Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008493.1 Hibiscus syriacus cultivar Beakdansim tig00111336_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: 691020
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1366 original size:19 final size:19
Alignment explanation
Indices: 1342--1396 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1332 GAAACTTAAA
1342 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
1361 ATCGC-ACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
1380 ATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGA
1397 AATTCGCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 4 0.13
19 24 0.77
20 3 0.10
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1419 original size:14 final size:14
Alignment explanation
Indices: 1400--1451 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1390 GAAATGAAAT
1400 TCGCAACGACAAAA
1 TCGCAACGACAAAA
1414 TCGCAACG-CGAATGAAA
1 TCGCAACGAC--A--AAA
1431 TCGC-ACGACAAAA
1 TCGCAACGACAAAA
1444 TCGCAACG
1 TCGCAACG
1452 CGAAACACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 8 0.25
14 11 0.34
15 2 0.06
16 3 0.09
17 8 0.25
ACGTcount: A:0.42, C:0.29, G:0.19, T:0.10
Consensus pattern (14 bp):
TCGCAACGACAAAA
Found at i:1441 original size:30 final size:32
Alignment explanation
Indices: 1380--1455 Score: 120
Period size: 30 Copynumber: 2.4 Consensus size: 32
1370 GGAAATGGCT
*
1380 ATCGCAATGCGAAATGAAATTCGCAACGACAAA
1 ATCGCAACGCG-AATGAAATTCGCAACGACAAA
1413 ATCGCAACGCGAATGAAA-TCGC-ACGACAAA
1 ATCGCAACGCGAATGAAATTCGCAACGACAAA
1443 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1456 ACACAAATCG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 21 0.50
31 4 0.10
32 7 0.17
33 10 0.24
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.12
Consensus pattern (32 bp):
ATCGCAACGCGAATGAAATTCGCAACGACAAA
Found at i:1503 original size:14 final size:14
Alignment explanation
Indices: 1484--1540 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1474 TTTTCATTCG
1484 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1498 CGTTGC-ATTTCATTT
1 CGTTGCGATTT--TGT
1513 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1529 CGTTGCGATTTT
1 CGTTGCGATTTT
1541 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 4 0.11
14 16 0.44
15 4 0.11
16 4 0.11
17 4 0.11
18 4 0.11
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1547 original size:33 final size:33
Alignment explanation
Indices: 1468--1556 Score: 148
Period size: 31 Copynumber: 2.8 Consensus size: 33
1458 ACAAATCGCA
*
1468 TTGCGATTTTCA-TTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1500 TTGC-A-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1531 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1557 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
30 5 0.09
31 24 0.45
32 5 0.09
33 19 0.36
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1596 original size:21 final size:20
Alignment explanation
Indices: 1541--1584 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1531 TTGCGATTTT
*
1541 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
1560 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
1580 CATTT
1 CATTT
1585 TCGTGTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:2088 original size:17 final size:18
Alignment explanation
Indices: 2063--2106 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2053 GTCGATCAGA
*
2063 TGATGGCTCT-GGTGAGG
1 TGATGGCTCTGGGCGAGG
*
2080 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
2098 TGATGGCTC
1 TGATGGCTC
2107 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.14, C:0.16, G:0.43, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3403 original size:20 final size:20
Alignment explanation
Indices: 3378--3415 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3368 AATAGTTTCT
3378 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
3398 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
3416 GAGAGAATCA
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3671 original size:22 final size:22
Alignment explanation
Indices: 3646--3689 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3636 GATTTAGATA
*
3646 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGAAGATGGG
*
3668 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGCCGAAGATGGG
3690 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGAAGATGGG
Found at i:3905 original size:20 final size:20
Alignment explanation
Indices: 3877--3970 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
3867 GATTATGTAT
*
3877 TATCACGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3897 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
3917 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
3938 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3958 TATCGCATTGCGA
1 TATCGCGTTGCGA
3971 TTTTCCCAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3948 original size:21 final size:21
Alignment explanation
Indices: 3915--4015 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
3905 TGCGAAAGTA
* * *
3915 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
3936 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
3956 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
3978 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
3999 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
4016 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:3971 original size:20 final size:20
Alignment explanation
Indices: 3857--3971 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
3847 CGCTTTGAAA
*
3857 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
3878 ATCACGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
3898 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
3918 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
3939 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
3959 ATCGCATTGCGAT
1 ATCGCATTGCGAT
3972 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.66
21 23 0.31
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:3990 original size:41 final size:41
Alignment explanation
Indices: 3899--4033 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
3889 AAAGTCAGTA
* * * ** *
3899 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
3939 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
3981 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
4022 TCGCGTTGCGAT
1 TCGCGTTGCGAT
4034 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:4025 original size:21 final size:20
Alignment explanation
Indices: 3960--4052 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
3950 ATAGTCAGTA
*
3960 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
3981 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
4001 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
4022 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
4042 TCGCATTGCGA
1 TCGCATTGCGA
4053 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:4034 original size:41 final size:41
Alignment explanation
Indices: 3960--4052 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3950 ATAGTCAGTA
3960 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
4001 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
4042 TCGCATTGCGA
1 TCGCATTGCGA
4053 ATTGGGAAAA
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:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:4414 original size:65 final size:66
Alignment explanation
Indices: 4310--4469 Score: 200
Period size: 65 Copynumber: 2.4 Consensus size: 66
4300 ACCGTACTAC
* * * *
4310 TTATACACGTTTAAAACATG-TTTTTATACAATTACACCCTAAAACACTATTAAAACATAAACTT
1 TTATACACATTTAAAACATGTTTTTTATACAACTAAACCCTAAAAAACTATTAAAACATAAA-TT
4374 -T
65 AT
* * * *
4375 TTATACACATTTAAAA-ATGTTTTTTATACAACTAAACCCTAAAAAATTATTAAATCGTATATTA
1 TTATACACATTTAAAACATGTTTTTTATACAACTAAACCCTAAAAAACTATTAAAACATAAATTA
4439 T
66 T
*
4440 TTATACACATTTAAAACATATTATTTTATA
1 TTATACACATTTAAAACATGTT-TTTTATA
4470 AAAAAATTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 5 0.06
65 66 0.80
66 4 0.05
67 7 0.09
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (66 bp):
TTATACACATTTAAAACATGTTTTTTATACAACTAAACCCTAAAAAACTATTAAAACATAAATTA
T
Found at i:4582 original size:50 final size:50
Alignment explanation
Indices: 4528--4660 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 50
4518 AACATGCTGC
*
4528 TTATACACATTTAAAACATGTTGTTTATACACCATTAAA-TCTTATTATTT
