Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_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: 971753
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 6
Found at i:8 original size:2 final size:2
Alignment explanation
Indices: 2--352 Score: 656
Period size: 2 Copynumber: 177.5 Consensus size: 2
1 C
* *
2 CT CT CT CT CC CT CT CT CT CT C- CT CT CT CT CT CC CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
43 CT CT CT CT CT -T CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
83 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -T
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
124 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
166 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
208 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
250 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
292 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
334 CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT C
353 GCTTCAAATA
Statistics
Matches: 341, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
1 4 0.01
2 337 0.99
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:7263 original size:16 final size:16
Alignment explanation
Indices: 7239--7276 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7229 TTCAAGAGAC
*
7239 ATCATATCCAAAGATG
1 ATCACATCCAAAGATG
7255 ATCACATCCAAAGATG
1 ATCACATCCAAAGATG
7271 ATCACA
1 ATCACA
7277 GAAGCTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (16 bp):
ATCACATCCAAAGATG
Found at i:11098 original size:56 final size:56
Alignment explanation
Indices: 11031--11142 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
11021 GGTCTGAGAT
*
11031 ATTGGTGCAAGTGTTCAACAGGGAGGTTCAAGATAGAGTATCAGGCTTACCAAGAC
1 ATTGGTGCAAGTGTCCAACAGGGAGGTTCAAGATAGAGTATCAGGCTTACCAAGAC
* * * *
11087 ATTGGTGCAAGTGTCCGACGGGGAGGTTCAAGATAGAGTATCGGGCTTGCCAAGAC
1 ATTGGTGCAAGTGTCCAACAGGGAGGTTCAAGATAGAGTATCAGGCTTACCAAGAC
11143 CACCAGACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (56 bp):
ATTGGTGCAAGTGTCCAACAGGGAGGTTCAAGATAGAGTATCAGGCTTACCAAGAC
Found at i:19799 original size:15 final size:15
Alignment explanation
Indices: 19779--19986 Score: 283
Period size: 15 Copynumber: 13.5 Consensus size: 15
19769 TAATAAGGTT
19779 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
19794 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
19809 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
19824 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
19839 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
19854 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
19869 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
19884 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
19899 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
19914 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
19933 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
19951 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
19966 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
19980 ATTTATT
1 ATTTATT
19987 AGTATGGATT
Statistics
Matches: 178, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.07
15 146 0.82
16 4 0.02
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.02
22 6 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:20005 original size:22 final size:22
Alignment explanation
Indices: 19989--20031 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
19979 AATTTATTAG
19989 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
20011 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
20032 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:20007 original size:32 final size:32
Alignment explanation
Indices: 19927--20646 Score: 342
Period size: 32 Copynumber: 23.7 Consensus size: 32
19917 TATTATAAAA
19927 TATGGATTGATTTATTTTAAAATAATTTATT--
1 TATGGATTGATTTATTTT-AAATAATTTATTAG
** * *
19958 T-TAAAATAATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
19989 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
20011 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20043 TATAGATTGATTTATTTT-AA-AA--TA-T-G
1 TATGGATTGATTTATTTTAAATAATTTATTAG
20069 -A---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20097 TATAGATTGATTTATTTTAAAATATGGATTTATT--
1 TATGGATTGATTTATTTT-AAATA---ATTTATTAG
* * * * ** * *
20131 TAT-TATTGTAGTTGTATGGATTGATTTATTTTA-
1 TATGGATTG-ATTTATTTTAAATAATTTA--TTAG
* * * * * * * *
20164 AAT-AATTTATTAGTATGTATTGATTTATTT-TAAAA
1 TATGGATTGATT--TAT-T-TTAAATAATTTAT-TAG
20199 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
20231 TATGGATTAATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20263 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
20295 TATGGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG
** * *
20326 -ATTTATT-ATTGTAGTTGTATAGATTGATTTATT--
1 TATGGATTGATT-TA-TT-T-TA-AATAATTTATTAG
* * * * * * *
20359 T-T-AAATAATTTATTAGTATGGATTGATTTATT-T
1 TATGGATTGATTTATT--T-T-AAATAATTTATTAG
** * *
20392 TA-AAATATGATTGA-TTT--ATTATTGTAGTT-G
1 TATGGAT-TGATTTATTTTAAATAATT-TA-TTAG
20422 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20454 TATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20486 TATGAATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
20508 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
20540 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
20562 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
20594 TATAGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
20626 TATAGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
20647 ATATGAATTG
Statistics
Matches: 546, Mismatches: 62, Indels: 161
0.71 0.08 0.21
Matches are distributed among these distances:
22 54 0.10
23 14 0.03
24 2 0.00
25 4 0.01
26 12 0.02
27 2 0.00
28 16 0.03
29 21 0.04
30 36 0.07
31 30 0.05
32 272 0.50
33 31 0.06
34 23 0.04
35 7 0.01
36 22 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:20051 original size:54 final size:54
Alignment explanation
Indices: 19966--20758 Score: 632
Period size: 54 Copynumber: 14.4 Consensus size: 54
19956 TTTTAAAATA
19966 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
20020 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
20074 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
20128 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* * ** * * * *
20177 TATGTA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTA
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* *
20240 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * *** *
20290 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
20352 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
20405 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
*
20463 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
20517 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
20571 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * ***
20621 ATTT-GTATAGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
20683 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
20737 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
20759 TTGTAGTTGT
Statistics
Matches: 596, Mismatches: 75, Indels: 136
0.74 0.09 0.17
Matches are distributed among these distances:
47 26 0.04
48 30 0.05
49 9 0.02
50 36 0.06
51 5 0.01
52 7 0.01
53 18 0.03
54 281 0.47
55 13 0.02
56 9 0.02
57 5 0.01
58 41 0.07
59 7 0.01
60 9 0.02
62 39 0.07
63 19 0.03
64 41 0.07
65 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:20057 original size:18 final size:18
Alignment explanation
Indices: 20034--20112 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
20024 ATTTTAAATA
20034 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
**
20052 ATTTATTTTAAAATATGAATTG
1 ATTTA--TTAGTATA-G-ATTG
* *
20074 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
20088 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
20106 ATTTATT
1 ATTTATT
20113 TTAAAATATG
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 9 0.20
16 1 0.02
17 4 0.09
18 14 0.30
20 8 0.17
21 1 0.02
22 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:20166 original size:80 final size:82
Alignment explanation
Indices: 20065--20283 Score: 302
Period size: 80 Copynumber: 2.6 Consensus size: 82
20055 TATTTTAAAA
* *
20065 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTGAT
20130 TTA-TT-AT-TGTAGTT-G
65 TTATTTAATATGTA-TTAG
20145 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTGAT
*
20210 TTATTTTAAATAATTTATTAG
65 TTA-TTT-AAT-ATGTATTAG
* *
20231 TATGGATTAATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAA
20284 TAATTTATTT
Statistics
Matches: 125, Mismatches: 5, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
79 1 0.01
80 64 0.51
82 2 0.02
84 2 0.02
85 2 0.02
86 53 0.42
87 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGATTGATT
TATTTAATATGTATTAG
Found at i:20193 original size:22 final size:22
Alignment explanation
Indices: 20177--20219 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20167 AATTTATTAG
*
20177 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
20199 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
20220 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:20227 original size:14 final size:14
Alignment explanation
Indices: 20208--20293 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 14
20198 ATATGGATTG
20208 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
20222 ATTTATTAGTATGGATTA
1 ATTTATT--T-T-AAATA
20240 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
