Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004939.1 Hibiscus syriacus cultivar Beakdansim tig00011109_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: 107199
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Found at i:2861 original size:23 final size:23
Alignment explanation
Indices: 2808--2855 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2798 TGTCTAGGCA
*
2808 TGCTCCTAGGCACGCCTCCGCCT
1 TGCTCCTAGGCACGCCTCCACCT
*
2831 TGCTCCTAGGCATGCCTCCACCT
1 TGCTCCTAGGCACGCCTCCACCT
2854 TG
1 TG
2856 TGCCTAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.10, C:0.44, G:0.21, T:0.25
Consensus pattern (23 bp):
TGCTCCTAGGCACGCCTCCACCT
Found at i:15064 original size:25 final size:25
Alignment explanation
Indices: 15019--15088 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
15009 TAAGAGTACG
*
15019 AATTTAAAA-A-AT-AAATAATAAA
1 AATTTAAAAGATATAAAATTATAAA
*
15041 AATTTAAGAGATATAAAATTATAAA
1 AATTTAAAAGATATAAAATTATAAA
*
15066 ATTTTAAAAGATATAAAATTATA
1 AATTTAAAAGATATAAAATTATA
15089 TAATCAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
22 8 0.20
23 1 0.02
24 2 0.05
25 30 0.73
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AATTTAAAAGATATAAAATTATAAA
Found at i:16946 original size:35 final size:35
Alignment explanation
Indices: 16907--17011 Score: 192
Period size: 35 Copynumber: 3.0 Consensus size: 35
16897 AAAACAATCC
*
16907 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
*
16942 TCAATTACATTCTAAACCCCAAATTCTAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
16977 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
17012 CAAAAATAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:17580 original size:35 final size:35
Alignment explanation
Indices: 17534--17607 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
17524 CAATATTATT
* * *
17534 TTGAAGTATTTTAG-TATTTGGGGTTTAAAATGTAA
1 TTGAAGTATTTTGGAT-TTTGGAGTTTAAAATGAAA
* *
17569 TTGAATTATTTTGGATTTTGGAGTTTATAATGAAA
1 TTGAAGTATTTTGGATTTTGGAGTTTAAAATGAAA
17604 TTGA
1 TTGA
17608 GGACTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (35 bp):
TTGAAGTATTTTGGATTTTGGAGTTTAAAATGAAA
Found at i:20975 original size:51 final size:52
Alignment explanation
Indices: 20876--20983 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 52
20866 TATTTTAAAT
20876 AATTATTGGTATAAAATAAAATCCCTAATGTTTTTTATGGGATCATAAATTA
1 AATTATTGGTATAAAATAAAATCCCTAATGTTTTTTATGGGATCATAAATTA
20928 AATTATTGGTATAAAATAAAAT-CCTAATGTTTTTTATGGGATCATAAATTA
1 AATTATTGGTATAAAATAAAATCCCTAATGTTTTTTATGGGATCATAAATTA
20979 AATTA
1 AATTA
20984 AACTCAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 34 0.61
52 22 0.39
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (52 bp):
AATTATTGGTATAAAATAAAATCCCTAATGTTTTTTATGGGATCATAAATTA
Found at i:27347 original size:39 final size:37
Alignment explanation
Indices: 27270--27355 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 37
27260 ATACCAGTGT
* *
27270 GAAAAATTTGGGACATTTTGAAGGCTTATATCAACAA
1 GAAAAATTTGGGACATTTTAAAGGCTCATATCAACAA
* **
27307 GAAATAATGTTGGGACATTTTAAAGGCTCGTATCCGCAA
1 GAAA-AAT-TTGGGACATTTTAAAGGCTCATATCAACAA
27346 GAAACAATTT
1 GAAA-AATTT
27356 TGAACGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 4 0.10
38 5 0.12
39 32 0.78
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
GAAAAATTTGGGACATTTTAAAGGCTCATATCAACAA
Found at i:28857 original size:42 final size:42
Alignment explanation
Indices: 28798--28879 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
28788 CACAAATTTG
*
28798 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCTTGATGTT
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCATGATGTT
* *
28840 TAAATCCTTTGGGTCATCTGTCAGTTTTTCGAGCATGATG
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCATGATG
28880 ATAAGTCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCATGATGTT
Found at i:29358 original size:42 final size:42
Alignment explanation
Indices: 29294--29375 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
29284 CACAAATTTG
* * *
29294 TAAATCCTTCGTGTCATTTGTCAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
* * *
29336 TAAATCCTTTGGGTTATCTGTCAGTCTTTTGAGCAAGATG
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
29376 ATAAGTTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
Found at i:29415 original size:249 final size:249
Alignment explanation
Indices: 28690--29628 Score: 1291
Period size: 249 Copynumber: 3.7 Consensus size: 249
28680 CAAGTTGTTT
* * * *
28690 TGAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATATTTTCTA-AAAATGAAATTTTTGAA
1 TGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTT-A-ATGTTCAAGAAAATGAAATTTTTGAA
*
28754 AAGTAAAAAGTTTCTTACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGT
64 AAGTAAGAAGTTTCTTACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGT
* * * *
28819 CAGTCTTTCGAGCTTGATGTTTAAATCCTTTGGGTCATCTGTCAGT-TTTTCGAGCATGATGATA
129 CAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTGTCAGTCTTTT-GAGCAAGATGATA
* * *
28883 AGTCCTTAGGACTATCCGTCAGACCTTTGGGTAAGATGTTTACATATGATTTTCACA
193 AGTCCTTAGGGCAATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACA
* *
28940 TGAAAATGAGAAAGCAATTTTCAAAGGTTCTCATTTAATGTTCAAGAAAATGAAATTTTTGAAAA
1 TGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATGAAATTTTTGAAAA
* * *
29005 GTAAGAAGTTTCTT-CCTAATAAATTATTTCCCATAAATTTGTAAATCCTTTGGGTCAT-TGTCA
66 GTAAGAAGTTTCTTACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTCA
* * *
29068 GTCTTTCGAGCATAATGTTTAAATCCTTAGGGTTATCTGTCAGTCTTTTGAGCAAGATGATAAGT
131 GTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCAAGATGATAAGT
*
29133 CCTTAGGGCAATCCGTCAAACCTTTGGGTAGGATGTTTACATATGATTTTCACA
196 CCTTAGGGCAATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACA
* * *
29187 TGAAAATAAGAAAAG-GATTTTCAAAGTTTCTCATCTATTGTTCAAGAAAATGAAATTTTTGAAA
1 TGAAAATGAG-AAAGCGATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATGAAATTTTTGAAA
* *
29251 AGTAAGAAGTTTCTTAACC-AGTAAATTATTTCCCACAAATTTGTAAATCCTTCGTGTCATTTGT
65 AGTAAGAAGTTTCTT-ACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGT
* *
29315 CAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTTATCTGTCAGTCTTTTGAGCAAGATGATAA
129 CAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCAAGATGATAA
* * * * * *
29380 GTTCTTAGGGCCATCTGTCAGACCTTTGGGTAGGATGTATACACATGATTTTTACA
194 GTCCTTAGGGCAATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACA
*
29436 TGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATGAAATTCTTGAAAA
1 TGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATGAAATTTTTGAAAA
* * * * *
29501 GTAAGAAAACAATTTCCAAGGTTTTACCCATTAAGTTATTT-CC-CAAATTTGTAAATCCTTTGG
66 GTAAG---A-AGTTT-C------TTACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGG
* * *
29564 GTCATCTGTTAGTCTTTCGAGCATGATGCTTAAATCCATAGGGTCATCTGTCAGTCTTTCGAGCA
120 GTCATCTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCA
29629 TGATACTTAA
Statistics
Matches: 617, Mismatches: 53, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
247 179 0.29
248 96 0.16
249 210 0.34
250 32 0.05
252 1 0.00
253 4 0.01
254 1 0.00
258 77 0.12
259 5 0.01
260 12 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (249 bp):
TGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATGAAATTTTTGAAAA
GTAAGAAGTTTCTTACCTAGTAAATTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTCA
GTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCAAGATGATAAGT
CCTTAGGGCAATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACA
Found at i:29611 original size:42 final size:42
Alignment explanation
Indices: 29552--29694 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
29542 CCCAAATTTG
* *
29552 TAAATCCTTTGGGTCATCTGTTAGTCTTTCGAGCATGATGCT
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTCGAGCATGATGCT
* *
29594 TAAATCCATAGGGTCATCTGTCAGTCTTTCGAGCATGATACT
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTCGAGCATGATGCT
* * * * *
29636 TAAATCCTTAGGGTCGTCAGTCAGTCTTTTGAGCAAGATG-A
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTCGAGCATGATGCT
* *
29677 TAAGTCCTTAGGGCCATC
1 TAAATCCTTAGGGTCATC
29695 CGTAAGACCT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 15 0.17
42 72 0.83
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
TAAATCCTTAGGGTCATCTGTCAGTCTTTCGAGCATGATGCT
Found at i:31985 original size:22 final size:22
Alignment explanation
Indices: 31919--31986 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
31909 TAAACAATAT
* *
31919 AATTAAAATATTAATTTATGACA
1 AATTAATATATT-ATTTATGAAA
* * *
31942 AA--AATATTATTTTTTGTTAAA
1 AATTAATA-TATTATTTATGAAA
31963 AATTAATATATTATTTATGAAA
1 AATTAATATATTATTTATGAAA
31985 AA
1 AA
31987 ATCAATGCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
21 11 0.32
22 17 0.50
23 6 0.18
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (22 bp):
AATTAATATATTATTTATGAAA
Found at i:33163 original size:49 final size:49
Alignment explanation
Indices: 33076--33233 Score: 163
Period size: 49 Copynumber: 3.3 Consensus size: 49
33066 AAGGGTTTAA
*
33076 ATTAGAAAGGTAAAAAGTGGAATTGAAAAAATTA-GGGCCTCGAATCTCG
1 ATTATAAAGGTAAAAAGTGGAATTGAAAAAATTAGGGGCCTC-AATCTCG
* *
33125 ATTATAAATGTAAAAAGT-GAGATT-TAAAAATTAGGGG-C-C--T-T-G
1 ATTATAAAGGTAAAAAGTGGA-ATTGAAAAAATTAGGGGCCTCAATCTCG
* *
33167 ATTATGAAGGTAAAAAGTGGTATTGAAAAAAATTAGGGGCCTCAAATCTCG
1 ATTATAAAGGTAAAAAGTGGAATTG-AAAAAATTAGGGGCCTC-AATCTCG
*
33218 ATTATAAATGTAAAAA
1 ATTATAAAGGTAAAAA
33234 AGTGAGATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
42 20 0.23
43 2 0.02
44 13 0.15
45 1 0.01
46 1 0.01
47 1 0.01
48 11 0.12
49 23 0.26
50 1 0.01
51 15 0.17
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (49 bp):
ATTATAAAGGTAAAAAGTGGAATTGAAAAAATTAGGGGCCTCAATCTCG
Found at i:33183 original size:42 final size:43
Alignment explanation
Indices: 33034--33208 Score: 124
Period size: 42 Copynumber: 4.0 Consensus size: 43
33024 AAGTGCTTCA
* * * * * *
33034 ATTATAAAGGTAGAAAGTGATATT-GAAAAATTAAGGG-TTTAA
1 ATTATAAAGGTAAAAAGTGGTATTAAAAAAATTAGGGGCCTT-G
* * * *
33076 ATTAGAAAGGTAAAAAGTGGAATTGAAAAAATTAGGGCCTCGAATCTCG
1 ATTATAAAGGTAAAAAGTGGTATTAAAAAAATTAGGGGC-C---T-T-G
* *
33125 ATTATAAATGTAAAAAGTGAG-ATT-TAAAAATTAGGGGCCTTG
1 ATTATAAAGGTAAAAAGTG-GTATTAAAAAAATTAGGGGCCTTG
*
33167 ATTATGAAGGTAAAAAGTGGTATTGAAAAAAATTAGGGGCCT
1 ATTATAAAGGTAAAAAGTGGTATT-AAAAAAATTAGGGGCCT
33209 CAAATCTCGA
Statistics
Matches: 105, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 41 0.39
43 11 0.10
44 16 0.15
47 1 0.01
48 13 0.12
49 21 0.20
50 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.27
Consensus pattern (43 bp):
ATTATAAAGGTAAAAAGTGGTATTAAAAAAATTAGGGGCCTTG
Found at i:33192 original size:91 final size:93
Alignment explanation
Indices: 33034--33305 Score: 302
Period size: 94 Copynumber: 2.9 Consensus size: 93
33024 AAGTGCTTCA
* * * * * *
33034 ATTATAAAGGTAGAAAGTGATATTGAAAAATTAAGGGTTTAAATTAGAAAGGTAAAAAGTGGAAT
1 ATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGGCTTAAATTAGAAAGGTAAAAAGTGGAAT
*
33099 TG-AAAAAATTA-GGGCCTCGAATCTCG
66 TGAAAAAAATTAGGGGCCTCAAATCTCG
* *
33125 ATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGGCCTT-GATTATG-AAGGTAAAAAGTGGT
1 ATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGG-CTTAAATTA-GAAAGGTAAAAAGTGGA
33188 ATTGAAAAAAATTAGGGGCCTCAAATCTCG
64 ATTGAAAAAAATTAGGGGCCTCAAATCTCG
*** * * * * *
33218 ATTATAAATGTAAAAAAGTGAGATTTAAAAATTAGATTCATCAGTT-GTAAAGGGAAAAAGTGAA
1 ATTATAAATGT-AAAAAGTGAGATTTAAAAATTAGGGGCTTAAATTAG-AAAGGTAAAAAGTGGA
* *
33282 ATTGAAAAAAATTAGAGACCTCAA
64 ATTGAAAAAAATTAGGGGCCTCAA
33306 TTATAATGTA
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
91 54 0.35
92 13 0.08
93 27 0.18
94 59 0.39
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (93 bp):
ATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGGCTTAAATTAGAAAGGTAAAAAGTGGAAT
TGAAAAAAATTAGGGGCCTCAAATCTCG
Found at i:33354 original size:85 final size:84
Alignment explanation
Indices: 33218--33416 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 84
33208 TCAAATCTCG
* * ** * * ** * *
33218 ATTATAAATGTAAAAAAGTGAGATTTAAAAATTAGATTCATCAGTTGTAAAGGGAAAAAGTGAAA
1 ATTATAAATGTAAAAAA-TAAGATTAAAAAATTAGAGGCATCAATTATAAAGAAAAAAAATAAAA
33283 TTGAAAAAAATTAGAGACCTCA
65 TT-AAAAAAATTA-AGACCTCA
* *
33305 ATTAT-AATGTAAAAAATAAGATTAAAAAATTAGAGGCTTTAATTATAAAGAAAAAAAATAAAAT
1 ATTATAAATGTAAAAAATAAGATTAAAAAATTAGAGGCATCAATTATAAAGAAAAAAAATAAAAT
**
33369 TAAAAAGTTTAAGACCTCA
66 TAAAAAAATTAAGACCTCA
** *
33388 ATTATAAAAATAAAAAATATGATTAAAAA
1 ATTATAAATGTAAAAAATAAGATTAAAAA
33417 TTTGGGGCCC
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
83 13 0.14
84 28 0.30
85 37 0.39
86 11 0.12
87 5 0.05
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (84 bp):
ATTATAAATGTAAAAAATAAGATTAAAAAATTAGAGGCATCAATTATAAAGAAAAAAAATAAAAT
TAAAAAAATTAAGACCTCA
Found at i:33361 original size:42 final size:42
Alignment explanation
Indices: 33287--33416 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 42
33277 GTGAAATTGA
* *
33287 AAAAAATTAGAGACCTCAATTATAATG-TAAAAAATAAGATT
1 AAAAAATTAGAGACCTCAATTATAAAGAAAAAAAATAAGATT
* * * *
33328 AAAAAATTAGAGGCTTTAATTATAAAGAAAAAAAATAAAATT
1 AAAAAATTAGAGACCTCAATTATAAAGAAAAAAAATAAGATT
* *
33370 AAAAAGTTTA-AGACCTCAATTATAAA-AATAAAAAATATGATT
1 AAAAA-ATTAGAGACCTCAATTATAAAGAA-AAAAAATAAGATT
33412 AAAAA
1 AAAAA
33417 TTTGGGGCCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
41 25 0.34
42 46 0.62
43 3 0.04
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.26
Consensus pattern (42 bp):
AAAAAATTAGAGACCTCAATTATAAAGAAAAAAAATAAGATT
Found at i:42541 original size:35 final size:38
Alignment explanation
Indices: 42502--42575 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 38
42492 TTCATTAAAC
* *
42502 ATTTTTAT-ATTTTCAATTTTGTAAA-AAAA-ATATAA
1 ATTTTTATGAATTTAAATTTTGTAAAGAAAATATATAA
*
42537 A-TTTTATGAATTTAAATTTTTTAAAGAAAATATATAA
1 ATTTTTATGAATTTAAATTTTGTAAAGAAAATATATAA
42574 AT
1 AT
42576 AATTTCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
34 6 0.19
35 15 0.47
36 4 0.12
37 7 0.22
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (38 bp):
ATTTTTATGAATTTAAATTTTGTAAAGAAAATATATAA
Found at i:45551 original size:2 final size:2
Alignment explanation
Indices: 45544--45572 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45534 GAAAGTTTAG
45544 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45573 TTTAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:51653 original size:51 final size:51