1 TTATACACAATTAAAACATGTTGTTTATACACCATTAAATTC-TATTATTT
* * *
4578 TTATACACAATTAAATCCTACTATT-TTTATACACTATTAAATTCTATTATTT
1 TTATACACAATTAAA-AC-A-TGTTGTTTATACACCATTAAATTCTATTATTT
* * * *
4630 TTATGCATACTTAAAATATGTTGTTTATACA
1 TTATACACAATTAAAACATGTTGTTTATACA
4661 ATATAAAGTC
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
49 3 0.04
50 23 0.34
51 1 0.01
52 36 0.53
53 5 0.07
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.47
Consensus pattern (50 bp):
TTATACACAATTAAAACATGTTGTTTATACACCATTAAATTCTATTATTT
Found at i:4583 original size:26 final size:26
Alignment explanation
Indices: 4551--4633 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
4541 AAACATGTTG
*
4551 TTTATACACCATTAAATCTTATTATT
1 TTTATACACAATTAAATCTTATTATT
* *
4577 TTTATACACAATTAAATCCTACTATT
1 TTTATACACAATTAAATCTTATTATT
*
4603 TTTATACACTATTAAAT-TCTATTATT
1 TTTATACACAATTAAATCT-TATTATT
4629 TTTAT
1 TTTAT
4634 GCATACTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTATACACAATTAAATCTTATTATT
Found at i:4643 original size:26 final size:25
Alignment explanation
Indices: 4551--4644 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 25
4541 AAACATGTTG
*
4551 TTTATACACCATTAAA-TCTTATTATT
1 TTTATACA-TATTAAATTC-TATTATT
* * *
4577 TTTATACACAATTAAATCCTACTATT
1 TTTATACA-TATTAAATTCTATTATT
4603 TTTATACACTATTAAATTCTATTATT
1 TTTATACA-TATTAAATTCTATTATT
*
4629 TTTATGCATACTTAAA
1 TTTATACATA-TTAAA
4645 ATATGTTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.03
26 56 0.95
27 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (25 bp):
TTTATACATATTAAATTCTATTATT
Found at i:5369 original size:26 final size:26
Alignment explanation
Indices: 5326--5389 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
5316 ATGTTGTTTG
* * *
5326 TACACTATTAGATTCTACTATTTTTA
1 TACACAATTAAATCCTACTATTTTTA
5352 TACACAATTAAATCCTACTATTTTTA
1 TACACAATTAAATCCTACTATTTTTA
*
5378 TACACATTTAAA
1 TACACAATTAAA
5390 GCATATTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.44
Consensus pattern (26 bp):
TACACAATTAAATCCTACTATTTTTA
Found at i:5418 original size:24 final size:23
Alignment explanation
Indices: 5344--5414 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 23
5334 TAGATTCTAC
*
5344 TATTTTTATACACA-ATTAAATCCTA
1 TATTTTTATACACATA-TAAA-GC-A
*
5369 CTATTTTTATACACATTTAAAGCA
1 -TATTTTTATACACATATAAAGCA
5393 TATTGTTTATACA-ATATAAAGC
1 TATT-TTTATACACATATAAAGC
5415 CATACAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 12 0.30
24 9 0.22
25 1 0.03
26 18 0.45
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.42
Consensus pattern (23 bp):
TATTTTTATACACATATAAAGCA
Found at i:7536 original size:21 final size:21
Alignment explanation
Indices: 7494--7549 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
7484 CCCTTTTTTT
*
7494 AGGGATTGATCC-TTTACAAA
1 AGGGATCGATCCTTTTACAAA
*
7514 AGGGATCGATCCTTTTTCAAA
1 AGGGATCGATCCTTTTACAAA
7535 AGGGATC-ATCCTTTT
1 AGGGATCGATCCTTTT
7550 CCTAGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (21 bp):
AGGGATCGATCCTTTTACAAA
Found at i:10247 original size:24 final size:24
Alignment explanation
Indices: 10211--10270 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
10201 TAGAAATGGC
*
10211 AAGA-AATTTTGAGAATAATAGTG
1 AAGAGAATTTTGAGAATAATACTG
10234 AAGAGAATTTTGAGAATAATACTG
1 AAGAGAATTTTGAGAATAATACTG
10258 AAGAGAATTTTGA
1 AAGAGAATTTTGA
10271 CCATGGAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (24 bp):
AAGAGAATTTTGAGAATAATACTG
Found at i:10744 original size:23 final size:23
Alignment explanation
Indices: 10712--10799 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
10702 TTTAAAAAAG
*
10712 TATATTAATATTAAAAATTATAT
1 TATAATAATATTAAAAATTATAT
* *
10735 TATTATAATA-TAATTAATTATAT
1 TATAATAATATTAA-AAATTATAT
* *
10758 TATAATAATACTAAAAA-TATAA
1 TATAATAATATTAAAAATTATAT
*
10780 TATAATATTATT-AAAATTAT
1 TATAATAATATTAAAAATTAT
10800 TAATAAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.07
22 20 0.37
23 27 0.50
24 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAATATTAAAAATTATAT
Found at i:12383 original size:13 final size:13
Alignment explanation
Indices: 12365--12407 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
12355 GACCCGGCCC
*
12365 GACCCGACCTGTT
1 GACCCGACCCGTT
*
12378 GACCCGACCCATT
1 GACCCGACCCGTT
12391 GACCCGACCCGTT
1 GACCCGACCCGTT
12404 GACC
1 GACC
12408 GTTGACCGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:14974 original size:12 final size:12
Alignment explanation
Indices: 14937--14975 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14927 ATCTGATACT
14937 TGACATGGATTC
1 TGACATGGATTC
*
14949 TGATAT-GATATC
1 TGACATGGAT-TC
14961 TGACATGGATTC
1 TGACATGGATTC
14973 TGA
1 TGA
14976 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:15043 original size:24 final size:24
Alignment explanation
Indices: 14921--15036 Score: 157
Period size: 24 Copynumber: 4.8 Consensus size: 24
14911 TTTGATTTGA
14921 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
14945 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
14969 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
14993 ATTCTGATCT-ATTACTTGACAT-G
1 ATTCTGATCTGA-TACTTGACATGG
*
15016 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
15037 CTGATTTATG
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
23 4 0.05
24 76 0.93
25 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:16750 original size:2 final size:2
Alignment explanation
Indices: 16712--16738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16702 TGAAATCTTC
16712 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 G
16739 GTGTTAGAGA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19816 original size:38 final size:38
Alignment explanation
Indices: 19773--19850 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
19763 ATAAATCATG
*
19773 ATCATTTAAGATTTAGATAGATTAGGAGTGATTCTATC
1 ATCATTTAAGATTTAGATAGATTAAGAGTGATTCTATC
19811 ATCATTTAAGATTTAGATAGATTAAGAGTGATTCTATC
1 ATCATTTAAGATTTAGATAGATTAAGAGTGATTCTATC
19849 AT
1 AT
19851 TTAGGAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (38 bp):
ATCATTTAAGATTTAGATAGATTAAGAGTGATTCTATC
Found at i:32033 original size:3 final size:3
Alignment explanation
Indices: 32025--32069 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
32015 ATCTTTTGCC
32025 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32070 CTATGTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32350 original size:19 final size:19
Alignment explanation
Indices: 32326--32363 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32316 ATTATTAGGT
32326 TCGGTATGATGTTTGAAAA
1 TCGGTATGATGTTTGAAAA
32345 TCGGTATGATGTTTGAAAA
1 TCGGTATGATGTTTGAAAA
32364 ATGGACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (19 bp):
TCGGTATGATGTTTGAAAA
Found at i:55785 original size:21 final size:23
Alignment explanation
Indices: 55744--55791 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
55734 TTTGAGAAAT
55744 AATTTTTTTCTTAAGGTGTGGAG
1 AATTTTTTTCTTAAGGTGTGGAG
55767 AATTTTTTTCCTT-A-G-GTGGAG
1 AATTTTTTT-CTTAAGGTGTGGAG
55788 AATT
1 AATT
55792 GTAATACCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.42
22 1 0.04
23 10 0.42
24 3 0.12
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (23 bp):
AATTTTTTTCTTAAGGTGTGGAG
Found at i:60800 original size:83 final size:83
Alignment explanation
Indices: 60665--60821 Score: 226
Period size: 83 Copynumber: 1.9 Consensus size: 83
60655 CATCACAACA
* * *
60665 AATGATATCGGGCTAGAAGAAAATTCGACTTTAACTCAACTCAACACAATGAACAA-GTCATCAC
1 AATGATATCGGGCTAGAAGAAAATCCGAATTTAACTCAACTCAACACAATGAACAATG-AATCAC
60729 TTGACTTAACTTCACAATG
65 TTGACTTAACTTCACAATG
* * * **
60748 AATGATATCGGGCTCGAAGAAAATCCGAATTTATCTCAGCTCAACATGATGAACAATGAATCACT
1 AATGATATCGGGCTAGAAGAAAATCCGAATTTAACTCAACTCAACACAATGAACAATGAATCACT
60813 TGACTTAAC
66 TGACTTAAC
60822 CCATGGAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
83 64 0.98
84 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (83 bp):
AATGATATCGGGCTAGAAGAAAATCCGAATTTAACTCAACTCAACACAATGAACAATGAATCACT
TGACTTAACTTCACAATG
Found at i:61143 original size:3 final size:3
Alignment explanation
Indices: 61135--61233 Score: 65
Period size: 3 Copynumber: 31.7 Consensus size: 3
61125 AATATATTTT
* * * *
61135 TTA TTA TTA TATA GTA TTA -CA TTT TTA TCA TTA TTA TTA TATA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * *
61181 TTA TTTA TTA TCA TTA TTA GTA ATA TTA ATA TTA TTA CTTA CTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
61228 TATA TT
1 T-TA TT
61234 TAGTATTCGT