20254 ATTTATTTGTATGGATTG
1 ATTTATTT-TA---AATA
20272 ATTTATTTTAAATA
1 ATTTATTTTAAATA
20286 ATTTATTT
1 ATTTATTT
20294 GTATGGATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
14 28 0.50
15 3 0.05
16 2 0.04
17 3 0.05
18 20 0.36
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:20350 original size:26 final size:26
Alignment explanation
Indices: 20321--20437 Score: 80
Period size: 26 Copynumber: 4.5 Consensus size: 26
20311 TTAAAATATG
20321 GATTGATTTATTATTGTAGTTGTATA
1 GATTGATTTATTATTGTAGTTGTATA
* *
20347 GATTGATTTATT-TTAAATAATT-TATTA
1 GATTGATTTATTATT--GTAGTTGTA-TA
* * * ***
20374 GTATGGATTGATTTATTTTA-AAATAT-
1 G-ATTGATTTA-TTATTGTAGTTGTATA
*
20400 GATTGATTTATTATTGTAGTTGTATG
1 GATTGATTTATTATTGTAGTTGTATA
20426 GATTGATTTATT
1 GATTGATTTATT
20438 TTAAATAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
24 7 0.10
25 12 0.17
26 27 0.39
27 8 0.12
28 11 0.16
29 2 0.03
30 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (26 bp):
GATTGATTTATTATTGTAGTTGTATA
Found at i:20450 original size:14 final size:14
Alignment explanation
Indices: 20431--20483 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
20421 GTATGGATTG
20431 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
20445 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
20463 ATTTATTTTAAATA
1 ATTTATTTTAAATA
20477 ATTTATT
1 ATTTATT
20484 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:20468 original size:18 final size:18
Alignment explanation
Indices: 20445--20501 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
20435 ATTTTAAATA
20445 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
20463 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
20477 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
20495 ATTTATT
1 ATTTATT
20502 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:20476 original size:223 final size:217
Alignment explanation
Indices: 20011--20758 Score: 665
Period size: 220 Copynumber: 3.4 Consensus size: 217
20001 TATTTTAAAA
* *
20011 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAAATATGAATTGA
1 TATGAATTAATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATA-G-ATTGA
* * * *
20075 TTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAT-G---GATTTA-TTT--A
63 TTTATATGAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAA
* * * * *
20133 TTATTGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAGTATGTATTGATT-TATTTT
128 TAATT-TA-TTAGTATAGATTGATTTATTTTAAAAT-A-TGATT-G-ATTTATT-ATTGTA-GTT
*
20195 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
185 ---GTATGGATTGATTTATTTTAAATAATTTATTAG
* * * *
20231 TATGGATTAATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AAATA-ATTTATTT
1 TATGAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAGATTGATTT
* * * * ***
20294 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTGATTTATT
66 ATATGAAATAATTTA--TT--AATATGGATTGATTTA-T-TT-TA-AAATATAGATTGATTTATT
*
20359 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGATTGATTTATTATTGTAGTTGTA
123 TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGATTGATTTATTATTGTAGTTGTA
20424 TGGATTGATTTATTTTAAATAATTTATTAG
188 TGGATTGATTTATTTTAAATAATTTATTAG
*
20454 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATA--GATTGAT
* * * *
20519 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
64 TTATATGAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAT
* * * ***
20584 AATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTA-AAA
129 AATTTATTAGTATAGATTGATTTATTTT-AA-AA--TA--TG-ATTGATTTA-TTATTGTAGTTG
* *
20648 TATGAATTGATTTA--TT--AT--TGTAGTT-G
186 TATGGATTGATTTATTTTAAATAATTTA-TTAG
* *
20674 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
1 TATGAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATA-G-ATTGAT
* *
20739 TTATTTTAAATAATTTATTA
64 TTATATGAAATAATTTATTA
20759 TTGTAGTTGT
Statistics
Matches: 448, Mismatches: 47, Indels: 66
0.80 0.08 0.12
Matches are distributed among these distances:
216 16 0.04
218 2 0.00
219 54 0.12
220 149 0.33
221 7 0.02
222 5 0.01
223 97 0.22
224 10 0.02
225 5 0.01
226 25 0.06
227 31 0.07
228 7 0.02
229 9 0.02
230 22 0.05
231 9 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (217 bp):
TATGAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAGATTGATTT
ATATGAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAA
TTTATTAGTATAGATTGATTTATTTTAAAATATGATTGATTTATTATTGTAGTTGTATGGATTGA
TTTATTTTAAATAATTTATTAG
Found at i:20511 original size:22 final size:22
Alignment explanation
Indices: 20486--20528 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20476 AATTTATTAG
20486 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
20508 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
20529 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:20565 original size:22 final size:22
Alignment explanation
Indices: 20540--20582 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20530 AATTTATTAG
20540 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
20562 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
20583 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:20590 original size:14 final size:14
Alignment explanation
Indices: 20571--20624 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
20561 ATATGGATTG
20571 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
20585 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
20603 ATTTATTTTAAATA
1 ATTTATTTTAAATA
20617 ATTTATTT
1 ATTTATTT
20625 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:20608 original size:18 final size:17
Alignment explanation
Indices: 20585--20641 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
20575 ATTTTAAATA
20585 ATTTATTAGTATAGATTG
1 ATTTATT-GTATAGATTG
* *
20603 ATTTATT-T-TA-AATA
1 ATTTATTGTATAGATTG
20617 ATTTATTTGTATAGATTG
1 ATTTA-TTGTATAGATTG
20635 ATTTATT
1 ATTTATT
20642 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 2 0.06
17 4 0.13
18 14 0.45
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (17 bp):
ATTTATTGTATAGATTG
Found at i:20731 original size:22 final size:22
Alignment explanation
Indices: 20706--20748 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20696 AATTTATTAG
20706 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
20728 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
20749 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:21616 original size:22 final size:22
Alignment explanation
Indices: 21591--21640 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
21581 TTCATCAGTG
* *
21591 ACCAGCCACCCATATGTCGCTA
1 ACCACCCACCCATACGTCGCTA
21613 ACCACCCACCCATACGTCGCTA
1 ACCACCCACCCATACGTCGCTA
21635 ACCACC
1 ACCACC
21641 TAATGACCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.48, G:0.10, T:0.14
Consensus pattern (22 bp):
ACCACCCACCCATACGTCGCTA
Found at i:23202 original size:20 final size:20
Alignment explanation
Indices: 23177--23255 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 20
23167 TAATTAAAAT
23177 GCATGAAAGGATGTATTAAG
1 GCATGAAAGGATGTATTAAG
*
23197 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG---T-ATT--AAG
* *
23223 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGTATTAAG
23243 GCATGAAAGGATG
1 GCATGAAAGGATG
23256 CCATAACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 27 0.56
22 3 0.06
23 1 0.02
24 3 0.06
26 14 0.29
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.23
Consensus pattern (20 bp):
GCATGAAAGGATGTATTAAG
Found at i:23219 original size:46 final size:46
Alignment explanation
Indices: 23166--23583 Score: 538
Period size: 46 Copynumber: 9.3 Consensus size: 46
23156 AACCGAATTT
* * *
23166 ATAATTAAAATGCATGAAAGGATGTATTAAGGCATGAAAGGATGCC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
*
23212 ATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* *
23258 ATAACTAAAATACATGAAA-G--G-A-T-----A--AAAGGATGTC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* *
23292 ATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
** *
23338 ATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGAC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* *
23384 ATAATTAAAATGCATGAAATGTTGCATTAAGGCATGAAAGGATGCC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
** * * * *
23430 ATAACTAAAATGCATGAACGGATGCAATAAAGCATAAAAGGATGAC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* *
23476 ATAATTAAAATGCATGAAA-GAAGACATTAAGGCATGAAAGGATGCC
1 ATAACTAAAATGCATGAAATGATG-CATTAAGGCATGAAAGGATGCC
*
23522 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTC
1 ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
23568 ATAACTAAAATGCATG
1 ATAACTAAAATGCATG
23584 TAACATCCCA
Statistics
Matches: 321, Mismatches: 37, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
34 26 0.08
35 1 0.00
36 1 0.00
37 1 0.00
38 1 0.00
39 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 4 0.01
46 279 0.87
47 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
Found at i:30826 original size:25 final size:25
Alignment explanation
Indices: 30796--30843 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30786 TCATCATTTC
*
30796 CGTTAATTATTAACGGCAAGTGGTT
1 CGTTAATTATTAACGACAAGTGGTT
*
30821 CGTTAATTGTTAACGACAAGTGG
1 CGTTAATTATTAACGACAAGTGG
30844 CTTAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (25 bp):
CGTTAATTATTAACGACAAGTGGTT
Found at i:30851 original size:22 final size:24
Alignment explanation
Indices: 30796--30851 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
30786 TCATCATTTC
* *
30796 CGTTAATTATTAACGGCAAGTGGTT
1 CGTTAATTGTTAACGACAAGTGG-T
30821 CGTTAATTGTTAACGACAAGTGG-
1 CGTTAATTGTTAACGACAAGTGGT