Alignment explanation
Indices: 51598--51697 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
51588 CAAAATTATC
51598 TTTAAAAAGTGATTGATAGATTTATTTTAATAGCTGTAAAAGAGTGGGATA
1 TTTAAAAAGTGATTGATAGATTTATTTTAATAGCTGTAAAAGAGTGGGATA
51649 TTTAAAAAGTGATTGATAGATTTATTTTAATAGCTGTAAAAGAGTGGGA
1 TTTAAAAAGTGATTGATAGATTTATTTTAATAGCTGTAAAAGAGTGGGA
51698 CATATAAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (51 bp):
TTTAAAAAGTGATTGATAGATTTATTTTAATAGCTGTAAAAGAGTGGGATA
Found at i:54179 original size:36 final size:32
Alignment explanation
Indices: 54101--54207 Score: 89
Period size: 34 Copynumber: 3.4 Consensus size: 32
54091 AATAATACAA
54101 AAATAAAA-AT-A-AAAAGAAAAAAAATATAT
1 AAATAAAATATAATAAAAGAAAAAAAATATAT
* *
54130 ATATAACATATAATAAAAGTAATAAAAAATATAT
1 AAATAAAATATAATAAAAG-AA-AAAAAATATAT
* * *
54164 AAATAATAATGATAATAAAGGCAAAAGAATA-AT
1 AAATAA-AAT-ATAATAAAAGAAAAAAAATATAT
*
54197 AAA-AATATATA
1 AAATAAAATATA
54208 GTACAAAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
29 6 0.10
30 5 0.08
31 3 0.05
32 7 0.11
33 7 0.11
34 23 0.37
35 3 0.05
36 9 0.14
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (32 bp):
AAATAAAATATAATAAAAGAAAAAAAATATAT
Found at i:55691 original size:21 final size:21
Alignment explanation
Indices: 55667--55712 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
55657 TTTCAAAGAG
55667 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
55688 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
55709 GGGA
1 GGGA
55713 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:62511 original size:124 final size:124
Alignment explanation
Indices: 62291--62590 Score: 458
Period size: 124 Copynumber: 2.4 Consensus size: 124
62281 AAGTTGTGAT
* * * * *
62291 ATGTTGGGGCACGAATGAACCCACATCATGTTGAGAAGACAAGATTCAGACCAAGGAGGTATTAA
1 ATGTTGGGGCA-GACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
* * *
62356 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTG-ATGCCCGTACCAGTATAAGATA
65 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
62415 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCA-GACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
*
62480 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTGTAAGATA
65 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
** *
62540 ATGTTGGGGCGAGACCAAACCCACGTCATGTTGAGATGAAAAGATTCAGAC
1 ATGTTGGGGC-AGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGAC
62591 AAAGAAATTA
Statistics
Matches: 161, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 95 0.59
125 65 0.40
126 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (124 bp):
ATGTTGGGGCAGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAAG
AATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
Found at i:63441 original size:36 final size:36
Alignment explanation
Indices: 63315--63473 Score: 178
Period size: 36 Copynumber: 4.4 Consensus size: 36
63305 GGAGAAAAGT
* * *
63315 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 CCATCTTAAGCCTTCACCAGAGAATAGTGAAGCAAA
* * *
63351 CAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCAGAGAATAGTGAAGCAAA
* * *
63387 CCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
63423 CCATCTTAAGTCTTCACCA-A-AAGTAGTGAAGCAGAT
1 CCATCTTAAGCCTTCACCAGAGAA-TAGTGAAGCA-AA
*
63459 CCATTTTAAGCCTTC
1 CCATCTTAAGCCTTC
63474 TCAGAAGAGT
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
34 1 0.01
35 11 0.10
36 96 0.89
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (36 bp):
CCATCTTAAGCCTTCACCAGAGAATAGTGAAGCAAA
Found at i:63852 original size:54 final size:54
Alignment explanation
Indices: 63670--64927 Score: 1126
Period size: 54 Copynumber: 23.7 Consensus size: 54
63660 AAGATTATTT
* *
63670 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAG-AGATG-TC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
63722 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA-AA-TTGTTC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
63775 GAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * ** *
63829 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAG-ATGTTC
* * * * * ** *
63884 GAG-TCTTATACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGATTATTC
1 GAGTTC-TATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTC
* * * * * * **
63939 GAG-TCTCATACTCTCT-GAAAGAATAGGGAG-TAGACACGATTGTCGAAGATTGTTC
1 GAGTTCT-ATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTC
* * * ** *
63994 GAG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATACACATTTTCAA-AAGATGTTC
1 GAGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC-CCGTTTGAAGAAGATGTTC
* * * * *
64048 GAGTTCCATACTCCTTAAAGGAAGAAGGAGCGAACCCGTTT---GAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
** * * * ** * *
64099 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
64153 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TT---GAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTTGAAGAAGATGTTC
*
64204 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * ** *
64256 GAGTTCTATACTTCCT-GAAGAAAGATGGAGCGAACTTGTTTGAAAAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
64310 GAGTTCTATACTTCCT-GAAGAAAGA-GGAGCGAACCCGTTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
64363 AAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
64417 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
64471 GAGTTCTATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * ** *
64521 GAGTTATATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
64575 TAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * **
64629 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
64683 GAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
64733 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
64787 GAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTT---GAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
64838 GAGTTGTATACTCCCTA-ATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
64891 GAGTTCTATACTCCCTA-AAAAAGAGGGAGCGAACCCG
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG
64928 ATGGTTGAAG
Statistics
Matches: 1014, Mismatches: 143, Indels: 96
0.81 0.11 0.08
Matches are distributed among these distances:
50 60 0.06
51 117 0.12
52 173 0.17
53 147 0.14
54 384 0.38
55 130 0.13
56 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (54 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:64023 original size:55 final size:55
Alignment explanation
Indices: 63865--64030 Score: 269
Period size: 55 Copynumber: 3.0 Consensus size: 55
63855 GGAACGAACC
* *
63865 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* *
63920 CGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* * *
63975 CGATTGTCGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
64030 C
1 C
64031 ATTTTCAAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 102 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (55 bp):
CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:64043 original size:55 final size:55
Alignment explanation
Indices: 63865--64060 Score: 249
Period size: 55 Copynumber: 3.6 Consensus size: 55
63855 GGAACGAACC
* *
