Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003755.1 Hibiscus syriacus cultivar Beakdansim tig00008047_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: 138618
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:754 original size:17 final size:17
Alignment explanation
Indices: 717--750 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
707 TGCGGTTACT
717 ATTTACGTGAATAGTAA
1 ATTTACGTGAATAGTAA
734 ATTT-CGTGAATAGTAA
1 ATTTACGTGAATAGTAA
750 A
1 A
751 ATTTGGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTAA
Found at i:4844 original size:54 final size:54
Alignment explanation
Indices: 4710--4888 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
4700 CAAGACCGGC
* ** *
4710 GGTCCAAGTTCCGGAGGAAAATGTCATGCATTCGTTGACGCTTTC-TCCAAGTCAT
1 GGTCCAAGTTCCGGAGGAAAAGGTCATGCATTCGTTGACGCAGTCAT-CAACTC-T
* * * *
4765 GAGGTCCAAGTTCCGGAGGACAAGGTCATGCATTTGTTGATGCCGTCATCAACTCT
1 --GGTCCAAGTTCCGGAGGAAAAGGTCATGCATTCGTTGACGCAGTCATCAACTCT
* * *
4821 GGTCCAAGTTCCGGAGGAGAAGGTCATGCATTCATTGACGCAGTCACCAACTCT
1 GGTCCAAGTTCCGGAGGAAAAGGTCATGCATTCGTTGACGCAGTCATCAACTCT
4875 GGTCCAAGTTCCGG
1 GGTCCAAGTTCCGG
4889 TGGTGATGGA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
54 62 0.57
56 1 0.01
57 44 0.41
58 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (54 bp):
GGTCCAAGTTCCGGAGGAAAAGGTCATGCATTCGTTGACGCAGTCATCAACTCT
Found at i:5288 original size:38 final size:38
Alignment explanation
Indices: 5241--5314 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
5231 TTATTTTATA
* *
5241 TTTTGATTATTGGTACTTGCAGTTACAAGTCTAATTTT
1 TTTTGATTATTGGTACTTGCAATTACAAGTATAATTTT
* *
5279 TTTTTATTATTGGTACTTTCAATTACAAGTATAATT
1 TTTTGATTATTGGTACTTGCAATTACAAGTATAATT
5315 ATAAGTACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.51
Consensus pattern (38 bp):
TTTTGATTATTGGTACTTGCAATTACAAGTATAATTTT
Found at i:7044 original size:18 final size:17
Alignment explanation
Indices: 7021--7054 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7011 CGAGATCATA
*
7021 ATATTATTTTTTCATATT
1 ATATTATATTTT-ATATT
7039 ATATTATATTTTATAT
1 ATATTATATTTTATAT
7055 AAATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:8794 original size:18 final size:20
Alignment explanation
Indices: 8771--8818 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
8761 ACGAGTTCTA
*
8771 AATTTTTTAATTTATTA-T-
1 AATTTTTTAATTAATTACTG
**
8789 AATTTTAAAATTAATTACTG
1 AATTTTTTAATTAATTACTG
8809 AATTTTTTAA
1 AATTTTTTAA
8819 AAAAATTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 1 0.04
20 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTTTTTAATTAATTACTG
Found at i:24394 original size:8 final size:8
Alignment explanation
Indices: 24381--24419 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
24371 CATTTTCAGG
24381 GAATTTGA
1 GAATTTGA
24389 GAATTT-A
1 GAATTTGA
* *
24396 GAGTTTGG
1 GAATTTGA
24404 GAATTTGA
1 GAATTTGA
24412 GAATTTGA
1 GAATTTGA
24420 AAGATTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
GAATTTGA
Found at i:24715 original size:128 final size:128
Alignment explanation
Indices: 24487--25117 Score: 1208
Period size: 128 Copynumber: 4.9 Consensus size: 128
24477 CTATAATCGG
24487 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
24552 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
24615 TTCACTATTCATATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
24680 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
24743 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
* *
24808 TATCATTGTCCTATTATGTCATTTATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
24871 TTCACTATTTATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
24936 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
24999 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
25064 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGT
25118 TTGAATAACT
Statistics
Matches: 492, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 492 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (128 bp):
TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:25569 original size:33 final size:34
Alignment explanation
Indices: 25508--25607 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
25498 AAATTTAATG
*
25508 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
25542 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
25575 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
25608 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:26179 original size:34 final size:31
Alignment explanation
Indices: 26136--26223 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
26126 TTAATAATTC
*
26136 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
26170 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
26201 TATAAAAATAATAACTATTTAAA
1 TAAAAAAATAATAATTATATAAA
26224 AAAATACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 22 0.48
33 2 0.04
34 22 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:26213 original size:31 final size:33
Alignment explanation
Indices: 26136--26214 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
26126 TTAATAATTC
* *
26136 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
26170 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
26201 TATAAAAATAATAA
1 TAAAAAAATAATAA
26215 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 16 0.40
33 2 0.05
34 22 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:26239 original size:33 final size:34
Alignment explanation
Indices: 26169--26244 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
26159 TATTATTTTA
* * *
26169 ATAAAAA-AATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
26202 ATAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAATAATAA-TATTTACATAAAAATACTAAC
26235 ATAAAAATAA
1 ATAAAAATAA
26245 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 26 0.68
34 6 0.16
35 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:27363 original size:33 final size:32
Alignment explanation
Indices: 27326--27397 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
27316 TCGGCCTCAG
* * *
27326 CCCTAGACTACCCTTGGTGTGCGGCGACCTCGA
1 CCCTAG-CGACCCTTGGTGTACGGCAACCTCGA
27359 CCCTACGCGACCCTTGGTGTACGGCAACCTCGA
1 CCCTA-GCGACCCTTGGTGTACGGCAACCTCGA
27392 CCCTAG
1 CCCTAG
27398 GCGATGCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 33 0.94
34 1 0.03
ACGTcount: A:0.17, C:0.39, G:0.25, T:0.19
Consensus pattern (32 bp):
CCCTAGCGACCCTTGGTGTACGGCAACCTCGA
Found at i:30298 original size:13 final size:13
Alignment explanation
Indices: 30282--30311 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30272 TAATTTAAAT
30282 TTTTTTAAAATAA
1 TTTTTTAAAATAA
*
30295 TTTTTTAAAATGA
1 TTTTTTAAAATAA
30308 TTTT
1 TTTT
30312 ACAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTTTAAAATAA
Found at i:35301 original size:21 final size:21
