412280 GTAATTGGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
36 9 0.12
37 12 0.16
40 1 0.01
41 21 0.28
42 28 0.37
43 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (40 bp):
TTGTGTTTGATAGTTAAAAATATTTTTCAAAATTATTTTC
Found at i:415316 original size:20 final size:20
Alignment explanation
Indices: 415291--415335 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
415281 CCTTGTTCAT
*
415291 TCTCTAAGATTTTTATTGTA
1 TCTCTAAGATTCTTATTGTA
415311 TCTCTAAGATTCTTATTGTA
1 TCTCTAAGATTCTTATTGTA
415331 TCTCT
1 TCTCT
415336 TTTGTTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (20 bp):
TCTCTAAGATTCTTATTGTA
Found at i:419013 original size:5 final size:5
Alignment explanation
Indices: 418993--419031 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
418983 AAAATCGAAG
* *
418993 AAATA AAATG AGATA AAATA AAATA AAA-A AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
419032 CATGAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:419047 original size:3 final size:3
Alignment explanation
Indices: 419005--419065 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
418995 ATAAAATGAG
* * *
419005 ATA A-A ATA A-A ATA AAA AAA ATA A-A ATA CATGA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA
419049 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
419066 GCTAATGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 6 0.12
3 39 0.80
4 3 0.06
5 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:420306 original size:12 final size:12
Alignment explanation
Indices: 420291--420347 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
420281 AAGAAAATAA
420291 AAAATAATTAAT
1 AAAATAATTAAT
* *
420303 AAAACAAATAAAT
1 AAAA-TAATTAAT
420316 AATAATAA-TAAT
1 AA-AATAATTAAT
*
420328 ATAATAATTAAT
1 AAAATAATTAAT
*
420340 AATATAAT
1 AAAATAAT
420348 ATAAACTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 5 0.14
12 18 0.51
13 10 0.29
14 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATTAAT
Found at i:420339 original size:21 final size:20
Alignment explanation
Indices: 420287--420351 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
420277 AGAAAAGAAA
* * *
420287 ATAAAAAATAATTAATAAAAC
1 ATAATAAATAA-TAATATAAT
420308 A-AATAAATAATAATAATAAT
1 ATAATAAATAATAAT-ATAAT
*
420328 ATAATAATTAATAATATAAT
1 ATAATAAATAATAATATAAT
420348 ATAA
1 ATAA
420352 ACTATATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 4 0.11
20 21 0.55
21 13 0.34
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAATAAATAATAATATAAT
Found at i:420361 original size:37 final size:36
Alignment explanation
Indices: 420293--420366 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 36
420283 GAAAATAAAA
420293 AATAATTAATAAAACAAATAAATAATAATAATAATAT
1 AATAATTAATAAAACAAATAAATAATAATAAT-ATAT
* *
420330 AATAATTAATAATATAATATAAACT-AT-ATAATATAT
1 AATAATTAATAAAACAA-ATAAA-TAATAATAATATAT
420366 A
1 A
420367 CTTCAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 5 0.15
37 20 0.61
38 7 0.21
39 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (36 bp):
AATAATTAATAAAACAAATAAATAATAATAATATAT
Found at i:420525 original size:39 final size:38
Alignment explanation
Indices: 420371--420625 Score: 193
Period size: 39 Copynumber: 7.1 Consensus size: 38
420361 TATATACTTC
* *
420371 AAAAATATTTTT-AAACTATATA-T-TAT-A-TTTT-A
1 AAAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
* * *
420403 AAAAAAGTTTTCAAAACTATATATTATAT-AGTTTTC-