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
2 1 0.01
3 58 0.79
4 14 0.19
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:61171 original size:30 final size:29
Alignment explanation
Indices: 61135--61231 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
61125 AATATATTTT
61135 TTATTATTATATAGTATTACATTT-TTATCA
1 TTATTATTATATAGTATT--ATTTATTATCA
*
61165 TTATTATTATATATTATTATTTATTATCA
1 TTATTATTATATAGTATTATTTATTATCA
* * *
61194 TTATTAGTA-ATATTAATA-TTATTA-C-
1 TTATTATTATATAGTATTATTTATTATCA
*
61219 TTACTATTATATA
1 TTATTATTATATA
61232 TTTAGTATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 7 0.12
26 4 0.07
27 6 0.10
28 12 0.20
29 14 0.23
30 17 0.28
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
TTATTATTATATAGTATTATTTATTATCA
Found at i:61182 original size:13 final size:13
Alignment explanation
Indices: 61135--61233 Score: 67
Period size: 13 Copynumber: 7.2 Consensus size: 13
61125 AATATATTTT
61135 TTATTATTATATA
1 TTATTATTATATA
* *
61148 GTATTACATTTTTATCA
1 TTATT--A-TTATAT-A
61165 TTATTATTATATA
1 TTATTATTATATA
61178 TTATTATT-TATTA
1 TTATTATTATA-TA
*
61191 TCATTATTAGTAATA
1 TTATTATTA-T-ATA
*
61206 TTAATATTAT-TA
1 TTATTATTATATA
*
61218 CTTACTATTATATA
1 -TTATTATTATATA
61232 TT
1 TT
61234 TAGTATTCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
12 4 0.06
13 33 0.49
14 8 0.12
15 12 0.18
16 6 0.09
17 5 0.07
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:62681 original size:45 final size:45
Alignment explanation
Indices: 62632--62729 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
62622 ATTTTTTATA
*
62632 TTATTTTAATTATTTCTTAATATTTAAATT-TTTATATTTATG-TTT
1 TTATTTTAATTAATTC--AATATTTAAATTATTTATATTTATGATTT
* *
62677 TTATTTTATTTAATTCAATATTTAAATTATTTTTATTTATGATTT
1 TTATTTTAATTAATTCAATATTTAAATTATTTATATTTATGATTT
*
62722 TTAATTTA
1 TTATTTTA
62730 TGAATATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 12 0.26
44 11 0.23
45 24 0.51
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (45 bp):
TTATTTTAATTAATTCAATATTTAAATTATTTATATTTATGATTT
Found at i:62745 original size:46 final size:43
Alignment explanation
Indices: 62650--62733 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
62640 ATTATTTCTT
* **
62650 AATATTTAAATTTTTATATTTATGTTTTTATTTTATTTAATTC
1 AATATTTAAATTTTTATATTTATGTTTTTAATTTATGAAATTC
*
62693 AATATTTAAATTATTTTTATTTATGATTTTTAATTTATGAA
1 AATATTTAAATT-TTTATATTTATG-TTTTTAATTTATGAA
62734 TATTTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 12 0.34
44 11 0.31
45 12 0.34
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (43 bp):
AATATTTAAATTTTTATATTTATGTTTTTAATTTATGAAATTC
Found at i:62748 original size:18 final size:16
Alignment explanation
Indices: 62704--62745 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
62694 ATATTTAAAT
62704 TATTTT-TATTTATGA
1 TATTTTATATTTATGA
62719 T-TTTTA-ATTTATGAA
1 TATTTTATATTTATG-A
62734 TATTTTATATTT
1 TATTTTATATTT
62746 TATTTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 11 0.48
15 3 0.13
16 5 0.22
17 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATTTTATATTTATGA
Found at i:65484 original size:38 final size:39
Alignment explanation
Indices: 65424--65500 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
65414 ATAATATTTC
* *
65424 GAAAATATCTTAAGGGAGATAAATTTGGTG-TTTCAAGG
1 GAAAATATATTAAAGGAGATAAATTTGGTGTTTTCAAGG
*
65462 GAAAATATATTAAAGGATATAAATTTGGTGTTTTCAAGG
1 GAAAATATATTAAAGGAGATAAATTTGGTGTTTTCAAGG
65501 AATCACTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 27 0.77
39 8 0.23
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (39 bp):
GAAAATATATTAAAGGAGATAAATTTGGTGTTTTCAAGG
Found at i:65893 original size:144 final size:145
Alignment explanation
Indices: 65724--65990 Score: 396
Period size: 145 Copynumber: 1.8 Consensus size: 145
65714 ATATATTTGG
* ** *
65724 TGTTTCAAGGAAAACTATCTCAAGGGAGACAAGCCGGTGTTTTAAG-GAAAACAATTTCAA-GGA
1 TGTTTCAAGGAAAACTATCTCAAGGGAGACAAACAAGTATTTTAAGAG-AAACAATTTCAAGGGA
* * *
65787 AATAATCTCAAGGGATATAAATTTGGTGTTTCAAGAGAAACAATCT-AAATGGAGACAAACTAGT
65 AACAATCTCAAGCGAGATAAATTTGGTGTTTCAAGAGAAACAATCTCAAA-GGAGACAAACTAGT
65851 GTTTTGAGAGAAATAAT
129 GTTTTGAGAGAAATAAT
* * *
65868 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAATAGTTTCAAGGGAA
1 TGTTTCAAGGAAAACTATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAACAATTTCAAGGGAA
*
65933 ACAATCTCAAGCGAGATAAATTTGGTGTTTCAAGAGAAACAATCTCAAAGGAGGCAAA
66 ACAATCTCAAGCGAGATAAATTTGGTGTTTCAAGAGAAACAATCTCAAAGGAGACAAA
65991 TTGATATTTA
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
144 51 0.47
145 55 0.50
146 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (145 bp):
TGTTTCAAGGAAAACTATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAACAATTTCAAGGGAA
ACAATCTCAAGCGAGATAAATTTGGTGTTTCAAGAGAAACAATCTCAAAGGAGACAAACTAGTGT
TTTGAGAGAAATAAT
Found at i:65940 original size:52 final size:54
Alignment explanation
Indices: 65813--65948 Score: 177
Period size: 55 Copynumber: 2.5 Consensus size: 54
65803 ATAAATTTGG
* * * * * *
65813 TGTTTCAAGAGAAACAATCTAAATGGAGACAAACTAGTGTTTTGAGAGAAATAA
1 TGTTTCAAGGGAAACAATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAATAA
*
65867 TTGTTTCAAGGGAAACTATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAAT-A
1 -TGTTTCAAGGGAAACAATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAATAA
*
65921 -GTTTCAAGGGAAACAATCTCAAGCGAGA
1 TGTTTCAAGGGAAACAATCTCAAGGGAGA
65949 TAAATTTGGT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
52 26 0.36
54 1 0.01
55 45 0.62
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (54 bp):
TGTTTCAAGGGAAACAATCTCAAGGGAGACAAACAAGTATTTTAAGAGAAATAA
Found at i:65978 original size:90 final size:90
Alignment explanation
Indices: 65868--66072 Score: 261
Period size: 90 Copynumber: 2.3 Consensus size: 90
65858 GAGAAATAAT
* *
65868 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAACAAG-TATTTTAA-GAGAAATAGTTTCAAGGG
1 TGTTTCAAGGGAAACTATCTCAAAGGAGACAAA-AAGATA-TTTAAGGAGAAATAGTTTCAAGAG
65931 AAACAATCTCAAGCGAGATAAATTTGG
64 AAACAATCTCAAGCGAGATAAATTTGG
* * * ** *
65958 TGTTTCAAGAGAAACAATCTCAAAGGAGGCAAATTGATATTTAAGGAGAAATAGTTTCAATAGAA
1 TGTTTCAAGGGAAACTATCTCAAAGGAGACAAAAAGATATTTAAGGAGAAATAGTTTCAAGAGAA
* * * **
66023 ATAATCTCAAGTGAGATAATTTTTT
66 ACAATCTCAAGCGAGATAAATTTGG
66048 TGTTTCAAGGGAAACTATCTCAAAG
1 TGTTTCAAGGGAAACTATCTCAAAG
66073 AAGAGAAATT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
89 6 0.06
90 92 0.94
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (90 bp):
TGTTTCAAGGGAAACTATCTCAAAGGAGACAAAAAGATATTTAAGGAGAAATAGTTTCAAGAGAA
ACAATCTCAAGCGAGATAAATTTGG
Found at i:66068 original size:38 final size:36
Alignment explanation
Indices: 66026--66183 Score: 120
Period size: 37 Copynumber: 4.2 Consensus size: 36
66016 AATAGAAATA
* *
66026 ATCTCAAGTGAGATAATTTTTTTGTTTCAAGGGAAACT
1 ATCTCAAGTGAGATAA--TTTATGTTTTAAGGGAAACT
* *
66064 ATCTCAAAGAAGAGA-AATTTATGTTTTAAGGGAAACA
1 ATCTC-AAG-TGAGATAATTTATGTTTTAAGGGAAACT
* * *
66101 ATCTCCAGTGAGATAAAATTTGTGTTTTAAGGGAAAAT
1 ATCTCAAGTGAGAT--AATTTATGTTTTAAGGGAAACT
* * * * * *
66139 ATCTCAAGGGAGACAAACTAATGTTTCAAGGGAAACA
1 ATCTCAAGTGAGA-TAATTTATGTTTTAAGGGAAACT
*
66176 AACTCAAG
1 ATCTCAAG
66184 GGAAATAAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
35 4 0.04
36 2 0.02
37 45 0.47
38 35 0.37
39 5 0.05
40 4 0.04
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (36 bp):
ATCTCAAGTGAGATAATTTATGTTTTAAGGGAAACT
Found at i:66127 original size:75 final size:75
Alignment explanation
Indices: 66011--66211 Score: 206
Period size: 75 Copynumber: 2.7 Consensus size: 75
66001 AGGAGAAATA
** * ** *
66011 GTTTCAATAGAAATAATCTCAAGTGAGATAATTTTTTTGTTTCAAGGGAAACTATCTCAAAGAAG
1 GTTTCAAGGGAAACAATCTCAAGTGAGATAAAATTTGTGTTTCAAGGGAAACTATCTCAAAGAAG
* * *
66076 AGAAATTTAT
66 ACAAACTAAT
* * * * * *
66086 GTTTTAAGGGAAACAATCTCCAGTGAGATAAAATTTGTGTTTTAAGGGAAAATATCTCAAGGGAG
1 GTTTCAAGGGAAACAATCTCAAGTGAGATAAAATTTGTGTTTCAAGGGAAACTATCTCAAAGAAG
66151 ACAAACTAAT
66 ACAAACTAAT
* * * * * *
66161 GTTTCAAGGGAAACAAACTCAAGGGAAAT-AAACTGGTGTTTCAAGAGAAAC
1 GTTTCAAGGGAAACAATCTCAAGTGAGATAAAATTTGTGTTTCAAGGGAAAC
66212 AGTTTCAAGG
Statistics
Matches: 101, Mismatches: 25, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
74 17 0.17
75 84 0.83
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (75 bp):
GTTTCAAGGGAAACAATCTCAAGTGAGATAAAATTTGTGTTTCAAGGGAAACTATCTCAAAGAAG
ACAAACTAAT
Found at i:66182 original size:37 final size:37
Alignment explanation
Indices: 66048--66223 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
