Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 17
Found at i:1074 original size:30 final size:30
Alignment explanation
Indices: 1040--1105 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1030 AAAACCGATA
1040 GAACCGACTGAAAACCGGT-AAAACCGGGGT
1 GAACCGACTGAAAACC-GTCAAAACCGGGGT
* **
1070 GAACCGGCTGAAAACCGTCAAAACCGGTTT
1 GAACCGACTGAAAACCGTCAAAACCGGGGT
1100 GAACCG
1 GAACCG
1106 CCGGTTCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.35, C:0.26, G:0.27, T:0.12
Consensus pattern (30 bp):
GAACCGACTGAAAACCGTCAAAACCGGGGT
Found at i:4636 original size:2 final size:2
Alignment explanation
Indices: 4629--4665 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4619 ATCTTAACAT
4629 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4666 TATTCTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4652 original size:15 final size:15
Alignment explanation
Indices: 4632--4665 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4622 TTAACATTAT
4632 ATATATATATATATA
1 ATATATATATATATA
*
4647 ATATATATATATATT
1 ATATATATATATATA
4662 ATAT
1 ATAT
4666 TATTCTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:4701 original size:29 final size:29
Alignment explanation
Indices: 4665--4789 Score: 157
Period size: 29 Copynumber: 4.3 Consensus size: 29
4655 ATATATTATA
*
4665 TTATTCTTATCTTAACTTAAAAGTATATT
1 TTATTCTTATCTTAACTTAAAAATATATT
* *
4694 TTATTCTTATTTTCACTTAAAAATATATT
1 TTATTCTTATCTTAACTTAAAAATATATT
*
4723 TTATT-TTA--TTAACTTAAAAATATAAT
1 TTATTCTTATCTTAACTTAAAAATATATT
* *
4749 TTATTCTTACCTTAACTTAAATATTTATATT
1 TTATTCTTATCTTAACTTAAA-A-ATATATT
4780 TTATTCTTAT
1 TTATTCTTAT
4790 AATATTTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
26 21 0.25
27 3 0.04
28 3 0.04
29 41 0.49
30 1 0.01
31 14 0.17
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.54
Consensus pattern (29 bp):
TTATTCTTATCTTAACTTAAAAATATATT
Found at i:4735 original size:55 final size:58
Alignment explanation
Indices: 4653--4789 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 58
4643 TATAATATAT
* * * ** *
4653 ATATATATTATATTATTCTTATCTTAACTTAAAAGTATATTTTATTCTTATTTTCACTTAA
1 ATATATA-TATTTTATTCTTA--TTAACTTAAAAATATAATTTATTCTTACCTTAACTTAA
4714 A-A-ATATATTTTATT-TTATTAACTTAAAAATATAATTTATTCTTACCTTAACTTAA
1 ATATATATATTTTATTCTTATTAACTTAAAAATATAATTTATTCTTACCTTAACTTAA
*
4769 ATATTTATATTTTATTCTTAT
1 ATATATATATTTTATTCTTAT
4790 AATATTTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
55 34 0.52
56 1 0.02
57 14 0.21
58 12 0.18
59 3 0.05
60 1 0.02
61 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (58 bp):
ATATATATATTTTATTCTTATTAACTTAAAAATATAATTTATTCTTACCTTAACTTAA
Found at i:4804 original size:22 final size:21
Alignment explanation
Indices: 4764--4804 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4754 CTTACCTTAA
* *
4764 CTTAAATATTTATATTTTATT
1 CTTAAATATTTAAAATTTATT
4785 CTTATAATATTTAAAATTTA
1 CTTA-AATATTTAAAATTTA
4805 AGATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
CTTAAATATTTAAAATTTATT
Found at i:4951 original size:30 final size:28
Alignment explanation
Indices: 4900--4960 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
4890 AAGGATAAAT
*
4900 TATATTTAATTTTAAGGTAAGACTAGAA
1 TATATTTAATTTTAAGGTAAGAATAGAA
* *
4928 TATATTTAATAATTTAAGTTAAGAATATAA
1 TATATTTAAT--TTTAAGGTAAGAATAGAA
4958 TAT
1 TAT
4961 GTAATAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.36
30 18 0.64
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.43
Consensus pattern (28 bp):
TATATTTAATTTTAAGGTAAGAATAGAA
Found at i:5026 original size:28 final size:27
Alignment explanation
Indices: 4966--5068 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 27
4956 AATATGTAAT
4966 AAGTTAAAATAAAATAAGATATATTTTTA
1 AAGTTAAAATAAAATAA-A-ATATTTTTA
*
4995 AAGTTAAGATAAAAATAAAATATTTTTA
1 AAGTTAAAAT-AAAATAAAATATTTTTA
* * * *
5023 AAGTTGAGATAAGATTAAAATA-TTTTC
1 AAGTTAAAATAA-AATAAAATATTTTTA
5050 AAGTTAAAATAAAATAAAA
1 AAGTTAAAATAAAATAAAA
5069 ATAAAATATA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.09
27 16 0.25
28 26 0.40
29 10 0.15
30 7 0.11
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (27 bp):
AAGTTAAAATAAAATAAAATATTTTTA
Found at i:6550 original size:20 final size:20
Alignment explanation
Indices: 6525--6617 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
6515 ATTTTCCCAT
*
6525 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
6545 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
6566 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
6586 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
6607 TCGCAATGCGA
1 TCGCAATGCGA
6618 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:6568 original size:21 final size:21
Alignment explanation
Indices: 6542--6617 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
6532 GTGAATAAGT
6542 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
6563 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
6583 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
6604 AAATCGCAATGCGA
1 AAATCGCAACGCGA
6618 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:6582 original size:41 final size:41
Alignment explanation
Indices: 6525--6617 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
6515 ATTTTCCCAT
*
6525 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
6566 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
6607 TCGCAATGCGA
1 TCGCAATGCGA
6618 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:6630 original size:41 final size:41
Alignment explanation
Indices: 6544--6678 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
6534 GAATAAGTAA
* *
6544 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
6585 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
6626 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
6667 TTCGCAACGCGA
1 ATCGCAACGCGA
6679 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:6631 original size:20 final size:20
Alignment explanation
Indices: 6606--6700 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
6596 AATTGGGAAA
*
