Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_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: 3102597
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:3976 original size:61 final size:60
Alignment explanation
Indices: 3849--4013 Score: 155
Period size: 60 Copynumber: 2.8 Consensus size: 60
3839 ATATTATTGG
* * *
3849 AATGTTCAAAAG-TTGGGGACTAATTTAGAATAAATATCATAGTTTGAGAATGAATTTGA
1 AATGTTCAAAAGTTTGGGGACCAATTTAGAATAAAGATCATAGTTTGAGAATGAATTTAA
*** *
3908 AATGTTCAAAAGTTTGGGGACCAATTTAGAATGGGGAGTCATAGTTT-AGGGATGGAA-TTAA
1 AATGTTCAAAAGTTTGGGGACCAATTTAGAATAAAGA-TCATAGTTTGA-GAAT-GAATTTAA
* *
3969 AATGTTC-AAAGTTTAGGGA-TAATTT--AATATAAGAGTCATAGTTTG
1 AATGTTCAAAAGTTTGGGGACCAATTTAGAATA-AAGA-TCATAGTTTG
4014 GGCATGTATG
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
57 3 0.03
58 12 0.14
59 17 0.19
60 31 0.35
61 22 0.25
62 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
AATGTTCAAAAGTTTGGGGACCAATTTAGAATAAAGATCATAGTTTGAGAATGAATTTAA
Found at i:20637 original size:23 final size:23
Alignment explanation
Indices: 20611--20671 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
20601 CTCATATAAA
*
20611 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
20634 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
20657 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
20672 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:20858 original size:103 final size:103
Alignment explanation
Indices: 20694--20894 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
20684 CATAAAGACC
* *
20694 ACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
20759 CACATGTTCCAAAGAATACATATATGTCCCGAATGACT
66 CACATGTTCCAAAGAATACATATATGTCCCGAATGACT
*
20797 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
20862 CACATGTTCCAAAGAATACATATATGTCCCGAA
66 CACATGTTCCAAAGAATACATATATGTCCCGAA
20895 GGACCACAAA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (103 bp):
ACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
CACATGTTCCAAAGAATACATATATGTCCCGAATGACT
Found at i:22009 original size:20 final size:20
Alignment explanation
Indices: 21972--22009 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21962 ATTCATATAA
*
21972 TTTATTATCATATCATATGG
1 TTTATTATCATATAATATGG
21992 TTTA-TATCATCATAATAT
1 TTTATTATCAT-ATAATAT
22010 ATCACACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATTATCATATAATATGG
Found at i:25742 original size:23 final size:23
Alignment explanation
Indices: 25724--25776 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
25714 AATGCATCGA
25724 AGTGCCACATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
* *
25747 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
25770 AGTGCCA
1 AGTGCCA
25777 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:25963 original size:103 final size:103
Alignment explanation
Indices: 25795--26007 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
25785 TGTCCATAAA
* *
25795 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
25860 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAT
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
*
25898 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
25963 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
26001 GACCACA
1 GACCACA
26008 AAGACCCTCG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
Found at i:27114 original size:20 final size:20
Alignment explanation
Indices: 27077--27114 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27067 ATTCATATAA
*
27077 TTTATTATCATATCATATGG
1 TTTATTATCATATAATATGG
27097 TTTA-TATCATCATAATAT
1 TTTATTATCAT-ATAATAT
27115 ATCACACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATTATCATATAATATGG
Found at i:28813 original size:10 final size:10
Alignment explanation
Indices: 28798--28831 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
28788 ATATCATTTA
28798 TTAAAATATT
1 TTAAAATATT
28808 TTAAAATATCT
1 TTAAAATAT-T
28819 TTAAATATATT
1 TTAAA-ATATT
28830 TT
1 TT
28832 CATTATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 9 0.41
12 4 0.18
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAAAATATT
Found at i:28844 original size:22 final size:22
Alignment explanation
Indices: 28796--28847 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
28786 TTATATCATT
28796 TATTAAAATATTTTAAAATATC
1 TATTAAAATATTTTAAAATATC
* *
28818 T-TTAAATATATTTT-CATTATC
1 TATTAAA-ATATTTTAAAATATC
28839 TATTAAAAT
1 TATTAAAAT
28848 TTATATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAAAATATTTTAAAATATC
Found at i:35811 original size:46 final size:46
Alignment explanation
Indices: 35744--35834 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
35734 CTAAGTTAAT
35744 CAGCGTGAAAATAAAAAGAACTAATCTCCTAATAATGATATTGTCC
1 CAGCGTGAAAATAAAAAGAACTAATCTCCTAATAATGATATTGTCC
*
35790 CAGCGTGAAAATAAAAAGAACTAATCTCCTAATAATTATATTGTC
1 CAGCGTGAAAATAAAAAGAACTAATCTCCTAATAATGATATTGTC
35835 AAATCAACCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (46 bp):
CAGCGTGAAAATAAAAAGAACTAATCTCCTAATAATGATATTGTCC
Found at i:36328 original size:20 final size:20
Alignment explanation
Indices: 36305--36356 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
36295 AACGCGATCC
36305 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
36325 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
36345 CCAAAATCGCAA
1 CCAGAATCGCAA
36357 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:36373 original size:21 final size:20
Alignment explanation
Indices: 36346--36444 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
36336 AATCAGTTTC
36346 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
36367 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
36388 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
36408 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
36429 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
36445 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:36473 original size:20 final size:20
Alignment explanation
Indices: 36411--36604 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
36401 CGATTTTCCA
* ** *
36411 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
36431 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
36451 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
36471 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
36491 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
36511 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
36531 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
36551 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
36571 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
36592 AAATCGCAACGCG
1 AAATCGCAACGCG
36605 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:36495 original size:60 final size:60
Alignment explanation
Indices: 36411--36604 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
36401 CGATTTTCCA
* ** * *
36411 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
36471 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
36531 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
36592 AAATCGCAACGCG
1 AAATCGCAACGCG
36605 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:37025 original size:33 final size:33
Alignment explanation
Indices: 36986--37056 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
36976 TTCACTTAGA
*
36986 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
37019 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
37052 TTTCA
1 TTTCA
37057 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:37196 original size:14 final size:14
Alignment explanation
Indices: 37177--37231 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
37167 AGAATGACTG
37177 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
37191 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
37210 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
37224 TCGCAACG
1 TCGCAACG
37232 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:37244 original size:33 final size:33
Alignment explanation
Indices: 37177--37247 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
37167 AGAATGACTG
***
37177 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
37210 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
37243 TCGCA
1 TCGCA
37248 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:37265 original size:19 final size:19
Alignment explanation
Indices: 37243--37340 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
37233 GAAACCAAAA
*
37243 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37262 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