Alignment explanation
Indices: 35272--35316 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
35262 AATATGTAAA
35272 TCGCATTGCGATTTTCAAAAT
1 TCGCATTGCGATTTTCAAAAT
*
35293 TCGCGTTGCGATTTTCAAAAT
1 TCGCATTGCGATTTTCAAAAT
35314 TCG
1 TCG
35317 TCTGTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCAAAAT
Found at i:35368 original size:20 final size:20
Alignment explanation
Indices: 35345--35432 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
35335 AATTTGTAAA
* *
35345 TCGCAATACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
35365 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* ** *
35385 TCGCAACACTGAATTTTAAAT
1 TCGCAACAC-AAAAGTCAAAT
35406 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
35426 TCGCAAC
1 TCGCAAC
35433 GCGAAACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 41 0.72
21 16 0.28
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.20
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:35573 original size:22 final size:22
Alignment explanation
Indices: 35556--35598 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
35546 ACATCCGTCT
35556 CCATCTCCGACGAAATCCATCC
1 CCATCTCCGACGAAATCCATCC
*
35578 CCATCTCCGGCGAAATCCATC
1 CCATCTCCGACGAAATCCATC
35599 TATCTCCATC
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:0.26, C:0.44, G:0.12, T:0.19
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCATCC
Found at i:35576 original size:26 final size:25
Alignment explanation
Indices: 35547--35610 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 25
35537 TTTACGGCGA
35547 CATCCGTCTCCATCTCCGACGAAATC
1 CATCC-TCTCCATCTCCGACGAAATC
*
35573 CAT-C-C-CCATCTCCGGCGAAATC
1 CATCCTCTCCATCTCCGACGAAATC
*
35595 CATCTATCTCCATCTC
1 CATC-CTCTCCATCTC
35611 TCAGAGCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 19 0.59
23 1 0.03
25 2 0.06
26 10 0.31
ACGTcount: A:0.22, C:0.44, G:0.09, T:0.25
Consensus pattern (25 bp):
CATCCTCTCCATCTCCGACGAAATC
Found at i:35970 original size:20 final size:19
Alignment explanation
Indices: 35947--35991 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
35937 CTTAAATTCG
35947 CAACACGAAAATGAAAATCA
1 CAACACGAAAAT-AAAATCA
* * *
35967 CAACGCGAAACTAAAATCG
1 CAACACGAAAATAAAATCA
35986 CAACAC
1 CAACAC
35992 AGTTTTGCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.09
Consensus pattern (19 bp):
CAACACGAAAATAAAATCA
Found at i:38087 original size:42 final size:42
Alignment explanation
Indices: 38040--38138 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
38030 GATGCACCTA
** *
38040 TCATCATTCAAGAGGCGTCTCCTA-TCGTTCAAGAGGCCTC-TC
1 TCATCATTCAAGAGGCCACTCCCACT-GTTCAAGAGG-CTCATC
*
38082 TCATCA-TCGAAGAGGCCACTCCCACTGTTCAAGAGGCTCATG
1 TCATCATTC-AAGAGGCCACTCCCACTGTTCAAGAGGCTCATC
*
38124 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
38139 TCCCGTTCGC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 5 0.10
42 40 0.83
43 3 0.06
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCACTCCCACTGTTCAAGAGGCTCATC
Found at i:39620 original size:14 final size:14
Alignment explanation
Indices: 39577--39610 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
39567 TGTTTAATTA
39577 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
39591 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
39605 ATTTGT
1 ATTTGT
39611 TTAATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:39637 original size:79 final size:79
Alignment explanation
Indices: 39520--39676 Score: 271
Period size: 80 Copynumber: 2.0 Consensus size: 79
39510 TTTTACATTG
39520 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTAATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTAATTTGTA
39584 AAAGTTGATTTGTA
66 AAAGTTGATTTGTA
* * *
39598 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTAATTTGT
39663 AAAAGTTGATTTGT
65 AAAAGTTGATTTGT
39677 TGTTTTAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 17 0.23
79 19 0.26
80 38 0.51
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (79 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTAATTTGTA
AAAGTTGATTTGTA
Found at i:40148 original size:12 final size:12
Alignment explanation
Indices: 40133--40180 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
40123 AAGCCGGTTG
*
40133 TGATTGGGATTT
1 TGATTGTGATTT
*
40145 TGATTTTGATTT
1 TGATTGTGATTT
*
40157 TGATTGTGATTG
1 TGATTGTGATTT
*
40169 TGATTTTGATTT
1 TGATTGTGATTT
40181 CCTTTTGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (12 bp):
TGATTGTGATTT
Found at i:40149 original size:6 final size:6
Alignment explanation
Indices: 40140--40180 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
40130 TTGTGATTGG
* *
40140 GATTTT GATTTT GATTTT GATTGT GATTGT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
40181 CCTTTTGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (6 bp):
GATTTT
Found at i:40161 original size:18 final size:18
Alignment explanation
Indices: 40130--40180 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
40120 GTGAAGCCGG
**
40130 TTGTGATTGGGATTTTGA
1 TTGTGATTTTGATTTTGA
* *
40148 TTTTGATTTTGATTGTGA
1 TTGTGATTTTGATTTTGA
40166 TTGTGATTTTGATTT
1 TTGTGATTTTGATTT
40181 CCTTTTGCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (18 bp):
TTGTGATTTTGATTTTGA
Found at i:42397 original size:24 final size:24
Alignment explanation
Indices: 42363--42416 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
42353 CCATCACATC
42363 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
42387 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
42411 ATCAAA
1 ATCAAA
42417 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:43382 original size:20 final size:19
Alignment explanation
Indices: 43357--43401 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
43347 ATTCGTGTTA
43357 CGAATTCGAAAATCTAGTTG
1 CGAATTCGAAAATC-AGTTG
* *
43377 CGAATTTGAAATTCAGTTG
1 CGAATTCGAAAATCAGTTG
43396 CGAATT
1 CGAATT
43402 TGACTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (19 bp):
CGAATTCGAAAATCAGTTG
Found at i:43417 original size:20 final size:20
Alignment explanation
Indices: 43373--43498 Score: 148
Period size: 20 Copynumber: 6.3 Consensus size: 20
43363 CGAAAATCTA
* **
43373 GTTGCGAATTTGA-AATTCA
1 GTTGCGAATTTGACTATTGT
*
43392 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTGT
43412 GTTGCGAATTTGACTATTGT
1 GTTGCGAATTTGACTATTGT
* *
43432 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATTGT
***
43452 GTTGCGAATTTGACTATCAC
1 GTTGCGAATTTGACTATTGT
43472 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTAT-TGT
43492 GTTGCGA
1 GTTGCGA
43499 TTTACAAATC
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.15
20 80 0.85
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATTGT
Found at i:43513 original size:60 final size:60
Alignment explanation
Indices: 43373--43518 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 60
43363 CGAAAATCTA