6606 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
6626 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
6647 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
6667 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
6687 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6701 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6913 original size:22 final size:22
Alignment explanation
Indices: 6885--6928 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6875 CACTCTCTCA
6885 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6907 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
6929 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:8559 original size:18 final size:18
Alignment explanation
Indices: 8538--8582 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8528 TCCACTTCGG
* *
8538 GAGCCATCACCTCGCCTA
1 GAGCCATCACCTCACCCA
*
8556 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
8574 GAGCCATCA
1 GAGCCATCA
8583 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9108 original size:19 final size:20
Alignment explanation
Indices: 9065--9120 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
9055 TTCGCAACGA
9065 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* * *
9085 AAATGGCTATCGTAATGC-G
1 AAATGACTATCGCAACGCGG
**
9104 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
9121 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:9166 original size:19 final size:19
Alignment explanation
Indices: 9093--9174 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
9083 GGAAATGGCT
*
9093 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9112 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
9126 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
9144 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9163 ATCGCAATGCGA
1 ATCGCAATGCGA
9175 TTTGTGTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 18 0.35
19 19 0.37
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9240 original size:19 final size:19
Alignment explanation
Indices: 9216--9282 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
9206 TGCGATTTTT
**
9216 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
9235 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
9255 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
9274 CGTTGCGAT
1 CGTTGCGAT
9283 TTTATGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:9262 original size:20 final size:19
Alignment explanation
Indices: 9228--9282 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
9218 TTGCGATTTT
*
9228 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9247 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
9267 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
9283 TTTATGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:11303 original size:19 final size:19
Alignment explanation
Indices: 11281--11398 Score: 143
Period size: 19 Copynumber: 6.8 Consensus size: 19
11271 ATCGCAACGA
11281 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
11300 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
11319 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
11333 -AAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
11351 G-AAATCGCAATGTGAAAT
1 GAAAATCGCAATGCGAAAT
11369 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
11383 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
11399 TTTTCATTTC
Statistics
Matches: 87, Mismatches: 2, Indels: 22
0.78 0.02 0.20
Matches are distributed among these distances:
13 10 0.11
14 11 0.13
15 4 0.05
16 2 0.02
17 4 0.05
18 17 0.20
19 39 0.45
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:11339 original size:32 final size:31
Alignment explanation
Indices: 11301--11360 Score: 111
Period size: 32 Copynumber: 1.9 Consensus size: 31
11291 ATGCGAAATG
11301 AAAATCGCAATGCGAAATGAAAATCGCAACGA
1 AAAATCGCAATGCGAAATG-AAATCGCAACGA
11333 AAAATCGCAATGCGAAATGAAATCGCAA
1 AAAATCGCAATGCGAAATGAAATCGCAA
11361 TGTGAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.13
Consensus pattern (31 bp):
AAAATCGCAATGCGAAATGAAATCGCAACGA
Found at i:11388 original size:51 final size:52
Alignment explanation
Indices: 11252--11398 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 52
11242 CAAACAGACT
* ***
11252 ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
11304 ATCGCAATGCGAAATGAAAATCGCAACGA-AAAATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
*
11354 ATCGCAATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
11399 TTTTCATTTC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
50 30 0.34
51 34 0.38
52 25 0.28
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:11474 original size:20 final size:20
Alignment explanation
Indices: 11417--11474 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
11407 TCGCATTGCG
* *
11417 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
11437 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
11457 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
11475 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:12551 original size:24 final size:24
Alignment explanation
Indices: 12524--12577 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
12514 GTATTCGAAA
* *
12524 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
12548 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
12572 TTTGAT
1 TTTGAT
12578 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:15097 original size:33 final size:33
Alignment explanation
Indices: 15053--15174 Score: 169
Period size: 33 Copynumber: 3.7 Consensus size: 33
15043 ATTACTATCA
*
15053 CAATGCAAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
** *
15086 CAATGCGAAATGAAAATCGCAACGCTA-ATTTCG
1 CAATGCGAAATGAAAATCGCAACGAGAGA-ATCG
15119 CAATGCGAAATGAAAATCGCAACGACG-GAATCG
1 CAATGCGAAATGAAAATCGCAACGA-GAGAATCG
15152 CAATGCGAAATG-AAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
15175 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.15
33 66 0.84