37276 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37295 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
37309 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
37328 TCGCGTTGCGATT
1 TCGCGTTGCGATT
37341 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:37284 original size:14 final size:14
Alignment explanation
Indices: 37265--37354 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
37255 TTTCATTTCG
37265 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
37279 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
37298 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
37312 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
37329 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
37345 CGTTGCGATT
1 CGTTGCGATT
37355 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:37290 original size:33 final size:33
Alignment explanation
Indices: 37248--37362 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
37238 CAAAATCGCA
37248 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
37281 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
37314 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
37347 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
37363 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:39285 original size:185 final size:186
Alignment explanation
Indices: 39056--39435 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
39046 TAGATTGCTT
39056 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39121 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
39186 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
39241 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39306 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
39371 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
39427 AGTAAATTT
1 AGTAAATTT
39436 ATCCATTCAA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:39370 original size:93 final size:93
Alignment explanation
Indices: 39056--39435 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
39046 TAGATTGCTT
39056 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39121 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
39149 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39213 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
39241 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39306 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
39334 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
39399 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
39427 AGTAAATTT
1 AGTAAATTT
39436 ATCCATTCAA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:39519 original size:19 final size:19
Alignment explanation
Indices: 39479--39607 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
39469 TAGTTTACTT
* *
39479 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
39499 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
39518 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
39537 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
39551 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
39570 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
39584 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
39603 TCGCA
1 TCGCA
39608 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:39558 original size:33 final size:32
Alignment explanation
Indices: 39515--39607 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
39505 CGCGAAACCA
**
39515 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
39547 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
39580 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
39608 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:39605 original size:52 final size:52
Alignment explanation
Indices: 39479--39607 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
39469 TAGTTTACTT
**
39479 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
39531 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
39584 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
39608 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:39625 original size:19 final size:19
Alignment explanation
Indices: 39603--39737 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
39593 GAAACCAAAA
*
39603 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
39622 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
39638 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
39655 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
39671 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
39688 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
39707 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
39727 TCGTGTTGCGA
1 TCGCGTTGCGA
39738 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:39644 original size:14 final size:14
Alignment explanation
Indices: 39625--39681 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
39615 TTTCATTTCG
39625 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
39639 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
39656 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
39672 CGTTGCGATT
1 CGTTGCGATT
39682 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:39650 original size:33 final size:33
Alignment explanation
Indices: 39608--39700 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
39598 CAAAATCGCA
*
39608 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
39641 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
39674 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
39701 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:41596 original size:38 final size:38
Alignment explanation
Indices: 41553--41625 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
41543 AATTGATTGT
*
41553 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
41591 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
41626 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:41612 original size:19 final size:19
Alignment explanation
Indices: 41548--41612 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
41538 AGTTTAATTG
*
41548 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
41567 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
41585 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
41605 ATTGATTT
1 ATTGATTT
41613 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:41626 original size:14 final size:14
Alignment explanation
Indices: 41607--41642 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
41597 ATTGTTTAAT
41607 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
41621 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
41635 TGATTTGT
1 TGATTTGT
41643 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:41765 original size:19 final size:19
Alignment explanation
Indices: 41749--41850 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
41739 AAAAATGACT
41749 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
41768 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
41787 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
41801 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
41820 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
41840 ATCGCAATGCG
1 ATCGCAATGCG
41851 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:41903 original size:19 final size:19
Alignment explanation
Indices: 41879--42185 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
41869 GATTATCTCG
41879 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41898 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41917 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
41931 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41950 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41969 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
41988 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
42007 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
42022 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
42040 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
42059 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
42073 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
42092 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
42111 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
42125 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
42145 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