* * ***
43373 GTTGCGAATTTGA-AATTC-AGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATTGT
1 GTTGCGAATTTGACAA-TCGCGTTGCGAATTTGACTATCACGTTGCGAATTTGACTATTGT
*
43432 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCACGTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACAATCGCGTTGCGAATTTGACTATCACGTTGCGAATTTGACTAT-TGT
43492 GTTGCG-ATTT-ACAAATCCGCGTTGCGA
1 GTTGCGAATTTGAC-AAT-CGCGTTGCGA
43519 TTTACAGATT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
58 2 0.03
59 22 0.29
60 51 0.68
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (60 bp):
GTTGCGAATTTGACAATCGCGTTGCGAATTTGACTATCACGTTGCGAATTTGACTATTGT
Found at i:43515 original size:20 final size:20
Alignment explanation
Indices: 43492--43558 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
43482 TGACTTCTGT
* *
43492 GTTGCGATTTACAAATCCGC
1 GTTGCGATTTACAGATTCGC
43512 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
43532 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
43552 GTTGCGA
1 GTTGCGA
43559 AATTGGAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:48164 original size:16 final size:16
Alignment explanation
Indices: 48138--48184 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
48128 ATCGAAGAGG
48138 AAAAAAG-ATAAAATA
1 AAAAAAGAATAAAATA
*
48153 AGAAAAGAATAAAATA
1 AAAAAAGAATAAAATA
* *
48169 AAAAAATAAAAAAATA
1 AAAAAAGAATAAAATA
48185 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAAAGAATAAAATA
Found at i:48178 original size:50 final size:54
Alignment explanation
Indices: 48068--48178 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
48058 AATAAATGTT
*
48068 AAATAAATCAAGGGAAGAAAAAATCAAAAAAATAAATAAAATGAAAATATATAA
1 AAATAAATCAAGGGAAGAAAAAATCAAAAAAAGAAATAAAATGAAAATATATAA
* * *
48122 AAATAAATCGAAGAGGAA-AAAAGAT-AAAATAAGAAA-AGAAT-AAAATA-A-AA
1 AAATAAATC-AAG-GGAAGAAAAAATCAAAAAAAGAAATAAAATGAAAATATATAA
48172 AAATAAA
1 AAATAAA
48179 AAAATATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
50 9 0.18
51 1 0.02
52 6 0.12
53 4 0.08
54 18 0.35
55 9 0.18
56 4 0.08
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.14
Consensus pattern (54 bp):
AAATAAATCAAGGGAAGAAAAAATCAAAAAAAGAAATAAAATGAAAATATATAA
Found at i:48189 original size:24 final size:23
Alignment explanation
Indices: 48147--48193 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
48137 GAAAAAAGAT
*
48147 AAAATAAGAAAAGAATAAAATAAA
1 AAAATAAAAAAAGAAT-AAATAAA
* *
48171 AAAATAAAAAAATATTAAATAAA
1 AAAATAAAAAAAGAATAAATAAA
48194 TTAAAGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATAAAAAAAGAATAAATAAA
Found at i:49130 original size:20 final size:20
Alignment explanation
Indices: 49105--49144 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49095 CGGTGCTCAC
*
49105 TGTTCCCGCTATTATCGGGT
1 TGTTCCCGCTATCATCGGGT
49125 TGTTCCCGCTATCATCGGGT
1 TGTTCCCGCTATCATCGGGT
49145 CGTTTGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.25, T:0.38
Consensus pattern (20 bp):
TGTTCCCGCTATCATCGGGT
Found at i:49412 original size:16 final size:18
Alignment explanation
Indices: 49376--49436 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 18
49366 AAAAAGGAAT
49376 TAATAAAATATATAATAAA
1 TAAT-AAATATATAATAAA
49395 TAATAAATA-ATAAT-AA
1 TAATAAATATATAATAAA
* *
49411 TAATATATATAT-ATATA
1 TAATAAATATATAATAAA
49428 TAA-AAATAT
1 TAATAAATAT
49437 TTCCAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 17 0.46
17 11 0.30
18 5 0.14
19 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAAATATATAATAAA
Found at i:49436 original size:10 final size:10
Alignment explanation
Indices: 49380--49436 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
49370 AGGAATTAAT
49380 AAAATATATA
1 AAAATATATA
49390 ATAAATA-ATA
1 A-AAATATATA
49400 AATAATA-ATA
1 AA-AATATATA
*
49410 ATAATATATA
1 AAAATATATA
* *
49420 TATATATATA
1 AAAATATATA
49430 AAAATAT
1 AAAATAT
49437 TTCCAAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 5 0.13
10 28 0.74
11 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATATATA
Found at i:49457 original size:36 final size:34
Alignment explanation
Indices: 49413--49529 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
49403 AATAATAATA
49413 ATAT-ATATATATATATAAAAATATTTCCAAAAACT
1 ATATAATATATATATATAAAAATATTT-C-AAAACT
**
49448 ATATAATATATATATATTCAAAAATATTTTTAAACT
1 ATATAATATATATATA-T-AAAAATATTTCAAAACT
* *
49484 ATATATTATATATTTA-AAAAATATTTTCAAAACT
1 ATATAATATATATATATAAAAATA-TTTCAAAACT
*
49518 ATATATTATATA
1 ATATAATATATA
49530 GTTTTCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
33 7 0.10
34 20 0.28
35 4 0.06
36 30 0.42
37 1 0.01
38 10 0.14
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (34 bp):
ATATAATATATATATATAAAAATATTTCAAAACT
Found at i:49462 original size:34 final size:34
Alignment explanation
Indices: 49413--49529 Score: 132
Period size: 34 Copynumber: 3.4 Consensus size: 34
49403 AATAATAATA
49413 ATATATATATATATAT-AAAAATATTTCCAAAAACT
1 ATATATATATATATATAAAAAATATTT-C-AAAACT
* **
49448 ATATAATATATATATATTCAAAAATATTTTTAAACT
1 ATAT-ATATATATATA-TAAAAAATATTTCAAAACT
*
49484 ATATAT-TATATATTTAAAAAATATTTTCAAAACT
1 ATATATATATATATATAAAAAATA-TTTCAAAACT
49518 ATATAT-TATATA
1 ATATATATATATA
49530 GTTTTCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
33 8 0.11
34 27 0.38
35 6 0.08
36 20 0.28
37 1 0.01
38 10 0.14
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (34 bp):
ATATATATATATATATAAAAAATATTTCAAAACT
Found at i:49473 original size:70 final size:70
Alignment explanation
Indices: 49399--49529 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
49389 AATAAATAAT
49399 AAATAATAATAATAATATATA-TATATATAT-AAAAATATTTCCAAAAACTATATAATATATATA
1 AAATAATAATAA-AATATATATTATATATATAAAAAATATTTCC-AAAACTATATAATATATATA
49462 TATTCAA
64 TATTCAA
* ** * * * *
49469 AAATATTTTTAAACTATATATTATATATTTAAAAAATATTTTCAAAACTATATATTATATA
1 AAATAATAATAAAATATATATTATATATATAAAAAATATTTCCAAAACTATATAATATATA
49530 GTTTTCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 7 0.13
70 34 0.65
71 11 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (70 bp):
AAATAATAATAAAATATATATTATATATATAAAAAATATTTCCAAAACTATATAATATATATATA
TTCAA
Found at i:49612 original size:39 final size:37
Alignment explanation
Indices: 49442--49794 Score: 314
Period size: 37 Copynumber: 9.8 Consensus size: 37
49432 AATATTTCCA
* * *
49442 AAAACTATATAATATATATATATTCAAAAATATTTTT
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTT
* * *
49479 -AAACTATATA-T-TATATA-TTTAAAAAATATTTTC
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTT
*
49512 AAAACTATATATTATATA-GTTTTCAAAAAAATG-TTTT
1 AAAACTATATATTATATATATTTTC--AAAAATGTTTTT
* *
49549 AAAACTATATATTAGATATGTTTTCAAAAAATGTTTTT
1 AAAACTATATATTATATATATTTTC-AAAAATGTTTTT
* **
49587 AAAACTATATATTATATAAAATTTTC-AAAAT-AATTT
1 AAAACTATATATTATAT-ATATTTTCAAAAATGTTTTT
* *
49623 ----C-A-ATATTATATA-AGTTTT-TAAAATGTTTTCA
1 AAAACTATATATTATATATA-TTTTCAAAAATGTTTT-T