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCG
Found at i:15159 original size:66 final size:65
Alignment explanation
Indices: 15053--15181 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 65
15043 ATTACTATCA
*
15053 CAATGCAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTTC
1 CAATGCAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAACGCGAATTTC
15118 G
65 G
*
15119 CAATGCGAAATGAAAATCGCAACGACG-GAATCGCAATGCGAAATGAAATCGCAACGCGAATTT
1 CAATGCAAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAATGAAATCGCAACGCGAATTT
15182 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
65 17 0.28
66 42 0.70
67 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (65 bp):
CAATGCAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAACGCGAATTTCG
Found at i:15376 original size:14 final size:14
Alignment explanation
Indices: 15357--15393 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15347 CATCAATTAA
15357 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
15371 ACAAATCACCTTTT
1 ACAAATCAACTTTT
15385 ACAAATCAA
1 ACAAATCAA
15394 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:16828 original size:41 final size:42
Alignment explanation
Indices: 16780--16862 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
16770 ACGATGACAT
* *
16780 GGCCTCTTGAACG-TGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
16821 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
16863 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:18811 original size:20 final size:20
Alignment explanation
Indices: 18782--18843 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
18772 TTTTGGTTGA
*
18782 AATGAAAATCGCAACGAGAT
1 AATGAAAATCGCAACGAGAG
* *
18802 AATGAGAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
18821 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
18841 AAT
1 AAT
18844 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:18908 original size:19 final size:19
Alignment explanation
Indices: 18780--18961 Score: 154
Period size: 19 Copynumber: 10.1 Consensus size: 19
18770 TCTTTTGGTT
*
18780 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
18799 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
* **
18819 GGAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
18836 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
18852 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
18870 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
18885 GAAATG-AAATCGCAACCAC
1 GAAATGAAAATCGCAA-CGC
18904 GAAAT-AAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
18922 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
18941 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
18960 GA
1 GA
18962 TTTTGGTTTC
Statistics
Matches: 133, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.02
17 2 0.02
18 18 0.14
19 73 0.55
20 16 0.12
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:18924 original size:37 final size:38
Alignment explanation
Indices: 18780--18961 Score: 147
Period size: 33 Copynumber: 5.1 Consensus size: 38
18770 TCTTTTGGTT
*
18780 GAAATGAAAATCGCAACGA-GATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAAC-ACGA-AATGAAAATCGCAACGC
* ** *
18819 GGAATGACTATCGC-A-ACG--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGC
** * *
18852 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGC
18885 GAAATG-AAATCGCAACCACGAAAT-AAAATCGCAACGC
1 GAAATGAAAATCGCAA-CACGAAATGAAAATCGCAACGC
* *
18922 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGC
18960 GA
1 GA
18962 TTTTGGTTTC
Statistics
Matches: 121, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
32 6 0.05
33 48 0.40
34 4 0.03
36 1 0.01
37 27 0.22
38 24 0.20
39 11 0.09
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGC
Found at i:18990 original size:19 final size:19
Alignment explanation
Indices: 18957--19001 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
18947 AAAATCGCAA
*
18957 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
18976 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
18995 TGCGATT
1 TGCGATT
19002 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:19572 original size:20 final size:20
Alignment explanation
Indices: 19547--19599 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
19537 GCGCTATGTA
19547 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
19567 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
19587 TATCTCGTTGCGA
1 AATCGCGTTGCGA
19600 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:19659 original size:21 final size:21
Alignment explanation
Indices: 19630--19722 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
19620 ATAGTAAGTA
19630 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
19651 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
19671 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
19692 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
19712 TCGCATTGCGA
1 TCGCATTGCGA
19723 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 (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:19660 original size:41 final size:41
Alignment explanation
Indices: 19569--19703 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
19559 AAAGTCAGAA
* * * * ** *
19569 TCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
19609 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
19651 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
19692 TCGCGTTGCGAT
1 TCGCGTTGCGAT
19704 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:19704 original size:41 final size:41
Alignment explanation
Indices: 19630--19722 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
19620 ATAGTAAGTA
19630 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
19671 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
19712 TCGCATTGCGA
1 TCGCATTGCGA
19723 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:21961 original size:13 final size:14
Alignment explanation
Indices: 21945--21973 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21935 GATGTCTACC