42159 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
42178 TTGCGATT
1 TTGCGATT
42186 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 28 0.11
18 5 0.02
19 139 0.56
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:41954 original size:71 final size:71
Alignment explanation
Indices: 41879--42118 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
41869 GATTATCTCG
41879 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
41944 TTCGCA
66 TTCGCA
* *
41950 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
42013 TT-ATGTCG-G
61 TTCATTTCGCA
*
42022 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
42086 TTCGCA
66 TTCGCA
42092 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
42119 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:42038 original size:142 final size:136
Alignment explanation
Indices: 41847--42185 Score: 504
Period size: 142 Copynumber: 2.4 Consensus size: 136
41837 AAAATCGCAA
41847 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
41911 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-
*
41976 TTTCATTTCGTAT
128 -TTC-TCTCG--T
41989 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
42053 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
42118 TCTCTCGT
129 TCTCTCGT
* * *
42126 TGCGATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
42186 GTATTTTCCG
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 34 0.18
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
TCTCGT
Found at i:42124 original size:52 final size:52
Alignment explanation
Indices: 41879--42157 Score: 354
Period size: 52 Copynumber: 5.2 Consensus size: 52
41869 GATTATCTCG
*
41879 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
41931 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
41988 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
42040 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
42092 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
42145 TTGCGATTTTCAT
1 TTGCGATTTTCAT
42158 GTTGGGATTT
Statistics
Matches: 212, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 152 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:44509 original size:12 final size:12
Alignment explanation
Indices: 44492--44516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44482 TCTTCGGGGA
44492 CTTTTTCTTCTT
1 CTTTTTCTTCTT
44504 CTTTTTCTTCTT
1 CTTTTTCTTCTT
44516 C
1 C
44517 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:44725 original size:24 final size:24
Alignment explanation
Indices: 44691--44737 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44681 CTGAAACATC
44691 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
44715 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
44738 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:45439 original size:20 final size:20
Alignment explanation
Indices: 45411--45759 Score: 418
Period size: 20 Copynumber: 17.4 Consensus size: 20
45401 AAATTTCAGT
* * * *
45411 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
45431 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
45451 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
45471 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
45491 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
45511 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
45531 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
45551 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
45571 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
45591 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
45611 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
45631 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
45651 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
45671 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
45691 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
45711 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
45731 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
45751 GTTGCGATT
1 GTTGCGATT
45760 ATGGAAAATC
Statistics
Matches: 293, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.01
20 287 0.98
21 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:51832 original size:33 final size:33
Alignment explanation
Indices: 51795--51858 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
51785 AACAAGAGTC
* * *
51795 ACCTAGGGTCGTGGCCATCGCAC-ACCAAGGTAT
1 ACCTAGAGTCGAGGCCAACGCACGA-CAAGGTAT
51828 ACCTAGAGTCGAGGCCAACGCACGACAAGGT
1 ACCTAGAGTCGAGGCCAACGCACGACAAGGT
51859 CAGCCAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (33 bp):
ACCTAGAGTCGAGGCCAACGCACGACAAGGTAT
Found at i:52998 original size:2 final size:2
Alignment explanation
Indices: 52991--53029 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
52981 AATGAATTAT
52991 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 T
53030 GGTTACAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57367 original size:22 final size:22
Alignment explanation
Indices: 57336--57378 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57326 GAGTCGAGGG
* *
57336 ATTCATAGGTCCTTCGGGACAT
1 ATTCACAGGTCCTTAGGGACAT
57358 ATTCACAGGTCCTTAGGGACA
1 ATTCACAGGTCCTTAGGGACA
57379 AATCTCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (22 bp):
ATTCACAGGTCCTTAGGGACAT
Found at i:61016 original size:14 final size:15
Alignment explanation
Indices: 60997--61032 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
60987 CTTAGCTCCA
60997 TTTATT-GTAAATAT
1 TTTATTAGTAAATAT
61011 TTTATTTAGTAAATAT
1 TTTA-TTAGTAAATAT
61027 TTTATT
1 TTTATT
61033 TCGTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 4 0.20
16 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTATTAGTAAATAT
Found at i:61024 original size:16 final size:16
Alignment explanation
Indices: 61003--61033 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60993 TCCATTTATT
61003 GTAAATATTTTATTTA
1 GTAAATATTTTATTTA
61019 GTAAATATTTTATTT
1 GTAAATATTTTATTT
61034 CGTATATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
GTAAATATTTTATTTA
Found at i:62885 original size:22 final size:22
Alignment explanation
Indices: 62847--62907 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
62837 TTTTTCTTTA
62847 GGGGGAATCGATA-CCCCCCAG
1 GGGGGAATCGATACCCCCCCAG
62868 GGGGGAATCGATACCCCCCCAG
1 GGGGGAATCGATACCCCCCCAG
62890 GGGGGAATCGATACCCCC
1 GGGGGAATCGATACCCCC
62908 TGGACATACT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
21 13 0.33
22 26 0.67
ACGTcount: A:0.23, C:0.34, G:0.33, T:0.10
Consensus pattern (22 bp):
GGGGGAATCGATACCCCCCCAG
Found at i:71673 original size:43 final size:43
Alignment explanation
Indices: 71612--71696 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
71602 ACATTCAACA
71612 TGTAGTGTCGATATGCATTGTGATTACAAATTCTAGAATATCT
1 TGTAGTGTCGATATGCATTGTGATTACAAATTCTAGAATATCT
71655 TGTAGTGTCGATATGCATTGTGATTACAAATTCTAGAATATC
1 TGTAGTGTCGATATGCATTGTGATTACAAATTCTAGAATATC
71697 CTAATTTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (43 bp):
TGTAGTGTCGATATGCATTGTGATTACAAATTCTAGAATATCT
Found at i:72377 original size:31 final size:33
Alignment explanation
Indices: 72303--72380 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 33
72293 CTTTATCTTT
*
72303 CTCT-TTTTTTTACTGTTCGAACCAAAATTGTA
1 CTCTGTTTTTTAACTGTTCGAACCAAAATTGTA
72335 CTGCTGTTTTTTAACTGTTCGAACCAAAATTGTA
1 CT-CTGTTTTTTAACTGTTCGAACCAAAATTGTA
72369 -T-TGTTTTTTAAC
1 CTCTGTTTTTTAAC
72381 CAAAATTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 11 0.26
32 2 0.05
33 3 0.07
34 27 0.63
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (33 bp):
CTCTGTTTTTTAACTGTTCGAACCAAAATTGTA
Found at i:72564 original size:134 final size:134
Alignment explanation
Indices: 72407--72657 Score: 317
Period size: 134 Copynumber: 1.9 Consensus size: 134
72397 TTTTTTACAT
* **** *
72407 TGCACTATTTGAATCTGCTGTGTATT-TTTCTGCGTTGTTCGAACCAAATCAATTTTTT-TACAC
1 TGCACTATTCGAATCTGCTGTGTATTGTTT-TGCACAATTCAAACCAAATC-ATTTTTTCTACAC
* * *
72470 TGTTCTGTTTGAACTTTTCTGCACAATTCGAACCAAATCTTTTTTTTTTCTGCACTATTTTTTTC
64 TATTCTGTTCGAACTTTTCTGCACAATTCGAACCAAATCTGTTTTTTTTCTGCACTATTTTTTTC
72535 CTGCTC
129 CTGCTC
* * * *
72541 TGCATTATTCGAATCTGTTGTGTATTGTTTTGCACAATTTAAACCAAATCATTTTTTCTTCACTA
1 TGCACTATTCGAATCTGCTGTGTATTGTTTTGCACAATTCAAACCAAATCATTTTTTCTACACTA
* * * *
72606 TTTTGTTCGAACTTTTCTTCACAGTTCGAACCAAGTCTGTTTTTTTTCTGCA
66 TTCTGTTCGAACTTTTCTGCACAATTCGAACCAAATCTGTTTTTTTTCTGCA
72658 TTGTCCGAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
133 7 0.07
134 88 0.90
135 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (134 bp):