30844 C-TTAATTG
1 CGTTAATTG
30852 AATATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.24
23 1 0.03
25 21 0.72
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (24 bp):
CGTTAATTGTTAACGACAAGTGGT
Found at i:32297 original size:23 final size:23
Alignment explanation
Indices: 32262--32320 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
32252 TCTCATATAA
*
32262 ATGCACCGAAGTGTCACGTAGA-
1 ATGCACCGAAGTGCCACGTAGAT
* *
32284 ATTGCACCGTAGTGCCGCGTAGAT
1 A-TGCACCGAAGTGCCACGTAGAT
*
32308 ATGCACCAAAGTG
1 ATGCACCGAAGTG
32321 ACATATAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
ATGCACCGAAGTGCCACGTAGAT
Found at i:32720 original size:2 final size:2
Alignment explanation
Indices: 32713--32773 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
32703 TGTCTTATCC
32713 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
32755 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
32774 TCACATGTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32801 original size:17 final size:18
Alignment explanation
Indices: 32766--32802 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
32756 ATATATATAT
32766 ATATATATTCACATGTTC
1 ATATATATTCACATGTTC
32784 ATATA-ATTCATCAT-TTC
1 ATATATATTCA-CATGTTC
32801 AT
1 AT
32803 CATCTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATATATTCACATGTTC
Found at i:33647 original size:6 final size:6
Alignment explanation
Indices: 33636--33676 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
33626 ATAACAAACA
33636 CATGTT CATGTT CATGTT CATGTT CATGTT CATGCTT CATG
1 CATGTT CATGTT CATGTT CATGTT CATGTT CATG-TT CATG
33677 CACAATACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (6 bp):
CATGTT
Found at i:34291 original size:22 final size:22
Alignment explanation
Indices: 34243--34291 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
34233 TCTCAACTCA
*
34243 TATACACATGCTTAAACTAATT
1 TATATACATGCTTAAACTAATT
34265 TATATACATGCTTAAACTAATT
1 TATATACATGCTTAAACTAATT
34287 TATAT
1 TATAT
34292 CCATATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (22 bp):
TATATACATGCTTAAACTAATT
Found at i:34300 original size:20 final size:21
Alignment explanation
Indices: 34255--34301 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
34245 TACACATGCT
*
34255 TAAACTAATTTATATACATGCT
1 TAAACTAATTTATATACAT-CA
*
34277 TAAACTAATTTATATCCAT-A
1 TAAACTAATTTATATACATCA
34297 TAAAC
1 TAAAC
34302 CATCTTTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
22 18 0.78
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAACTAATTTATATACATCA
Found at i:37551 original size:23 final size:23
Alignment explanation
Indices: 37517--37585 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
37507 CACCACAGCT
*
37517 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
37540 CGTAGAATTGCACGGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
37563 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
37586 TATAAGGTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:38063 original size:2 final size:2
Alignment explanation
Indices: 38056--38082 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38046 TTCATCTTCC
38056 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
38083 CATTTTTCCT
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:40187 original size:14 final size:14
Alignment explanation
Indices: 40151--40193 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
40141 ATAAATTTTA
40151 ATTTTTTTAATTAT
1 ATTTTTTTAATTAT
40165 ATTTATTTTAATCT-T
1 ATTT-TTTTAAT-TAT
40180 ATTTTTTTATATTA
1 ATTTTTTTA-ATTA
40194 AGCTATGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.40
15 14 0.56
16 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTTTAATTAT
Found at i:43618 original size:18 final size:18
Alignment explanation
Indices: 43574--43610 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
43564 CTATGATATG
*
43574 AAAAATGATAAAATAAAAT
1 AAAAA-GATAAAAGAAAAT
43593 AAAAAGATAAAAGAAAAT
1 AAAAAGATAAAAGAAAAT
43611 TGAAAGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (18 bp):
AAAAAGATAAAAGAAAAT
Found at i:44810 original size:30 final size:30
Alignment explanation
Indices: 44774--44844 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
44764 TGGAAGATTA
44774 TAATAAAAATTTAAAAGATATTCCTCGTTG
1 TAATAAAAATTTAAAAGATATTCCTCGTTG
44804 TAATAAAAATTTAAAAGATATTCCTCGTTG
1 TAATAAAAATTTAAAAGATATTCCTCGTTG
44834 TAATAAAAATT
1 TAATAAAAATT
44845 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (30 bp):
TAATAAAAATTTAAAAGATATTCCTCGTTG
Found at i:47760 original size:25 final size:25
Alignment explanation
Indices: 47732--47809 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
47722 TCTGGCCACG
* *
47732 ACCACCGCCACCGACGTAGTTCTTT
1 ACCACCCCCACCGACGTAGTCCTTT
* *
47757 ACCACCCCCACTGATGTAGTCCTTT
1 ACCACCCCCACCGACGTAGTCCTTT
* * * *
47782 ACCACCACTACTGATGTAGTCC-TT
1 ACCACCCCCACCGACGTAGTCCTTT
47806 ACCA
1 ACCA
47810 TCCTCTTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (25 bp):
ACCACCCCCACCGACGTAGTCCTTT
Found at i:48123 original size:21 final size:21
Alignment explanation
Indices: 48090--48130 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48080 TTTTAAAAAA
** *
48090 TAAATAATTAATTTTAAATTT
1 TAAATAAAAAATTTAAAATTT
48111 TAAATAAAAAATTTAAAATT
1 TAAATAAAAAATTTAAAATT
48131 ACCAGGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATAAAAAATTTAAAATTT
Found at i:49271 original size:18 final size:19
Alignment explanation
Indices: 49248--49289 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
49238 CCAATTATCC
*
49248 TATTCT-CTGATAATCTTT
1 TATTCTACTGATAATCTTA
49266 TATTCTCACTGATAATCTTA
1 TATTCT-ACTGATAATCTTA
49286 TATT
1 TATT
49290 TTGTGAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (19 bp):
TATTCTACTGATAATCTTA
Found at i:52282 original size:35 final size:35
Alignment explanation
Indices: 52243--52314 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
52233 CATCATTTAT
52243 ATTCTAAACC-CTAAAATCCAAAATACTTCAATTAC
1 ATTCTAAACCTC-AAAATCCAAAATACTTCAATTAC
*
52278 ATTCTAAACCTCAAATTCCAAAATACTTCAATTAC
1 ATTCTAAACCTCAAAATCCAAAATACTTCAATTAC
52313 AT
1 AT
52315 GCCCAACCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (35 bp):
ATTCTAAACCTCAAAATCCAAAATACTTCAATTAC
Found at i:52328 original size:35 final size:35
Alignment explanation
Indices: 52248--52330 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 35
52238 TTTATATTCT
* * * *
52248 AAACCCTAAAATCCAAAATACTTCAATTACATTCT
1 AAACCCCAAATTCCAAAATACTTCAATTACATGCC
*
52283 AAACCTCAAATTCCAAAATACTTCAATTACATGCC
1 AAACCCCAAATTCCAAAATACTTCAATTACATGCC
*
52318 CAACCCCAAATTC
1 AAACCCCAAATTC
52331 ATAATGCATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (35 bp):
AAACCCCAAATTCCAAAATACTTCAATTACATGCC
Found at i:52765 original size:146 final size:146
Alignment explanation
Indices: 52493--52784 Score: 469
Period size: 146 Copynumber: 2.0 Consensus size: 146
52483 AAATACTCAA
*
52493 TTCAGTTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGACTC-AAATTTTTTCGATTTCAGTTTATAAAATTTAAATCAAGTC
* * *
52558 AAATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATGTATCATATTATAATAT
65 AAATTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATTATAAATATGTATAATACTATAATAT
52623 TATTTGATTCTAATTTAG
130 TATTTGA-TCTAATTTAG
* ** *
52641 TTCAGTTTATAAAATAGTTGACTC-GATTTTTTTTATTTCAGTTTATAAAATTTAAATCAAGTCG
1 TTCAGTTTATAAAATAGTTGACTCAAATTTTTTCGATTTCAGTTTATAAAATTTAAATCAAGTCA
* *
52705 AATTGAATTGAATTTTTGAGTTTCTATTTAAATTTAATTATAAATATTTATAATACTATAATATT
66 AATTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATTATAAATATGTATAATACTATAATATT
52770 ATTTGATCTAATTTA
131 ATTTGATCTAATTTA
52785 AATAGTTTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
145 9 0.07
146 101 0.75
148 24 0.18
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (146 bp):
TTCAGTTTATAAAATAGTTGACTCAAATTTTTTCGATTTCAGTTTATAAAATTTAAATCAAGTCA
AATTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATTATAAATATGTATAATACTATAATATT
ATTTGATCTAATTTAG
Found at i:53325 original size:36 final size:35
Alignment explanation
Indices: 53285--53365 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
53275 GGGGTTAGAC
** *
53285 ATGTAATTGAAGTATTTTTGGAATTT-GAGGTTTATA
1 ATGTAATTGAAACA-TTTTGGAATTTAG-GGTTTAAA
*
53321 ATGTAAGTGAAACATTTTGGAATTTAGGGTTTAAA
1 ATGTAATTGAAACATTTTGGAATTTAGGGTTTAAA
53356 ATGTAATTGA
1 ATGTAATTGA
53366 TAATTGTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.69
36 12 0.31
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (35 bp):
ATGTAATTGAAACATTTTGGAATTTAGGGTTTAAA
Found at i:57910 original size:31 final size:31
Alignment explanation
Indices: 57872--57952 Score: 153
Period size: 31 Copynumber: 2.6 Consensus size: 31
57862 AAAAAAAAAA
57872 TTGTTCATGTTCGTTCATTAAGGAATATAGC
1 TTGTTCATGTTCGTTCATTAAGGAATATAGC
57903 TTGTTCATGTTCGTTCATTAAGGAATATAGC
1 TTGTTCATGTTCGTTCATTAAGGAATATAGC
*
57934 TTGTTCATGTTCATTCATT
1 TTGTTCATGTTCGTTCATT
57953 TAAATGATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (31 bp):
TTGTTCATGTTCGTTCATTAAGGAATATAGC
Found at i:57991 original size:14 final size:14
Alignment explanation
Indices: 57972--58002 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57962 AACGAACGTA
57972 AACGAACACAAACG
1 AACGAACACAAACG
*
57986 AACGAACATAAACG
1 AACGAACACAAACG
58000 AAC
1 AAC
58003 ATAATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:57997 original size:24 final size:23
Alignment explanation
Indices: 57959--58026 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
57949 CATTTAAATG
*
57959 ATAAACGAACGTAAACGAACACA
1 ATAAACGAACATAAACGAACACA
*
57982 A-ACGAACGAACATAAACGAACATA