21945 TCAACATTC-TATG
1 TCAACATTCTTATG
21958 TCAACATTCTTATG
1 TCAACATTCTTATG
21972 TC
1 TC
21974 TCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (14 bp):
TCAACATTCTTATG
Found at i:35727 original size:21 final size:21
Alignment explanation
Indices: 35688--35727 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35678 AAATACCTTG
* *
35688 GTATCAATACTCTTTTGAGGA
1 GTATCAATACTCCTATGAGGA
*
35709 GTATCGATACTCCTATGAG
1 GTATCAATACTCCTATGAG
35728 TATCGATACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (21 bp):
GTATCAATACTCCTATGAGGA
Found at i:37661 original size:35 final size:35
Alignment explanation
Indices: 37617--37684 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
37607 GCATTCATGT
*
37617 GGTATCGATACCTGAAGAACAATATCGATACCAAG
1 GGTACCGATACCTGAAGAACAATATCGATACCAAG
* ** *
37652 GGTACCGATACTTTTAGAACGATATCGATACCA
1 GGTACCGATACCTGAAGAACAATATCGATACCA
37685 TCTTTGAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (35 bp):
GGTACCGATACCTGAAGAACAATATCGATACCAAG
Found at i:39494 original size:60 final size:61
Alignment explanation
Indices: 39340--39495 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 61
39330 AGATGTTCAA
* * * *
39340 AAAAGTTTGGGGACCAATTTAGAATGAAAATCATAGTTTGGGGATGAAAAATGAAATGTCC
1 AAAAGTTTAGGGACCAATTTAGAATGAAAGTCATAGTTTAGGGATGAAAAATAAAATGTCC
* * ** * * * **
39401 AAAAGTTTAAGAATTAATTTAGAATGATAGTCATAGTTTAGGGATG-TAATTAAAATGTTT
1 AAAAGTTTAGGGACCAATTTAGAATGAAAGTCATAGTTTAGGGATGAAAAATAAAATGTCC
*
39461 AAAAGTTTAGGGACCAATTTAAAAT-AAAGGTCATA
1 AAAAGTTTAGGGACCAATTTAGAATGAAA-GTCATA
39496 ACTGAAGGAT
Statistics
Matches: 75, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
59 2 0.03
60 35 0.47
61 38 0.51
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.31
Consensus pattern (61 bp):
AAAAGTTTAGGGACCAATTTAGAATGAAAGTCATAGTTTAGGGATGAAAAATAAAATGTCC
Found at i:40777 original size:16 final size:16
Alignment explanation
Indices: 40756--40797 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
40746 TGTTGCTCGA
40756 CTCGTTGCTCATTAAG
1 CTCGTTGCTCATTAAG
* *
40772 CTCGTTACTCGTTAAG
1 CTCGTTGCTCATTAAG
40788 CTCGTTGCTC
1 CTCGTTGCTC
40798 TTCTCGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (16 bp):
CTCGTTGCTCATTAAG
Found at i:44162 original size:2 final size:2
Alignment explanation
Indices: 44155--44182 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44145 TTGACCTGAC
44155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44183 CTATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44775 original size:24 final size:24
Alignment explanation
Indices: 44743--44820 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
44733 CGTTCGGTAA
44743 TATGTTCGTTCAGTTATGTTCATT
1 TATGTTCGTTCAGTTATGTTCATT
*
44767 TATGTTCGTTC-GTTTATGTTCGTT
1 TATGTTCGTTCAG-TTATGTTCATT
* * *
44791 TATGTTTGTTTATGTGA-GTTCATT
1 TATGTTCGTTCA-GTTATGTTCATT
44815 TATGTT
1 TATGTT
44821 TAGCTCAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 42 0.91
25 2 0.04
26 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.19, T:0.58
Consensus pattern (24 bp):
TATGTTCGTTCAGTTATGTTCATT
Found at i:44787 original size:10 final size:10
Alignment explanation
Indices: 44774--44805 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
44764 ATTTATGTTC
44774 GTTCGTTTAT
1 GTTCGTTTAT
44784 GTTCGTTTAT
1 GTTCGTTTAT
*
44794 GTTTGTTTAT
1 GTTCGTTTAT
44804 GT
1 GT
44806 GAGTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.06, G:0.22, T:0.62
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:48149 original size:2 final size:2
Alignment explanation
Indices: 48144--48185 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
48134 AACTGTGGGT
48144 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
48186 ACAGATTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50064 original size:63 final size:63
Alignment explanation
Indices: 49988--50115 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
49978 GTAGGGGTGG
* *
49988 CCTCAATTGATAAGCTTGATTTGGTTTAGCATTTGGTCCATGGCTCAAGTTCAGATGATCTCT
1 CCTCAATTAATAAGATTGATTTGGTTTAGCATTTGGTCCATGGCTCAAGTTCAGATGATCTCT
*
50051 CCTCAATTAATAAGATTGATTTGGTTTAGGATTTGGTCCATGGCTCAAGTTCAGATGATCTCT
1 CCTCAATTAATAAGATTGATTTGGTTTAGCATTTGGTCCATGGCTCAAGTTCAGATGATCTCT
50114 CC
1 CC
50116 ATCCTGGATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (63 bp):
CCTCAATTAATAAGATTGATTTGGTTTAGCATTTGGTCCATGGCTCAAGTTCAGATGATCTCT
Found at i:52287 original size:32 final size:32
Alignment explanation
Indices: 52251--52316 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
52241 AGTCATCAAA
* *
52251 AACCCTAAAAGATTGCATTTAAACTAAAAGAT
1 AACCCTAAAAGATTACATTCAAACTAAAAGAT
52283 AACCCTAAAAGATTACATTCAAACTAAAAGAT
1 AACCCTAAAAGATTACATTCAAACTAAAAGAT
52315 AA
1 AA
52317 TTATGAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (32 bp):
AACCCTAAAAGATTACATTCAAACTAAAAGAT
Found at i:52803 original size:24 final size:23
Alignment explanation
Indices: 52760--52860 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 23
52750 TTTGTTTATC
* *
52760 TTCATTTATTGTGTTAGTTTATG
1 TTCATTTATTGTGTTCGTTTACG
52783 TTCA-TTAGTTTGTGTTCGTTTACG
1 TTCATTTA--TTGTGTTCGTTTACG
*
52807 TTCGTTTATTGTGTTCGTTTACG
1 TTCATTTATTGTGTTCGTTTACG
** * *
52830 TTTGTTTATTGTGTTCATTTATG
1 TTCATTTATTGTGTTCGTTTACG
*
52853 TTCGTTTA
1 TTCATTTA
52861 CATCCTTTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
22 3 0.04
23 46 0.68
24 16 0.24
25 3 0.04
ACGTcount: A:0.13, C:0.09, G:0.19, T:0.59
Consensus pattern (23 bp):
TTCATTTATTGTGTTCGTTTACG
Found at i:52824 original size:13 final size:13
Alignment explanation
Indices: 52806--52851 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
52796 GTTCGTTTAC
52806 GTTCGTTTATTGT
1 GTTCGTTTATTGT
*
52819 GTTCGTTTA-CGT
1 GTTCGTTTATTGT
52831 -TT-GTTTATTGT
1 GTTCGTTTATTGT
*
52842 GTTCATTTAT
1 GTTCGTTTAT
52852 GTTCGTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 4 0.15
13 14 0.52
ACGTcount: A:0.11, C:0.09, G:0.20, T:0.61
Consensus pattern (13 bp):
GTTCGTTTATTGT
Found at i:57740 original size:2 final size:2