63865 CGATTGTT-GAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGATT-TTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* *
63920 CGATTGTT-GAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACA
1 CGATT-TTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* * *
63975 CGATTGTCGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACA
1 CGATTTTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
*
64030 C-ATTTTCAAAAGA-TGTTCGAGT-TCCATACTC
1 CGATTTTC-GAAGATTGTTCGAGTCT-CATACTC
64061 CTTAAAGGAA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 22 0.17
55 104 0.82
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (55 bp):
CGATTTTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:64589 original size:158 final size:159
Alignment explanation
Indices: 63670--64927 Score: 1147
Period size: 158 Copynumber: 7.9 Consensus size: 159
63660 AAGATTATTT
* * * *
63670 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGAGATG-TCTGAGTTCCATAC
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGA-TTGTTC-GAGTTCTATAC
*
63734 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA-AA-TTGTTCGAGTTCTATACTCCCT-AGAGA
63 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGA-AGA
* * * *
63796 AAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
127 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
63829 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTCGAG-TCTTAT
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCG--T-TTGAAGATTGTTCGAGTTC-TAT
* * * * * ** * *
63893 ACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGATTATTCGAG-TCTCATACTCTCT
61 ACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTCGAGTTCT-ATACTCCCT
* * * * **
63955 GAA-AGAATAGGGAG-TAGACACGATTGTCGAAGATTGTTC
122 GAAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTC
* * * ** * *
63994 GAG-TCTCATACTCTCTGAAGGAATAGGGAGC-ATACACATTTTCAAAAGA-TGTTCGAGTTCCA
1 GAGTTCT-ATACTCCCT-AAGAAAGAGGGAGCGA-AC-CCGTTT--GAAGATTGTTCGAGTTCTA
* * * * ** *
64056 TACTCCTTAAAGGAAGAAGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCTATACTCTTTAAA
60 TACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAA
* * ** * *
64118 GAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
125 GAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
64153 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAGA-TGTTCGAGTTCTATACT
1 GAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCC-GTTTGAAGATTGTTCGAGTTCTATACT
* *
64216 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATACTTCCTGAAGAAA
64 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAA
* ** *
64279 GATGGAGCGAACTTGTTTGAAAAAGATGTTC
129 GAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
64310 GAGTTCTATACTTCCTGAAGAAAGA-GGAGCGAACCCGTTTGAAGAATATGTCCAAGTTCTATAC
1 GAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAG-AT-TGTTCGAGTTCTATAC
* * *
64374 TTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCCGAGTTCTATACTCCCT-AGAG
63 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGA-AG
* *
64437 AAAGAGGGAGCGAACCCGTTTGAGGAATATGTTC
126 AAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
64471 GAGTTCTATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAGATTGTTTGAGTTATATACTCC
1 GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGATTGTTCGAGTTCTATACTCC
* ** ** *
64535 CTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTTTAGTTCCATACTCCCTGAAGAAAGA
66 CTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGA
* * *
64600 GGGAGCGAACCCATTTGAAGAATATGTCC
131 GGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * ** * *
64629 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTCGAGTTCCATAC
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATAC
* * *
64694 TCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATACTTCCTGAAGAA
63 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAA
*
64755 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
128 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
64787 GAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTTGAAGATT-TTTGAGTTGTATACTC
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGATTGTTCGAGTTCTATACTC
* * * * *
64851 CCTA-ATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTCGAGTTCTATACTCCCT-AAAAAAG
65 CCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAG
64914 AGGGAGCGAACCCG
130 AGGGAGCGAACCCG
64928 ATGGTTGAAG
Statistics
Matches: 892, Mismatches: 156, Indels: 104
0.77 0.14 0.09
Matches are distributed among these distances:
155 19 0.02
156 85 0.10
157 93 0.10
158 224 0.25
159 119 0.13
160 106 0.12
161 106 0.12
162 29 0.03
163 7 0.01
164 68 0.08
165 34 0.04
166 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (159 bp):
GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGATTGTTCGAGTTCTATACTCC
CTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGA
GGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:64643 original size:212 final size:208
Alignment explanation
Indices: 63658--64974 Score: 1202
Period size: 212 Copynumber: 6.2 Consensus size: 208
63648 GTGAAGCAAA
* * * * *
63658 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAG-AGATGTC
1 TGAAGATTGTTCGAGTTCTATACTCCCT-GAGAAAGAGGGAGCGAACCCGTATGAAGAAGATGTC
* *
63722 TGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAAATTGTTCGAGTTCTATAC
65 TGAGTTCCATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTGAAGATTGTTCGAGTTCTATAC
* * * *
63786 TCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTCGAGTTCCATAATCCCTAGAGAA
129 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTCGAGTTCCATACTCCCTA-A-AA
*
63851 AGAGGGAACGAACCCGATTGT
191 AGAGGGAGCGAACCCG--T-T
* * * * * **
63872 TGAAGTTTGTTCGAG-TCTTATACTCTCTGAAAGAATAGGGAGC-AGACACG-ATTGTTGAAGAT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAGA-AAGAGGGAGCGA-ACCCGTA-TGAAGAAGAT
* * * * *
63934 -TATTCGAG-TCTCATACTCTCTGAA-AGAATAGGGAG-TAGACACGATTGTCGAAGATTGTTCG
62 GT-CT-GAGTTC-CATACTCCCTGAAGA-AAGAGGGAGCGA-AC-CCATT-T-GAAGATTGTTCG
* * * ** * *
63995 AG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATACACATTTTCAAAAGATGTTCGAGTTCCAT
119 AGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC-CCGTTTGAGAAGATGTTCGAGTTCCAT
* *
64057 ACTCCTTAAAGGAAGAAGGAGCGAACCCGTT
180 ACTCCCTAAA--AAGAGGGAGCGAACCCGTT
** * * * * * *
64088 TGAAGA-TGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTT
1 TGAAGATTGTTCGAGTTCTATACTCCCT-GAGAAAGAGGGAGCGAACCCGTATGAAGAAGATGTC
* *
64152 TGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAGTTGAAGA-TGTTCGAGTTCTATACT
65 TGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGATTGTTCGAGTTCTATACT
* *
64216 CCCTAGAGAAAGAGGGAGCGAACCCGTTT--GAAGATTGTTCGAGTTCTATACTTCCTGAAGAAA
130 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTCGAGTTCCATACTCCCT-AA-AAA
* **
64279 GATGGAGCGAACTTGTT
192 GAGGGAGCGAACCCGTT
* * *
64296 TGAAAAAGA-TGTTCGAGTTCTATACTTCCTGAAGAAAGA-GGAGCGAACCCGTTTGAAGAATAT
1 TG---AAGATTGTTCGAGTTCTATACTCCCTG-AGAAAGAGGGAGCGAACCCGTATGAAGAAGAT
** * * ** * *
64359 GTCCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCCGAGTTCT
62 GTCTGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAG-A-TTGTTCGAGTTCT
* *
64424 ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATGTTCGAGTTCTATACTCCCTAA