66038 ATAATTTTTT
* * * * *
66048 TGTTTCAAGGGAAACTATCTCAAAGAAGAGAAATTTA
1 TGTTTCAAGGGAAACAATCTCAAGGGAGAAAAACTTA
* * * * *
66085 TGTTTTAAGGGAAACAATCTCCAGTGAGATAAAATTTG
1 TGTTTCAAGGGAAACAATCTCAAGGGAGA-AAAACTTA
* * *
66123 TGTTTTAAGGGAAA-ATATCTCAAGGGAGACAAACTAA
1 TGTTTCAAGGGAAACA-ATCTCAAGGGAGAAAAACTTA
* **
66160 TGTTTCAAGGGAAACAAACTCAAGGGA-AATAAACTGG
1 TGTTTCAAGGGAAACAATCTCAAGGGAGAA-AAACTTA
* * *
66197 TGTTTCAAGAGAAACAGTTTCAAGGGA
1 TGTTTCAAGGGAAACAATCTCAAGGGA
66224 AAGAAGATTT
Statistics
Matches: 112, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
36 1 0.01
37 79 0.71
38 32 0.29
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGGGAAACAATCTCAAGGGAGAAAAACTTA
Found at i:66184 original size:15 final size:15
Alignment explanation
Indices: 66164--66194 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66154 AACTAATGTT
66164 TCAAGGGAAACAAAC
1 TCAAGGGAAACAAAC
*
66179 TCAAGGGAAATAAAC
1 TCAAGGGAAACAAAC
66194 T
1 T
66195 GGTGTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (15 bp):
TCAAGGGAAACAAAC
Found at i:66697 original size:13 final size:15
Alignment explanation
Indices: 66679--66710 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
66669 ACCTTCGTCA
66679 ATTTCCA-AGATAC-
1 ATTTCCAGAGATACT
66692 ATTTCCAGAGATACT
1 ATTTCCAGAGATACT
66707 ATTT
1 ATTT
66711 TGTTTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (15 bp):
ATTTCCAGAGATACT
Found at i:68954 original size:131 final size:131
Alignment explanation
Indices: 68794--69055 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
68784 TAGTCCCCAC
68794 GCTTTTATGCCCCATAACTCTTGGTGGTGCTCCTTAAGCTTCCCATCGAGTGATCATTATCGGTG
1 GCTTTTATGCCCCATAACTCTTGGTGGTGCTCCTTAAGCTTCCCATCGAGTGATCATTATCGGTG
68859 GAATTAACATTATCATTTTCGGAACATTGATGATATGACCTTGTGTAATTAGAATCATTGTTATA
66 GAATTAACATTATCATTTTCGGAACATTGATGATATGACCTTGTGTAATTAGAATCATTGTTATA
68924 A
131 A
68925 GCTTTTATGCCCCATAACTCTTGGTGGTGCTCCTTAAGCTTCCCATCGAGTGATCATTATCGGTG
1 GCTTTTATGCCCCATAACTCTTGGTGGTGCTCCTTAAGCTTCCCATCGAGTGATCATTATCGGTG
68990 GAATTAACATTATCATTTTCGGAACATTGATGATATGACCTTGTGTAATTAGAATCATTGTTATA
66 GAATTAACATTATCATTTTCGGAACATTGATGATATGACCTTGTGTAATTAGAATCATTGTTATA
69055 A
131 A
69056 ATTCTTCCAT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (131 bp):
GCTTTTATGCCCCATAACTCTTGGTGGTGCTCCTTAAGCTTCCCATCGAGTGATCATTATCGGTG
GAATTAACATTATCATTTTCGGAACATTGATGATATGACCTTGTGTAATTAGAATCATTGTTATA
A
Found at i:70714 original size:16 final size:17
Alignment explanation
Indices: 70689--70721 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
70679 AGGGTTGTGA
70689 AAAAAGTAAAAAATAAT
1 AAAAAGTAAAAAATAAT
70706 AAAAA-TAAAAAATAAT
1 AAAAAGTAAAAAATAAT
70722 TTGGGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAGTAAAAAATAAT
Found at i:89370 original size:17 final size:17
Alignment explanation
Indices: 89344--89380 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
89334 TCTCACACAC
*
89344 ACACACTTTATTCATGT
1 ACACAATTTATTCATGT
89361 ACACAATTTATTCATGT
1 ACACAATTTATTCATGT
89378 ACA
1 ACA
89381 ATCAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (17 bp):
ACACAATTTATTCATGT
Found at i:91327 original size:42 final size:43
Alignment explanation
Indices: 91275--91355 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
91265 AAAATAAGTG
*
91275 TTGAGATTTAGCGACATTTTT-TCAAAAACGCCGCAATAATTA
1 TTGAGATTTAGCGACATTTTTCTAAAAAACGCCGCAATAATTA
* *
91317 TTGATATTTAGCGACGTTTTTCTAAAAAACGCCGCAATA
1 TTGAGATTTAGCGACATTTTTCTAAAAAACGCCGCAATA
91356 GGTGTTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 19 0.54
43 16 0.46
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (43 bp):
TTGAGATTTAGCGACATTTTTCTAAAAAACGCCGCAATAATTA
Found at i:91367 original size:43 final size:42
Alignment explanation
Indices: 91280--91368 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
91270 AAGTGTTGAG
* * *
91280 ATTTAGCGACATTTTTTCAAAAACGCCGCAATAATTATTGAT
1 ATTTAGCGACATTTTTTAAAAAACGCCGCAATAAGTATTAAT
* * *
91322 ATTTAGCGACGTTTTTCTAAAAAACGCCGCAATAGGTGTTAAT
1 ATTTAGCGACATTTTT-TAAAAAACGCCGCAATAAGTATTAAT
91365 ATTT
1 ATTT
91369 TGCGGCTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 15 0.38
43 25 0.62
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (42 bp):
ATTTAGCGACATTTTTTAAAAAACGCCGCAATAAGTATTAAT
Found at i:91453 original size:44 final size:44
Alignment explanation
Indices: 91384--91513 Score: 152
Period size: 44 Copynumber: 2.9 Consensus size: 44
91374 CTTTGTTTTT
*
91384 ATACAAACACCGCTAAAAGTATGGTATATAGTGGCGTTTTTAGG
1 ATACAAACACCGCTAAAAGTATGGTATATAGTGGCGTTTTTAAG
* * * * * *
91428 ATACAAACTCCGTTAAAGGTCTGGTATATAGCGGCATTTTTAAG
1 ATACAAACACCGCTAAAAGTATGGTATATAGTGGCGTTTTTAAG
* * * *
91472 ATACAAACGCCGCTAAATGTATGGTATTTTGTGGCGCTTTTT
1 ATACAAACACCGCTAAAAGTATGGTATATAGTGGCG-TTTTT
91514 GTTACAAACG
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 65 0.93
45 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (44 bp):
ATACAAACACCGCTAAAAGTATGGTATATAGTGGCGTTTTTAAG
Found at i:91523 original size:43 final size:43
Alignment explanation
Indices: 91384--91532 Score: 147
Period size: 44 Copynumber: 3.4 Consensus size: 43
91374 CTTTGTTTTT
* *
91384 ATACAAACACCGCTAAAAGTATGGTATATAGTGGCGTTTTTAGG
1 ATACAAACGCCGCTAAATGTATGGTATATAGTGGCGTTTTTA-G
* * * * * *
91428 ATACAAACTCCGTTAAAGGTCTGGTATATAGCGGCATTTTTAAG
1 ATACAAACGCCGCTAAATGTATGGTATATAGTGGCGTTTTT-AG
* *
91472 ATACAAACGCCGCTAAATGTATGGTATTTTGTGGCGCTTTTT-G
1 ATACAAACGCCGCTAAATGTATGGTATATAGTGGCG-TTTTTAG
* * *
91515 TTACAAACGTCGTTAAAT
1 ATACAAACGCCGCTAAAT
91533 AGCATAGAAT
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
43 16 0.19
44 64 0.74
45 6 0.07
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
ATACAAACGCCGCTAAATGTATGGTATATAGTGGCGTTTTTAG
Found at i:91878 original size:21 final size:21
Alignment explanation
Indices: 91852--91900 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
91842 TGATATGTTT
*
91852 CTTCTCGT-TGCGCTGCCGCTG
1 CTTCTC-TCTGCGCTACCGCTG
*
91873 CTTCTCTCTGTGCTACCGCTG
1 CTTCTCTCTGCGCTACCGCTG
91894 CTTCTCT
1 CTTCTCT
91901 GGCAGCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTGCGCTACCGCTG
Found at i:92553 original size:41 final size:40
Alignment explanation
Indices: 92476--92553 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
92466 GTATATACAG
** *
92476 AAAAACACCACTATTGATTACACTATTGTGGCGTTTTTCT
1 AAAAACACCACTATTGATTACACTATTACGACGTTTTTCT
* *
92516 AAAAATACCACTATTGATTAGCACTATTACGATGTTTT
1 AAAAACACCACTATTGATTA-CACTATTACGACGTTTT
92554 AGGAATAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (40 bp):
AAAAACACCACTATTGATTACACTATTACGACGTTTTTCT
Found at i:112107 original size:20 final size:20
Alignment explanation
Indices: 112082--112119 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
112072 AATCATCTTA
*
112082 GTTCATCCAGTATCGATATT
1 GTTCATCCAATATCGATATT
112102 GTTCATCCAATATCGATA
1 GTTCATCCAATATCGATA
112120 CCCAAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (20 bp):
GTTCATCCAATATCGATATT
Found at i:113046 original size:3 final size:3
Alignment explanation
Indices: 113038--113065 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
113028 ATTTATTTAT
113038 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
113066 AACGTGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:114963 original size:22 final size:22
Alignment explanation
Indices: 114935--114976 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
114925 TTATCCCACT
*
114935 AAATT-AATATTATTTTTAATTA
1 AAATTAAATATT-TTATTAATTA
114957 AAATTAAATATTTTATTAAT
1 AAATTAAATATTTTATTAAT
114977 AAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTAAATATTTTATTAATTA
Found at i:115252 original size:21 final size:21
Alignment explanation
Indices: 115228--115267 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
115218 ATGGATGTAT
115228 GTTGAGATTTAGAAG-TTTAGG
1 GTTGAGATTTA-AAGATTTAGG
115249 GTTGAGATTTAAAGATTTA
1 GTTGAGATTTAAAGATTTA
115268 AATTTAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (21 bp):
GTTGAGATTTAAAGATTTAGG
Found at i:115664 original size:2 final size:2
Alignment explanation
Indices: 115657--115699 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
115647 TTAAACACTT
115657 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
115699 T
1 T
115700 TATCTTTACG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:116439 original size:23 final size:23
Alignment explanation
Indices: 116403--116446 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
116393 CGATTGAACC
*
116403 TAAATGTTACGAAGAAGGTAATA