Alignment explanation
Indices: 57733--57793 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
57723 ACGTCAATCC
*
57733 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57775 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
57794 GCTCATTGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59961 original size:22 final size:22
Alignment explanation
Indices: 59935--59979 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59925 ACGATCCTTC
59935 CACTGAAATAAGTTGGTTCGTA
1 CACTGAAATAAGTTGGTTCGTA
59957 CACTGAAATAAGTTGGTTCGTA
1 CACTGAAATAAGTTGGTTCGTA
59979 C
1 C
59980 TTGGTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
CACTGAAATAAGTTGGTTCGTA
Found at i:60760 original size:92 final size:92
Alignment explanation
Indices: 60646--60910 Score: 446
Period size: 92 Copynumber: 3.0 Consensus size: 92
60636 TTTAACATTA
60646 ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
1 ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
60711 GCGTTAAGTTTTCAACGATAAAGTATT
66 GCGTTAAGTTTTCAACGATAAAGTATT
60738 ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
1 ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
60803 GCGTTAAGTTTTCAACGATAAAG---T
66 GCGTTAAGTTTTCAACGATAAAGTATT
60827 A---TT---AAAA---AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
1 ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
60883 GCGTTAAGTTTTCAACGATAAAGTATT
66 GCGTTAAGTTTTCAACGATAAAGTATT
60910 A
1 A
60911 AAATAAAACG
Statistics
Matches: 170, Mismatches: 0, Indels: 15
0.92 0.00 0.08
Matches are distributed among these distances:
80 72 0.42
83 6 0.04
86 2 0.01
89 2 0.01
92 88 0.52
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (92 bp):
ATTTTTGAAAAAATTGAAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAAC
GCGTTAAGTTTTCAACGATAAAGTATT
Found at i:60887 original size:80 final size:80
Alignment explanation
Indices: 60754--60913 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
60744 GAAAAAATTG
60754 AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAACGCGTTAAGTTTTCAAC
1 AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAACGCGTTAAGTTTTCAAC
60819 GATAAAGTATTAAAA
66 GATAAAGTATTAAAA
60834 AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAACGCGTTAAGTTTTCAAC
1 AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAACGCGTTAAGTTTTCAAC
60899 GATAAAGTATTAAAA
66 GATAAAGTATTAAAA
60914 TAAAACGAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (80 bp):
AAAGTGTAGGTACTTAAACGAACCAATACTGATAGTTTAGGTATTAAACGCGTTAAGTTTTCAAC
GATAAAGTATTAAAA
Found at i:61155 original size:2 final size:2
Alignment explanation
Indices: 61148--61183 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
61138 TATTTTATTT
61148 TA TA TA TA TA TA TA TA TA T- TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61184 GGAGATATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:61172 original size:9 final size:9
Alignment explanation
Indices: 61147--61183 Score: 65
Period size: 9 Copynumber: 4.0 Consensus size: 9
61137 ATATTTTATT
61147 TTATATATA
1 TTATATATA
61156 TATATATATA
1 T-TATATATA
61166 TTATATATA
1 TTATATATA
61175 TTATATATA
1 TTATATATA
61184 GGAGATATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTATATATA
Found at i:65168 original size:21 final size:21
Alignment explanation
Indices: 65142--65215 Score: 139
Period size: 21 Copynumber: 3.5 Consensus size: 21
65132 ATTGACTCGA
*
65142 TGGTTTTGAAATCATGATGTG
1 TGGTTTTGAAATCATGATGCG
65163 TGGTTTTGAAATCATGATGCG
1 TGGTTTTGAAATCATGATGCG
65184 TGGTTTTGAAATCATGATGCG
1 TGGTTTTGAAATCATGATGCG
65205 TGGTTTTGAAA
1 TGGTTTTGAAA
65216 AGGATGTCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (21 bp):
TGGTTTTGAAATCATGATGCG
Found at i:65642 original size:140 final size:139
Alignment explanation
Indices: 65434--65834 Score: 522
Period size: 140 Copynumber: 2.9 Consensus size: 139
65424 GAGGACTAAA
* * * * * *
65434 CCTAGAAATGTAGGCTCTAATATTAACCCTATTTTATTTTAACCAATTATTGATTCGAGTAATCG
1 CCTA-AAATGGAGGCTCTAATATTAATCCTAATTCATTTTAACCAATTATTGATTCAAATAATCG
* * *
65499 AAATGGACCCTCGGGCATTAAGGCGAGGGCGAAGTCAAATTATTCCCTAAATTAAAGGACTAAAG
65 AAATGGACCCTCGGGCATTAAGGCGAGGGCCAAATCAAA-TATTCCCTAGATTAAAGGACTAAAG
65564 TG-AAATTAAG
129 TGAAAATTAAG
** * *
65574 CCTAAGGTGGAGGCTCTAATATTAATCCTAATTGATTTTTAACCAATTATTAATTCAAATAATCG
1 CCTAAAATGGAGGCTCTAATATTAATCCTAATTCA-TTTTAACCAATTATTGATTCAAATAATCG
* * *
65639 AAATGGACCCTCGGGCATTAAGGCGAAGGCCAAATCAAAGTATTTCCTAGATTTAAGGACTAAAG
65 AAATGGACCCTCGGGCATTAAGGCGAGGGCCAAATCAAA-TATTCCCTAGATTAAAGGACTAAAG
65704 TGAAAATTAAG
129 TGAAAATTAAG
* *
65715 CCTAAAATGGAGGCTCT-ATGATTAATCCTAATTCACTTTAACTAATTATTGATTCAAATAATCG
1 CCTAAAATGGAGGCTCTAAT-ATTAATCCTAATTCATTTTAACCAATTATTGATTCAAATAATCG
* * *
65779 AAAT-GATCCCTTGAGCATTAAAGCGAGGGCCAAAT-AGAATATTCCCTAGATTAAAG
65 AAATGGA-CCCTCGGGCATTAAGGCGAGGGCCAAATCA-AATATTCCCTAGATTAAAG
65835 AAAGTTCGAG
Statistics
Matches: 228, Mismatches: 28, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
139 43 0.19
140 148 0.65
141 37 0.16
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (139 bp):
CCTAAAATGGAGGCTCTAATATTAATCCTAATTCATTTTAACCAATTATTGATTCAAATAATCGA
AATGGACCCTCGGGCATTAAGGCGAGGGCCAAATCAAATATTCCCTAGATTAAAGGACTAAAGTG
AAAATTAAG
Found at i:66300 original size:62 final size:59
Alignment explanation
Indices: 66180--66296 Score: 177
Period size: 62 Copynumber: 2.0 Consensus size: 59
66170 CAACTAATGA
*
66180 CAAAAATATAAGGAAAAATAACATGTTTAATACCCTAACCTAACTGGAAGTAATAACAAAC
1 CAAAAATAAAAGGAAAAATAACATGTTTAATA-CC-AACCTAACTGGAAGTAATAACAAAC
66241 CAAAACATAAAAGGAAAAATAACATGTTTAATA-C-A-CTAACTGGAAGTAATAACAAA
1 CAAAA-ATAAAAGGAAAAATAACATGTTTAATACCAACCTAACTGGAAGTAATAACAAA
66297 ACAAGCTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
57 21 0.39
58 1 0.02
60 1 0.02
61 5 0.09
62 26 0.48
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.21
Consensus pattern (59 bp):
CAAAAATAAAAGGAAAAATAACATGTTTAATACCAACCTAACTGGAAGTAATAACAAAC
Found at i:75297 original size:11 final size:11
Alignment explanation
Indices: 75281--75305 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75271 ATTAAAATAA