125 ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA-GAAGATGTTCGAGTTCCATACTCCCTAA
*
64489 AGAGAGGGAGCGAACCCGTT
189 AAAGAGGGAGCGAACCCGTT
* * * * *
64509 TGAAGATTGTTTGAGTTATATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCT-GAGAAAGAGGGAGCGAACCCGTATGAAGAAGATGTC
* *
64574 TTAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGTCCGAGTTCTATA
65 TGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAG-AT-TGTTCGAGTTCTATA
* * * ** *
64639 CTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGA
128 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTCGAGTTCCATACTCCCTAAAAA
64704 GAGGGAGCGAACCCGTT
192 GAGGGAGCGAACCCGTT
* *
64721 TGAAGATTGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
1 TGAAGATTGTTCGAGTTCTATACTCCCTG-AGAAAGAGGGAGCGAACCCGTATGAAGAAGATGTC
* * * * * * * *
64786 CGAGTTCTATACTCCCT-AGAGAAAGAGGGAACAAATCCGTTTGAAGATT-TTTGAGTTGTATAC
65 TGAGTTCCATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTGAAGATTGTTCGAGTTCTATAC
* * * *
64849 TCCCTA-ATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTCGAGTTCTATACTCCCTAAAAAA
129 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTCGAGTTCCATACTCCCT-AAAAA
64913 GAGGGAGCGAACCCGATGGT
192 GAGGGAGCGAACCCG-T--T
* * *
64933 TGAAGATTGTTCGA-ATCTTATACTCTCTGAAGAAATAGGGAG
1 TGAAGATTGTTCGAGTTC-TATACTCCCTG-AGAAAGAGGGAG
64975 TAGACACGAT
Statistics
Matches: 908, Mismatches: 139, Indels: 114
0.78 0.12 0.10
Matches are distributed among these distances:
207 4 0.00
208 78 0.09
209 42 0.05
210 98 0.11
211 70 0.08
212 283 0.31
213 73 0.08
214 62 0.07
215 70 0.08
216 40 0.04
217 6 0.01
218 7 0.01
219 72 0.08
220 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (208 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTGAGAAAGAGGGAGCGAACCCGTATGAAGAAGATGTCT
GAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGATTGTTCGAGTTCTATACTC
CCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGATGTTCGAGTTCCATACTCCCTAAAAAGAGG
GAGCGAACCCGTT
Found at i:65063 original size:111 final size:110
Alignment explanation
Indices: 64926--65206 Score: 386
Period size: 111 Copynumber: 2.5 Consensus size: 110
64916 GGAGCGAACC
* *
64926 CGATGGTTGAAGATTGTTCGAA-TCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTA
1 CGATCGTTGAAGATTGTTC-AAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTA
*
64990 AAGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACA
65 AAGATTATTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * * * *
65036 CGATTGTTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTG
1 CGATCG-TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTA
* * * * *
65101 AAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACG
65 AAGATTATTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* *
65147 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATT
1 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATT
65207 GATGAAGACT
Statistics
Matches: 151, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
109 1 0.01
110 55 0.36
111 95 0.63
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (110 bp):
CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTAA
AGATTATTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACA
Found at i:65106 original size:166 final size:163
Alignment explanation
Indices: 64926--65249 Score: 434
Period size: 166 Copynumber: 2.0 Consensus size: 163
64916 GGAGCGAACC
* * *
64926 CGATGGTTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTAA
1 CGATGGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
* *
64991 AGATTGTTCAAATCTTATACTCTCTGAAGAAATA-GGGAGCAGACACGATTGTTTGAAGATTGTT
66 AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGA-CAGACACGATTG-ATGAAGACTG-T
*
65055 CAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACA
128 -AAGTCTTATACTCTCTGAAGAAATAGGGAGCATACA
* * * * * * *
65092 CGATTGTTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGA
1 CGATGGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
* * * **
65157 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGATGAAGACTGTGGG
66 AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGACAGACACGATTGATGAAGACTGTAAG
*
65222 TCTTATACTCTCTTAAGAAATAGGGAGC
131 TCTTATACTCTCTGAAGAAATAGGGAGC
65250 GGACCCGATT
Statistics
Matches: 138, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
163 27 0.20
164 1 0.01
165 8 0.06
166 98 0.71
167 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (163 bp):
CGATGGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGACAGACACGATTGATGAAGACTGTAAG
TCTTATACTCTCTGAAGAAATAGGGAGCATACA
Found at i:65259 original size:53 final size:55
Alignment explanation
Indices: 64887--65304 Score: 438
Period size: 55 Copynumber: 7.6 Consensus size: 55
64877 TGCAGAAGAA
* * * * *
64887 GTTCGAGT-TCTATACTCCCT-AAAAAAGAGGGAGC-GAACCCGATGGTTGAAGATT
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTTGAAGATT
* * * *
64941 GTTCGAATCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTAAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* *
64996 GTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG-TTGAAGATT
* * *
65052 GTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * * * *
65107 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * *
65162 GTTCGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATTGATGAAGACT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATTGTTGAAGATT
* * * * ***
65217 G-T-GGGTCTTATACTCTCTTAAGAAATAGGGAGCGGACCCGATTACAGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * *
65270 ATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGGAGC
1 GTTCGAGTCT-TATACTCT-CTGAAGAAATAGGGAGC
65305 GAACCCATAG
Statistics
Matches: 315, Mismatches: 39, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
53 41 0.13
54 22 0.07
55 200 0.63
56 52 0.17
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
Found at i:65285 original size:108 final size:111
Alignment explanation
Indices: 64932--65301 Score: 380
Period size: 111 Copynumber: 3.4 Consensus size: 111
64922 AACCCGATGG
* * *
64932 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATA-GGGAGTAGACACGATT-ATTAAAGA-
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGA-TGAAGAC
* * * *
64994 TTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
65 TAG-TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT-A
* * * * *
65043 TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATA-GGGAGCATACACGATTGTTGAAGATT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * * * **
65107 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCG
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
*
65153 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGA-CAGACGCGATTGATGAAGACT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * * *
65217 -GT-GGGTCTTATACTCTCTTAAGAAATAGGGAGCGGACCCGATTA
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
** * * *
65261 CAGAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGG
1 TTGAAGATTGTTCGAGTCT-TATACTCT-CTGAAGAAATAGGG
65302 AGCGAACCCA
Statistics
Matches: 218, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
107 2 0.01
108 66 0.30
109 1 0.00
110 53 0.24
111 95 0.44
112 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (111 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