1 ATA--AACGAACATAAACGAACACA
*
58006 ATAAATGAACATAAACGAACA
1 ATAAACGAACATAAACGAACA
58027 ACACAAACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.03
23 18 0.46
24 19 0.49
25 1 0.03
ACGTcount: A:0.59, C:0.19, G:0.12, T:0.10
Consensus pattern (23 bp):
ATAAACGAACATAAACGAACACA
Found at i:58318 original size:24 final size:26
Alignment explanation
Indices: 58289--58340 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
58279 GCCCTCTGTT
**
58289 CGAACATAAATGAACATA-AAT-GAA
1 CGAACATAAACAAACATATAATCGAA
58313 CGAACATAAACAAACATATAATCGAA
1 CGAACATAAACAAACATATAATCGAA
58339 CG
1 CG
58341 TTCACGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 3 0.12
26 5 0.21
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (26 bp):
CGAACATAAACAAACATATAATCGAA
Found at i:61246 original size:20 final size:22
Alignment explanation
Indices: 61221--61261 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61211 ATTTGATTAT
61221 TTAAAAA-AT-TTATTTAAAAA
1 TTAAAAATATATTATTTAAAAA
*
61241 TTAAAAATATATTTTTTAAAA
1 TTAAAAATATATTATTTAAAA
61262 GAACATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAATATATTATTTAAAAA
Found at i:64764 original size:231 final size:219
Alignment explanation
Indices: 64350--64793 Score: 523
Period size: 223 Copynumber: 2.0 Consensus size: 219
64340 ATATTCCGTT
* * * * *
64350 TGAAATGATGAAACAGAGCACGTTGATGGGAAAGCAAGAAACAGTAAATGGACATACAAGCATGA
1 TGAAATGATGAAACAGAGAACGTTGATAGGAAAGCAAGAAACAGTAAAAGAACAAACAAGCATGA
*** * * *
64415 TAATTTTTCAAATGTTGATAATCATAAGCAAAAACTTAAAACTGAATTTCATACATACAAAAAAA
66 TAATTTTTCAAATGCCAATAAGCATAAGCAAAAACTAAAAAATGAATTTCATACATACAAAAAAA
**
64480 GGAAACCAAGTAGTAACAAGTATCAAACTGCCATGGACAAATTAAATTGCACAAGGCATTTAATG
131 GGAAACCAAGTAGTAACAAACATCAAACTGCCATGGACAAATTAAATTGCACAAGGCATTT-AT-
64545 ACCACATAAAACACCAGTGAACACCATC
194 --CACATAAAACACCAGTGAACACCATC
* * * *
64573 TGAAATGATGAAACAGAGAAGGTTGA-AGGAAACGCGAGAAAGAGTAAAAGAAGAAACAAGCATG
1 TGAAATGATGAAACAGAGAACGTTGATAGGAAA-GCAAGAAACAGTAAAAGAACAAACAAGCATG
* * *
64637 ATATTTTTTTCAAATGCCAATAAGCATAAGCAAAAACTCAAAAAATGAATTTCATATATACAAAT
65 ATA-ATTTTTCAAATGCCAATAAGCATAAGCAAAAACT-AAAAAATGAATTTCATACATACAAAA
* * * *
64702 GAAGGAAACCATATGTAAGTAGTAACAAACGTCAAATTGCCA-GAGACAAATTAATTTGCACAAG
128 AAAGGAAACC------AAGTAGTAACAAACATCAAACTGCCATG-GACAAATTAAATTGCACAAG
*
64766 GCATTTATCACATAAAACGCCAGTGAAC
186 GCATTTATCACATAAAACACCAGTGAAC
64794 TCAAGTGAAG
Statistics
Matches: 186, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
222 5 0.03
223 52 0.28
224 29 0.16
225 31 0.17
227 19 0.10
230 3 0.02
231 47 0.25
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (219 bp):
TGAAATGATGAAACAGAGAACGTTGATAGGAAAGCAAGAAACAGTAAAAGAACAAACAAGCATGA
TAATTTTTCAAATGCCAATAAGCATAAGCAAAAACTAAAAAATGAATTTCATACATACAAAAAAA
GGAAACCAAGTAGTAACAAACATCAAACTGCCATGGACAAATTAAATTGCACAAGGCATTTATCA
CATAAAACACCAGTGAACACCATC
Found at i:73910 original size:11 final size:11
Alignment explanation
Indices: 73894--73918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73884 TTCCTTTTGG
73894 TTTATTTAATA
1 TTTATTTAATA
73905 TTTATTTAATA
1 TTTATTTAATA
73916 TTT
1 TTT
73919 CTTATCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:78465 original size:16 final size:16
Alignment explanation
Indices: 78439--78500 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
78429 AGATCCAATC
78439 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAAGAA
78454 AAGAAGCAAAAAAGCAA
1 AAGAAGCAAAAAAG-AA
* *
78471 AA-AAACAAAGAA-AA
1 AAGAAGCAAAAAAGAA
*
78485 AAG-AG-AAACAAGAA
1 AAGAAGCAAAAAAGAA
78499 AA
1 AA
78501 AAAATCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 5 0.13
14 9 0.23
15 5 0.13
16 16 0.41
17 4 0.10
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (16 bp):
AAGAAGCAAAAAAGAA
Found at i:78481 original size:29 final size:30
Alignment explanation
Indices: 78448--78518 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
78438 CAAGAACAAA
*
78448 AAAGAAAAGAAGCA-AAA-AAGCAAAAAAA-C
1 AAAGAAAA-AAG-AGAAACAAGAAAAAAAATC
78477 AAAGAAAAAAGAGAAACAAGAAAAAAAATC
1 AAAGAAAAAAGAGAAACAAGAAAAAAAATC
*
78507 AAAAAGAAAAAG
1 AAAGA-AAAAAG
78519 GGACAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 1 0.03
28 6 0.17
29 18 0.50
30 5 0.14
31 6 0.17
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.01
Consensus pattern (30 bp):
AAAGAAAAAAGAGAAACAAGAAAAAAAATC
Found at i:79326 original size:22 final size:21
Alignment explanation
Indices: 79293--79344 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 21
79283 GCTACCCCAT
79293 CAAACCGTTGAGCATCAAATGC
1 CAAACC-TTGAGCATCAAATGC
79315 CAAACCTATGAGCATCAAATGC
1 CAAACCT-TGAGCATCAAATGC
79337 CAAACCTT
1 CAAACCTT
79345 TGACCAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.19
Consensus pattern (21 bp):
CAAACCTTGAGCATCAAATGC
Found at i:80391 original size:36 final size:36
Alignment explanation
Indices: 80307--80563 Score: 253
Period size: 36 Copynumber: 7.3 Consensus size: 36
80297 ATTGAACACA
* * *
80307 TTTCCCTTGAAATAAATTTCGTCTCTCTT-AGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
80342 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
80378 TTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
80414 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* * * *
80443 TTTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * *
80479 TTTCTTTTGGAACCAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTT-GAAACAAATTTTGTCTCTCTTGAGACAG
* * ** *
80516 TTTCTCTTGAAATAAATTCCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
80552 TTTCCCTTGAAA
1 TTTCCCTTGAAA
80564 TAAAATCTTC
Statistics
Matches: 182, Mismatches: 29, Indels: 21
0.78 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 28 0.15
36 98 0.54
37 33 0.18
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:80554 original size:138 final size:138
Alignment explanation
Indices: 80263--80611 Score: 380
Period size: 138 Copynumber: 2.5 Consensus size: 138
80253 CAAAAAAATT
* * * * * * * * * *
80263 TCTCCCTTGAGACAGTTTCTCTTGAACCATAAACATT-GAACACATTTCCCTTGAAATAAATTTC
1 TCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTCGAATATATTTCCCCTAAAACAAATTTT
* * * ** * *
80327 GTCTCTCTT-AGATAGTTTCCCTT-GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAA
65 GTCTCCCTTGAGACAATTTCTTTTGGAACCAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTAAAA
**
80390 CAAATTTTG
130 CAAATTCCG
* * * ** *
80399 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCTTTGAAACAAATTTTG
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTCGAATATATTTCCCCTAAAACAAATTTTG
* * *
80464 TCTCCCTTGAGACAATTTCTTTTGGAACCAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAT
66 TCTCCCTTGAGACAATTTCTTTTGGAACCAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
80529 AAATTCCG
131 AAATTCCG
* * * *
80537 TCTCTCTTGAGATAGTTTCCCTTGAAATAAAATCTTCGAATTTATTTCCCCTAAAACAAATTTTG
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTCGAATATATTTCCCCTAAAACAAATTTTG
80602 TCTCCCTTGA
66 TCTCCCTTGA
80612 AACAGTTTAT
Statistics
Matches: 177, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
135 6 0.03
136 54 0.31
137 10 0.06
138 107 0.60
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (138 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTCGAATATATTTCCCCTAAAACAAATTTTG
TCTCCCTTGAGACAATTTCTTTTGGAACCAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
AAATTCCG
Found at i:80659 original size:67 final size:68
Alignment explanation
Indices: 80565--80698 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
80555 CCCTTGAAAT
*
80565 AAAATCTTCGAATTTATTTCCCCTAAAAC-AAATTTTGTCTCCCTTGAAACAGTTTATCTTGAAA
1 AAAATCTTCGAATTTATTTCCCCTAAAACAAAATTTTGTCTCCCTTGAAACAGTTTATCATGAAA
80629 CAC
66 CAC
* * * * *
80632 AAAATCTTCGAATTTATTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAA
1 AAAATCTTCGAATTTATTTCCCCTAAAACAAAATTTTGTCTCCCTTGAAACAGTTTATCATGAAA
80697 CA
66 CA
80699 ACAGATACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 28 0.47
68 32 0.53
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (68 bp):
AAAATCTTCGAATTTATTTCCCCTAAAACAAAATTTTGTCTCCCTTGAAACAGTTTATCATGAAA
CAC
Found at i:81315 original size:106 final size:106
Alignment explanation
Indices: 81037--82343 Score: 2121
Period size: 106 Copynumber: 12.4 Consensus size: 106
81027 GGTTCTAGCT
*
81037 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
81102 CGAAGGGACCGCTGGTTGTCAATC-AACAAAATT-TC-A-TTC
66 CGAAGGGACCGCTGGTTGTCAA-CAAAC-AACTTCTCAATTTC
*
81141 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
81206 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
81247 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
81312 CGAAGGGACCGCTGATTGTCAAAAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
81353 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
81418 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
81459 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
81524 CGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
81565 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
81630 CGAAGGGACCGCTGGTTTTCAATC-AACAAAATT-TC-A-TTC
66 CGAAGGGACCGCTGGTTGTCAA-CAAAC-AACTTCTCAATTTC
*
81669 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
81734 CGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* * *
81775 AGAGTCAATTTAAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
81840 CGAAGGGACTGCTGGTTGTCAACAAACAACTTTTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
81881 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
81946 CGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
**
81987 AGAGTTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