75281 TTAAAACAAAT
1 TTAAAACAAAT
75292 TTAAAACAAAT
1 TTAAAACAAAT
75303 TTA
1 TTA
75306 TTATTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAAACAAAT
Found at i:78197 original size:10 final size:10
Alignment explanation
Indices: 78182--78237 Score: 76
Period size: 10 Copynumber: 5.6 Consensus size: 10
78172 GAAAAAAGAA
*
78182 ATACATATAC
1 ATACATATAT
78192 ATACATATAT
1 ATACATATAT
*
78202 ATATATATAT
1 ATACATATAT
*
78212 ATATATATAT
1 ATACATATAT
*
78222 ATATATATAT
1 ATACATATAT
78232 ATACAT
1 ATACAT
78238 GCCGAGAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATACATATAT
Found at i:78203 original size:2 final size:2
Alignment explanation
Indices: 78186--78234 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
78176 AAAGAAATAC
* *
78186 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78228 AT AT AT A
1 AT AT AT A
78235 CATGCCGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:79683 original size:18 final size:20
Alignment explanation
Indices: 79646--79687 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
79636 AAAGGAAAAC
79646 AATAATAGTAATAATAATAT
1 AATAATAGTAATAATAATAT
*
79666 AATAAT-GT-ATAATGATAT
1 AATAATAGTAATAATAATAT
79684 AATA
1 AATA
79688 TATGCACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 2 0.10
20 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
AATAATAGTAATAATAATAT
Found at i:79772 original size:2 final size:2
Alignment explanation
Indices: 79767--79804 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
79757 GTACTTTACA
79767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79805 GCTATACCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80837 original size:3 final size:3
Alignment explanation
Indices: 80829--80895 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
80819 CCAGACCTGA
80829 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
80877 AAT AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT
80896 TACTATTGTG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:80944 original size:19 final size:18
Alignment explanation
Indices: 80920--80959 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
80910 ATTATTTCCT
80920 TTAAAAACTATACTATATA
1 TTAAAAACTA-ACTATATA
* *
80939 TTAAAAGCTAAGTATATA
1 TTAAAAACTAACTATATA
80957 TTA
1 TTA
80960 CCTACTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (18 bp):
TTAAAAACTAACTATATA
Found at i:82157 original size:24 final size:21
Alignment explanation
Indices: 82129--82185 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 21
82119 TATAATATAT
*
82129 ACTATATAATAAAAATACTATGTA
1 ACTATATAATAAAAATA-TA--CA
* *
82153 ACTATATAGTATAAATATACA
1 ACTATATAATAAAAATATACA
82174 ACTATATAATAA
1 ACTATATAATAA
82186 TATATGTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 11 0.39
23 2 0.07
24 15 0.54
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
ACTATATAATAAAAATATACA
Found at i:82213 original size:42 final size:44
Alignment explanation
Indices: 82112--82213 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 44
82102 ATAATAATGC
*
82112 ATAATGATATAATATATACTATATAATAAAAATACTATGTAACTAT
1 ATAAT-ATAT-ATATATACAATATAATAAAAATACTATGTAACTAT
* * *
82158 ATAGTATA-A-ATATACAACTAT-ATAATAATA-TATGT-ACTTT
1 ATAATATATATATATACAA-TATAATAAAAATACTATGTAACTAT
82198 ATAATATATATATATA
1 ATAATATATATATATA
82214 TATGTATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
40 11 0.23
41 6 0.12
42 20 0.42
43 4 0.08
45 3 0.06
46 4 0.08
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (44 bp):
ATAATATATATATATACAATATAATAAAAATACTATGTAACTAT
Found at i:82226 original size:26 final size:26
Alignment explanation
Indices: 82176--82237 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
82166 AATATACAAC
*
82176 TATATAATAATATATGTACTTTATAA
1 TATATAATAATATATGTACTCTATAA
*
82202 TATAT-ATATATATATGTA-TGCTATAC
1 TATATAATA-ATATATGTACT-CTATAA
*
82228 CATATAATAA
1 TATATAATAA
82238 ATGCATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 23 0.77
27 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (26 bp):
TATATAATAATATATGTACTCTATAA
Found at i:83896 original size:11 final size:11
Alignment explanation
Indices: 83882--83906 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83872 TTTCTTGTTT
83882 TTTTGTTTTTG
1 TTTTGTTTTTG
83893 TTTTGTTTTTG
1 TTTTGTTTTTG
83904 TTT
1 TTT
83907 CAACTTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:92528 original size:2 final size:2
Alignment explanation
Indices: 92523--92551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92513 GAAATAAATA
92523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92552 CATGCCGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94016 original size:26 final size:25
Alignment explanation
Indices: 93970--94019 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
93960 TGATATGATA
93970 TATGTACTATATAATAAAAATATAT
1 TATGTACTATATAATAAAAATATAT
* * *
93995 TATGTAACTATGTAGTATAAATATA
1 TATGT-ACTATATAATAAAAATATA
94020 CAACTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
TATGTACTATATAATAAAAATATAT
Found at i:94038 original size:2 final size:2
Alignment explanation
Indices: 94024--94082 Score: 68
Period size: 2 Copynumber: 29.5 Consensus size: 2
94014 AATATACAAC
* *
94024 TA TA TA -A TA -A TA TA TG TA CTT TA TA GTA 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
94066 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
94083 GCTATACCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 2 0.04
2 44 0.90
3 3 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:95116 original size:3 final size:3
Alignment explanation
Indices: 95108--95168 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
95098 CCAGACATGA
95108 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
95156 AAT -AT AAT TAT AA
1 AAT AAT AAT AAT AA
95169 ACTATTGTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:95361 original size:24 final size:24
Alignment explanation
Indices: 95334--95390 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