Found at i:65325 original size:163 final size:166
Alignment explanation
Indices: 64934--65332 Score: 391
Period size: 166 Copynumber: 2.4 Consensus size: 166
64924 CCCGATGGTT
* * * * * * * ****
64934 GAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTAAAGATTGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCATACGCCATCGCAAAAGATTGTT
* * * *
64999 CAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTTGAAGATTGTTCAAGTCTTA
66 CGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTATGAAGACTGTTCAAGTCTTA
* * ***
65064 TACTCTCTGAAGGAATAGGGAGCATACACGATTGTT
131 TACTCTCTGAAGAAATAGGGAGCAGACACGATTACA
* * * ***
65100 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGAAGATTGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCATACGCCATCGCAAAAGATTGTT
* **
65165 CGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATTG-ATGAAGACTG-T-GGGTCTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATTGTATGAAGACTGTTCAAGTCTT
* * *
65226 ATACTCTCTTAAGAAATAGGGAGCGGACCCGATTACA
130 ATACTCTCTGAAGAAATAGGGAGCAGACACGATTACA
* *
65263 GAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGGAGCGA-AC-CCATAGGCAAAAGAT
1 GAAGATTATTCGAGTCT-TATACTCT-CTGAAGAAAGAGGGAGC-ATACGCCAT-CGCAAAAGAT
65324 TGTTCGAGT
62 TGTTCGAGT
65333 TTTTTTTCCT
Statistics
Matches: 196, Mismatches: 32, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
162 5 0.03
163 86 0.44
164 2 0.01
165 9 0.05
166 94 0.48
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (166 bp):
GAAGATTATTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCATACGCCATCGCAAAAGATTGTT
CGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTATGAAGACTGTTCAAGTCTTA
TACTCTCTGAAGAAATAGGGAGCAGACACGATTACA
Found at i:66605 original size:21 final size:21
Alignment explanation
Indices: 66581--66626 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
66571 TTTCAAAGAG
66581 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
66602 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
66623 GGGA
1 GGGA
66627 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:69860 original size:102 final size:101
Alignment explanation
Indices: 69730--69968 Score: 320
Period size: 102 Copynumber: 2.3 Consensus size: 101
69720 AAGAGAAAAA
* *
69730 TTCTCAAAAGAAACTGTCTCAAGTGAGACAAAATTTGTTT-AATGGAAAATAGATTCAAAGATTT
1 TTCT-AAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAAACAGATTCAAAGATTT
*
69794 TATTTCAAGAAAAACTGTCTTAAGAGAGA-AAAAATTT
64 TATTTCAAGAAAAACTGTCTCAAGAGAGACAAAAATTT
* * *
69831 AGTTCTAAAAGAAACTGTCTCAAGGGAGACACAATTTGTTTCAAGGAAAACAGATTCAGAGATTT
1 --TTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTT
* *
69896 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTT
64 TATTTCAAGAAAAACTGTCTCAAGAGAGACAAAAATTT
* ** *
69934 TTTTACGAGAAAATGTCTCAAGAGAGACAAAATTT
1 TTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTT
69969 AGTTCTAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
101 29 0.24
102 78 0.64
103 14 0.12
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (101 bp):
TTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTA
TTTCAAGAAAAACTGTCTCAAGAGAGACAAAAATTT
Found at i:69867 original size:37 final size:35
Alignment explanation
Indices: 69805--70251 Score: 204
Period size: 36 Copynumber: 12.9 Consensus size: 35
69795 ATTTCAAGAA
* *
69805 AAACTGTCTTAAGAGAGAAAAAATTTAGTTCTAAAAG
1 AAACTGTCTCAAGAGAGACAAAATTT-GTT-TAAAAG
* * * *
69842 AAACTGTCTCAAGGGAGACACAATTTGTTTCAAGG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTAAAAG
* * *
69877 AAAACAGAT-TC---AGAG----ATTTTGTTTCAAGAG
1 -AAACTG-TCTCAAGAGAGACAAAATTTGTTT-AAAAG
* **
69907 AAACTGTCTCAAGAGAGACAAAAATTTTTTTACGAG
1 AAACTGTCTCAAGAGAGAC-AAAATTTGTTTAAAAG
*
69943 AAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAG
1 AAACTGTCTCAAGAGAGACAAAATTT-GTT-TAAAAG
* *
69980 AAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTAAAAG
* * * *
70015 AAAACATAT-TC-A-A-AG----ATTTTGTTTCAAGG
1 -AAAC-TGTCTCAAGAGAGACAAAATTTGTTTAAAAG
* **
70044 AAAACTGTCTCAAGAGAGACGAAATTTGTTTTACTAG
1 -AAACTGTCTCAAGAGAGACAAAATTTG-TTTAAAAG
* * * * *
70081 AAAATGTCTCAAGAAAGACAAAATTTAATAATAAAAA
1 AAACTGTCTCAAGAGAGACAAAATTT-GT-TTAAAAG
* * *
70118 AAACTGTCTCAAGAGAGTCAAAAACTTTGTTTCAAGG
1 AAACTGTCTCAAGAGAGAC-AAAA-TTTGTTTAAAAG
** ** **
70155 AAAACAAAT-TC-A-A-AG----TTTTTGTTTCAAGGG
1 -AAAC-TGTCTCAAGAGAGACAAAATTTGTTT-AAAAG
*
70185 AAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAG
1 AAACTGTCTCAAGAGAGACAAAATTTG-TTTAAAAG
70221 AAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTT
70252 TGAGTAAATT
Statistics
Matches: 309, Mismatches: 59, Indels: 85
0.68 0.13 0.19
Matches are distributed among these distances:
28 4 0.01
29 47 0.15
30 7 0.02
31 2 0.01
32 8 0.03
33 5 0.02
34 1 0.00
35 19 0.06
36 107 0.35
37 94 0.30
38 11 0.04
39 4 0.01
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (35 bp):
AAACTGTCTCAAGAGAGACAAAATTTGTTTAAAAG
Found at i:69944 original size:36 final size:36
Alignment explanation
Indices: 69902--70005 Score: 138
Period size: 37 Copynumber: 2.9 Consensus size: 36
69892 ATTTTGTTTC
*
69902 AAGAGAAACTGTCTCAAGAGAGACAAAAATTT-TTTT
1 AAGAGAAACTGTCTCAAGAGAGAC-AAAATTTATTCT
* *
69938 ACGAGAAAATGTCTCAAGAGAGACAAAATTTAGTTCT
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTA-TTCT
* *
69975 AAAAGAAACTGTCTCAAGAGAGACGAAATTT
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTT
70006 GTTTAAAGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 7 0.12
36 22 0.37
37 30 0.51
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (36 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAATTTATTCT
Found at i:70200 original size:140 final size:138
Alignment explanation
Indices: 69804--70243 Score: 639
Period size: 138 Copynumber: 3.2 Consensus size: 138
69794 TATTTCAAGA
* * * *
69804 AAAACTGTCTTAAGAGAGAAAAAATTTAGTTCTAAAAGAAACTGTCTCAAGGGAGACACAATTTG
1 AAAA-TGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
69869 TTTCAAGGAAAACAGATTCAGAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTT
65 TTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTT
69934 -TTTTACGAG
129 GTTTTACGAG
*
69943 AAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACGAAATTTGT
1 AAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGT
* * * *
70008 TTAAAGGAAAACATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACGAAATTTGT
66 TTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
*
70073 TTTACTAG
131 TTTACGAG
* * ** * *
70081 AAAATGTCTCAAGAAAGACAAAATTTAATAATAAAAAAAACTGTCTCAAGAGAGTCAAAAACTTT
1 AAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGAC-AAAA-TTT
*
70146 GTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
64 GTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
70211 GTTTTAAGAG
129 GTTTTACGAG
*
70221 AAACTGTCTCAAGAGAGACAAAA
1 AAAATGTCTCAAGAGAGACAAAA
70244 CTTTGTTTTG
Statistics
Matches: 270, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
137 6 0.02
138 165 0.61
139 7 0.03
140 92 0.34
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (138 bp):
AAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGT
TTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
TTTACGAG
Found at i:71671 original size:83 final size:85