TGCACTATTCGAATCTGCTGTGTATTGTTTTGCACAATTCAAACCAAATCATTTTTTCTACACTA
TTCTGTTCGAACTTTTCTGCACAATTCGAACCAAATCTGTTTTTTTTCTGCACTATTTTTTTCCT
GCTC
Found at i:74273 original size:17 final size:17
Alignment explanation
Indices: 74253--74286 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
74243 TAAAAAGATA
74253 AAATAATTAAATAAAAT
1 AAATAATTAAATAAAAT
74270 AAATAATTAAATAAAAT
1 AAATAATTAAATAAAAT
74287 TGTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAATTAAATAAAAT
Found at i:75304 original size:92 final size:87
Alignment explanation
Indices: 75189--75371 Score: 267
Period size: 92 Copynumber: 2.0 Consensus size: 87
75179 AATAAAGAAA
* *
75189 TAAATCATAATTAAAATATTTAAAATTATTTAAACTAAAATACCTAAATCAAAGATAAGATAAAA
1 TAAATCATAATTAAAATACTTAAAACTATTTAAACTAAAATACCT--A--AAAGA-AAGATAAAA
75254 TATAATATAATATTTAAAAGAATATCC
61 TATAATATAATATTTAAAAGAATATCC
* * *
75281 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATATCTAAAATAAAGATAAAATATAA
1 TAAATCATAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAAGAAAGATAAAATATAA
*
75346 TATAATATTTAAAATAATATCC
66 TATAATATTTAAAAGAATATCC
75368 TAAA
1 TAAA
75372 ACTTGAGTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
87 39 0.46
88 4 0.05
90 1 0.01
92 41 0.48
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (87 bp):
TAAATCATAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAAGAAAGATAAAATATAA
TATAATATTTAAAAGAATATCC
Found at i:76551 original size:20 final size:19
Alignment explanation
Indices: 76526--76579 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
76516 GCGAAATAAA
76526 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
76546 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
76566 AATCGCAACGCGAT
1 AATCGCAACGCGAT
76580 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:76590 original size:21 final size:20
Alignment explanation
Indices: 76566--76683 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 20
76556 CAGTTCCCAG
76566 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
* *
76586 GAATCGCAATGTGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
** * * *
76607 AATTCGCATTGCGATTTTTCAG
1 AA-TCGCAACGCGA-TTATGAA
*
76629 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
76649 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
76669 AATCGCAACGCGATT
1 AATCGCAACGCGATT
76684 CTGACTATTG
Statistics
Matches: 74, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
19 2 0.03
20 38 0.51
21 30 0.41
22 2 0.03
23 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:76654 original size:20 final size:20
Alignment explanation
Indices: 76629--76863 Score: 127
Period size: 20 Copynumber: 11.7 Consensus size: 20
76619 GATTTTTCAG
*
76629 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
76649 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
76669 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * * *
76689 TATTGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
76710 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
76730 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
76750 AATCGCAACGCGTAT-CTATA
1 AATCGCAACGCGAATACGA-A
* * *
76770 AACCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
76790 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
76810 AATCGCAACGAC-AATACATAA
1 AATCGCAACG-CGAATAC-GAA
* * *
76831 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
76851 AATCGCAATGCGA
1 AATCGCAACGCGA
76864 TTTTTAAAGC
Statistics
Matches: 162, Mismatches: 43, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
19 3 0.02
20 123 0.76
21 36 0.22
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:76733 original size:81 final size:79
Alignment explanation
Indices: 76629--76846 Score: 226
Period size: 81 Copynumber: 2.7 Consensus size: 79
76619 GATTTTTCAG
* ** * *
76629 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTGACT-AT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTA-TCT-A-TAAC
* * *
76692 TGCAACGAGTATCCGTAA
63 CGCAACGAGAATACGT-A
* * **
76710 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATCTATAAACCG
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCTAT-AACCG
76775 CAACGAGAATACGTA
65 CAACGAGAATACGTA
* *
76790 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACATA-AAATCGCAACGCGTATC
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGA-ACATATAAATCGCAACGCGTATC
76847 CGTAAATCGC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 31 0.27
81 79 0.69
82 3 0.03
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (79 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCTATAACCGC
AACGAGAATACGTA
Found at i:76762 original size:40 final size:41
Alignment explanation
Indices: 76693--76858 Score: 246
Period size: 40 Copynumber: 4.1 Consensus size: 41
76683 TCTGACTATT
* *
76693 GCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
** *
76734 GCAACGAGAATACGT-AAATCGCAACGCGTATCTATAAACC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
*
76774 GCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAAATC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
* *
76814 GCAACGACAATACATAAAATCGCAACGCGTATCCGTAAATC
1 GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
76855 GCAA
1 GCAA
76859 TGCGATTTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 71 0.63
41 41 0.37
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
GCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
Found at i:76810 original size:60 final size:61
Alignment explanation
Indices: 76707--76863 Score: 158
Period size: 60 Copynumber: 2.6 Consensus size: 61
76697 CGAGTATCCG
* * * * * * *
76707 TAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACG-C-GTATC-
1 TAAAACCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGACAATA-CA
* *
76766 TATAAACCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCGCAACGACAATACA
1 TA-AAACCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGACAATACA
* * * *
76828 TAAAATCGCAACGCGTATCCGTAAATCGCAATGCGA
1 TAAAACCGCAACGAGAATACGTAAATCGCAATGCGA
76864 TTTTTAAAGC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
59 2 0.03
60 43 0.54
61 31 0.39
62 4 0.05
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (61 bp):
TAAAACCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGACAATACA
Found at i:77449 original size:20 final size:20
Alignment explanation
Indices: 77424--77474 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
77414 TTCTAAACTT
**
77424 AAAATCGCAACTTGAAAATG
1 AAAATCGCAACACGAAAATG
77444 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
77464 ACTATCGCAAC
1 AAAATCGCAAC
77475 GAGAGAATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:77486 original size:14 final size:14
Alignment explanation
Indices: 77467--77517 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
77457 GAAAATGACT
77467 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
77481 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
77495 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
77509 ATCACAACG
1 ATCGCAACG
77518 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.43, C:0.24, G:0.25, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:77551 original size:19 final size:19
Alignment explanation
Indices: 77529--77628 Score: 119
Period size: 19 Copynumber: 5.2 Consensus size: 19
77519 GAAATGAAAA
* *
77529 TCACATTGCGATTTTAATT
1 TCACGTTGCGATTTTCATT
77548 TCACGTTGCGATTTTCATT
1 TCACGTTGCGATTTTCATT
* **
77567 TCGCGTTGCGATAGTCATT
1 TCACGTTGCGATTTTCATT
*
77586 TCCGCGTTGCGATTTTCATT
1 T-CACGTTGCGATTTTCATT
*
77606 CTCTCGTTGCGATTTTCATT
1 -TCACGTTGCGATTTTCATT
77626 TCA
1 TCA
77629 ACCAAAAGAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 36 0.51
20 33 0.47
21 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCACGTTGCGATTTTCATT
Found at i:77619 original size:20 final size:19
Alignment explanation
Indices: 77534--77627 Score: 125
Period size: 20 Copynumber: 4.8 Consensus size: 19
77524 GAAAATCACA
* *
77534 TTGCGATTTTAATTTCACG
1 TTGCGATTTTCATTTCGCG
77553 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
**
77572 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
*
77592 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCGCG
77612 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
77628 AACCAAAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 32 0.48
20 33 0.50
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:79475 original size:94 final size:94
Alignment explanation
Indices: 79314--79693 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
79304 TAGATTGCTT
** *
79314 AGTAAATTTATTCGGTTGCTGCCAAAACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