*
49654 AAAACTATATATTATATATATATTTTC-AAAATGTTTTCA
1 AAAACTATATA-T-TATATATATTTTCAAAAATGTTTT-T
*
49693 AAAACTATATATTATATATATTTTC-AAAATGTTTTAA
1 AAAACTATATATTATATATATTTTCAAAAATGTTTT-T
* *
49730 AAAACTATATATTATATATATTTTC-AAAACGTTTTG
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTT
49766 AAAACTATATATTATATATA-TTTCAAAAA
1 AAAACTATATATTATATATATTTTCAAAAA
49795 CAAGAAAAAA
Statistics
Matches: 273, Mismatches: 19, Indels: 49
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.00
29 10 0.04
30 11 0.04
31 1 0.00
32 1 0.00
33 13 0.05
34 16 0.06
35 7 0.03
36 45 0.16
37 94 0.34
38 34 0.12
39 39 0.14
40 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTCAAAAATGTTTTT
Found at i:59104 original size:18 final size:18
Alignment explanation
Indices: 59073--59117 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
59063 ACAGTAATAG
* * *
59073 GTAAATAAATGATAGGTT
1 GTAAAGAAAGGATAGGCT
59091 GTAAAGAAAGGATAGGCT
1 GTAAAGAAAGGATAGGCT
59109 GTAAAGAAA
1 GTAAAGAAA
59118 TATTGGTAGG
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:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (18 bp):
GTAAAGAAAGGATAGGCT
Found at i:59129 original size:21 final size:21
Alignment explanation
Indices: 59103--59145 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59093 AAAGAAAGGA
59103 TAGGCTGTAAAGAAATATTGG
1 TAGGCTGTAAAGAAATATTGG
59124 TAGGCTGTAAAGAAATATTGG
1 TAGGCTGTAAAGAAATATTGG
59145 T
1 T
59146 TTGAACATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (21 bp):
TAGGCTGTAAAGAAATATTGG
Found at i:72061 original size:23 final size:23
Alignment explanation
Indices: 72035--72093 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
72025 CACGCAATGT
72035 TCTCTCCAGTCTCACGGAAAAAC
1 TCTCTCCAGTCTCACGGAAAAAC
* * *
72058 TCTCTCCAATCTCACGGTAAATC
1 TCTCTCCAGTCTCACGGAAAAAC
72081 TCTCTCCAGTCTC
1 TCTCTCCAGTCTC
72094 TCAACTCCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (23 bp):
TCTCTCCAGTCTCACGGAAAAAC
Found at i:72382 original size:35 final size:35
Alignment explanation
Indices: 72342--72454 Score: 226
Period size: 35 Copynumber: 3.2 Consensus size: 35
72332 CATACGGGAA
72342 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
72377 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
72412 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
72447 CATACGAG
1 CATACGAG
72455 TGCGAGCCAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.19
Consensus pattern (35 bp):
CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
Found at i:72478 original size:41 final size:41
Alignment explanation
Indices: 72433--72564 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
72423 ATGGTTCTCC
72433 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
* * *** **
72474 CCATGCAGT--G-G-AATAGAGAGGTCGTTCTCCCCATGCGAGGTCC
1 CCATGCA-TACGAGCCATA-CGA-GT-G--CGAGCCATGCGAGGTGG
72517 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
72558 CCATGCA
1 CCATGCA
72565 GTGGAATAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 3 0.04
41 27 0.40
42 2 0.03
43 20 0.30
44 3 0.04
45 3 0.04
46 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (41 bp):
CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
Found at i:72510 original size:43 final size:43
Alignment explanation
Indices: 72461--72624 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
72451 CGAGTGCGAG
72461 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
** * * ***
72504 CCATGCGAGGTCCCCATGCA-TACGAGCCATA-CGA-GT-G--CGAG
1 CCATGCGAGGTGGCCATGCAGT--G-G-AATAGAGAGGTCGTTCTCC
72545 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
72588 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCG
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCG
72625 CCATGCAGCC
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 3 0.03
41 20 0.21
42 2 0.02
43 57 0.59
44 3 0.03
45 3 0.03
46 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.35, T:0.18
Consensus pattern (43 bp):
CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
Found at i:72528 original size:84 final size:84
Alignment explanation
Indices: 72430--72607 Score: 338
Period size: 84 Copynumber: 2.1 Consensus size: 84
72420 CCAATGGTTC
72430 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
72495 TCGTTCTCCCCATGCGAGG
66 TCGTTCTCCCCATGCGAGG
72514 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
72579 TCGTTCTCCCCATGCGAGG
66 TCGTTCTCCCCATGCGAGG
**
72598 TGGCCATGCA
1 TCCCCATGCA
72608 GTGGAATAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (84 bp):
TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
TCGTTCTCCCCATGCGAGG
Found at i:72725 original size:29 final size:29
Alignment explanation
Indices: 72619--72727 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
72609 TGGAATAGAG
* *
72619 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
*
72648 AGGTCGCCATGTAGTCCCGACGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
* *
72677 AGGTCGCCATGTACTCCCGGCGACCTTAT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
72706 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
72728 CCATTCCCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 70 0.97
30 2 0.03
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:72746 original size:13 final size:13
Alignment explanation
Indices: 72728--72759 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
72718 AGTCCCGGCG
*
72728 CCATTCCCATCGT
1 CCATTCCCATCAT
72741 CCATTCCCATCAT
1 CCATTCCCATCAT
72754 CCATTC
1 CCATTC
72760 ACATGCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.47, G:0.03, T:0.31
Consensus pattern (13 bp):
CCATTCCCATCAT
Found at i:72777 original size:21 final size:21
Alignment explanation
Indices: 72751--72790 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
72741 CCATTCCCAT
72751 CATCCATTCACATGCAGCCCC
1 CATCCATTCACATGCAGCCCC
72772 CATCCATTCACATGCAGCC
1 CATCCATTCACATGCAGCC
72791 ATATAGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.45, G:0.10, T:0.20
Consensus pattern (21 bp):
CATCCATTCACATGCAGCCCC
Found at i:72941 original size:25 final size:25
Alignment explanation
Indices: 72913--72961 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
72903 TACAATTATT
*
72913 GTGAAATAATTAAGGCAGTCGGTTG
1 GTGAAATAATTAAGGCAGCCGGTTG
*
72938 GTGAAATAATTGAGGCAGCCGGTT
1 GTGAAATAATTAAGGCAGCCGGTT
72962 ATAAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (25 bp):
GTGAAATAATTAAGGCAGCCGGTTG
Found at i:73032 original size:4 final size:4
Alignment explanation
Indices: 73023--73080 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
73013 ATTGCAGCCG
** **
73023 AGAA AGAA AGAA AGGG AGAA AGGAA AGAA AGAA AGAA AGGG AGAA AGGAA
1 AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A-GAA
*
73073 AGTA AGAA
1 AGAA AGAA
73081 GAATTCGAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 34 0.81