1 TAAATCTTACGAAGAAGGTAATA
* *
116426 TAAATCTTATGAAGAATGTAA
1 TAAATCTTACGAAGAAGGTAA
116447 CATTTTCGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (23 bp):
TAAATCTTACGAAGAAGGTAATA
Found at i:118953 original size:3 final size:3
Alignment explanation
Indices: 118947--119014 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
118937 AATTTTGTTG
118947 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
118995 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
119015 TTGGTTTGAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:136128 original size:58 final size:58
Alignment explanation
Indices: 136017--136158 Score: 151
Period size: 58 Copynumber: 2.4 Consensus size: 58
136007 ATCATATGTC
* * * * *
136017 CCCAAACTATAACCCTCATTTTAAATTGTCCTTAAACATTTGAATATTCCAATTTCA-
1 CCCAAACTATGACCATCATTCTAAATAGTCCTTAAACATTTGAACATTCCAATTTCAT
* * * *
136074 CCCAAACTATGACTATCATTCTAAACTAGTCCTTACACTTTTGAACATTTCAATTTCAT
1 CCCAAACTATGACCATCATTCTAAA-TAGTCCTTAAACATTTGAACATTCCAATTTCAT
* * * *
136133 CCTAAACTATGGCCCTCTTTCTAAAT
1 CCCAAACTATGACCATCATTCTAAAT
136159 TATCCCCAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
57 21 0.30
58 28 0.41
59 20 0.29
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (58 bp):
CCCAAACTATGACCATCATTCTAAATAGTCCTTAAACATTTGAACATTCCAATTTCAT
Found at i:136446 original size:60 final size:60
Alignment explanation
Indices: 136343--136471 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
136333 TATATTTATG
* * *
136343 GTTT-GGGATGAAATTGGAATGTTCAAAAAGTTTGGGACCAATTTAGAATGA-ACATCATA
1 GTTTGGGGATGAAAATGAAATGTTCAAAAAGTTTAGGACCAATTTAGAATGATA-ATCATA
* *
136402 GTTTGGGGATGAAAATGAAATGTTC-AAAAGTTTAAGGACTAATTTAGAATGATATTCATA
1 GTTTGGGGATGAAAATGAAATGTTCAAAAAGTTT-AGGACCAATTTAGAATGATAATCATA
*
136462 GTTTGAGGAT
1 GTTTGGGGAT
136472 TAATTTGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 12 0.20
60 48 0.79
61 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (60 bp):
GTTTGGGGATGAAAATGAAATGTTCAAAAAGTTTAGGACCAATTTAGAATGATAATCATA
Found at i:136491 original size:60 final size:60
Alignment explanation
Indices: 136343--136507 Score: 156
Period size: 60 Copynumber: 2.8 Consensus size: 60
136333 TATATTTATG
* * * *
136343 GTTTG-GGATGAAATTGGAATGTTCAAAAAGTTT-GGGACCAATTTAGAATGAACATCATA
1 GTTTGAGGATGAAAATGAAATATTC-AAAAGTTTAAGGACCAATTTAGAATGAACATCATA
* * * *
136402 GTTTGGGGATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGATA-TTCATA
1 GTTTGAGGATGAAAATGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGA-ACATCATA
* ** * * * *
136462 GTTTGAGGATTAATTTGTAATATTTAAAAGTTTAGGGATCAATTTA
1 GTTTGAGGATGAAAATGAAATATTCAAAAGTTTAAGGACCAATTTA
136508 AAATTATTGG
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 13 0.15
60 74 0.84
61 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (60 bp):
GTTTGAGGATGAAAATGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAACATCATA
Found at i:137219 original size:60 final size:59
Alignment explanation
Indices: 137088--137219 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 59
137078 TCAGGTGACT
* * * * *
137088 ATTTTGTAACATTTAATAGTCGAGAGACTCACAAAATGTCTCTTTATAGTCGAAGAATC
1 ATTTTCTAACTTTTAATAGTCGAAAGACTCACAAAATGTATCTTTATAGTCAAAGAATC
* *
137147 ATTTTGTAACTTTTAATAGTCGAAAGACTCAATAAAATGGTATC-TTATAGTCAAA-AGATC
1 ATTTTCTAACTTTTAATAGTCGAAAGACTC-ACAAAAT-GTATCTTTATAGTCAAAGA-ATC
137207 ATTTATCT-ACTTT
1 ATTT-TCTAACTTT
137220 ACCCTAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 29 0.46
60 28 0.44
61 6 0.10
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (59 bp):
ATTTTCTAACTTTTAATAGTCGAAAGACTCACAAAATGTATCTTTATAGTCAAAGAATC
Found at i:139162 original size:47 final size:47
Alignment explanation
Indices: 139093--139182 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
139083 GATGGGCCTG
*
139093 ATTAGTATTACAACACATTTAAAACTAAAATATTGTATAAGTGCGTA
1 ATTAGTACTACAACACATTTAAAACTAAAATATTGTATAAGTGCGTA
* *
139140 ATTAGTACTACAACACATTTAAAGCTAAAATATTGTCTAAGTG
1 ATTAGTACTACAACACATTTAAAACTAAAATATTGTATAAGTG
139183 AATAAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (47 bp):
ATTAGTACTACAACACATTTAAAACTAAAATATTGTATAAGTGCGTA
Found at i:144785 original size:23 final size:22
Alignment explanation
Indices: 144755--144835 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 22
144745 GAATCGATAA
144755 CCCC-TTGAAGAGGAACCGATTC
1 CCCCTTTGAAG-GGAACCGATTC
*
144777 CCCCTTTGAATGGGAACCAATTC
1 CCCCTTTGAA-GGGAACCGATTC
*
144800 CCCCTTTGAATGGAACCGATTC
1 CCCCTTTGAAGGGAACCGATTC
144822 CCTCC-TTG-AGGGAA
1 CC-CCTTTGAAGGGAA
144836 TTGATACCCC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.10
22 19 0.37
23 27 0.52
24 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (22 bp):
CCCCTTTGAAGGGAACCGATTC
Found at i:149000 original size:20 final size:20
Alignment explanation
Indices: 148975--149249 Score: 162
Period size: 20 Copynumber: 13.7 Consensus size: 20
148965 GATTTTCCAG
**
148975 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGAA
**
148995 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATCCGA-A
* * *
149015 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATCCGAA
* * *
149035 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATCCG-AA
* * *
149056 AATCGCATCGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
*
149076 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCG-AA
* *
149097 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
** * *
149117 AATCGCAACAAGAATACGTA
1 AATCGCAACGCGAATCCGAA
* * * *
149137 AATTGCAACGCGTATCTG-T
1 AATCGCAACGCGAATCCGAA
* * * *
149156 AATCGCAATGAGAATACGTA
1 AATCGCAACGCGAATCCGAA
* * *
149176 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
*
149196 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCG-AA
* *
149217 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
149237 AATCGCAACGCGA
1 AATCGCAACGCGA
149250 TTTTTAAAGC
Statistics
Matches: 192, Mismatches: 53, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
19 13 0.07
20 129 0.67
21 50 0.26
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGAA
Found at i:149081 original size:41 final size:41
Alignment explanation
Indices: 149036--149246 Score: 311
Period size: 41 Copynumber: 5.2 Consensus size: 41
149026 GATTCTGACT
* * *
149036 ATCGCAACGAGTATCCGTAAAATCGCATCGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
149077 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
149118 ATCGCAACAAGAATACGT-AAATTGCAACGCGTATCTGT-A
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
149157 ATCGCAATGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
149197 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
149238 ATCGCAACG
1 ATCGCAACG
149247 CGATTTTTAA
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 34 0.22
40 35 0.23
41 83 0.55
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:149844 original size:20 final size:20
Alignment explanation
Indices: 149805--149882 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
149795 TTCTAAACTT
*
149805 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGA-GAGAATG
*
149825 AAAATTGCAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
** * *
149845 ACTATCGTAACGCGA-AATG
1 AAAATCGCAACGAGAGAATG
*
149864 AAAATGGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
149883 CACAACGCAA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 14 0.32
20 29 0.66
21 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATG
Found at i:149901 original size:33 final size:33
Alignment explanation
Indices: 149819--149923 Score: 93
Period size: 33 Copynumber: 3.0 Consensus size: 33
149809 TCGCAACATG
*
149819 AAAATGAAAATTGCAACGAGAGAATGACTATCGTAACGC
1 AAAATGAAAATCGCAACGAGAGAAT--C-A-C--AACGC
* *
149858 GAAATGAAAATGGCAACGAGAGAATCACAACGC
1 AAAATGAAAATCGCAACGAGAGAATCACAACGC
* * * *
149891 AAAATTAAAATCGTAACGAGATAATCGCAACGC
1 AAAATGAAAATCGCAACGAGAGAATCACAACGC
149924 GAAACCAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 32 0.55
35 1 0.02
36 1 0.02
37 1 0.02
39 23 0.40
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (33 bp):
AAAATGAAAATCGCAACGAGAGAATCACAACGC
Found at i:149934 original size:33 final size:33
Alignment explanation
Indices: 149848--149938 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 33
149838 GAGAATGACT
* * * *
149848 ATCGTAACGCGAAATGAAAATGGCAACGAGAGA
1 ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
* * * *
149881 ATCACAACGCAAAATTAAAATCGTAACGAGATA
1 ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
*
149914 ATCGCAACGCGAAACCAAAATCGTA