1 AAAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
* *
420439 AAAAATGATTTT-AAA--A-ATATTGTATAAGTTTTCA
1 AAAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
* * *
420473 AAAAATATTTTTAAAACCATATGTTATATAATTTTTCA
1 AAAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
* *
420511 AGAAAATGTTTTTAAAACTATATATTATATAAGTTTGC-
1 A-AAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
* * * *
420549 -AAACTGTTTTAAAAAAC-TATATAATATATA-TTTTCA
1 AAAAATGTTTTTAAAACCATATATTATATA-AGTTTTCA
* * *
420585 AAATATTTTTTTAAAAACCATATATTATATAA-TTTCCA
1 AAAAATGTTTTT-AAAACCATATATTATATAAGTTTTCA
420623 AAA
1 AAA
420626 TGATTTCAAA
Statistics
Matches: 176, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
32 17 0.10
33 18 0.10
34 11 0.06
35 24 0.14
36 27 0.15
37 8 0.05
38 30 0.17
39 41 0.23
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (38 bp):
AAAAATGTTTTTAAAACCATATATTATATAAGTTTTCA
Found at i:420601 original size:37 final size:35
Alignment explanation
Indices: 420350--420725 Score: 234
Period size: 37 Copynumber: 10.5 Consensus size: 35
420340 AATATAATAT
* *
420350 AAACTATATAATATATA-CTTCAAAAATATTTTT-
1 AAACTATATAATATATATTTTCAAAAATGTTTTTA
* * *
420383 AAACTATAT-AT-TATATTTTAAAAAAAGTTTTCA
1 AAACTATATAATATATATTTTCAAAAATGTTTTTA
* *
420416 AAACTATATATTATATAGTTTTCAAAAATGATTTTA
1 AAACTATATAATATATA-TTTTCAAAAATGTTTTTA
** *
420452 AAA--ATATTGTATA-AGTTTTCAAAAAATATTTTTA
1 AAACTATATAATATATA-TTTTC-AAAAATGTTTTTA
* **
420486 AAACCATATGTTATATAATTTTTCAAGAAAATGTTTTTA
1 AAACTATATAATATAT-A-TTTTC-A-AAAATGTTTTTA
* * * *
420525 AAACTATATATTATATAAGTTTGC-AAACTGTTTTAAA
1 AAACTATATAATATAT-A-TTTTCAAAAATGTTTT-TA
*
420562 AAACTATATAATATATATTTTCAAAATATTTTTTTAA
1 AAACTATATAATATATATTTTCAAAA-ATGTTTTT-A
* * * * * *
420599 AAACCATATATTATATAATTTCCAAAATG-ATTTC
1 AAACTATATAATATATATTTTCAAAAATGTTTTTA
* *
420633 AAACTATAATATATATTTATTTTAAAAAAATCGTTTTTCA
1 AAACTAT-ATA-ATATATATTTT-CAAAAAT-GTTTTT-A
** **
420673 AAACTATAT-ATATTATATATTTC-AAAATCATTTGC
1 AAACTATATAATA-TATAT-TTTCAAAAATGTTTTTA
420708 AAACTATATAATATATAT
1 AAACTATATAATATATAT
420726 ATAATAAATA
Statistics
Matches: 269, Mismatches: 50, Indels: 46
0.74 0.14 0.13
Matches are distributed among these distances:
31 4 0.01
32 13 0.05
33 25 0.09
34 29 0.11
35 28 0.10
36 54 0.20
37 57 0.21
38 13 0.05
39 39 0.14
40 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (35 bp):
AAACTATATAATATATATTTTCAAAAATGTTTTTA
Found at i:421235 original size:84 final size:82
Alignment explanation
Indices: 421126--421373 Score: 325
Period size: 84 Copynumber: 3.0 Consensus size: 82
421116 TGGATAGCTT
* * * * *
421126 TTCTCGACTTAAGTCATGCTGTAAATTTAATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTAAGTTATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
421191 TCTTGGTGACAGATAACCC
64 TCTTGGTGACAGATAACCC
* * *
421210 TTCTCGCCTTGAGTTATGCTGTAAATGATGTACCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
1 TTCTCGCCTTAAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-
* *
421275 CTTGGTTGGCAGATAGCCC
65 CTTGG-TGACAGATAACCC
* * *
421294 TTCTCACCTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
1 TTCTCGCCTTAAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
*
421359 TTTGTTGACAGATAA
66 -TTGGTGACAGATAA
421374 GTAAATCAAA
Statistics
Matches: 142, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
82 34 0.24
83 14 0.10
84 94 0.66
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (82 bp):
TTCTCGCCTTAAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
TTGGTGACAGATAACCC
Found at i:427360 original size:2 final size:2
Alignment explanation
Indices: 427344--427423 Score: 87
Period size: 2 Copynumber: 41.5 Consensus size: 2
427334 AATTTAATAC
* * **
427344 TA TA -A TA TA TA -A TA TA TA TA TT TT TA TCA T- TA GC TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
427383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
427424 TTGAATATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
1 4 0.06
2 61 0.91
3 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:427450 original size:16 final size:16
Alignment explanation
Indices: 427431--427461 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
427421 TATTTGAATA
427431 TTAAATTGATCACAAT
1 TTAAATTGATCACAAT
*
427447 TTAATTTGATCACAA
1 TTAAATTGATCACAA
427462 AAATTAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAAATTGATCACAAT
Found at i:427474 original size:22 final size:22
Alignment explanation
Indices: 427449--427490 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
427439 ATCACAATTT
427449 AATTTGATCACAAAAATTAATC
1 AATTTGATCACAAAAATTAATC
*
427471 AATTTGATCACAAAGATTAA
1 AATTTGATCACAAAAATTAA
427491 CTAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (22 bp):
AATTTGATCACAAAAATTAATC
Found at i:427587 original size:2 final size:2
Alignment explanation
Indices: 427578--427606 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
427568 TATCATTAAC
427578 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
427607 ATTTGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:427949 original size:2 final size:2
Alignment explanation
Indices: 427944--427995 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
427934 TCATTAACTA
427944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
427986 AT AT AT -T AT A
1 AT AT AT AT AT A
427996 ATTGATTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:428292 original size:9 final size:9
Alignment explanation
Indices: 428280--428310 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
428270 ATTGGATTGA
428280 AAATTTATT
1 AAATTTATT
428289 AAATTTATT
1 AAATTTATT
*
428298 AAATTAATT
1 AAATTTATT
428307 AAAT
1 AAAT
428311 GAAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AAATTTATT
Found at i:432380 original size:44 final size:44
Alignment explanation
Indices: 432331--432416 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
432321 ACCAACATAT
*
432331 CCAATAT-TTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTA
* *
432375 CCAATATACTTGCCATTATTCTATAAGCTCGTAAGCTTATTT
1 CCAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTT
432417 GCATACTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (44 bp):
CCAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTA
Found at i:432565 original size:40 final size:40
Alignment explanation
Indices: 432521--432602 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
432511 ACCGTAGTGC
432521 TACACATAAGGACGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGACGTACCCACCATATACACCGAAGTGTAT
* *
432561 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGACGTACCCACCATATACACCGAAGTGTAT
432601 TA
1 TA
432603 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGACGTACCCACCATATACACCGAAGTGTAT
Found at i:434784 original size:16 final size:17
Alignment explanation
Indices: 434763--434803 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
434753 TGGGTCTCGG