5 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:73050 original size:17 final size:16
Alignment explanation
Indices: 73022--73053 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
73012 GATTGCAGCC
73022 GAGAAAGAAAGAAAGG
1 GAGAAAGAAAGAAAGG
73038 GAGAAAGGAAAGAAAG
1 GAGAAA-GAAAGAAAG
73054 AAAGAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAGAAAGG
Found at i:73051 original size:25 final size:25
Alignment explanation
Indices: 73023--73080 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
73013 ATTGCAGCCG
73023 AGAAAGAAAGAAAGGGAGAAAGGAA
1 AGAAAGAAAGAAAGGGAGAAAGGAA
73048 AGAAAGAAAGAAAGGGAGAAAGGAA
1 AGAAAGAAAGAAAGGGAGAAAGGAA
*
73073 AGTAAGAA
1 AGAAAGAA
73081 GAATTCGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAGAAAGGGAGAAAGGAA
Found at i:73348 original size:45 final size:47
Alignment explanation
Indices: 73286--73376 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
73276 TTATATAGTT
73286 AAAAAATAATTAATTAGTTTGTATT-GTT-AATAGTT-AGTTATATA
1 AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
* *
73330 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
73377 TGTTTGTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 6 0.15
45 17 0.41
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (47 bp):
AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
Found at i:75753 original size:17 final size:17
Alignment explanation
Indices: 75731--75763 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75721 CAATGATTTT
*
75731 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
75748 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
75764 GATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:75985 original size:14 final size:14
Alignment explanation
Indices: 75966--75994 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
75956 AATAATAACT
75966 AAATAATTATTATA
1 AAATAATTATTATA
75980 AAATAATTATTATA
1 AAATAATTATTATA
75994 A
1 A
75995 TGATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAATTATTATA
Found at i:76002 original size:12 final size:13
Alignment explanation
Indices: 75965--76457 Score: 70
Period size: 12 Copynumber: 39.8 Consensus size: 13
75955 AAATAATAAC
75965 TAAATAATTATTA
1 TAAATAATTATTA
75978 TAAAATAATTATTA
1 T-AAATAATTATTA
*
75992 T-AATGATTATTA
1 TAAATAATTATTA
* *
76004 TCAAATCATTA--C
1 T-AAATAATTATTA
* * *
76016 TAAATCATCA-AA
1 TAAATAATTATTA
* * *
76028 TCATTAAATATT-
1 TAAATAATTATTA
*
76040 TAAATCATTA-T-
1 TAAATAATTATTA
* *
76051 TAAATCATTTTTA
1 TAAATAATTATTA
*
76064 T-AATGATTATTA
1 TAAATAATTATTA
*
76076 TCAAATCATTATTA
1 T-AAATAATTATTA
*
76090 T-AATGATTATTA
1 TAAATAATTATTA
* *
76102 TCAAATCATTACTA
1 T-AAATAATTATTA
*
76116 T-AATGATTATTA
1 TAAATAATTATTA
* *
76128 TCAAATCATTA--C
1 T-AAATAATTATTA
* * *
76140 TAAATCATCA-AA
1 TAAATAATTATTA
* * *
76152 TCATTAAATATT-
1 TAAATAATTATTA
*
76164 TAAATCATTA-T-
1 TAAATAATTATTA
*
76175 TAAATCATTATTA
1 TAAATAATTATTA
*
76188 T-AATGATTATTA
1 TAAATAATTATTA
* *
76200 TCAAATCATTACTA
1 T-AAATAATTATTA
*
76214 T-AATGATTATTA
1 TAAATAATTATTA
* *
76226 TCAAATCATTA--C
1 T-AAATAATTATTA
* * *
76238 TAAATCATCA-AA
1 TAAATAATTATTA
* * *
76250 TCATTAAATATT-
1 TAAATAATTATTA
*
76262 TAAATCATTA-T-
1 TAAATAATTATTA
* *
76273 TAAATCATTTTTA
1 TAAATAATTATTA
*
76286 T-AATGATTATTAA
1 TAAATAATTATT-A
*
76299 TAAATCATTATTA
1 TAAATAATTATTA
*
76312 T-AATGATTATTA
1 TAAATAATTATTA
* *
76324 TCAAATCATTACTA
1 T-AAATAATTATTA
*
76338 T-AATGATTATTA
1 TAAATAATTATTA
* *
76350 TCAAATCATTA--C
1 T-AAATAATTATTA
*
76362 TAAATATTTATTCA
1 TAAATAATTATT-A
*
76376 T---TAAATATT-
1 TAAATAATTATTA
*
76385 TAAATCATTA-T-
1 TAAATAATTATTA
*
76396 TAAATCATTATTA
1 TAAATAATTATTA
*
76409 T-AATGATTATTA
1 TAAATAATTATTA
* *
76421 TCAAATCATTACTA
1 T-AAATAATTATTA
*
76435 T-AATGATTATTA
1 TAAATAATTATTA
*
76447 TCAAATCATTA
1 T-AAATAATTA
76458 CTAAATCATC
Statistics
Matches: 356, Mismatches: 81, Indels: 85
0.68 0.16 0.16
Matches are distributed among these distances:
9 1 0.00
11 79 0.22
12 158 0.44
13 9 0.03
14 109 0.31
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
TAAATAATTATTA
Found at i:76009 original size:26 final size:26
Alignment explanation
Indices: 75971--76457 Score: 409
Period size: 26 Copynumber: 19.7 Consensus size: 26
75961 TAACTAAATA
* *
75971 ATTATTATAAAATAATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
75997 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
76022 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
76043 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
76069 ATTATTATCAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
76095 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
76121 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
76146 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* *
76167 ATCATTATTAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
76193 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
76219 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
76244 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
76265 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
76291 ATTATTAAT-AAATCATTATTATAATG
1 ATTATT-ATCAAATCATTATTATAATG
*
76317 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
76343 ATTATTATCAAATCATTACTA-AAT-
1 ATTATTATCAAATCATTATTATAATG
* *
76367 ATTTATTCATTAAAT-A-T-TTA-AATC
1 A-TTATT-ATCAAATCATTATTATAATG
76391 ATTA-T-T-AAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
76414 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
76440 ATTATTATCAAATCATTA
1 ATTATTATCAAATCATTA
76458 CTAAATCATC
Statistics
Matches: 376, Mismatches: 55, Indels: 60
0.77 0.11 0.12
Matches are distributed among these distances:
19 4 0.01
20 2 0.01
21 13 0.03
22 10 0.03
23 58 0.15
24 22 0.06
25 30 0.08
26 235 0.62
27 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATTATCAAATCATTATTATAATG
Found at i:76127 original size:124 final size:120
Alignment explanation
Indices: 75963--76460 Score: 557
Period size: 124 Copynumber: 4.0 Consensus size: 120
75953 CTAAATAATA
* * * *
75963 ACTA-AATAATTATTATAAAATAATTATTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTA-AATGATTATTATCAAAT-ATT--TAAATCATCAA
*
76027 ATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTATCAAATCATT
62 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
*
76086 ATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTA-AATGATTATTATCAAAT-ATT--TAAATCATCAA
76151 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
62 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
* * * *
76210 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT----T
1 ACTATAATGATTATTATCAAATCATTACTAAATGAT--TATTATCAAATATTTAAATCATCAAAT
*
76271 -ATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATTATCAAATCATT
64 CATTAAAT-A--TTTA-AATCATTA-T--TAAATCATTATTATAATGATTATTATCAAATCATT
* *
76334 ACTATAATGATTATTATCAAATCATTACTAAAT-ATTTATTCATTAAATATTTAAATCATTATTA