1 ATCGCAACGCGAAATCAAAATCGTA
149939 TTGTGATTCT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
Found at i:149975 original size:19 final size:19
Alignment explanation
Indices: 149951--150040 Score: 91
Period size: 19 Copynumber: 4.9 Consensus size: 19
149941 GTGATTCTCT
*
149951 CGTTGCGATTTTAATTTCG
1 CGTTGCGATTTTCATTTCG
*
149970 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
149984 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
150003 CGTTGCGATAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
150023 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
150041 AACCAAAAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 2 0.04
19 26 0.46
20 16 0.28
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:150031 original size:39 final size:33
Alignment explanation
Indices: 149943--150040 Score: 133
Period size: 33 Copynumber: 2.8 Consensus size: 33
149933 ATCGTATTGT
*
149943 GATTCTCTCGTTGCGATTTTAATTTCGCGTTGC
1 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
149976 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
1 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
150009 GATAGTCATTCTCTCGTTGCGATTTTCATTTC
1 ----G--ATTCTCTCGTTGCGATTTTCATTTC
150041 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
33 32 0.55
37 1 0.02
39 25 0.43
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
Found at i:150037 original size:20 final size:20
Alignment explanation
Indices: 149977--150038 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
149967 TCGCGTTGCG
149977 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* **
149997 ATT-TCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
150016 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
150036 ATT
1 ATT
150039 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:151864 original size:94 final size:94
Alignment explanation
Indices: 151703--151970 Score: 457
Period size: 94 Copynumber: 2.9 Consensus size: 94
151693 TAGATTGCTT
* * *
151703 AGTAAATTTATTTGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
151768 ATTTTTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
151797 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
151862 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
151891 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
151956 ATTTGTCTTTGTTTT
66 ATTTGTCTTTGTTTT
151971 CACTGTTTAA
Statistics
Matches: 166, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
93 20 0.12
94 146 0.88
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:152241 original size:42 final size:42
Alignment explanation
Indices: 152174--152281 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 42
152164 GTCATCCCAC
* * * * *
152174 AAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCG
1 AAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-TCCTCG
* * *
152217 -AGAGTCCCCTCCCACCGTTCAAGA-GCCACTGTCATCGTTG
1 AAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATCCTCG
*
152257 AAGAGT-CCCTCCCACCATTCAAGAG
1 AAGAGTCCCCTCCCACCGTTCAAGAG
152282 CCCGACTCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
40 21 0.39
41 13 0.24
42 20 0.37
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (42 bp):
AAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATCCTCG
Found at i:152280 original size:20 final size:20
Alignment explanation
Indices: 152217--152281 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
152207 TCATTCCTCG
152217 AGAGTCCCCTCCCACCGTTCA
1 AGAGT-CCCTCCCACCGTTCA
** * *
152238 AGAG-CCACTGTCATCGTTGA
1 AGAGTCC-CTCCCACCGTTCA
*
152258 AGAGTCCCTCCCACCATTCA
1 AGAGTCCCTCCCACCGTTCA
152278 AGAG
1 AGAG
152282 CCCGACTCAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.06
20 25 0.76
21 6 0.18
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (20 bp):
AGAGTCCCTCCCACCGTTCA
Found at i:153654 original size:14 final size:14
Alignment explanation
Indices: 153635--153670 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
153625 ATTGTTTAAT
153635 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
153649 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
153663 TGATTTGT
1 TGATTTGT
153671 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:153793 original size:19 final size:19
Alignment explanation
Indices: 153777--153842 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
153767 AAAAATGACT
153777 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
153796 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
153810 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
153829 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
153843 CTAAAATCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:153848 original size:19 final size:19
Alignment explanation
Indices: 153809--153871 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
153799 GCAACGAGAG
*
153809 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
153828 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
* *
153847 AATCACAACGCAAAACTAA
1 AATCGCAACGCGAAACTAA
*
153866 ATTCGC
1 AATCGC
153872 GTTGCGGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 37 0.97
20 1 0.03
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:153916 original size:33 final size:33
Alignment explanation
Indices: 153871--154018 Score: 152
Period size: 33 Copynumber: 4.3 Consensus size: 33
153861 ACTAAATTCG
* *
153871 CGTTGCGGTTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
153904 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCT
* * ** *
153943 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCCCT
*
153977 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
154010 CGTTGCGAT
1 CGTTGCGAT
154019 AGTAATTTCC
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
33 50 0.52
34 15 0.16
35 2 0.02
38 1 0.01
39 16 0.17
40 12 0.12
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:153930 original size:19 final size:19
Alignment explanation
Indices: 153906--154005 Score: 102
Period size: 20 Copynumber: 5.4 Consensus size: 19
153896 GATTCCCTCG
153906 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
153925 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
* *
153945 TTGCGATATTCATATTCGCG
1 TTGCGATTTTCAT-TTCGCA
153965 TTGCGATTTTCA---CG--
1 TTGCGATTTTCATTTCGCA
153979 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
153998 TTGCGATT
1 TTGCGATT
154006 CTCTCGTTGC
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.17
16 2 0.03
17 2 0.03
19 21 0.30
20 30 0.43
21 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:153950 original size:20 final size:19
Alignment explanation
Indices: 153904--154004 Score: 95
Period size: 19 Copynumber: 5.5 Consensus size: 19
153894 GCGATTCCCT
*
153904 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
* *
153923 CATTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTT-CG
153943 CGTTGCGATATTCATATTCG
1 CGTTGCGATATTCAT-TTCG
*
153963 CGTTGCG--A-T--TTTCA
1 CGTTGCGATATTCATTTCG
*
153977 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
*
153996 CATTGCGAT
1 CGTTGCGAT
154005 TCTCTCGTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
17 2 0.03
18 1 0.02
19 26 0.39
20 24 0.36
21 2 0.03
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:153982 original size:14 final size:14
Alignment explanation
Indices: 153963--153990 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
153953 TTCATATTCG
153963 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
153977 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
153991 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:153987 original size:73 final size:72
Alignment explanation
Indices: 153869--154004 Score: 209
Period size: 73 Copynumber: 1.9 Consensus size: 72
153859 AAACTAAATT
* * * *
153869 CGCGTTGCGGTTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAG
1 CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATAG
153934 TCATTTC
66 TCATTTC
**
153941 CGCGTTGCGATATTCATATTCGCGTTGCGATTTTCACGTTGCGATTTTCATTTCGCATTGCGAT
1 CGCGTTGCGATATTCAT-TTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGAT
154005 TCTCTCGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
72 15 0.26
73 42 0.74
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (72 bp):
CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATAG
TCATTTC
Found at i:154084 original size:20 final size:20
Alignment explanation
Indices: 154011--154084 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