95324 TTTACAAAAC
* *
95334 TATATGATATTTTAAAATATACTA
1 TATATAATATTATAAAATATACTA
* *
95358 TATATAATATTATATAATATACTG
1 TATATAATATTATAAAATATACTA
95382 TAATATAAT
1 T-ATATAAT
95391 TATGCACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TATATAATATTATAAAATATACTA
Found at i:107797 original size:3 final size:3
Alignment explanation
Indices: 107791--107821 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
107781 TTTTTATTTT
107791 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
107822 GATTTTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:116594 original size:138 final size:139
Alignment explanation
Indices: 116382--116643 Score: 355
Period size: 138 Copynumber: 1.9 Consensus size: 139
116372 CTAGAAATTT
* *
116382 AGGCTCTAATATTAACCCTATTTAATTTTAACCAATTATTGATTCAAATAATCGAAATAGACCCT
1 AGGCTCTAATATTAACCCTAATTAATTTTAACCAATTATTGATTCAAACAATCGAAATAGACCCT
* ** * *
116447 CAGGCATTAAG-CAAGGGTTAAGTCAAATTATTCCCTAAATTAAAGGACTAAAGTGAAATTAAGC
66 CAGGCATTAAGACAAAGGCCAAATCAAATTATTACCTAAATTAAAGGACTAAAGTGAAATTAAGC
116511 CTAACGTGA
131 CTAACGTGA
* ** * * ** *
116520 AGGCTCTAATATTAATCCTAATTGGTTTTTATCAATTATTGATTTGAACAATCGAAATGGACCCT
1 AGGCTCTAATATTAACCCTAATTAATTTTAACCAATTATTGATTCAAACAATCGAAATAGACCCT
* * *
116585 CGGGTATTAAGACAAAGGCCAAATCAAATTATTACCTAGATTAAAGGACTAAAGTGAAA
66 CAGGCATTAAGACAAAGGCCAAATCAAATTATTACCTAAATTAAAGGACTAAAGTGAAA
116644 AATTAAGCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
138 64 0.61
139 41 0.39
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (139 bp):
AGGCTCTAATATTAACCCTAATTAATTTTAACCAATTATTGATTCAAACAATCGAAATAGACCCT
CAGGCATTAAGACAAAGGCCAAATCAAATTATTACCTAAATTAAAGGACTAAAGTGAAATTAAGC
CTAACGTGA
Found at i:116800 original size:193 final size:192
Alignment explanation
Indices: 116452--116822 Score: 494
Period size: 193 Copynumber: 1.9 Consensus size: 192
116442 ACCCTCAGGC
** *
116452 ATTAAGCAAGGGTTAAGTCAAATTATTCCCTAAATTAAAGGACTAAAGTGAAATTAAGCCTAACG
1 ATTAAGCAAGGGCCAAGTCAAATTATTCCCTAAATTAAAAGACTAAAGTGAAATTAAGCCTAACG
* * * *
116517 TGAAGGCTCTAATATTAATCCTAATTGGTTTTTATCAATTATTGATTTGAACAATCGAAATGGAC
66 TGAAGGCTCTAATATTAATCCTAATTGATTTTTACCAATTATTGATTCGAACAATCAAAATGGAC
* *
116582 CCTCGGGTATTAAGACAAAGGCCAAATCAAATTATTACCTAGATTAAAGGACTAAAGTGAAAA
131 CCTCGAGCATTAAGACAAAGGCCAAATCAAA-TATTACCTAGATTAAAGGACTAAAGTGAAAA
** * *
116645 ATTAAGCAAGGGCCAAGTTGAATTATTCCCTAACTTAAAAGACTAAAGTGAAATTAAGCCTAAGG
1 ATTAAGCAAGGGCCAAGTCAAATTATTCCCTAAATTAAAAGACTAAAGTGAAATTAAGCCTAACG
* *
116710 TGGAGGCTCTAATATTAATCCTAATTGATTTTTAACCAATTATTGA-TCGAATAATCAAAAT-GA
66 TGAAGGCTCTAATATTAATCCTAATTGATTTTT-ACCAATTATTGATTCGAACAATCAAAATGGA
* *** * ** *
116773 TCCCTTGAGCATTAAGGTGAGGGCCAAATGGAATATTCCCTAGATTAAAG
130 -CCCTCGAGCATTAAGACAAAGGCCAAATCAAATATTACCTAGATTAAAG
116823 AAAATTCGAG
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
192 18 0.12
193 124 0.81
194 11 0.07
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (192 bp):
ATTAAGCAAGGGCCAAGTCAAATTATTCCCTAAATTAAAAGACTAAAGTGAAATTAAGCCTAACG
TGAAGGCTCTAATATTAATCCTAATTGATTTTTACCAATTATTGATTCGAACAATCAAAATGGAC
CCTCGAGCATTAAGACAAAGGCCAAATCAAATATTACCTAGATTAAAGGACTAAAGTGAAAA
Found at i:119007 original size:229 final size:226
Alignment explanation
Indices: 118451--119599 Score: 1934
Period size: 229 Copynumber: 5.2 Consensus size: 226
118441 GTTATATTGT
* * * *
118451 AAAGTATCTATCCTTTTTATAAAATTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
118515 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAAAATCAAA
118580 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACAC---T--
130 T-ATTTT-TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
118640 -----ATT-ACACATAAATTACATAACTTTAAAA
193 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
118668 AATA-TATATATCATTTTTATAAAAGTGTCCATACTTATTTCACCGTGGAAAACATATTTATTAT
1 AA-AGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTAT
118732 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
65 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAA
118797 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
129 AT-ATTTT-TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
118862 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
192 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
118897 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
118962 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC--AAAT--AAT
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATCAAAT
119023 -TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AAA
131 ATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
119085 AAATTGAAACATAAATTACATAACTTTAAAA
196 AAATTGAAACATAAATTACATAACTTTAAAA
119116 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
119181 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC--AAAT--AAT
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATCAAAT
119242 -TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
131 ATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
119306 AAATTGAAACATAAATTACATAACTTTCAAA
196 AAATTGAAACATAAATTACATAACTTTAAAA
119337 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
119402 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAA
119467 TATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TA--TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
* *
119532 AAAAAATTGAAACATAAATTACTTAACTTTCAAA
193 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
119566 AAAGTATATATCATTTTTATAAAAGTTTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
119600 GTATAAAAGT
Statistics
Matches: 895, Mismatches: 12, Indels: 38
0.95 0.01 0.04
Matches are distributed among these distances:
217 43 0.05
218 138 0.15
219 218 0.24
221 208 0.23
222 4 0.00
223 1 0.00
224 6 0.01
226 6 0.01
227 1 0.00
228 4 0.00
229 266 0.30
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (226 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATCAAAT
ATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAA
Found at i:119671 original size:20 final size:19
Alignment explanation