79379 ATTTGTCTTTTGTTTTGTCTTTTAGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
79408 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTTTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
79473 ATTTTTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
79502 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
79567 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
79596 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
79661 ATTTGTCTTTGTTTTGTCTTTTGGTT-AA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
79689 AGTAA
1 AGTAA
79694 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
93 26 0.10
94 246 0.90
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:79856 original size:19 final size:20
Alignment explanation
Indices: 79834--79888 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
79824 GAAACTATAA
79834 TCGCGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTTCATTT
**
79853 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA-TTT
*
79874 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
79889 AAGTTCCAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
21 14 0.48
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:80365 original size:21 final size:21
Alignment explanation
Indices: 80341--80407 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
80331 TCATTCCTCG
80341 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
80362 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
80383 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
80404 AGAG
1 AGAG
80408 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:80365 original size:42 final size:41
Alignment explanation
Indices: 80294--80407 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
80284 GCCTGTTATC
* * * * * *
80294 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-T
*
80336 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCAT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
* * *
80377 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
80408 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
Found at i:81778 original size:14 final size:14
Alignment explanation
Indices: 81759--81794 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
81749 ATTGTTTAAT
81759 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
81773 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
81787 TGATTTGT
1 TGATTTGT
81795 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:81938 original size:33 final size:33
Alignment explanation
Indices: 81901--81980 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
81891 AAAAATGACT
* *
81901 ATCGCAATC-CGAAATGAAAATCGCAACGAGAGA
1 ATCGCAA-CGCGAAATGAAAATCGCAACGACAAA
*
81934 ATCGCAACGCGAAATTAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
81967 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
81981 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 1 0.02
33 42 0.98
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:82008 original size:19 final size:19
Alignment explanation
Indices: 81986--82108 Score: 86
Period size: 19 Copynumber: 6.9 Consensus size: 19
81976 CGAAACTAAA
81986 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
82005 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
82020 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
82038 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
82053 -TCTCGTCGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
82071 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
82090 TTCCGCGTTGCGATTTTCA
1 TT-CGCGTTGCGATTTTCA
82109 CATTGCGATT
Statistics
Matches: 75, Mismatches: 18, Indels: 21
0.66 0.16 0.18
Matches are distributed among these distances:
14 16 0.21
16 6 0.08
17 6 0.08
19 34 0.45
20 13 0.17
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:82032 original size:33 final size:33
Alignment explanation
Indices: 81990--82083 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
81980 ACTAAATTCG
81990 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
82023 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
82056 CGTCGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
82084 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:82118 original size:53 final size:52
Alignment explanation
Indices: 82025--82136 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 52
82015 GATTCCCTCG
** * *
82025 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTCGCGATTTTCATTTCGCA
1 TTGCGATAGTCATTTCGCATTGCGATTCTCACATCGCGATTTTCATTTCGCA
* * * *
82077 TTGCGATAGTCATTTCCGCGTTGCGATTTTCACATTGCGATTTTTATTTCGCA
1 TTGCGATAGTCATTT-CGCATTGCGATTCTCACATCGCGATTTTCATTTCGCA
82130 TTGCGAT
1 TTGCGAT
82137 TCTCTCGTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 13 0.25
53 38 0.75
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (52 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCACATCGCGATTTTCATTTCGCA
Found at i:82126 original size:34 final size:34
Alignment explanation
Indices: 82070--82170 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 34
82060 GCGATTTTCA
* *
82070 TTTCGCATTGCGATAGTCATTTCCGCGTTGCGAT
1 TTTCACATTGCGATAGTAATTTCCGCGTTGCGAT
** * *
82104 TTTCACATTGCGATTTTTATTT-CGCATTGCGAT
1 TTTCACATTGCGATAGTAATTTCCGCGTTGCGAT
* * * *
82137 TCTCTCGTTGCAATAGTAATTTCCGCGTTGCGAT
1 TTTCACATTGCGATAGTAATTTCCGCGTTGCGAT
82171 AGACATTAAG
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 25 0.47
34 28 0.53
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (34 bp):
TTTCACATTGCGATAGTAATTTCCGCGTTGCGAT
Found at i:82216 original size:20 final size:20
Alignment explanation
Indices: 82143--82216 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
82133 CGATTCTCTC
* * *
82143 GTTGCAATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
82163 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
82183 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
82204 GTTGCGATAGTCA
1 GTTGCGATAGTCA
82217 AATGAATTCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:84662 original size:24 final size:24
Alignment explanation
Indices: 84628--84681 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
84618 CTGAAAAATC
84628 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
84652 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
84676 ATCAAA
1 ATCAAA
84682 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:85556 original size:20 final size:19
Alignment explanation
Indices: 85535--85835 Score: 139
Period size: 20 Copynumber: 14.9 Consensus size: 19
85525 GCGATAGTCA
85535 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
85554 -AGAT-TCGTATTGCGATTTAC
1 GA-ATCTCG--TTGCGATTTAC
*
85574 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
*
85594 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
*
85614 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
* * *
85634 GGATACGCATTGCGATTTAC
1 GAAT-CTCGTTGCGATTTAC
*
85654 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
85674 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
*
85694 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
85714 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* * *
85735 GTATTGTCATTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
85755 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* * *
85776 GGATATGCGTTGCAATTTTAC
1 GAATCT-CGTTGCGA-TTTAC
* *
85797 GGATACTCGTTGCGATAGT-C
1 GAAT-CTCGTTGCGAT-TTAC
*
85817 AGAATCGCGTTGCGATTTA
1 -GAATCTCGTTGCGATTTA
85836 TATGTTCGCG
Statistics
Matches: 226, Mismatches: 35, Indels: 41
0.75 0.12 0.14
Matches are distributed among these distances:
18 5 0.02
19 6 0.03
20 159 0.70
21 52 0.23
22 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:85587 original size:40 final size:40
Alignment explanation
Indices: 85543--85812 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
85533 CAGAATCTCG
* * *
85543 TTGCGATTTACAGATTCGTATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCA
* *
85583 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCA
* *
85623 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCA
* * * *
85663 TTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCA
*
85703 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCA
1 TTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCG-CA
* * *
85744 TTGCGATTTACGGATACGCGTTGCGATTTTACGGATAT-GCG
1 TTGCGATTTACGGATACGCATTGCGA-TTTACGTAT-TCGCA
* * *
85785 TTGCAATTTTACGGATACTCGTTGCGAT
1 TTGCGA-TTTACGGATACGCATTGCGAT
85813 AGTCAGAATC
Statistics
Matches: 210, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