154001 CGATTCTCTC
* **
154011 GTTGCGATAGTAATTTCCAC
1 GTTGCGATAGTCATTTCCGT
* **
154031 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
154051 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
154072 GTTGCGATAGTCA
1 GTTGCGATAGTCA
154085 AATGAATGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 12 0.30
22 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:156588 original size:24 final size:24
Alignment explanation
Indices: 156554--156607 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
156544 CTGAAAAATA
156554 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
156578 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
156602 ATCAAA
1 ATCAAA
156608 TTTTGAATAC
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:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:157491 original size:20 final size:20
Alignment explanation
Indices: 157468--157697 Score: 241
Period size: 20 Copynumber: 11.4 Consensus size: 20
157458 CAGAATCTCG
*
157468 TTGCAATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
157488 TTGCGATTTACGTATTTGCA
1 TTGCGATTTACGTATTCGCA
*
157508 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
157528 TTGCAATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
157548 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
157568 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* *
157588 TTGCGATTTACAG-ATACGCG
1 TTGCGATTTAC-GTATTCGCA
* *
157608 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* * *
157628 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCA
* *
157648 TTACGATTTTACGTATT-GTCG
1 TTGCGA-TTTACGTATTCG-CA
* * *
157669 TTGCGATTTACGAATACGCG
1 TTGCGATTTACGTATTCGCA
157689 TTGCGATTT
1 TTGCGATTT
157698 TACGGATACT
Statistics
Matches: 182, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.01
20 163 0.90
21 17 0.09
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:157711 original size:41 final size:41
Alignment explanation
Indices: 157463--157738 Score: 255
Period size: 40 Copynumber: 6.8 Consensus size: 41
157453 ATAGTCAGAA
* * *
157463 TCTCGTTGCAATTTAC-AGATTCGCATTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGA-ATACGCGTTGCGATTTTACGTAT
* * * * * *
157503 T-TGCATTGTGATTTACGTATTCGCATTGC-AATTTACGTAT
1 TCT-CGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* * * * *
157543 TCGCATTGCGATTTACGTATTCGCATTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
157583 TCTCGTTGCGATTTAC-AGATACGCGTTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGA-ATACGCGTTGCGATTTTACGTAT
* *
157623 TCTCGTTGCGATTTACGGATACGCGTTACGATTTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* *
157664 TGTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* * *
157705 ACTCGTTGTGATAGT-CAGAAT-CGCGTTGCGATTT
1 TCTCGTTGCGAT-TTAC-GAATACGCGTTGCGATTT
157739 ATATGTTCGC
Statistics
Matches: 205, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
39 2 0.01
40 128 0.62
41 70 0.34
42 5 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
Found at i:157748 original size:20 final size:20
Alignment explanation
Indices: 157725--157777 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
157715 ATAGTCAGAA
*
157725 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
157745 TCGCGTTGCAATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
157765 TCGCATTGCGATT
1 TCGCGTTGCGATT
157778 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:157789 original size:21 final size:21
Alignment explanation
Indices: 157765--157844 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
157755 ATTTTCATAT
157765 TCGCATTGCGATTCTGGAAAA
1 TCGCATTGCGATTCTGGAAAA
* * **
157786 TCGCAATGCGAATT-TGTACTA
1 TCGCATTGCG-ATTCTGGAAAA
** *
157807 TCGCATTGCGATTCTTCATAA
1 TCGCATTGCGATTCTGGAAAA
*
157828 TCGCGTTGCGATTCTGG
1 TCGCATTGCGATTCTGG
157845 GAACTGATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTCTGGAAAA
Found at i:157838 original size:42 final size:42
Alignment explanation
Indices: 157745--157838 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
157735 ATTTATATGT
*
157745 TCGCGTTGC-AATTTTCATATTCGCATTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
157786 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
157828 TCGCGTTGCGA
1 TCGCGTTGCGA
157839 TTCTGGGAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
41 7 0.16
42 33 0.77
43 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:161106 original size:94 final size:91
Alignment explanation
Indices: 161007--161212 Score: 207
Period size: 84 Copynumber: 2.3 Consensus size: 91
160997 ACTAAAAATC
* * *
161007 CAACGTACACAACATAAAAATACTCAACAAAAAATTCTAAAGCAAATTAATGTTTCAAAGTTCAA
1 CAACGTACATAACATAAAAATACTCAACAAAAAAGT-T-AAGCAAATTAATGTTTCAAAGTCCAA
161072 CAAACTA-AAACCATTACAATTTTAATAT
64 CAAACTAGAAA-CATTACAATTTTAATAT
* * * * *
161100 ACAACGTATATAACA-AAGAA-A-T-----AAAAAGTTAAGTAAATTAATGTTTTAATGTCCAAC
1 -CAACGTACATAACATAAAAATACTCAACAAAAAAGTTAAGCAAATTAATGTTTCAAAGTCCAAC
*
161157 AAACTAGAAACATTACAATTTTAGTAT
65 AAACTAGAAACATTACAATTTTAATAT
* *
161184 -AACATACATAACATATAAATACTCAACAA
1 CAACGTACATAACATAAAAATACTCAACAA
161213 TTTTTTTTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
82 11 0.12
83 3 0.03
84 46 0.51
85 5 0.06
86 6 0.07
90 1 0.01
91 1 0.01
92 1 0.01
93 4 0.04
94 12 0.13
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.27
Consensus pattern (91 bp):
CAACGTACATAACATAAAAATACTCAACAAAAAAGTTAAGCAAATTAATGTTTCAAAGTCCAACA
AACTAGAAACATTACAATTTTAATAT
Found at i:165263 original size:63 final size:64
Alignment explanation
Indices: 165139--165282 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 64
165129 AGAAGCAGAG
* * * * * *
165139 ATGTGATAGCATGTGTATTTATTTATGCACTTTTTTGTATGTTAGCATGTTTATTAAATTTTGAC
1 ATGTGAT-TCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
* * *
165204 ATGTGATTCATGTGTGTTTATTTGTGCA-TTTATTGGCTGTTACCATATTTGTTAAATTTTGAC
1 ATGTGATTCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
* *
165267 ATGTGTTTCATATGTG
1 ATGTGATTCATGTGTG
165283 CATCAGTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 43 0.63
64 18 0.26
65 7 0.10
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (64 bp):
ATGTGATTCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
Found at i:165824 original size:24 final size:24
Alignment explanation
Indices: 165791--165841 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
165781 TGGGTTGTTG
*
165791 GTGTACGTGGGCTAGGGGCTAATA
1 GTGTACGTGGGCTAAGGGCTAATA
* *
165815 GTGTAGGTGGGCTAAGGGCTACTA
1 GTGTACGTGGGCTAAGGGCTAATA
165839 GTG
1 GTG
165842 GGTTAGGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.12, G:0.43, T:0.25
Consensus pattern (24 bp):
GTGTACGTGGGCTAAGGGCTAATA
Found at i:166322 original size:3 final size:3
Alignment explanation
Indices: 166307--166349 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
166297 GGTTAAAGAA
*
166307 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
166350 AGTGTGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:167701 original size:14 final size:16
Alignment explanation
Indices: 167677--167709 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
167667 GTTTATTTTG
167677 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
167692 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
167707 TTT
1 TTT
167710 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:169931 original size:8 final size:8
Alignment explanation
Indices: 169918--170005 Score: 72
Period size: 8 Copynumber: 10.5 Consensus size: 8
169908 AACCCGACCC
169918 GACCCGTT
1 GACCCGTT
**
169926 GACCCGACC
1 GACCCG-TT
169935 GACCCGTT
1 GACCCGTT
**
169943 GACCCGACC
1 GACCCG-TT
169952 GACCCGTT
1 GACCCGTT
169960 GA-CCGTT
1 GACCCGTT
169967 GACCCGTT
1 GACCCGTT
169975 GA-CCGTT
1 GACCCGTT
169982 GACCGGCGTT
1 GACC--CGTT
169992 GACCACTGTT
1 GACC-C-GTT
170002 GACC
1 GACC
170006 AAAACTTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
7 14 0.22
8 22 0.34
9 13 0.20
10 15 0.23
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (8 bp):
GACCCGTT
Found at i:169938 original size:17 final size:17
Alignment explanation
Indices: 169909--169963 Score: 101
Period size: 17 Copynumber: 3.2 Consensus size: 17
169899 ACCGGTCACA
169909 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
169927 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
169944 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
169961 ACC
1 ACC
169964 GTTGACCCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 31 0.84
18 6 0.16