Alignment explanation
Indices: 71562--71788 Score: 228
Period size: 95 Copynumber: 2.6 Consensus size: 85
71552 GGCTAGCTGG
*
71562 ATCCATAAAGCAGGGGCATTTTACCAATTGCTCTAGAGGGATAACTCAATAT-GTA-AAT-ACCT
1 ATCCATAAAGCA-GGGCATTTAACCAATTGCTCTAGAGGGATAACTCAATATAGTATAATCACCT
* *
71624 TTATCAGGTTAGCTGAATCTT
65 TTATCAGGCTAGCTGAATATT
* * *
71645 ATCCATAAAGTCAGGGCGTTTAACCAATTGC-CTTAGAGGGACATCTCAAGCTTTATTGTATAGT
1 ATCCATAAAG-CAGGGCATTTAACCAATTGCTC-TAGAGGG--A--T-AA-C-TCA--ATATAGT
*
71709 ATAATCACCTTTATCATGCTAGCTGAATATT
55 ATAATCACCTTTATCAGGCTAGCTGAATATT
* *
71740 ATCCATAAAGCCGAGGCATTTAACCAATTGCTCTAGAGGGACAACTCAA
1 ATCCATAAAGCAG-GGCATTTAACCAATTGCTCTAGAGGGATAACTCAA
71789 GCTTTATTGT
Statistics
Matches: 116, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
82 1 0.01
83 33 0.28
84 2 0.02
85 1 0.01
87 1 0.01
88 4 0.03
89 2 0.02
90 4 0.03
92 3 0.03
93 4 0.03
94 5 0.04
95 55 0.47
96 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (85 bp):
ATCCATAAAGCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTCAATATAGTATAATCACCTT
TATCAGGCTAGCTGAATATT
Found at i:71788 original size:95 final size:95
Alignment explanation
Indices: 71620--71800 Score: 276
Period size: 95 Copynumber: 1.9 Consensus size: 95
71610 ATATGTAAAT
* * * *
71620 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCAGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGGG
*
71685 ACATCTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
*
71715 ACCTTTATCATGCTAGCTGAATATTATCCATAAAGCC-GAGGCATTTAACCAATTG-CTCTAGAG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAG-GGCATTTAACCAATTGCCT-TAGAG
71778 GGACAACTCAAGCTTTATTGTAT
64 GGACAACTCAAGCTTTATTGTAT
71801 TATAATGTGG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
94 3 0.04
95 75 0.96
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:75173 original size:20 final size:19
Alignment explanation
Indices: 75148--75199 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
75138 GCAATAAAGT
75148 AGAAAAAATAAAATAGATAA
1 AGAAAAAATAAAA-AGATAA
* *
75168 AGAAAATATGAACAAGATAA
1 AGAAAAAAT-AAAAAGATAA
*
75188 ATAAAAAATAAA
1 AGAAAAAATAAA
75200 GAGACTCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (19 bp):
AGAAAAAATAAAAAGATAA
Found at i:75317 original size:2 final size:2
Alignment explanation
Indices: 75310--75340 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
75300 AAATAAATAA
75310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75341 ACATATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75380 original size:22 final size:21
Alignment explanation
Indices: 75343--75383 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
75333 TATATATAAC
75343 ATATAATAATAGTAATAAAAA
1 ATATAATAATAGTAATAAAAA
75364 ATATAAATAATTA-TAATAAA
1 ATAT-AATAA-TAGTAATAAA
75384 GGCAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATAATAATAGTAATAAAAA
Found at i:75638 original size:13 final size:13
Alignment explanation
Indices: 75620--75661 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
75610 GCGTATATAC
75620 ATAATAAAAATAA
1 ATAATAAAAATAA
*
75633 ATAATAAAAAT-G
1 ATAATAAAAATAA
75645 ATAA-AAAAATAA
1 ATAATAAAAATAA
75657 TATAA
1 -ATAA
75662 GGGTCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
ATAATAAAAATAA
Found at i:77760 original size:2 final size:2
Alignment explanation
Indices: 77753--77779 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
77743 TGTATGGTTA
77753 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
77780 GGCCTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81262 original size:3 final size:3
Alignment explanation
Indices: 81254--81294 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
81244 ACCTGAAAAC
*
81254 ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
81295 GGAATGCCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:82066 original size:253 final size:255
Alignment explanation
Indices: 81611--82179 Score: 822
Period size: 253 Copynumber: 2.2 Consensus size: 255
81601 ACTAACAGCT
* *
81611 AATTATGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTC
1 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTC
* * * * * *
81676 AATTTTCATATTTAAATGAGAAACTTTGGAAATTGTTTTCTCATTTTTCGAAAAGCATGTGAAAA
66 AATTTTCAAATTTAAATGAGAAACTTTGGAAATCGTTTTCCCATGTTTCAAAAAACATGTGAAAA
81741 CATCCTGCCCGAAGCTCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGGCTTATAGA
131 CATCCTGCCCGAAGCTCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGGCTTATAGA
* * * *
81806 TGACCCGAA-GAATTTAATCGTCATGCTCTAAAGACTTACTGATGGCCCGAAA-GACTTTCC
196 TGACCCGAATG-ATGTAATCATCATGCTCGAAAGACTTACTGATGGCCC-AAATGACTTACC
* *
81866 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAACCGTTTTCTTACTTTTCAAAATTTTC
1 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTC
* *
81931 AA-TTT-AAATTTAAATGATAAACTTTGGAAATCGTTTTCCCATGTTTCAAAAAATATGTGAAAA
66 AATTTTCAAATTTAAATGAGAAACTTTGGAAATCGTTTTCCCATGTTTCAAAAAACATGTGAAAA
* * * * **
81994 CATCTTGCCCGAAGGTCTTATGGATGGCCCGAAGGTTTTATCATCTTGCTCGAAAGGCTTATAGA
131 CATCCTGCCCGAAGCTCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGGCTTATAGA
* *
82059 TGACCCGAATGATGTAATCATCATGTTCGAAAGACTTACTGATGGTCCAAATGACTTACC
196 TGACCCGAATGATGTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAATGACTTACC
* * * * * *
82119 AATTTTGGAAATAGCTTATTAGGTAAGAAACTTTGAAAATCATTTTCTCACTTTTTAAAAA
1 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAA
82180 ACATGTGAAA
Statistics
Matches: 280, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
252 3 0.01
253 210 0.75
254 4 0.01
255 63 0.22
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (255 bp):
AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTC
AATTTTCAAATTTAAATGAGAAACTTTGGAAATCGTTTTCCCATGTTTCAAAAAACATGTGAAAA
CATCCTGCCCGAAGCTCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGGCTTATAGA
TGACCCGAATGATGTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAATGACTTACC
Found at i:82965 original size:29 final size:29
Alignment explanation
Indices: 82895--83027 Score: 144
Period size: 29 Copynumber: 4.6 Consensus size: 29
82885 CAATTTTTTT
*
82895 TTTTTATAAATTACAATAAATATCCA-AAC
1 TTTTTATAAATTACAATAAATA-CAATAAC
* * * * *
82924 TTTCTAAAAATTAAAATAAATAGAATAAT
1 TTTTTATAAATTACAATAAATACAATAAC
* *
82953 TTTTTATATATTACAATAAATACCATAAC
1 TTTTTATAAATTACAATAAATACAATAAC
*
82982 TTTTTATAAATTACAATAAATTCCAA-AAC
1 TTTTTATAAATTACAATAAA-TACAATAAC
*
83011 TATTTATAAATTACAAT
1 TTTTTATAAATTACAAT
83028 CAAAGAAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.01
29 81 0.95
30 3 0.04
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.39
Consensus pattern (29 bp):
TTTTTATAAATTACAATAAATACAATAAC
Found at i:85955 original size:19 final size:20
Alignment explanation
Indices: 85925--85968 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
85915 TTAATTAAAT
85925 TAAAATAATAATAA-AAAGAA
1 TAAAATAATAATAATAAA-AA
85945 TAAAA-AATAATAATAAAAA
1 TAAAATAATAATAATAAAAA
85964 TAAAA
1 TAAAA
85969 GAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAAATAATAATAATAAAAA
Found at i:85978 original size:19 final size:20
Alignment explanation
Indices: 85925--85984 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
85915 TTAATTAAAT
*
85925 TAAAATAATAATAAA-AAGAA