40 136 0.65
41 53 0.25
42 21 0.10
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACGGATACGCATTGCGATTTACGTATTCGCA
Found at i:85607 original size:60 final size:60
Alignment explanation
Indices: 85541--85874 Score: 293
Period size: 60 Copynumber: 5.5 Consensus size: 60
85531 GTCAGAATCT
* * *
85541 CGTTGCGATTTACAG-ATTCGTATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTAC-GTATTCGCATTGCGATTTACGGATACGCATTGCGATTTACGTATTCG
* *
85601 CATTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCATTGCGATTTACGTATTCG
* * * * * * * *
85661 CGTTGCGATTTACAG-ATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTAC-GTATTCGCATTGCGATTTACGGATACGCATTGCGATTTACGTATTCG
* *
85721 CGTTGCGATTTTACGTATT-GTCATTGCGATTTACGGATACGCGTTGCGATTTTACGGATAT-G
1 CGTTGCGA-TTTACGTATTCG-CATTGCGATTTACGGATACGCATTGCGA-TTTACGTAT-TCG
* * * * * * * * ** *
85783 CGTTGCAATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCG
1 CGTTGCGA-TTTACGTATTCGCATTGCGAT-TTACGGATA-CGCATTGCGATTTACGTATTCG
* *
85844 CGTTGCGATTTTCGTATTCGCGTTGCGATTT
1 CGTTGCGATTTACGTATTCGCATTGCGATTT
85875 TGGAAAATCG
Statistics
Matches: 225, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
59 2 0.01
60 129 0.57
61 46 0.20
62 47 0.21
63 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (60 bp):
CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCATTGCGATTTACGTATTCG
Found at i:85844 original size:20 final size:20
Alignment explanation
Indices: 85821--85875 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
85811 ATAGTCAGAA
*
85821 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
85841 TCGCGTTGCGATTTTCGTAT
1 TCGCGTTGCGATTTTCATAT
85861 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
85876 GGAAAATCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:88468 original size:17 final size:16
Alignment explanation
Indices: 88446--88481 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
88436 ATATTTTGTT
88446 TTTAATTTATTTAAGTA
1 TTTAATTTATTTAA-TA
88463 TTTAATTTATTTAATA
1 TTTAATTTATTTAATA
88479 TTT
1 TTT
88482 TGTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTAATTTATTTAATA
Found at i:88487 original size:16 final size:16
Alignment explanation
Indices: 88451--88499 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
88441 TTGTTTTTAA
**
88451 TTTATTTAAGTATTTAA
1 TTTATTTAA-TATTTTG
88468 TTTATTTAATATTTTG
1 TTTATTTAATATTTTG
* *
88484 TTTAATTAATTTTTTG
1 TTTATTTAATATTTTG
88500 CAGATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTTAATATTTTG
Found at i:91918 original size:16 final size:16
Alignment explanation
Indices: 91876--91919 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
91866 TATTTTTTTC
91876 AAATAATTATAATAAA
1 AAATAATTATAATAAA
* *
91892 CAATAAGTATAATAAA
1 AAATAATTATAATAAA
91908 AAA-ATATTATAA
1 AAATA-ATTATAA
91920 CAAAGTTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAATTATAATAAA
Found at i:102010 original size:19 final size:19
Alignment explanation
Indices: 101986--102033 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
101976 ACTTTATGTG
101986 GTATACTAAAATAGTTAAT
1 GTATACTAAAATAGTTAAT
102005 GTATACTAAAATAGTTAAT
1 GTATACTAAAATAGTTAAT
*
102024 GAATAC-AAAA
1 GTATACTAAAA
102034 AAGCAAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (19 bp):
GTATACTAAAATAGTTAAT
Found at i:103550 original size:29 final size:29
Alignment explanation
Indices: 103514--103572 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
103504 ACTAAAATGT
103514 TAATTTTGCTAACTAATTTCCAGTAAAAC
1 TAATTTTGCTAACTAATTTCCAGTAAAAC
*
103543 TAATTTTGCTAACTAATTTCTAGTAAAAC
1 TAATTTTGCTAACTAATTTCCAGTAAAAC
103572 T
1 T
103573 CAATATTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (29 bp):
TAATTTTGCTAACTAATTTCCAGTAAAAC
Found at i:107726 original size:16 final size:16
Alignment explanation
Indices: 107700--107741 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
107690 TTAATAGGAA
107700 ATCCACATCATGATGCC
1 ATCC-CATCATGATGCC
*
107717 ATCCCATCATGATGTC
1 ATCCCATCATGATGCC
107733 ATCCCATCA
1 ATCCCATCA
107742 AGTTCAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.26
Consensus pattern (16 bp):
ATCCCATCATGATGCC
Found at i:108819 original size:33 final size:33
Alignment explanation
Indices: 108767--108829 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
108757 AGGCAAAAGA
108767 TACAGTACCATGAACAGTGTATCGATGCACTGC
1 TACAGTACCATGAACAGTGTATCGATGCACTGC
* *
108800 TACATTACCGTGAACAGTGTATCGATGCAC
1 TACAGTACCATGAACAGTGTATCGATGCAC
108830 AAAAACATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (33 bp):
TACAGTACCATGAACAGTGTATCGATGCACTGC
Found at i:109490 original size:59 final size:59
Alignment explanation
Indices: 109367--109498 Score: 131
Period size: 59 Copynumber: 2.2 Consensus size: 59
109357 CACCGTAATG
* * * * * ** * *
109367 CAATCCCGAGTATGACATATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTA
1 CAATCCTGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTA
* * *
109426 CAATCCAT-AATATGACACATAAGGTCGTGCCCACCATATACACTAATTATACTTTAGTG
1 CAATCC-TGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTA
*
109485 TAATCCTGAATATG
1 CAATCCTGAATATG
109499 CAGCCTGCTG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
58 1 0.02
59 57 0.98
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (59 bp):
CAATCCTGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTA
Found at i:109954 original size:2 final size:2
Alignment explanation
Indices: 109947--110019 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
109937 AATATAGATT
109947 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109989 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 T
110020 TAGTATTGTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123000 original size:3 final size:3
Alignment explanation
Indices: 122992--123048 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
122982 CTCCTCACTC
* * * *
122992 TCA TCA TCA TCA TCA TTA TCA CCA TCA TCA TCA TCA TTA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
123040 TCA TCA TCA
1 TCA TCA TCA
123049 GGAGCAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:123017 original size:21 final size:21
Alignment explanation
Indices: 122993--123048 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
122983 TCCTCACTCT
122993 CATCATCATCATCATTATCAC
1 CATCATCATCATCATTATCAC
123014 CATCATCATCATCATTATCAC
1 CATCATCATCATCATTATCAC
123035 CATCATCATCATCA
1 CATCATCATCATCA
123049 GGAGCAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (21 bp):
CATCATCATCATCATTATCAC
Found at i:125230 original size:17 final size:17
Alignment explanation
Indices: 125210--125274 Score: 112
Period size: 17 Copynumber: 3.8 Consensus size: 17
125200 TTTGCGAGAA
* *
125210 TTTGAGTGGGTTTGAGT
1 TTTGAGAGGGTTTGAGC
125227 TTTGAGAGGGTTTGAGC
1 TTTGAGAGGGTTTGAGC
125244 TTTGAGAGGGTTTGAGC
1 TTTGAGAGGGTTTGAGC
125261 TTTGAGAGGGTTTG
1 TTTGAGAGGGTTTG
125275 GATGTTTGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (17 bp):
TTTGAGAGGGTTTGAGC
Found at i:126726 original size:25 final size:25
Alignment explanation
Indices: 126681--126729 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
126671 GTGCTTTTCC
126681 CATATTAAGACAATCATAATTATTA
1 CATATTAAGACAATCATAATTATTA
126706 CATATTAA-ACTAA-CATGAATTATT
1 CATATTAAGAC-AATCAT-AATTATT
126730 GGCCTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (25 bp):
CATATTAAGACAATCATAATTATTA
Found at i:127880 original size:3 final size:3
Alignment explanation
Indices: 127872--127909 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
127862 AAGGTGTGAG
127872 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
127910 CAAATGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:130316 original size:2 final size:2
Alignment explanation
Indices: 130309--130335 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
130299 TATAATTGAT
130309 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 T
130336 CTTAATCTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131333 original size:2 final size:2
Alignment explanation
Indices: 131326--131369 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
131316 TTATGTATGG
131326 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
131368 AT
1 AT
131370 CAAATGGCGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131774 original size:101 final size:101
Alignment explanation
Indices: 131668--131861 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 101
131658 TTCGTGAAAT
131668 GAAATATGAAGGA-ATAAAGATGAACAAATTGACCAACCGACCAAAC-GTGATTGCTATTTTTTT
1 GAAATATGAA-GATATAAAGATGAACAAATTGACCAACCGA-CAAACTGTGATTGCTATTTTTTT
*