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:169967 original size:7 final size:7
Alignment explanation
Indices: 169955--169986 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
169945 CCCGACCGAC
169955 CCGTTGA
1 CCGTTGA
169962 CCGTTGA
1 CCGTTGA
169969 CCCGTTGA
1 -CCGTTGA
169977 CCGTTGA
1 CCGTTGA
169984 CCG
1 CCG
169987 GCGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:169972 original size:15 final size:15
Alignment explanation
Indices: 169952--169995 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 15
169942 TGACCCGACC
169952 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
169967 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
169982 GACCGGCGTTGACC
1 GACC--CGTTGACC
169996 ACTGTTGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 19 0.70
17 8 0.30
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:172479 original size:23 final size:23
Alignment explanation
Indices: 172453--172535 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
172443 TCCGACTTGA
* *
172453 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
172476 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
172499 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
172523 ATTCTGATATGAT
1 ATTCTGATATGAT
172536 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:172523 original size:24 final size:24
Alignment explanation
Indices: 172468--172542 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
172458 GTTATGATCC
172468 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
172491 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
172515 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
172539 TGAC
1 TGAC
172543 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:174747 original size:8 final size:8
Alignment explanation
Indices: 174734--174829 Score: 79
Period size: 8 Copynumber: 11.5 Consensus size: 8
174724 AACCCGACCC
174734 GACCCGTT
1 GACCCGTT
**
174742 GACCCGACC
1 GACCCG-TT
174751 GACCCGTT
1 GACCCGTT
**
174759 GACCCGACC
1 GACCCG-TT
174768 GACCCGTT
1 GACCCGTT
*
174776 GACCTGTT
1 GACCCGTT
174784 GA-CCGTT
1 GACCCGTT
174791 GACCCGTT
1 GACCCGTT
174799 GA-CCGTT
1 GACCCGTT
174806 GACCGGCGTT
1 GACC--CGTT
174816 GACCACTGTT
1 GACC-C-GTT
174826 GACC
1 GACC
174830 AAAACTTTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
7 13 0.19
8 29 0.41
9 13 0.19
10 15 0.21
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:174754 original size:17 final size:17
Alignment explanation
Indices: 174725--174779 Score: 101
Period size: 17 Copynumber: 3.2 Consensus size: 17
174715 ACCGGTCACA
174725 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
174743 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
174760 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
174777 ACC
1 ACC
174780 TGTTGACCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 31 0.84
18 6 0.16
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:174791 original size:15 final size:15
Alignment explanation
Indices: 174771--174819 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
174761 CCCGACCGAC
*
174771 CCGTTGACCTGTTGA
1 CCGTTGACCCGTTGA
174786 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
174801 CCGTTGACCGGCGTTGA
1 CCGTTGACC--CGTTGA
174818 CC
1 CC
174820 ACTGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 23 0.74
17 8 0.26
ACGTcount: A:0.12, C:0.33, G:0.29, T:0.27
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:174793 original size:7 final size:7
Alignment explanation
Indices: 174771--174810 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
174761 CCCGACCGAC
174771 CCGTTGA
1 CCGTTGA
174778 CCTGTTGA
1 CC-GTTGA
174786 CCGTTGA
1 CCGTTGA
174793 CCCGTTGA
1 -CCGTTGA
174801 CCGTTGA
1 CCGTTGA
174808 CCG
1 CCG
174811 GCGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:177311 original size:23 final size:23
Alignment explanation
Indices: 177285--177367 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
177275 TCCGACTTGA
* *
177285 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
177308 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
177331 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
177355 ATTCTGATATGAT
1 ATTCTGATATGAT
177368 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:177355 original size:24 final size:24
Alignment explanation
Indices: 177300--177374 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
177290 GTTATGATCC
177300 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
177323 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
177347 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
177371 TGAC
1 TGAC
177375 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:179569 original size:8 final size:8
Alignment explanation
Indices: 179556--179651 Score: 79
Period size: 8 Copynumber: 11.5 Consensus size: 8
179546 AACCCGACCC
179556 GACCCGTT
1 GACCCGTT
**
179564 GACCCGACC
1 GACCCG-TT
179573 GACCCGTT
1 GACCCGTT
**
179581 GACCCGACC
1 GACCCG-TT
179590 GACCCGTT
1 GACCCGTT
*
179598 GACCTGTT
1 GACCCGTT
179606 GA-CCGTT
1 GACCCGTT
179613 GACCCGTT
1 GACCCGTT
179621 GA-CCGTT
1 GACCCGTT
179628 GACCGGCGTT
1 GACC--CGTT
179638 GACCACTGTT
1 GACC-C-GTT
179648 GACC
1 GACC
179652 AAAACTTTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
7 13 0.19
8 29 0.41
9 13 0.19
10 15 0.21
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:179576 original size:17 final size:17
Alignment explanation
Indices: 179547--179601 Score: 101
Period size: 17 Copynumber: 3.2 Consensus size: 17
179537 ACCGGTCACA
179547 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
179565 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
179582 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
179599 ACC
1 ACC
179602 TGTTGACCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 31 0.84
18 6 0.16
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:179613 original size:15 final size:15
Alignment explanation
Indices: 179593--179641 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
179583 CCCGACCGAC
*
179593 CCGTTGACCTGTTGA
1 CCGTTGACCCGTTGA
179608 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
179623 CCGTTGACCGGCGTTGA
1 CCGTTGACC--CGTTGA
179640 CC
1 CC
179642 ACTGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 23 0.74
17 8 0.26
ACGTcount: A:0.12, C:0.33, G:0.29, T:0.27
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:179615 original size:7 final size:7
Alignment explanation
Indices: 179593--179632 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
179583 CCCGACCGAC
179593 CCGTTGA
1 CCGTTGA
179600 CCTGTTGA
1 CC-GTTGA
179608 CCGTTGA
1 CCGTTGA
179615 CCCGTTGA
1 -CCGTTGA
179623 CCGTTGA
1 CCGTTGA
179630 CCG
1 CCG
179633 GCGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:182130 original size:23 final size:23
Alignment explanation
Indices: 182104--182186 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
182094 TCCGACTTGA
* *
182104 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* * *
182127 ATTCTAATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
* *
182150 ATTCTGATCTGATACATGACCTGT
1 ATTCTGATATGAT-CATGACCTGG
182174 ATTCTGATATGAT
1 ATTCTGATATGAT
182187 ACTTGACTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 29 0.60
24 18 0.38
25 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:182177 original size:24 final size:24
Alignment explanation
Indices: 182119--182193 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
182109 GTTATGATCC
*
182119 TGACCTGGATTCTAATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
182142 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
* *
182166 TGACCTGTATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
182190 TGAC
1 TGAC
182194 TTGAATTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:184390 original size:8 final size:8
Alignment explanation
Indices: 184377--184472 Score: 61
Period size: 8 Copynumber: 11.5 Consensus size: 8
184367 AACCCGACCC
184377 GACCCGTT
1 GACCCGTT
**
184385 GACCCGACC
1 GACCCG-TT
184394 GACCCGTT
1 GACCCGTT
**
184402 GACCCGACC
1 GACCCG-TT
* *
184411 AACCCGTA
1 GACCCGTT
*
184419 GACCTGTT
1 GACCCGTT
184427 GA-CCGTT
1 GACCCGTT
184434 GACCCGTT
1 GACCCGTT
184442 GA-CCGTT
1 GACCCGTT
184449 GACCGGCGTT
1 GACC--CGTT
184459 GACCACTGTT
1 GACC-C-GTT
184469 GACC
1 GACC
184473 AAAACTTTGA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
7 13 0.19
8 27 0.40
9 12 0.18
10 15 0.22
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Done.