82052 CGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
82093 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
82158 CGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* * * *
82199 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * * *
82264 CTAAGGGA-CGACTGGTTTTCAACAAACAA-TTTTCCAGTTCC
66 CGAAGGGACCG-CTGGTTGTCAACAAACAACTTCT-CAATTTC
* * * ** *
82305 AAATCCAGTTTCAACTTCACAGTGGAGGATATTGGACTC
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
82344 GGAGCAATGG
Statistics
Matches: 1137, Mismatches: 54, Indels: 22
0.94 0.04 0.02
Matches are distributed among these distances:
103 10 0.01
104 181 0.16
105 8 0.01
106 933 0.82
107 5 0.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
Found at i:82033 original size:528 final size:528
Alignment explanation
Indices: 81037--82292 Score: 2212
Period size: 528 Copynumber: 2.4 Consensus size: 528
81027 GGTTCTAGCT
*
81037 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
81102 CGAAGGGACCGCTGGTTGTCAATCAACAAAATTTCATTCAGAGTCAATTTCAACTTCACAACGAA
66 CGAAGGGACCGCTGGTTGTCAATCAACAAAATTTCATTCAGAGTCAATTTCAACTTCACAACGAA
*
81167 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAA
*
81232 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
196 CAACTTCTCAATTTCAGAGCCAATTTAAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
81297 AGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAAAAAACAACTTCTCAATTTCAGAGCCAAT
261 AGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAAAAAACAACTTCTCAATTTCAGAGCCAAT
*
81362 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
326 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGAC
*
81427 CGCTGGTTGTCAAAAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
391 CGCTGGTTGTCAAAAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
81492 AGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTC
456 AGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTC
81557 TCAATTTC
521 TCAATTTC
*
81565 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
81630 CGAAGGGACCGCTGGTTTTCAATCAACAAAATTTCATTCAGAGTCAATTTCAACTTCACAACGAA
66 CGAAGGGACCGCTGGTTGTCAATCAACAAAATTTCATTCAGAGTCAATTTCAACTTCACAACGAA
81695 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAA
*
81760 CAACTTCTCAATTTCAGAGTCAATTTAAACTTCACAACGAAGGATATTGGACT-TCAGACAACGC
196 CAACTTCTCAATTTCAGAGCCAATTTAAACTTCACAACGAAGGATATTGGACTCT-AGACAACGC
* * * * *
81824 AAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTTTCAATTTCAGAGTCAA
260 AAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAAAAAACAACTTCTCAATTTCAGAGCCAA
81889 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGA
325 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGA
* **
81954 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGTTAATTTCAACTTCACAACGAAGGATAT
390 CCGCTGGTTGTCAAAAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
82019 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTT
455 TAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTT
82084 CTCAATTTC
520 CTCAATTTC
82093 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
82158 CGAAGGGACCGCTGGTTGTCAA-CAA-ATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
66 CGAAGGGACCGCTGGTTGTCAATCAACA-AAATT-TC-A-TTCAGAGTCAATTTCAACTTCACAA
* * * * * * *
82221 CGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACAACTAAGGGACGACTGGTTTTCAA
127 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAA
82286 CAAACAA
192 CAAACAA
82293 TTTTCCAGTT
Statistics
Matches: 695, Mismatches: 28, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
526 1 0.00
527 8 0.01
528 596 0.86
529 1 0.00
530 89 0.13
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (528 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATCAACAAAATTTCATTCAGAGTCAATTTCAACTTCACAACGAA
GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAA
CAACTTCTCAATTTCAGAGCCAATTTAAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAAAAAACAACTTCTCAATTTCAGAGCCAAT
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGAC
CGCTGGTTGTCAAAAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
AGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTC
TCAATTTC
Found at i:91145 original size:2 final size:2
Alignment explanation
Indices: 91133--91167 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
91123 ATAAAACGTG
91133 AT AT A- 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
91168 TTTGGGTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104604 original size:77 final size:77
Alignment explanation
Indices: 104523--104665 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 77
104513 GGTATAATTT
* ** * *
104523 ATTTTATTAGTAAAAATATTAACATTTTAGATTGTAATTTATTTCTTAGTGAA-TCATGACATTT
1 ATTTTATTAATAAAAATATTAACATTCCAGATTATAATCTATTTCTTAGTGAACT-ATGACATTT
104587 TTTTGTGCAATCC
65 TTTTGTGCAATCC
** *
104600 ATTTTATTAATAAAAATATTAGTATTCCAGATTATAATCTATTTTTTAGTGAACTATGACATTTT
1 ATTTTATTAATAAAAATATTAACATTCCAGATTATAATCTATTTCTTAGTGAACTATGACATTTT
104665 T
66 T
104666 GACACAACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 56 0.98
78 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.48
Consensus pattern (77 bp):
ATTTTATTAATAAAAATATTAACATTCCAGATTATAATCTATTTCTTAGTGAACTATGACATTTT
TTTGTGCAATCC
Found at i:105407 original size:17 final size:17
Alignment explanation
Indices: 105385--105423 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
105375 CCTCTTATAA
105385 ATTTTAAATTACTT-TAT
1 ATTTTAAA-TACTTCTAT
*
105402 ATTTTAAATATTTCTAT
1 ATTTTAAATACTTCTAT
105419 ATTTT
1 ATTTT
105424 TTAATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAAATACTTCTAT
Found at i:105896 original size:31 final size:31
Alignment explanation
Indices: 105854--105921 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
105844 ACATTTAGTT
* *
105854 CGTTTGTAATATGGTTCCCGACGTAACCGGC
1 CGTTTGCAATATGGTCCCCGACGTAACCGGC
* *
105885 CGTTTGCAATATGGTCCCCGACGTAACTGGT
1 CGTTTGCAATATGGTCCCCGACGTAACCGGC
105916 CGTTTG
1 CGTTTG
105922 ACGTCGTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (31 bp):
CGTTTGCAATATGGTCCCCGACGTAACCGGC
Found at i:107942 original size:32 final size:32
Alignment explanation
Indices: 107901--108091 Score: 260
Period size: 32 Copynumber: 5.9 Consensus size: 32
107891 ACATAAGTAA
107901 CTGTCCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATT
* *
107933 CTGTTCATATGTCCCGAAAGACATATGTAATT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATT
*
107965 CTCTCCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATT
* *
107997 TTGTCCATATGTCCCGAAAGAAATAGGTAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAAT-T
*
108030 -TGTCCATATGTCCCGAAAGACATAGGTAAAAT
1 CTGTCCATATGTCCCGAAAGACATAGGT-AATT
* * *
108062 CTGTCTATATGTCTC-AAAGGACATCGGTAA
1 CTGTCCATATGTCCCGAAA-GACATAGGTAA
108092 CCATCGACTC
Statistics
Matches: 142, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
32 119 0.84
33 23 0.16
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (32 bp):
CTGTCCATATGTCCCGAAAGACATAGGTAATT
Found at i:110741 original size:30 final size:30
Alignment explanation
Indices: 110707--110763 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
110697 TAAACGTGCA
*
110707 GTTACGTTAGGGACCATATTGCAAACGACG
1 GTTACGTCAGGGACCATATTGCAAACGACG
* *
110737 GTTACGTCGGGGACTATATTGCAAACG
1 GTTACGTCAGGGACCATATTGCAAACG
110764 GACTAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (30 bp):
GTTACGTCAGGGACCATATTGCAAACGACG
Found at i:111036 original size:16 final size:18
Alignment explanation
Indices: 111012--111045 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
111002 TAAAATGATC
111012 TAAACATAAAATT-ATAT
1 TAAACATAAAATTCATAT
111029 TAAA-ATAAAATTCATAT
1 TAAACATAAAATTCATAT
111046 GAGATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAACATAAAATTCATAT
Found at i:111360 original size:20 final size:20
Alignment explanation
Indices: 111337--111417 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
111327 GAATTCCAAT
* **
111337 TTCACAACCCAATTTTCAAA
1 TTCACAACGCAATAGTCAAA
111357 TTCACAACGC-ATAAGTCAAA
1 TTCACAACGCAAT-AGTCAAA
*
111377 TTCGCAACGCAATAGTCAAA
1 TTCACAACGCAATAGTCAAA
111397 TTCACAACGCGAA-AGTCAAA
1 TTCACAACGC-AATAGTCAAA
111417 T
1 T
111418 GTTTTTACGC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
19 2 0.04
20 47 0.89
21 4 0.08
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (20 bp):
TTCACAACGCAATAGTCAAA
Found at i:113437 original size:14 final size:14
Alignment explanation
Indices: 113418--113457 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
113408 TTTTGATTAA
113418 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
113432 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
113446 TTGATTTGTAAA
1 TTGATTTGTAAA
113458 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:113460 original size:61 final size:64
Alignment explanation
Indices: 113376--113507 Score: 173
Period size: 66 Copynumber: 2.1 Consensus size: 64
113366 AGTTGATTAG
113376 TTTGTTTAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTAAAAGTTGA
1 TTTGTTTAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTAAAAGTTGA
** * * *
113436 TTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTG
1 TTTGTTTAA-TTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGTAAAAGTTG
113501 A
64 A
113502 TTTGTT
1 TTTGTT
113508 GTTTCTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 9 0.15
61 13 0.21
62 1 0.02
63 1 0.02
64 6 0.10
66 31 0.51
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.53
Consensus pattern (64 bp):
TTTGTTTAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTAAAAGTTGA
Found at i:114044 original size:14 final size:13