131731 CATGTTAACTAACTTTTATAATTATTTAATGACCTAAG
64 CATATTAACTAACTTTTATAATTATTTAATGACCTAAG
* * * *
131769 GAAATATGAAGATATAAAGATGAGCAAATTGATCAACTGACTAACTGTGATTGCTATTTTTTTCA
1 GAAATATGAAGATATAAAGATGAACAAATTGACCAACCGACAAACTGTGATTGCTATTTTTTTCA
* *
131834 TATTAATTAATTTTTATAATTATTTAAT
66 TATTAACTAACTTTTATAATTATTTAAT
131862 TATTTAATGT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
100 6 0.07
101 78 0.93
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (101 bp):
GAAATATGAAGATATAAAGATGAACAAATTGACCAACCGACAAACTGTGATTGCTATTTTTTTCA
TATTAACTAACTTTTATAATTATTTAATGACCTAAG
Found at i:145977 original size:13 final size:13
Alignment explanation
Indices: 145959--145985 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
145949 TTACATACGC
145959 GCATATGAAGACT
1 GCATATGAAGACT
145972 GCATATGAAGACT
1 GCATATGAAGACT
145985 G
1 G
145986 TTCAACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:147155 original size:21 final size:21
Alignment explanation
Indices: 147129--147174 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
147119 GAAATGATGC
147129 TCAAATCAGTCCTGAAGCAGT
1 TCAAATCAGTCCTGAAGCAGT
147150 TCAAATCAGTCCTGAAGCAGT
1 TCAAATCAGTCCTGAAGCAGT
147171 TCAA
1 TCAA
147175 GAAGAACCAG
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:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (21 bp):
TCAAATCAGTCCTGAAGCAGT
Found at i:149056 original size:12 final size:12
Alignment explanation
Indices: 149041--149106 Score: 80
Period size: 12 Copynumber: 5.6 Consensus size: 12
149031 GTTATTTAAA
149041 CGGGTATTGGGC
1 CGGGTATTGGGC
*
149053 CGGGTATTGGGT
1 CGGGTATTGGGC
*
149065 CGGGTATTGGGT
1 CGGGTATTGGGC
149077 C-GGTATTGGGC
1 CGGGTATTGGGC
* * *
149088 CGAGAATCGGGC
1 CGGGTATTGGGC
149100 CGGGTAT
1 CGGGTAT
149107 ATATATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
11 10 0.22
12 36 0.78
ACGTcount: A:0.12, C:0.15, G:0.47, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:149068 original size:24 final size:24
Alignment explanation
Indices: 149041--149106 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
149031 GTTATTTAAA
*
149041 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGGGTATTGGGC
*
149065 CGGGTATTGGGTC-GGTATTGGGC
1 CGGGTATTGGGCCGGGTATTGGGC
* * *
149088 CGAGAATCGGGCCGGGTAT
1 CGGGTATTGGGCCGGGTAT
149107 ATATATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.12, C:0.15, G:0.47, T:0.26
Consensus pattern (24 bp):
CGGGTATTGGGCCGGGTATTGGGC
Found at i:149175 original size:2 final size:2
Alignment explanation
Indices: 149168--149203 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
149158 ATTAATATTT
149168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
149204 AATAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:154859 original size:15 final size:15
Alignment explanation
Indices: 154839--154928 Score: 65
Period size: 15 Copynumber: 6.0 Consensus size: 15
154829 AATTGATTTT
154839 CTGAAAAATGAATTA
1 CTGAAAAATGAATTA
** *
154854 CTGAAATTTTAATTTA
1 CTGAAAAATGAA-TTA
* **
154870 CTGGAATTTGAATTA
1 CTGAAAAATGAATTA
*
154885 CTGGAAAATGAATTA
1 CTGAAAAATGAATTA
**
154900 CTGAAATTTGAATT-
1 CTGAAAAATGAATTA
* *
154914 CTGGAAAATAAATTA
1 CTGAAAAATGAATTA
154929 TATTTCTGGA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
14 10 0.17
15 36 0.61
16 13 0.22
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (15 bp):
CTGAAAAATGAATTA
Found at i:154927 original size:29 final size:30
Alignment explanation
Indices: 154867--154928 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
154857 AAATTTTAAT
* *
154867 TTACTGGAATTTGAATTACTGGAAAATGAA
1 TTACTGAAATTTGAATTACTGGAAAATAAA
154897 TTACTGAAATTTGAATT-CTGGAAAATAAA
1 TTACTGAAATTTGAATTACTGGAAAATAAA
154926 TTA
1 TTA
154929 TATTTCTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (30 bp):
TTACTGAAATTTGAATTACTGGAAAATAAA
Found at i:155278 original size:19 final size:19
Alignment explanation
Indices: 155254--155324 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
155244 TTAAATATCT
*
155254 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* * *
155273 TTATTATATTAATATTAAA
1 TTATTAAAATATTATTAAA
* *
155292 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
155312 TTATTAAATATAT
1 TTATTAAA-ATAT
155325 AAAAATTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.03
19 25 0.64
20 6 0.15
21 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:155305 original size:24 final size:26
Alignment explanation
Indices: 155278--155338 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 26
155268 TTAGATTATT
155278 ATATTA-A-TATTAAATATATAAATA
1 ATATTATATTATTAAATATATAAATA
155302 ATATTATTCATTATTAAATATATAAA-A
1 ATATTA-T-ATTATTAAATATATAAATA
155329 AT-TT-TATTAT
1 ATATTATATTAT
155339 ATATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 5 0.15
24 7 0.21
26 2 0.06
27 4 0.12
28 15 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATTATATTATTAAATATATAAATA
Found at i:155382 original size:23 final size:23
Alignment explanation
Indices: 155356--155406 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
155346 TTAAAATAAA
155356 AATATAATAT-CTTATATTATTAT
1 AATATAAT-TGCTTATATTATTAT
*
155379 AATATAATTGCTTATTTTATTAT
1 AATATAATTGCTTATATTATTAT
155402 AATAT
1 AATAT
155407 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATAATTGCTTATATTATTAT
Found at i:155424 original size:22 final size:23
Alignment explanation
Indices: 155396--155442 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
155386 TTGCTTATTT
155396 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
155418 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
155441 TA
1 TA
155443 AACATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:155431 original size:30 final size:30
Alignment explanation
Indices: 155274--155440 Score: 89
Period size: 30 Copynumber: 5.6 Consensus size: 30
155264 ATTATTAGAT
* *
155274 TATTA-TATTAATATTAAATATATAA-ATAA
1 TATTATTA-TAATATTAAAAATATAATATTA
* * *
155303 TATTATTCAT--TATTAAATATATAAAAATTT
1 TATTATT-ATAATATTAAAAATAT-AATATTA
* * *
155333 TATTA-TATATTTATT-AAAATAAAAATATAA
1 TATTATTATA-ATATTAAAAAT-ATAATATTA
* * * *
155363 TA-TCTTATATTATT-ATAATATAATTGCTTA
1 TATTATTATAATATTAAAAATATAA-T-ATTA
*
155393 TTTTATTATAATATTAAAAATATAATATTA
1 TATTATTATAATATTAAAAATATAATATTA
155423 TATTATTATAAATATTAA
1 TATTATTAT-AATATTAA
155441 TAAACATATT
Statistics
Matches: 106, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
28 17 0.16
29 19 0.18
30 37 0.35
31 25 0.24
32 8 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTATTATAATATTAAAAATATAATATTA
Found at i:155759 original size:42 final size:42
Alignment explanation
Indices: 155680--155764 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
155670 CAAATACTAA
* * *
155680 AAAATATTTTTCGAAAAACGAATTACGTGAAACAAACACGAG
1 AAAATATTTTTCGAAAAACAAATTACATAAAACAAACACGAG
* * * *
155722 AAAATATTTTTTGAAAAATAAATTACATAAAATAAACATGAG
1 AAAATATTTTTCGAAAAACAAATTACATAAAACAAACACGAG
155764 A
1 A
155765 TTTCAGGAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (42 bp):
AAAATATTTTTCGAAAAACAAATTACATAAAACAAACACGAG
Found at i:169518 original size:14 final size:14
Alignment explanation
Indices: 169499--169539 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
169489 TAAAAAAATT
169499 ATTTAAAATATAAA
1 ATTTAAAATATAAA
169513 ATTTAAAATATACAA
1 ATTTAAAATATA-AA
169528 A-TTAAAAT-TAAA
1 ATTTAAAATATAAA
169540 TTACTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 19 0.73
15 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAAATATAAA
Found at i:170866 original size:36 final size:36
Alignment explanation
Indices: 170819--170957 Score: 208
Period size: 36 Copynumber: 3.9 Consensus size: 36
170809 ACGGTGTTGG
*
170819 ACATTGATACACAAATGTACCAAAGCTGATAGGATA
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
*
170855 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
* *
170891 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
* *
170927 ATATTGATACA-AGAATGTATCAAAGCTGATA
1 ACATTGATACACA-AATGTACCAAAGCTGATA
170958 ATACTCAACT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (36 bp):
ACATTGATACACAAATGTACCAAAGCTGATATGATA
Found at i:184529 original size:36 final size:36
Alignment explanation
Indices: 184489--184591 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
184479 ACGGTGCTGG
*
184489 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
184525 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
184561 ACATTGATACACAAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTATCAAAGCTGATA
184592 ATACTCAACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGCTGATATGATA
Found at i:189508 original size:19 final size:19