1 TAAAA-AATAATAAATAAAAA
85945 TAAAAAATAAT-AATAAAAA
1 TAAAAAATAATAAATAAAAA
*
85964 TAAAAGA-AATAAATACAAAA
1 TAAAAAATAATAAATA-AAAA
85984 T
1 T
85985 GTTGGATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.14
19 20 0.57
20 10 0.29
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (20 bp):
TAAAAAATAATAAATAAAAA
Found at i:87203 original size:28 final size:27
Alignment explanation
Indices: 87155--87207 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
87145 CAATAAATAA
87155 TATATAATATATAAATATTTTTAAAAAC
1 TATATAATATAT-AATATTTTTAAAAAC
* *
87183 TATATAATATATATTTTTTTTAAAA
1 TATATAATATATAATATTTTTAAAA
87208 TGTTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATAATATATAATATTTTTAAAAAC
Found at i:87235 original size:62 final size:63
Alignment explanation
Indices: 87161--87297 Score: 181
Period size: 63 Copynumber: 2.2 Consensus size: 63
87151 ATAATATATA
* * * * *
87161 ATATA-TAAATATTTTTAAAAACTATATAATATATAT-TTTTTTTAAAATGTTT-TCAAAAATT
1 ATATATTATATATTTTCAAAAACTATATAATATATATATATATTCAAAATGTTTCT-AAAAATT
* *
87222 ATATATTATATATTTTCAAAAACTATATTATATATATATATATTCAAAATGTTTCTAAAATTT
1 ATATATTATATATTTTCAAAAACTATATAATATATATATATATTCAAAATGTTTCTAAAAATT
87285 ATATATTATATAT
1 ATATATTATATAT
87298 ATATTTCAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 5 0.08
62 28 0.42
63 32 0.48
64 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (63 bp):
ATATATTATATATTTTCAAAAACTATATAATATATATATATATTCAAAATGTTTCTAAAAATT
Found at i:87329 original size:70 final size:69
Alignment explanation
Indices: 87204--87505 Score: 221
Period size: 68 Copynumber: 4.5 Consensus size: 69
87194 TATTTTTTTT
* * * *
87204 AAAATGTTT-TCAAAAATTATATA-T-TATATAT-TTTCAAAAACTATATT-ATATA-T-ATATA
1 AAAATGTTTCTCAAAAACTATATATTATATATATATTTC-AAAA-TATTTTCAAAAACTAATATA
87262 -TATTC
64 TTATTC
** *
87267 AAAATGTTTCT-AAAATTTATATATTATATATATATTTCAAAATATTTACAAAAACTACATATAT
1 AAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTA-ATATAT
87331 T-TTC
65 TATTC
* *
87335 AAAATATTT-TCAAAAACTATATATTATATATATGTTTTTCAAAATATTTTCAAAAACTATATAT
1 AAAATGTTTCTCAAAAACTATATATTATATATA--TATTTCAAAATATTTTCAAAAACTA-ATAT
87399 ATATATTTTC
63 AT-TA--TTC
* * ** *
87409 AAAA--TAT-TCAAAAACTATATATTATATATGT-TTTCAAAACGTTTTCAAAATCT-ATATATT
1 AAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTAATATATT
87469 A-T-
66 ATTC
* **
87471 -ATATG-TTCTCAAAATTTTATATATTATATATATAT
1 AAAATGTTTCTCAAAA-ACTATATATTATATATATAT
87506 ATTAAATAGC
Statistics
Matches: 197, Mismatches: 21, Indels: 40
0.76 0.08 0.16
Matches are distributed among these distances:
61 2 0.01
62 1 0.01
63 27 0.14
64 21 0.11
65 15 0.08
66 7 0.04
67 7 0.04
68 35 0.18
69 20 0.10
70 30 0.15
71 1 0.01
72 24 0.12
74 7 0.04
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (69 bp):
AAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTAATATATT
ATTC
Found at i:87337 original size:30 final size:31
Alignment explanation
Indices: 87294--87363 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 31
87284 TATATATTAT
87294 ATATATATTTCAAAATATTTACAAAAACTAC
1 ATATATATTTCAAAATATTTACAAAAACTAC
* *
87325 ATATAT-TTTCAAAATATTTTCAAAAACTAT
1 ATATATATTTCAAAATATTTACAAAAACTAC
87355 ATATTATAT
1 ATA-TATAT
87364 ATATGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 25 0.71
31 9 0.26
32 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATATATTTCAAAATATTTACAAAAACTAC
Found at i:87338 original size:68 final size:68
Alignment explanation
Indices: 87199--87505 Score: 216
Period size: 63 Copynumber: 4.6 Consensus size: 68
87189 ATATATATTT
* * * * *
87199 TTTTTAAAATGTTT-TCAAAAATTATATA-T-TATATAT-TTTCAAAAACTATATT-ATATA-T-
1 TTTTCAAAATGTTTCTCAAAAACTATATATTATATATATATTTC-AAAA-TATTTTCAAAAACTA
87257 ATATA
64 ATATA
* ** *
87262 TATTCAAAATGTTTCT-AAAATTTATATATTATATATATATTTCAAAATATTTACAAAAACTACA
1 TTTTCAAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTA-A
87326 TATA
65 TATA
* *
87330 TTTTCAAAATATTT-TCAAAAACTATATATTATATATATGTTTTTCAAAATATTTTCAAAAACTA
1 TTTTCAAAATGTTTCTCAAAAACTATATATTATATATA--TATTTCAAAATATTTTCAAAAAC--
87394 TATATATATA
62 --TA-ATATA
* * ** *
87404 TTTTCAAAA--TAT-TCAAAAACTATATATTATATATGT-TTTCAAAACGTTTTCAAAATCT-AT
1 TTTTCAAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTAAT
87464 ATA
66 ATA
* * **
87467 TTAT--ATATG-TTCTCAAAATTTTATATATTATATATATAT
1 TTTTCAAAATGTTTCTCAAAA-ACTATATATTATATATATAT
87506 ATTAAATAGC
Statistics
Matches: 199, Mismatches: 25, Indels: 38
0.76 0.10 0.15
Matches are distributed among these distances:
61 2 0.01
62 1 0.01
63 37 0.19
64 21 0.11
65 16 0.08
66 5 0.03
67 1 0.01
68 36 0.18
69 18 0.09
70 22 0.11
72 24 0.12
74 16 0.08
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (68 bp):
TTTTCAAAATGTTTCTCAAAAACTATATATTATATATATATTTCAAAATATTTTCAAAAACTAAT
ATA
Found at i:87475 original size:37 final size:37
Alignment explanation
Indices: 87325--87485 Score: 215
Period size: 37 Copynumber: 4.4 Consensus size: 37
87315 CAAAAACTAC
*
87325 ATATATTTTCAAAATATTTTCAAAAACTATATATTATAT
1 ATATGTTTTCAAAATATTTTCAAAAACTATATA-T-TAT
87364 ATATGTTTTTCAAAATATTTTCAAAAACTATATA-TAT
1 ATATG-TTTTCAAAATATTTTCAAAAACTATATATTAT
87401 ATA--TTTTCAAAATA--TTCAAAAACTATATATTAT
1 ATATGTTTTCAAAATATTTTCAAAAACTATATATTAT
** *
87434 ATATGTTTTCAAAACGTTTTCAAAATCTATATATTAT
1 ATATGTTTTCAAAATATTTTCAAAAACTATATATTAT
*
87471 ATATGTTCTCAAAAT
1 ATATGTTTTCAAAAT
87486 TTTATATATT
Statistics
Matches: 110, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
32 15 0.14
33 6 0.05
34 11 0.10
35 9 0.08
37 37 0.34
39 4 0.04
40 28 0.25
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (37 bp):
ATATGTTTTCAAAATATTTTCAAAAACTATATATTAT
Found at i:90886 original size:23 final size:23
Alignment explanation
Indices: 90839--90905 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
90829 TTTAATGAGT
* *
90839 GGTCCTTCGGG--ATATCTATGT
1 GGTCCTTCGGGACATTTCTATGC
90860 GGTCCTTCGGGACATTTCTATGC
1 GGTCCTTCGGGACATTTCTATGC
*
90883 GGTCCTTCGGGACAAATTCTATG
1 GGTCCTTCGGGAC-ATTTCTATG
90906 TTCCCCTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.28
23 21 0.52
24 8 0.20
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTATGC
Found at i:91126 original size:6 final size:6
Alignment explanation
Indices: 91115--91162 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
91105 ATAAATGGAT
91115 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA
91163 CAATAATGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TAATGA
Found at i:96294 original size:23 final size:21
Alignment explanation
Indices: 96251--96296 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
96241 TAAGGAGTGT
* *
96251 TCATTTGGGACATCTATGTGG
1 TCATTCGGGACATCTACGTGG
96272 TCATTCGGGACATTTCTACGTGG
1 TCATTCGGGACA--TCTACGTGG
96295 TC
1 TC
96297 CTTCATGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (21 bp):
TCATTCGGGACATCTACGTGG
Found at i:98093 original size:22 final size:23
Alignment explanation
Indices: 98051--98099 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
98041 TTAATTTCTG
98051 TTTGGGTGCTATTTGTATAAA-A
1 TTTGGGTGCTATTTGTATAAATA
* *
98073 TTTGGGTGTTAGTTTG-GTAAATA
1 TTTGGGTGCTA-TTTGTATAAATA
98096 TTTG
1 TTTG
98100 CAGAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (23 bp):
TTTGGGTGCTATTTGTATAAATA
Done.