1 ACTATAATGATTATTATCAAATCATTACTAAATGA-TTATT-ATCAAATATTTAAATC---ATCA
* * * *
76398 AATCATT--AT-TATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATT
61 AATCATTAAATATTTAA--ATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
76457 ACTA
1 ACTA
76461 AATCATCAAA
Statistics
Matches: 335, Mismatches: 18, Indels: 44
0.84 0.05 0.11
Matches are distributed among these distances:
117 7 0.02
118 2 0.01
120 4 0.01
121 7 0.02
122 11 0.03
123 62 0.19
124 216 0.64
125 12 0.04
126 8 0.02
129 2 0.01
130 1 0.00
131 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (120 bp):
ACTATAATGATTATTATCAAATCATTACTAAATGATTATTATCAAATATTTAAATCATCAAATCA
TTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
Found at i:76174 original size:98 final size:98
Alignment explanation
Indices: 76072--76337 Score: 489
Period size: 98 Copynumber: 2.7 Consensus size: 98
76062 TATAATGATT
*
76072 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
76137 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
76170 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
76235 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
* *
76268 ATTATTAAATCATTTTTATAATGATTATTAAT-AAATCATTATTATAATGATTATTATCAAATCA
1 ATTATTAAATCATTATTATAATGATTATT-ATCAAATCATTACTATAATGATTATTATCAAATCA
76332 TTACTA
65 TTACTA
76338 TAATGATTAT
Statistics
Matches: 164, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 162 0.99
99 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (98 bp):
ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATC
Found at i:76423 original size:97 final size:98
Alignment explanation
Indices: 76294--76515 Score: 392
Period size: 97 Copynumber: 2.3 Consensus size: 98
76284 TATAATGATT
*
76294 ATTAATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
** *
76359 TACTAAAT-ATTTATTCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
76391 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
76456 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
*
76489 ATTATTAAATCATTTTTATAATGATTA
1 ATTATTAAATCATTATTATAATGATTA
76516 ATAAATACAT
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 72 0.61
98 47 0.39
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (98 bp):
ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATC
Found at i:76472 original size:71 final size:69
Alignment explanation
Indices: 76322--76476 Score: 199
Period size: 71 Copynumber: 2.2 Consensus size: 69
76312 TAATGATTAT
*
76322 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTATTCATTAAATATTTA
1 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTATTCATCAAATATTTA
76387 AATC
66 AATC
* *
76391 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA-TTATT-ATCAAATC
1 --TATCAAATCATTACTATAATGATTATTATCAAATCATTACTA-AAT-ATTTATTCATCAAAT-
76454 ATTACTAAATC
61 ATT--TAAATC
76465 -ATCAAATCATTA
1 TATCAAATCATTA
76477 AATATTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
71 57 0.76
72 11 0.15
73 1 0.01
74 6 0.08
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (69 bp):
TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTATTCATCAAATATTTA
AATC
Found at i:79398 original size:26 final size:24
Alignment explanation
Indices: 79340--79398 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
79330 ACTAATAACC
*
79340 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
79364 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
79392 TAATAAT
1 TAATAAT
79399 AATGATTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:79415 original size:14 final size:14
Alignment explanation
Indices: 79340--79407 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
79330 ACTAATAACC
*
79340 TAATAATGATTTGA
1 TAATAATGATTTAA
*
79354 TAATTACT-A-TTAA
1 TAA-TAATGATTTAA
* *
79367 T-CTAATGATTTGA
1 TAATAATGATTTAA
*
79380 TATTTAATGATTTAA
1 TA-ATAATGATTTAA
79395 TAATAATGATTTA
1 TAATAATGATTTA
79408 GTCATAATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
11 3 0.07
12 1 0.02
13 8 0.20
14 14 0.34
15 15 0.37
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (14 bp):
TAATAATGATTTAA
Found at i:80239 original size:28 final size:30
Alignment explanation
Indices: 80199--80261 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
80189 ATTTTTTATA
*
80199 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
*
80229 TAATAT-A-ATATAACTTAAACTTACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
80257 TAATA
1 TAATA
80262 ATTTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:80268 original size:28 final size:28
Alignment explanation
Indices: 80203--80268 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
80193 TTTATATAAT
*
80203 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
*
80231 AT-ATAATATAACTTAAACTTACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
80259 ATAATTTATA
1 ATAATATATA
80269 CTAACAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:80632 original size:32 final size:32
Alignment explanation
Indices: 80596--80659 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
80586 GGAATCTCTG
80596 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
80628 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
80660 GCAGGACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
AGCTATGAGCTATGATGCAACGCATGCATGCA
Found at i:80760 original size:24 final size:24
Alignment explanation
Indices: 80733--80810 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
80723 CATGCACAGT
80733 TCCCACGTCCAATGCACCATCCCC
1 TCCCACGTCCAATGCACCATCCCC
* * * * * * **
80757 TCCCCCATGCATTCCACCCCATGCAT
1 TCCCACGTCCAATGCA--CCATCCCC
80783 TCCCACGTCCAATGCACCATCCCC
1 TCCCACGTCCAATGCACCATCCCC
80807 TCCC
1 TCCC
80811 CCATGCATTC
Statistics
Matches: 36, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
24 20 0.56
26 16 0.44
ACGTcount: A:0.19, C:0.54, G:0.08, T:0.19
Consensus pattern (24 bp):
TCCCACGTCCAATGCACCATCCCC
Found at i:80763 original size:26 final size:26
Alignment explanation
Indices: 80734--80813 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
80724 ATGCACAGTT
80734 CCCACGTCCAATGCACCATCCCCTCC
1 CCCACGTCCAATGCACCATCCCCTCC
* * * * * *
80760 CCCA--TGCATTCCACCCCAT-GCATTC
1 CCCACGTCCAATGCA--CCATCCCCTCC
80785 -CCACGTCCAATGCACCATCCCCTCC
1 CCCACGTCCAATGCACCATCCCCTCC
80810 CCCA
1 CCCA
80814 TGCATTCCCA
Statistics
Matches: 36, Mismatches: 12, Indels: 12
0.60 0.20 0.20
Matches are distributed among these distances:
24 13 0.36
25 6 0.17
26 17 0.47
ACGTcount: A:0.20, C:0.55, G:0.07, T:0.17
Consensus pattern (26 bp):
CCCACGTCCAATGCACCATCCCCTCC
Found at i:80849 original size:51 final size:51
Alignment explanation
Indices: 80732--80872 Score: 245
Period size: 50 Copynumber: 2.8 Consensus size: 51
80722 CCATGCACAG
80732 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATT-CCACCCCATGCA
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCA
80782 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCA
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCA
*
80833 TTCCCACGTCCCATG---CATCCCCTCCCCCATGCATTCCCAC
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCAC
80873 ATCCCATGTT
Statistics
Matches: 89, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
48 25 0.28
50 38 0.43
51 26 0.29
ACGTcount: A:0.18, C:0.53, G:0.08, T:0.21
Consensus pattern (51 bp):
TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCA
Found at i:80879 original size:65 final size:64
Alignment explanation
Indices: 80810--80945 Score: 186
Period size: 65 Copynumber: 2.1 Consensus size: 64
80800 CATCCCCTCC
*
80810 CCCATGCAT-TCCC-ACCCCATGCATTCCCACGTCCCATGCATCCCCTCCCCCATGCATTCCCAC
1 CCCATG-ATATCCCTACCCCATGCATTCCCAC--CCCATGCATCCCATCCCCCATGCATTCCCAC
80873 AT
63 AT
* * *
80875 CCCATGTTGATCCCTCCCCCATGCATTCCCACCCCATGCATCCCATCCCCCATGCATTCCCACGT
1 CCCATGAT-ATCCCTACCCCATGCATTCCCACCCCATGCATCCCATCCCCCATGCATTCCCACAT
80940 CCCATG
1 CCCATG
80946 TTGATTGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
64 1 0.02
65 43 0.67
66 4 0.06
67 16 0.25
ACGTcount: A:0.18, C:0.51, G:0.09, T:0.22
Consensus pattern (64 bp):
CCCATGATATCCCTACCCCATGCATTCCCACCCCATGCATCCCATCCCCCATGCATTCCCACAT
Found at i:80945 original size:82 final size:82
Alignment explanation
Indices: 80750--80937 Score: 240
Period size: 82 Copynumber: 2.3 Consensus size: 82
80740 TCCAATGCAC
* *
80750 CATCCCCTCCCCCATGCATT-CCACCCCATGCATTCCCACGTCCAATGCACCATCCCCTCCCCCA
1 CATCCCATCCCCCATGCATTCCCACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCCCCA
80814 TGCATTCCCACCCCATG
66 TGCATTCCCACCCCATG
* * * * ***
80831 CATTCCCA-CGTCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATG-TTGAT-CCCTCCC
1 CA-TCCCATC-CCCCATGCATTCCC-ACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCC
80893 CCATGCATTCCCACCCCATG
63 CCATGCATTCCCACCCCATG
80913 CATCCCATCCCCCATGCATTCCCAC
1 CATCCCATCCCCCATGCATTCCCAC
80938 GTCCCATGTT
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
80 1 0.01
81 20 0.22
82 43 0.48
83 4 0.04
84 22 0.24
ACGTcount: A:0.18, C:0.53, G:0.07, T:0.21
Consensus pattern (82 bp):
CATCCCATCCCCCATGCATTCCCACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCCCCA
TGCATTCCCACCCCATG
Found at i:80946 original size:65 final size:66
Alignment explanation
Indices: 80824--80950 Score: 220
Period size: 65 Copynumber: 1.9 Consensus size: 66
80814 TGCATTCCCA
*
80824 CCCCATGCATTCCCACGTCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCC
1 CCCCATGCATTCCCACG-CCCATGCATCCCATCCCCCATGCATTCCCACATCCCATGTTGATCCC
80889 TC
65 TC
*
80891 CCCCATGCATTCCCAC-CCCATGCATCCCATCCCCCATGCATTCCCACGTCCCATGTTGAT
1 CCCCATGCATTCCCACGCCCATGCATCCCATCCCCCATGCATTCCCACATCCCATGTTGAT
80951 TGCATGCATC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 42 0.72
67 16 0.28
ACGTcount: A:0.17, C:0.50, G:0.09, T:0.24
Consensus pattern (66 bp):
CCCCATGCATTCCCACGCCCATGCATCCCATCCCCCATGCATTCCCACATCCCATGTTGATCCCT
C
Found at i:80968 original size:44 final size:44
Alignment explanation
Indices: 80909--81000 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
80899 ATTCCCACCC
80909 CATGCATCCCATCCCCCATGCATTCCCACGTCCCATGTTGATTG
1 CATGCATCCCATCCCCCATGCATTCCCACGTCCCATGTTGATTG
*
80953 CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
1 CATGCATCCCATCCCCCATGCATTCCCACGTCCCATGTTGATTG
80997 CATG
1 CATG
81001 TCCCATGTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.17, C:0.41, G:0.14, T:0.27
Consensus pattern (44 bp):
CATGCATCCCATCCCCCATGCATTCCCACGTCCCATGTTGATTG
Found at i:81005 original size:18 final size:18
Alignment explanation
Indices: 80982--81018 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
80972 GCATTCCCAC
80982 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
81000 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
81018 G
1 G
81019 GCCCTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (18 bp):
GTCCCATGTTGATTGCAT
Found at i:81073 original size:29 final size:29
Alignment explanation
Indices: 81040--81128 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
81030 TAATACACAC
81040 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
81069 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
81098 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
81127 AG
1 AG
81129 ACCACTGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:85548 original size:39 final size:39
Alignment explanation
Indices: 85463--85583 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 39
85453 AATAATTATA
* * *
85463 TCAATGTAAATACTTATATTCCCAT-TCCCAGCTAAGCATT
1 TCAATGTAAATAGTTATATT--CATAACCCAGCTAAACATT
* * *
85503 TTAATGTAAATAGTGATATTCATAACCCAGTTAAACATT
1 TCAATGTAAATAGTTATATTCATAACCCAGCTAAACATT
* *
85542 TCAATGTAAGTAGTTATATTCA-AATCCCAGCAAAACATT
1 TCAATGTAAATAGTTATATTCATAA-CCCAGCTAAACATT
85581 TCA
1 TCA
85584 GTAACATTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
38 5 0.07
39 46 0.68
40 17 0.25
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (39 bp):
TCAATGTAAATAGTTATATTCATAACCCAGCTAAACATT
Found at i:88124 original size:45 final size:45
Alignment explanation
Indices: 88050--88164 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
88040 ATAGTAGCAG
* * * *
88050 CTAACTCATCTACACGAGTAGGCCTAAACACTCCCTCAACAACCC
1 CTAACCCATCTACACCAGTTGGCCCAAACACTCCCTCAACAACCC
* * *
88095 CTAACCCATTTACACTAGTTGGCCCAAACACTTCCTCAACAACCC
1 CTAACCCATCTACACCAGTTGGCCCAAACACTCCCTCAACAACCC
88140 CTAACCCATCTACACCAGTTAGGCC
1 CTAACCCATCTACACCAGTT-GGCC
88165 ACTTACACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
45 57 0.93
46 4 0.07
ACGTcount: A:0.31, C:0.40, G:0.09, T:0.20
Consensus pattern (45 bp):
CTAACCCATCTACACCAGTTGGCCCAAACACTCCCTCAACAACCC
Found at i:92292 original size:16 final size:16
Alignment explanation
Indices: 92268--92325 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
92258 CGAGTGACCC
* *
92268 GACTGGGGCTTCTTTA
1 GACTTGGGCCTCTTTA
92284 GACTTGGGCCTCTTTA
1 GACTTGGGCCTCTTTA
92300 GACTTGGGCCTCTTTA
1 GACTTGGGCCTCTTTA
92316 GACTTGGGCC
1 GACTTGGGCC
92326 ATTCTTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.12, C:0.24, G:0.29, T:0.34
Consensus pattern (16 bp):
GACTTGGGCCTCTTTA
Found at i:122603 original size:27 final size:23
Alignment explanation
Indices: 122566--122649 Score: 159
Period size: 23 Copynumber: 3.7 Consensus size: 23
122556 CTTATATCCA
122566 TTAGATTTAAATAAATAAATTAT
1 TTAGATTTAAATAAATAAATTAT
122589 TTAGATTTAAATAAATAAATTAT
1 TTAGATTTAAATAAATAAATTAT
*
122612 TTAGATTTAAATAAATAAATGAT
1 TTAGATTTAAATAAATAAATTAT
122635 TTAGATTTAAATAAA
1 TTAGATTTAAATAAA
122650 CTTTATAACC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TTAGATTTAAATAAATAAATTAT
Found at i:125383 original size:27 final size:26
Alignment explanation
Indices: 125323--125384 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 26
125313 CCAAGCCTTT
*