Alignment explanation
Indices: 114022--114062 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
114012 ACATTATTTT
114022 CCAAATAATGTAC
1 CCAAATAATGTAC
114035 CCATAATAATGT--
1 CCA-AATAATGTAC
*
114047 TCAAATAATGTAC
1 CCAAATAATGTAC
114060 CCA
1 CCA
114063 CAACAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 5 0.22
14 8 0.35
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (13 bp):
CCAAATAATGTAC
Found at i:114057 original size:25 final size:25
Alignment explanation
Indices: 114023--114072 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
114013 CATTATTTTC
* *
114023 CAAATAATGTACCCATAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
114048 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
114073 TAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:114199 original size:20 final size:20
Alignment explanation
Indices: 114174--114223 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
114164 GCAACGCTTA
114174 TTTCGCGTTGCGAATTTGA-C
1 TTTCGCGTTGCGAATTT-ACC
*
114194 TTTCGCTTTGCGAATTTACC
1 TTTCGCGTTGCGAATTTACC
114214 TTTCGCGTTG
1 TTTCGCGTTG
114224 ATCACAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTACC
Found at i:114532 original size:18 final size:18
Alignment explanation
Indices: 114509--114544 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
114499 AAACTGGTTG
*
114509 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
114527 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
114545 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:116760 original size:24 final size:25
Alignment explanation
Indices: 116733--116824 Score: 102
Period size: 24 Copynumber: 3.8 Consensus size: 25
116723 CTGTTTCATC
* *
116733 ATCAAAATTC-GGGTATTGACCAAT
1 ATCAAAATTCTGAGTATTGACCAAG
116757 ATCAAAA-TCTGAGTATTGACCAAG
1 ATCAAAATTCTGAGTATTGACCAAG
* *
116781 ATC-AAAGTCTGGGTATTGACCAAG
1 ATCAAAATTCTGAGTATTGACCAAG
* *
116805 ATCAAATTTC-GAATATTGAC
1 ATCAAAATTCTGAGTATTGAC
116825 TAGTACTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.09
24 49 0.84
25 4 0.07
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (25 bp):
ATCAAAATTCTGAGTATTGACCAAG
Found at i:117274 original size:20 final size:21
Alignment explanation
Indices: 117249--117341 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
117239 TTTTCCCAAT
*
117249 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
117269 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
117290 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
117310 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
117331 TCGCAATGCGA
1 TCGCAATGCGA
117342 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:117294 original size:41 final size:41
Alignment explanation
Indices: 117249--117341 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
117239 TTTTCCCAAT
117249 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
117290 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
117331 TCGCAATGCGA
1 TCGCAATGCGA
117342 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:117354 original size:41 final size:41
Alignment explanation
Indices: 117268--117402 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
117258 GAATAAGTAA
* *
117268 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
117309 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
117350 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
117391 TTCGCAACGCGA
1 ATCGCAACGCGA
117403 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:117355 original size:20 final size:20
Alignment explanation
Indices: 117330--117424 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
117320 AATTGGGAAA
*
117330 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
117350 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
117371 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
117391 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
117411 TTCGCAACGCGATA
1 ATCGCAACGCGATA
117425 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:117944 original size:20 final size:20
Alignment explanation
Indices: 117919--117956 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117909 CGATTCTCTC
117919 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
117939 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
117957 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:119298 original size:18 final size:18
Alignment explanation
Indices: 119277--119321 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
119267 TCCACTTCGG
*
119277 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
119295 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
119313 GAGCCATCA
1 GAGCCATCA
119322 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:119857 original size:19 final size:20
Alignment explanation
Indices: 119803--119869 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
119793 TAGTTTACTT
* *
119803 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
119823 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
119843 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
119862 TCGCAACG
1 TCGCAACG
119870 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:119877 original size:14 final size:14
Alignment explanation
Indices: 119858--119915 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
119848 ATGCGAAATG
119858 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
119872 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
119888 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
119904 AAAATCGCAACG
1 AAAATCGCAACG
119916 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:119900 original size:32 final size:33
Alignment explanation
Indices: 119842--119932 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
119832 GGAAATGGCT
*
119842 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
119875 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
119907 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
119933 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:119926 original size:19 final size:19
Alignment explanation
Indices: 119803--119937 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
119793 TAGTTTACTT
* **
119803 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
119823 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
119843 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
119862 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
119876 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
119894 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
119908 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
119927 TCGCAATGCGA
1 TCGCAACGCGA
119938 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:119968 original size:14 final size:14
Alignment explanation
Indices: 119949--120006 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
119939 TTGTGTTTCG
119949 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
119963 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
119979 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
119995 CGTTGCGATTTT
1 CGTTGCGATTTT
120007 CATTCCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:119983 original size:32 final size:33
Alignment explanation
Indices: 119944--120022 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
119934 GCGATTTGTG
119944 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
119976 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
120009 TTCCGCGTTGCGAT
1 TTTCGCGTTGCGAT
120023 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:121929 original size:14 final size:14
Alignment explanation
Indices: 121910--121945 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
121900 ATTGTTTAAT
121910 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
121924 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
121938 TGATTTGT
1 TGATTTGT
121946 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:122084 original size:19 final size:19
Alignment explanation
Indices: 122062--122129 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
122052 ATAGCAACGA
122062 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
122081 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
122100 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
122114 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
122130 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:122205 original size:20 final size:20
Alignment explanation
Indices: 122148--122205 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
122138 TCGCATTGCG
* *
122148 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
*
122168 ATTTTCGTGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
122188 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
122206 TCAAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:122591 original size:14 final size:14
Alignment explanation
Indices: 122572--122607 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
122562 ATTGTTTAAT
122572 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
122586 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
122600 TGATTTGT
1 TGATTTGT
122608 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:122729 original size:19 final size:19
Alignment explanation
Indices: 122705--122772 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
122695 ATCGCAACGA
122705 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
* *
122724 GAAAATCGCAATACAAAAT
1 GAAAATCGCAATGCGAAAT
*
122743 GAAAATTGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