Alignment explanation
Indices: 189484--189521 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
189474 TCAATAATAC
189484 AGGATTTCAGCAACTATAA
1 AGGATTTCAGCAACTATAA
189503 AGGATTTCAGCAACTATAA
1 AGGATTTCAGCAACTATAA
189522 TCCTCACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AGGATTTCAGCAACTATAA
Found at i:205926 original size:3 final size:3
Alignment explanation
Indices: 205910--206011 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
205900 TTAATATATT
* * *
205910 TAA TAA -AA -AA TAA TAA TAA TAT TAA TAA TAA TAT TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
205956 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
206004 TAA TAA TA
1 TAA TAA TA
206012 TGGATAAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
2 4 0.04
3 88 0.96
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:206522 original size:118 final size:118
Alignment explanation
Indices: 206259--206826 Score: 921
Period size: 118 Copynumber: 4.8 Consensus size: 118
206249 GCTTTTGATG
*
206259 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * *
206324 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAATG-TTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
*
206378 CGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * *
206443 TCCTCTGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
66 TCCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
*
206496 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * * * *
206557 T-CTCTGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACA
66 TCCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
* *
206609 AATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
*
206674 TCCTCTGGAAATGTTGATCCATTAAATGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
206727 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* *
206792 TTCTCTGGAAATGTTGATCCATCAAGTGATGAATT
66 TCCTCTGGAAATGTTGATCCATCAAATGATGAATT
206827 TGAATCTTTG
Statistics
Matches: 414, Mismatches: 30, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
113 81 0.20
114 2 0.00
115 21 0.05
116 21 0.05
117 2 0.00
118 212 0.51
119 75 0.18
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (118 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
TCCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
Found at i:206603 original size:231 final size:232
Alignment explanation
Indices: 206259--206826 Score: 886
Period size: 231 Copynumber: 2.4 Consensus size: 232
206249 GCTTTTGATG
*
206259 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACT-T
* * **
206324 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACACGTTCTTCTCA
63 T-CTCTGGAAAAG-ATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCA
206389 TTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAA
126 TTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAA
*
206454 TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
191 TGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
*
206496 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTTTCT
* * *
206560 CTGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATG
66 CTGGAAAAGATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
*
206625 AACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGTTG
131 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGTTG
* * *
206690 ATCCATTAAATGATGAATTCAAGCAAAAGGTTGAACA
196 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
206727 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAA--CT
* * * *
206792 TTCTCTGGAAATGTTGATCCATCAAGTGATGAATT
62 TTCTCTGGAAAAGATGATCCATCAAATGACGAATT
206827 TGAATCTTTG
Statistics
Matches: 306, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
231 184 0.60
232 11 0.04
233 2 0.01
234 40 0.13
236 32 0.10
237 37 0.12
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (232 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTTTCT
CTGGAAAAGATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGTTG
ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:207462 original size:52 final size:52
Alignment explanation
Indices: 207384--207521 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 52
207374 CACTTCTTCG
*
207384 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAACA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATG-TCCAAACA
* *
207436 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGTCCAAACA
207488 GATCAGATAACTCAAAGAACACTTCCAGAAGATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATG
207522 ATATTGGCAA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
51 1 0.01
52 81 0.99
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.22
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGTCCAAACA
Found at i:207694 original size:51 final size:52
Alignment explanation
Indices: 207557--207814 Score: 457
Period size: 51 Copynumber: 5.0 Consensus size: 52
207547 TCACTGATTG
** *
207557 GTTCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
207609 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
207661 GTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
207712 GTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
207763 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
207815 TGGCACATAT
Statistics
Matches: 200, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
51 101 0.50
52 99 0.50
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (52 bp):
GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
Found at i:207696 original size:103 final size:103
Alignment explanation
Indices: 207557--207814 Score: 455
Period size: 103 Copynumber: 2.5 Consensus size: 103
207547 TCACTGATTG
** *
207557 GTTCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-TCCAACC
207622 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
65 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
* *
207661 GTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCA
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCCAACCA
207725 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
66 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
207763 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
207815 TGGCACATAT
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
102 50 0.34
103 93 0.63
104 5 0.03
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (103 bp):
GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCCAACCA
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
Found at i:208766 original size:6 final size:6
Alignment explanation
Indices: 208755--208823 Score: 61
Period size: 6 Copynumber: 11.2 Consensus size: 6
208745 TTGACCCCTT
*
208755 TTTTTC TTTTTC TTTTTC TTCTTTTCC TTTTT- TTTTTC -TTTTC TTTCTC
1 TTTTTC TTTTTC TTTTTC -T-TTTT-C TTTTTC TTTTTC TTTTTC TTTTTC
* *
208804 TTCTTTT TTTTTT TTTTTC T
1 TT-TTTC TTTTTC TTTTTC T
208824 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 10 0.19
6 28 0.53
7 9 0.17
8 5 0.09
9 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:208788 original size:31 final size:32
Alignment explanation
Indices: 208753--208826 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 32
208743 CCTTGACCCC
*
208753 TTTTTTTCT-TTTTCTTTTTCTTCTTTTCCTT
1 TTTTTTTCTCTTTTCTTTCTCTTCTTTTCCTT
**
208784 TTTTTTT-TCTTTTCTTTCTCTTCTTTTTTTT
1 TTTTTTTCTCTTTTCTTTCTCTTCTTTTCCTT
208815 TTTTTTTCTCTT
1 TTTTTTTCTCTT
208827 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.87
32 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (32 bp):
TTTTTTTCTCTTTTCTTTCTCTTCTTTTCCTT
Found at i:208792 original size:26 final size:25
Alignment explanation
Indices: 208755--208823 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
208745 TTGACCCCTT
*
208755 TTTTTCTTTTTCTTTTTCTTCTTTTCC
1 TTTTT-TTTTTCTTTTTCTTCTCTT-C
208782 TTTTTTTTTTC-TTTTCTTTCTCTTC
1 TTTTTTTTTTCTTTTTC-TTCTCTTC
208807 TTTTTTTTTT-TTTTTCT
1 TTTTTTTTTTCTTTTTCT
208824 CTTCAAGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.03
25 21 0.54
26 12 0.31
27 5 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTTTTTTTCTTTTTCTTCTCTTC
Found at i:208827 original size:21 final size:20
Alignment explanation
Indices: 208753--208826 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
208743 CCTTGACCCC
*
208753 TTTTTTTCT-TTTTCTTTTTC
1 TTTTTTTCTCTTTT-TTTTTT
*
208773 TTCTTTTC-CTTTTTTTTTT
1 TTTTTTTCTCTTTTTTTTTT
208792 CTTTTCTTTCTCTTCTTTTTTTT
1 -TTTT-TTTCTCTT-TTTTTTTT
208815 TTTTTTTCTCTT
1 TTTTTTTCTCTT
208827 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.11
20 14 0.30
21 12 0.26
22 7 0.15
23 8 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTCTCTTTTTTTTTT
Done.