125323 TACTTTACTCTTTCCTATTTTGCTCAC
1 TACTTTACTC-TTCCTATTTTACTCAC
125350 TAAACTTTACTC-TCCTATTTTACTCATC
1 T--ACTTTACTCTTCCTATTTTACTCA-C
125378 GTACTTT
1 -TACTTT
125385 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
27 19 0.63
28 1 0.03
29 10 0.33
ACGTcount: A:0.19, C:0.27, G:0.03, T:0.50
Consensus pattern (26 bp):
TACTTTACTCTTCCTATTTTACTCAC
Found at i:132543 original size:112 final size:111
Alignment explanation
Indices: 132306--132543 Score: 359
Period size: 111 Copynumber: 2.1 Consensus size: 111
132296 GATACTTATA
* *
132306 ATAAAGTATCGACACTATCAACATATCTGGTAGTGCTTTACCTGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
* * *
132371 TTGTCATTTGTTTACCTGTTATATTGTTATTGATCGATACAGTTTT
66 TTGTCATTTGTTTACATGTTATATTGTTATAGATCAATACAGTTTT
* * * *
132417 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGG-
* * *
132482 TTTGTCATTTTTTTACATGTTATATTGTTATAGATCAATATATTTTT
65 TTTGTCATTTGTTTACATGTTATATTGTTATAGATCAATACAGTTTT
132529 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
132544 AAACCGACAA
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 58 0.51
112 56 0.49
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (111 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
TTGTCATTTGTTTACATGTTATATTGTTATAGATCAATACAGTTTT
Found at i:133713 original size:33 final size:32
Alignment explanation
Indices: 133676--133848 Score: 111
Period size: 33 Copynumber: 5.2 Consensus size: 32
133666 AACCCGAACA
133676 CGACCCGAATATCACACTTTAAAAAACCTGACC
1 CGACCCGAATATCACACTTTAAAAAACC-GACC
*****
133709 CGACCCGACCCA-ATTTTTTTTTAAAAAATCCGACC
1 CGACCCGA---ATATCACACTTTAAAAAA-CCGACC
* *** *
133744 CGATCCTGAAT-T--TTTTTTAAAATACACGACC
1 CGA-CCCGAATATCACACTTTAAAAAAC-CGACC
*
133775 AGACCCGAATATCACACTTTAAAAAAACCGACC
1 CGACCCGAATATCACACTTT-AAAAAACCGACC
* * *
133808 CGACCCGAATATCAAACTTAAAAAAATTCGACC
1 CGACCCGAATATCACACTTTAAAAAA-CCGACC
133841 CGACCCGA
1 CGACCCGA
133849 CCTCGAATTA
Statistics
Matches: 111, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
30 7 0.06
31 19 0.17
32 6 0.05
33 48 0.43
34 6 0.05
35 18 0.16
36 7 0.06
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (32 bp):
CGACCCGAATATCACACTTTAAAAAACCGACC
Found at i:133744 original size:30 final size:31
Alignment explanation
Indices: 133708--133765 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
133698 AAAACCTGAC
133708 CCGACCCGA-CC-CAATTTTTTTTTAAAAAAT
1 CCGACCCGATCCTCAA-TTTTTTTTAAAAAAT
*
133738 CCGACCCGATCCTGAATTTTTTTTAAAA
1 CCGACCCGATCCTCAATTTTTTTTAAAA
133766 TACACGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 9 0.36
31 14 0.56
32 2 0.08
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (31 bp):
CCGACCCGATCCTCAATTTTTTTTAAAAAAT
Found at i:133850 original size:38 final size:33
Alignment explanation
Indices: 133770--133848 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
133760 TTAAAATACA
* * *
133770 CGACCAGACCCGAATATCACACTTTAAAAAAAC
1 CGACCCGACCCGAATATCAAACTTAAAAAAAAC
**
133803 CGACCCGACCCGAATATCAAACTTAAAAAAATT
1 CGACCCGACCCGAATATCAAACTTAAAAAAAAC
133836 CGACCCGACCCGA
1 CGACCCGACCCGA
133849 CCTCGAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.33, G:0.11, T:0.14
Consensus pattern (33 bp):
CGACCCGACCCGAATATCAAACTTAAAAAAAAC
Found at i:134810 original size:23 final size:23
Alignment explanation
Indices: 134784--134831 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
134774 ATAAAGTACA
*
134784 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
134807 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
134830 AT
1 AT
134832 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:135273 original size:21 final size:22
Alignment explanation
Indices: 135203--135278 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
135193 GATAGACACT
* *
135203 TTACA-ATATAACCACTACCTA
1 TTACATATATAAACGCTACCTA
*
135224 TTACATTATATAAACGATACCTA
1 TTACA-TATATAAACGCTACCTA
**
135247 TTACAT-TATAAGGGCTACCTA
1 TTACATATATAAACGCTACCTA
135268 TTACATCATAT
1 TTACAT-ATAT
135279 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 23 0.51
22 1 0.02
23 21 0.47
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACATATATAAACGCTACCTA
Found at i:135731 original size:39 final size:39
Alignment explanation
Indices: 135673--135761 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
135663 ACTCAAGTTG
*
135673 TAGATTTTGATTTCCTTTTGCTTGGCATCATATGAGATT
1 TAGATTTTGATTTCCTTTTGCTTGGCACCATATGAGATT
* * *
135712 TGGATTTTGATTTCTTTTTGCTTGGCACCATATGAGCTT
1 TAGATTTTGATTTCCTTTTGCTTGGCACCATATGAGATT
135751 TAGATTTTGAT
1 TAGATTTTGAT
135762 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (39 bp):
TAGATTTTGATTTCCTTTTGCTTGGCACCATATGAGATT
Found at i:136038 original size:18 final size:18
Alignment explanation
Indices: 136015--136051 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
136005 GCCGAAATAT
136015 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
136033 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
136051 A
1 A
136052 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:136390 original size:25 final size:25
Alignment explanation
Indices: 136340--136390 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
136330 TTTTTCCAAA
* *
136340 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATATTCAAT
*
136365 TAATGTACCCACAACAATATTTAAT
1 TAATGTACCCACAACAATATTCAAT
136390 T
1 T
136391 GATTTGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATATTCAAT
Found at i:136678 original size:21 final size:22
Alignment explanation
Indices: 136652--136700 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
136642 GACACTTTAC
136652 ATATAACCACTACCTA-TAC-TT
1 ATATAACCA-TACCTATTACATT
*
136673 ATATAACGATACCTATTACATT
1 ATATAACCATACCTATTACATT
136695 ATATAA
1 ATATAA
136701 GGGCTACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 11 0.44
22 8 0.32
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAACCATACCTATTACATT
Found at i:136687 original size:20 final size:23
Alignment explanation
Indices: 136652--136721 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
136642 GACACTTTAC
136652 ATATAACCACTACCTA-TAC-TT
1 ATATAACCACTACCTATTACATT
*
136673 ATATAACGA-TACCTATTACATT
1 ATATAACCACTACCTATTACATT
*** *
136695 ATATAAGGGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
136718 ATAT
1 ATAT
136722 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.14
21 11 0.26
22 9 0.21
23 16 0.38
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:137058 original size:25 final size:25
Alignment explanation
Indices: 137001--137066 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
136991 CACTCAAAAG
*
137001 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
137026 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
137051 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
137067 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Done.