122757 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
122773 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 1 0.02
19 27 0.66
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:122848 original size:20 final size:20
Alignment explanation
Indices: 122791--122848 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
122781 TCGCATTGCG
* *
122791 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
122811 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
122831 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
122849 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:122907 original size:643 final size:650
Alignment explanation
Indices: 121660--123036 Score: 2491
Period size: 643 Copynumber: 2.1 Consensus size: 650
121650 TGGTAAGTCA
121660 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
121725 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
121790 CTGCAGGTTAATCCTTAAGTGAGCGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCAT
131 CTGCAGGTTAATCCTTAAGTGAGCGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCAT
121855 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTATTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTATTTGATTGTTTAATTGATTTGTAA
121920 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTATGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTATGTTGAAATGTAATAG
* *
121985 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAATGCGAAATGG
326 TTGATTTGTTGATTTTCAATATGCTTCATGTTGAAGGC--AACAGA--A-C-CAA--CG-AA--G
* *
122050 CTATAGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
380 CTATAGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATACAAAATGAAAATCGCAACGAG
*
122115 AAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGTGTTG
445 AAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTTG
122180 CGATAGCCATTTTCGCGTTGCGATAGTCAAATAAATGTCTAATAAGTGATGACAACTGAACAGAT
510 CGATAGCCATTTTCGCGTTGCGATAGTCAAATAAATGTCTAATAAGTGATGACAACTGAACAGAT
*
122245 CATAGCAATGTTTAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
575 CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
122310 AAAATACACAT
640 AAAATACACAT
122321 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
122386 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
122451 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGC-GCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
*
122516 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
195 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTATTTGATTGTTTAATTGATTTGTA
*
122581 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
260 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTATGTTGAAATGTAATA
*
122646 GTTGATTTGTTGATTTTCAATATGCTTCATGTTGAAGGC-A-AG-A-C-A-G-A-CTATCGCAAC
325 GTTGATTTGTTGATTTTCAATATGCTTCATGTTGAAGGCAACAGAACCAACGAAGCTATAGCAAC
*
122703 GAGAAAATCGCAATGCGAAATGAAAATCGCAATACAAAATGAAAATTGCAACGAGAAAATCGCAA
390 GAGAAAATCGCAATGCGAAATGAAAATCGCAATACAAAATGAAAATCGCAACGAGAAAATCGCAA
122768 TGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGCCAT
455 TGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGCCAT
*
122833 TTTCGCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCAATG
520 TTTCGCGTTGCGATAGTCAAATAAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCAATG
122898 TTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACA
585 TTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACA
122963 T
650 T
122964 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
123029 TCAATAAT
66 TCAATAAT
123037 AATTGTTAAA
Statistics
Matches: 704, Mismatches: 11, Indels: 20
0.96 0.01 0.03
Matches are distributed among these distances:
643 337 0.48
646 1 0.00
648 1 0.00
651 1 0.00
652 1 0.00
655 1 0.00
658 2 0.00
659 1 0.00
661 154 0.22
662 205 0.29
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (650 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCAT
TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTATTTGATTGTTTAATTGATTTGTAA
AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTATGTTGAAATGTAATAG
TTGATTTGTTGATTTTCAATATGCTTCATGTTGAAGGCAACAGAACCAACGAAGCTATAGCAACG
AGAAAATCGCAATGCGAAATGAAAATCGCAATACAAAATGAAAATCGCAACGAGAAAATCGCAAT
GCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGCCATT
TTCGCGTTGCGATAGTCAAATAAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCAATGT
TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
Found at i:126480 original size:14 final size:14
Alignment explanation
Indices: 126461--126515 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
126451 GCGAAATGAA
126461 AATCGCAACAAGAG
1 AATCGCAACAAGAG
*
126475 AATCGCAATGCGAAATGAA
1 AATCGCAA--C--AA-GAG
126494 AATCGCAACAAGAG
1 AATCGCAACAAGAG
126508 AATCGCAA
1 AATCGCAA
126516 TGTGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACAAGAG
Found at i:126602 original size:33 final size:33
Alignment explanation
Indices: 126443--126601 Score: 241
Period size: 33 Copynumber: 4.8 Consensus size: 33
126433 GGAAATTACT
126443 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
126476 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
* **
126509 ATCGCAATGTGAAATGAAAATCGCAAC--GCTA
1 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
* *
126540 ATTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 A--TCGCAATGCGAAATGAAAATCGCAACAAGAGA
126575 ATCGCAATGCGAAATGAAAATCGCAAC
1 ATCGCAATGCGAAATGAAAATCGCAAC
126602 GCGAATTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
31 3 0.03
33 110 0.95
35 3 0.03
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
Found at i:126624 original size:19 final size:20
Alignment explanation
Indices: 126602--126644 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
126592 AAATCGCAAC
126602 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
126621 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
126641 GCGA
1 GCGA
126645 TTCTCTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:126804 original size:14 final size:14
Alignment explanation
Indices: 126785--126821 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
126775 CATCAATTAA
126785 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
126799 ACAAATCACCTTTT
1 ACAAATCAACTTTT
126813 ACAAATCAA
1 ACAAATCAA
126822 TTAAACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:128250 original size:21 final size:21
Alignment explanation
Indices: 128184--128250 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
128174 GTGAATCGGG
*
128184 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
128204 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
128226 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
128247 CTCT
1 CTCT
128251 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:128269 original size:42 final size:41
Alignment explanation
Indices: 128184--128306 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
128174 GTGAATCGGG
* * * * *
128184 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
128226 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
128268 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
128307 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:130424 original size:19 final size:19
Alignment explanation
Indices: 130307--130471 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
130297 TCTTTTGGTT
*
130307 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
130326 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
130346 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
130364 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
130380 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
130398 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
130413 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
130432 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
130451 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
130470 GA
1 GA
130472 TTTTGGTTTC
Statistics
Matches: 121, Mismatches: 13, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.16
15 3 0.02
16 2 0.02
17 1 0.01
18 4 0.03
19 63 0.52
20 27 0.22
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:130444 original size:38 final size:36
Alignment explanation
Indices: 130307--130471 Score: 153
Period size: 33 Copynumber: 4.6 Consensus size: 36
130297 TCTTTTGGTT
*
130307 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCG--AA-GAGAATCGCAACGC
**
130346 GGAAATGACTATCGCAA--CG-AGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAGAGAATCGCAACGC
** * *
130380 GAAATGACTATCGCGAC-C--AGACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAGAGAATCGCAACGC
*
130413 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCG-AA-GAGAATCGCAACGC
*
130451 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
130472 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
33 43 0.39
34 16 0.15
35 1 0.01
37 2 0.02
38 33 0.30
40 14 0.13
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGCGAAGAGAATCGCAACGC
Found at i:131071 original size:20 final size:20
Alignment explanation
Indices: 131046--131098 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
131036 ACGCTATGTA
131046 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
131066 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
131086 TATCTCGTTGCGA
1 AATCGCGTTGCGA
131099 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:131132 original size:20 final size:20
Alignment explanation
Indices: 131107--131160 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
131097 GATTTTGTAT
131107 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