*
434763 GGTTGGGTCTT-ATTCT
1 GGTTGGGTCTTGAGTCT
*
434779 GGTTGGGTCTTGGGTCT
1 GGTTGGGTCTTGAGTCT
434796 GGTTGGGT
1 GGTTGGGT
434804 TTTGGGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.02, C:0.10, G:0.44, T:0.44
Consensus pattern (17 bp):
GGTTGGGTCTTGAGTCT
Found at i:434798 original size:17 final size:17
Alignment explanation
Indices: 434763--434810 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
434753 TGGGTCTCGG
**
434763 GGTTGGGTCTT-ATTCT
1 GGTTGGGTCTTGGGTCT
434779 GGTTGGGTCTTGGGTCT
1 GGTTGGGTCTTGGGTCT
*
434796 GGTTGGGTTTTGGGT
1 GGTTGGGTCTTGGGT
434811 ATGGAGGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.02, C:0.08, G:0.44, T:0.46
Consensus pattern (17 bp):
GGTTGGGTCTTGGGTCT
Found at i:435182 original size:41 final size:42
Alignment explanation
Indices: 435122--435209 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
435112 GCCCGAAGGT
** * * *
435122 CTTATAGATGGCCCGAAGGAATT-ATCATCTTACTCGAAAGA
1 CTTATAGATAACCCAAAGGAATTAAGCATCATACTCGAAAGA
* *
435163 CTTATAGATAACCCAAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATAACCCAAAGGAATTAAGCATCATACTCGAAAGA
*
435205 TTTAT
1 CTTAT
435210 TGATGGCCCG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 19 0.50
42 19 0.50
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (42 bp):
CTTATAGATAACCCAAAGGAATTAAGCATCATACTCGAAAGA
Found at i:435224 original size:42 final size:41
Alignment explanation
Indices: 435122--435224 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
435112 GCCCGAAGGT
* *
435122 CTTATAGATGGCCCGAAGGAATTATCATCTTACTCGAAAGA
1 CTTATAGATGGCCCGAAGGAATTAGCATCATACTCGAAAGA
** * * *
435163 CTTATAGATAACCCAAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGAATT-AGCATCATACTCGAAAGA
* *
435205 TTTATTGATGGCCCGAAGGA
1 CTTATAGATGGCCCGAAGGA
435225 CTTTTACTGA
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 19 0.39
42 30 0.61
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGAATTAGCATCATACTCGAAAGA
Found at i:435347 original size:59 final size:60
Alignment explanation
Indices: 435230--435347 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 60
435220 AAGGACTTTT
** *
435230 ACTGATTCGAAATGCTGTGAATTGAGCAATAGGAAATGTTAATCCCTCAAGTGGGGCGTC
1 ACTGATTCGAAATGCTGTGAATCAAGCAATAGGAAATGTTAATCCCTCAAGTGAGGCGTC
435290 ACTGATTCGAAATG-TCGTGAATCAAGCAA-AGGAAATGTTAATCCCTCAAGTGAGGCGT
1 ACTGATTCGAAATGCT-GTGAATCAAGCAATAGGAAATGTTAATCCCTCAAGTGAGGCGT
435348 AGTTTGTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 29 0.54
60 25 0.46
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (60 bp):
ACTGATTCGAAATGCTGTGAATCAAGCAATAGGAAATGTTAATCCCTCAAGTGAGGCGTC
Found at i:435666 original size:149 final size:147
Alignment explanation
Indices: 435429--436126 Score: 828
Period size: 149 Copynumber: 4.7 Consensus size: 147
435419 TATTTCAAGG
* * * *
435429 GAAACTTTCTCAAGCGAGATGAATTT-TTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTTTT
1 GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTTAAGTGAAAT-AAAATTTCT
* * ** * *
435493 GTTTTGAGTAAAAAAATTCTCAAGCGAGA-CAAAGTTTGTTTTAAGAAAAGCAATCTCAAGTGAG
65 GTTTCGAGTGAAACTA-TCTCAAGCGAGATGAAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAG
*
435557 ATAAAATTTCTATTTCGAGT
128 ATAAAATTTCTGTTTCGAGT
* * *
435577 GAAAACTATCTCAAGCGAGATGAGTCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC
1 G-AAACTATCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTTAAGTGAAATAAAATTTC
435642 TGTTTCGAGTGAAACTATCTCAAGCGAGATG-AATCTTGTTTTAAGAAAAACAATCTCAAGTGAG
64 TGTTTCGAGTGAAACTATCTCAAGCGAGATGAAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAG
* *
435706 ATAAAATTTATGTTTTCAAGT
128 ATAAAATTTCTG-TTTCGAGT
* * * *
435727 GGAACTATCTCAAGCGAGATAAAAATTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTC
1 GAAACTATCTCAAGCGAGAT--GAATTTGTTTTAAGAAAAACAATCTTAAGTGAAATAAAATTTC
* ** *
435792 TTGTTTCGAGTGGAACTATCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTTGAGTGAA
64 -TGTTTCGAGTGAAACTATCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAG
*
435857 ATGAAATTTCTTGTTTCGAGT
128 ATAAAATTTC-TGTTTCGAGT
* * * *
435878 GAAACTATCTCAAGCGAGATGAATTTTTTTTAAGAAAAACAATTTTTAGTGAAATTAAATTTCTT
1 GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTTAAGTGAAATAAAATTTC-T
* * *
435943 GTTTCGAGTGAAACAATCTCAAGCGAGATGAAATTTTTTTTAAGAAAAAAAATCTCAAGTGAGAT
65 GTTTCGAGTGAAACTATCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
436008 AAAATTTCTGTTTCGAGT
130 AAAATTTCTGTTTCGAGT
* *** * * * * **
436026 GAAACTATCACATTTGAGATGAATCTTGTTTTAACAAAAAAAATATCAAGTGGGAT-AAATATTC
1 GAAACTATCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTTAAGTGAAATAAAAT-TTC
* * * *
436090 TGTTTCGAATGAAACTATCTCATGCGATATAAAATTT
64 TGTTTCGAGTGAAACTATCTCAAGCGAGATGAAATTT
436127 TTGCTTCGAG
Statistics
Matches: 476, Mismatches: 61, Indels: 26
0.85 0.11 0.05
Matches are distributed among these distances:
148 68 0.14
149 222 0.47
150 64 0.13
151 117 0.25
152 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (147 bp):
GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTTAAGTGAAATAAAATTTCTG
TTTCGAGTGAAACTATCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
AAATTTCTGTTTCGAGT
Found at i:435691 original size:74 final size:73
Alignment explanation
Indices: 435429--436116 Score: 795
Period size: 74 Copynumber: 9.2 Consensus size: 73
435419 TATTTCAAGG
* ** * * *
435429 GAAACTTTCTCAAGCGAGATGAATTT-TTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTTTT
1 GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAAATTTCT
*
435493 GTTTTGAGT
65 GTTTCGAGT
* ** ** *
435502 AAAAAAATTCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAGCAATCTCAAGTGAGATAAAATTTC
1 GAAACTA-TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC
*
435567 TATTTCGAGT
64 TGTTTCGAGT
*
435577 GAAAACTATCTCAAGCGAGATGAGTCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC
1 G-AAACTATCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC
435642 TGTTTCGAGT
64 TGTTTCGAGT
*
435652 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTAT
1 GAAACTATCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCT
*
435717 GTTTTCAAGT
65 G-TTTCGAGT
* * ** * *
435727 GGAACTATCTCAAGCGAGATAAAAATTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTC
1 GAAACTATCTCAAGCGAGAT--GAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC
435792 TTGTTTCGAGT
64 -TGTTTCGAGT
* ** * *
435803 GGAACTATCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCT
1 GAAACTATCTCAAGCGAGATG-AATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC-
435868 TGTTTCGAGT
64 TGTTTCGAGT
* * ** * *
435878 GAAACTATCTCAAGCGAGATGAATTTTTTTTAAGAAAAACAATTTTTAGTGAAATTAAATTTCTT
1 GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC-T
435943 GTTTCGAGT
65 GTTTCGAGT
* * *
435952 GAAACAATCTCAAGCGAGATGAAATTTTTTTTAAGAAAAAAAATCTCAAGTGAGATAAAATTTCT
1 GAAACTATCTCAAGCGAGATG-AATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCT
436017 GTTTCGAGT
65 GTTTCGAGT
* *** * * * *
436026 GAAACTATCACATTTGAGATGAATCTTGTTTTAACAAAAAAAATATCAAGTGGGAT-AAATATTC
1 GAAACTATCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTC
*
436090 TGTTTCGAAT
64 TGTTTCGAGT
*
436100 GAAACTATCTCATGCGA
1 GAAACTATCTCAAGCGA
436117 TATAAAATTT
Statistics
Matches: 543, Mismatches: 59, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
73 10 0.02
74 226 0.42
75 213 0.39
76 89 0.16
77 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (73 bp):
GAAACTATCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTG
TTTCGAGT
Found at i:436213 original size:112 final size:112
Alignment explanation
Indices: 435994--436228 Score: 283
Period size: 112 Copynumber: 2.1 Consensus size: 112
435984 AAGAAAAAAA
* * * ** * *
435994 ATCTCAAGTGAGATAAAATTTCTGTTTCGAGTGAAACTATCACATTTGAGATGAATCTTGTTTTA
1 ATCTCAAGCGATATAAAATTTCTGCTTCGAGTGAAACTATCACAAGTGAGATGAACCTTATTTTA
* *
436059 ACAAAAAAAATATCAAGTGGGATAAATATTCTGTTTCGAATGAAACT
66 ACAAAAAAAATATCAAGTGAGATAAATATTCTGTTTCAAATGAAACT
* * *
436106 ATCTCATGCGATATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGTGAGATGAACCTTATTTTA
1 ATCTCAAGCGATATAAAATTTCTGCTTCGAGTGAAACTATCACAAGTGAGATGAACCTTATTTTA
* * * * * *
436171 AGAAAAATAATCTCAAGTGAGATAAATTTTTTGTATT-AAATGAGACT
66 ACAAAAAAAATATCAAGTGAGATAAATATTCTGT-TTCAAATGAAACT
*
436218 GTCTCAAGCGA
1 ATCTCAAGCGA
436229 GACAATTTTT
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
112 100 0.98
113 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (112 bp):
ATCTCAAGCGATATAAAATTTCTGCTTCGAGTGAAACTATCACAAGTGAGATGAACCTTATTTTA
ACAAAAAAAATATCAAGTGAGATAAATATTCTGTTTCAAATGAAACT
Found at i:445264 original size:33 final size:32
Alignment explanation
Indices: 445202--445264 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
445192 CTCATGTTGT
*
445202 TTTCCTTGAATGTTTGTAAATTTTGATTTACA
1 TTTCCTTGAATGTTTGTAAATTATGATTTACA
445234 TTTCACTTGAATGTTTGTAAATTGAT-ATTTA
1 TTTC-CTTGAATGTTTGTAAATT-ATGATTTA
445265 TTTATGTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (32 bp):
TTTCCTTGAATGTTTGTAAATTATGATTTACA
Found at i:450109 original size:2 final size:2
Alignment explanation
Indices: 450102--450127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
450092 GTAAACAAGA
450102 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
450128 TGAGGAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:457012 original size:39 final size:36
Alignment explanation
Indices: 456940--457012 Score: 85
Period size: 39 Copynumber: 1.9 Consensus size: 36
456930 TTATACATTT
* *
456940 AATATTAAATTAATATTTTAATATCATTTTAATAAA
1 AATATTAAATTAAAATTTTAATATCATTATAATAAA
456976 AATATTAATTATTAAAATATTTAATATACA-TATAATA
1 AATATTAA--ATTAAAAT-TTTAATAT-CATTATAATA
457013 TAATTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 8 0.26
38 7 0.23
39 14 0.45
40 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (36 bp):
AATATTAAATTAAAATTTTAATATCATTATAATAAA
Found at i:457036 original size:17 final size:16
Alignment explanation
Indices: 457007--457054 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
456997 TAATATACAT
457007 ATAATA-TA-ATTTTA
1 ATAATATTATATTTTA
457021 ATAATATTATATTTT-
1 ATAATATTATATTTTA
*
457036 -TCATATTATATTTTTA
1 ATAATATTATA-TTTTA
457052 ATA
1 ATA
457055 TTTTATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 15 0.56
15 6 0.22
16 5 0.19
17 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATATTATATTTTA
Done.