131127 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
131147 TATCGCATTGCGAT
1 TATCGCATTGCGAT
131161 TTTCTCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:131179 original size:61 final size:61
Alignment explanation
Indices: 131047--131181 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
131037 CGCTATGTAA
* * * * * * *
131047 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCTAAT
* * *
131108 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCT-AAT
131170 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
131182 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCTAAT
Found at i:131193 original size:20 final size:21
Alignment explanation
Indices: 131149--131200 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
131139 ATAGTCAGTA
*
131149 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACTCAAT
* *
131170 TCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTCAAT
131190 TCGCATTGCGA
1 TCGCATTGCGA
131201 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTACTCAAT
Found at i:137807 original size:28 final size:30
Alignment explanation
Indices: 137754--137813 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
137744 GTTGTTTCAA
* *
137754 AATTTTTGTATGTTTTTAATATAAAATTTT
1 AATTTTTGTATATTTTAAATATAAAATTTT
137784 AATTTTT-TATATTTTAAATA-AAAATTTT
1 AATTTTTGTATATTTTAAATATAAAATTTT
137812 AA
1 AA
137814 AATTATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 11 0.39
30 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
AATTTTTGTATATTTTAAATATAAAATTTT
Found at i:138988 original size:2 final size:2
Alignment explanation
Indices: 138981--139011 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
138971 TGTTTTCATT
138981 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
139012 TTAAATTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:139157 original size:29 final size:30
Alignment explanation
Indices: 139118--139176 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
139108 TTACGGAATA
*
139118 AAACGTTAAACACTAATCTA-AAATAAAAT
1 AAACGTTAAACACTAAACTAGAAATAAAAT
139147 AAACGTTAAACACTAAACTAGAAATAAAAT
1 AAACGTTAAACACTAAACTAGAAATAAAAT
139177 TATACGTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (30 bp):
AAACGTTAAACACTAAACTAGAAATAAAAT
Found at i:140136 original size:31 final size:30
Alignment explanation
Indices: 140065--140139 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
140055 ATTGGAATGT
* *
140065 AAGTTTTGAAAGTTTAGGGATTAAAGTATA
1 AAGTTTTAAAAGTTTAAGGATTAAAGTATA
* *
140095 AAGTTATAAAAGTTTAAGGATTAAAAGTATT
1 AAGTTTTAAAAGTTTAAGGATT-AAAGTATA
* *
140126 CATTTTTAAAAGTT
1 AAGTTTTAAAAGTT
140140 AAATTTTGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.39
Consensus pattern (30 bp):
AAGTTTTAAAAGTTTAAGGATTAAAGTATA
Found at i:141353 original size:13 final size:13
Alignment explanation
Indices: 141319--141358 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
141309 GACCGAAAAA
*
141319 ACATATATATTTAT
1 ACATATATATAT-T
141333 ACAT-TATATATT
1 ACATATATATATT
141345 ACATATATATATT
1 ACATATATATATT
141358 A
1 A
141359 TATAAGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 15 0.62
14 4 0.17
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
ACATATATATATT
Found at i:142715 original size:21 final size:21
Alignment explanation
Indices: 142678--142721 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
142668 CGTTCATTAA
*
142678 TTATTTATTCCATTTTTA-TT
1 TTATTTATTCCACTTTTACTT
*
142698 TTATTTATTTCCCCTTTTACTT
1 TTATTTA-TTCCACTTTTACTT
142720 TT
1 TT
142722 TACTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTCCACTTTTACTT
Found at i:143106 original size:17 final size:17
Alignment explanation
Indices: 143081--143114 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
143071 AGTCATATTT
*
143081 CATTCTTTTTTTGTATA
1 CATTCTTTTTTTATATA
*
143098 CATTGTTTTTTTATATA
1 CATTCTTTTTTTATATA
143115 TTATTTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (17 bp):
CATTCTTTTTTTATATA
Found at i:155300 original size:105 final size:105
Alignment explanation
Indices: 154308--155293 Score: 1756
Period size: 105 Copynumber: 9.4 Consensus size: 105
154298 CAGGTTTTAC
154308 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
154373 GACGAAGGGACCGCTGGTTGTCGACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
154413 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
154478 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
*
154518 TCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
154583 GACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
* * *
154623 TCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAGCTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
154688 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
*
154728 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
154793 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
154833 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
154898 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
* *
154938 TCAGAGCCATTTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
155003 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
* *
155043 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAGCTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
155108 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
* * *
155148 TCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACCTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
* *
155213 GACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
* * *** *
155253 TCAGAGCTAGTTTCAACTTCACGGTGGAGGATATTGGACTC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
155294 GGGACAATAC
Statistics
Matches: 849, Mismatches: 32, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 849 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
Found at i:155585 original size:13 final size:13
Alignment explanation
Indices: 155553--155594 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
155543 CCGAAAAAAC
155553 ATATATAT-TTAT
1 ATATATATATTAT
*
155565 ACATTATATATTAT
1 ATA-TATATATTAT
155579 ATATATATATTAT
1 ATATATATATTAT
155592 ATA
1 ATA
155595 AGTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 2 0.08
13 18 0.69
14 6 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATATTAT
Found at i:155585 original size:20 final size:20
Alignment explanation
Indices: 155556--155594 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
155546 AAAAAACATA
*
155556 TATATTTATACATTATATAT
1 TATATATATACATTATATAT
*
155576 TATATATATATATTATATA
1 TATATATATACATTATATA
155595 AGTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATATATACATTATATAT
Found at i:156943 original size:21 final size:21
Alignment explanation
Indices: 156906--156949 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
156896 CATTCATTAA
*
156906 TTATTTATTCCATTTTTA-TT
1 TTATTTATTCCACTTTTACTT
*
156926 TTATTTATTTCCCCTTTTACTT
1 TTATTTA-TTCCACTTTTACTT
156948 TT
1 TT
156950 TACTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTCCACTTTTACTT
Found at i:159542 original size:3 final size:3
Alignment explanation
Indices: 159534--159600 Score: 97
Period size: 3 Copynumber: 23.3 Consensus size: 3
159524 TTTGTCTGGG
159534 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
159581 TATA TT- TTA TT- TTA TT- TTA T
1 T-TA TTA TTA TTA TTA TTA TTA T
159601 AGGCCCCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 8 0.14
3 48 0.81
4 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:159746 original size:20 final size:20
Alignment explanation
Indices: 159721--159759 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
159711 TGGAGTCAGT
*
159721 TGCAAGACCCGGAGCCCAAA
1 TGCAAGACCCGAAGCCCAAA
*
159741 TGCAAGACTCGAAGCCCAA
1 TGCAAGACCCGAAGCCCAA
159760 GATCCGACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.23, T:0.08
Consensus pattern (20 bp):
TGCAAGACCCGAAGCCCAAA
Found at i:162009 original size:21 final size:21
Alignment explanation
Indices: 161943--162058 Score: 135
Period size: 21 Copynumber: 5.5 Consensus size: 21
161933 ACTATGTAAA
* *
161943 TCGCAATGTGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
161964 TCGCATTGCGATTGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
161984 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAGT
*
162006 TCGCATTACGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
162027 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
162048 TCGCGTTGCGA
1 TCGCATTGCGA
162059 ATCTGGAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 3 0.04
21 75 0.93
22 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:162520 original size:60 final size:60
Alignment explanation
Indices: 162444--162558 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
162434 TAGTTATTTG
* *
162444 ATTATAGGGCACTATTTTA-TGTAATTGATT-AACTATTAAAAGTTATAAAGTGATCTTCTA
1 ATTATAGGGCACTATTTTAGTG-AATT-ATTCAACTATTAAAAGTTACAAAATGATCTTCTA
* * * *
162504 ATTATAGGGTATTATTTTAGTGAGTTATTCGACTATTAAAAGTTACAAAATGATC
1 ATTATAGGGCACTATTTTAGTGAATTATTCAACTATTAAAAGTTACAAAATGATC
162559 ACTCGACTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.06
60 42 0.89
61 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (60 bp):
ATTATAGGGCACTATTTTAGTGAATTATTCAACTATTAAAAGTTACAAAATGATCTTCTA
Found at i:163209 original size:2 final size:2
Alignment explanation
Indices: 163202--163234 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
163192 CTTCAATTCT
163202 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
163235 GAGTAGATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Done.