Indices: 119648--119694 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
119638 CGATATACCA
119648 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
119668 GGTAACAAAATTATAAAACC
1 GGTAA-AAAATGATAAAACC
119688 GGTAAAA
1 GGTAAAA
119695 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:119853 original size:20 final size:19
Alignment explanation
Indices: 119830--119876 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
119820 CGATATAACA
119830 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
119850 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
119870 GGTAAAA
1 GGTAAAA
119877 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:119878 original size:17 final size:19
Alignment explanation
Indices: 119839--119881 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
119829 AGGTAAAAAT
119839 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
119859 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
119876 ATGATA
1 ATGATA
119882 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:122119 original size:21 final size:21
Alignment explanation
Indices: 122095--122138 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
122085 AAGACAATCA
122095 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
122116 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
122137 AG
1 AG
122139 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:122214 original size:33 final size:33
Alignment explanation
Indices: 122172--122237 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
122162 AAATAGATGG
*
122172 AGTGGTGAAAGAAG-TAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGCT-GAGGTGTTAAGGGGTGA
*
122205 AGTGGTGAAAGAAGCTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGCTGAGGTGTTAAGGGGTGA
122238 TATTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGCTGAGGTGTTAAGGGGTGA
Found at i:124052 original size:19 final size:19
Alignment explanation
Indices: 124028--124073 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
124018 AATGTAGGGT
124028 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
124047 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
124066 TATATTTT
1 TA-ATTTT
124074 TATGTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:124550 original size:200 final size:199
Alignment explanation
Indices: 124207--125548 Score: 2361
Period size: 200 Copynumber: 6.7 Consensus size: 199
124197 CATGGTGCAA
124207 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* * * *
124272 TCAATATAATCGGTATAAATATACCGATTTTATGAGAGAATATGTCTAAATAATGTGTCAACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
*
124337 ATTATAGTTTATGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAAGTG
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AAAGTG
124402 TCGAT
195 TCGAT
*
124407 CCATATATAAAAAGTGTCGATCCTAAAAACATCAAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
*
124472 TCAATCTAACCGGTACAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
*
124537 ATTATAGTTTATGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAAGTG
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AAAGTG
124602 TCGAT
195 TCGAT
124607 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* *
124672 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATTTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
* *
124737 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAAGGTGCAACCATAAAGTGT
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
124802 CGAT
196 CGAT
*
124806 CCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
*
124871 TCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
124936 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAAGTG
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AAAGTG
125001 TCGAT
195 TCGAT
125006 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* * * *
125071 TCAATCTAACAGGTACAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATTTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
*
125136 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
125201 CGAT
196 CGAT
*
125205 CCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* *
125270 TCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACG
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
* *
125335 GTT-TAGTTTGTGTCGATAGTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
131 ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
125399 CGAT
196 CGAT
* *
125403 CCATATATAAAAAGTGTCGATCCCAAAAACATCAAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* *
125468 TCAATCTAACCGGTA-CAGTATA-CGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACG
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACAC-
125531 T-TT-TAGTTTGTGTCGATA
130 TATTATAGTTTGTGTCGATA
125549 CTAATTTAAA
Statistics
Matches: 1100, Mismatches: 40, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
196 57 0.05
197 5 0.00
198 142 0.13
199 329 0.30
200 567 0.52
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
ATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
CGAT
Found at i:124969 original size:399 final size:399
Alignment explanation
Indices: 124207--125548 Score: 2406
Period size: 399 Copynumber: 3.4 Consensus size: 399
124197 CATGGTGCAA
124207 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* * * * *
124272 TCAATATAATCGGTATAAATATACCGATTTTATGAGAGAATATGTCTAAATAATGTGTCAACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACT
* *
124337 ATTATAGTTTATGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAAGTG
131 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AAAGTG
* *
124402 TCGATCCATATATAAAAAGTGTCGATCCTAAAAACATCAAACCCAAAAGTATAATGTAATATGTA
195 TCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTA
* *
124467 ATTTTTCAATCTAACCGGTACAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCG
260 ATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCG
*
124532 ACACTATTATAGTTTATGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAA
325 ACACTATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAA
124597 AAGTGTCGAT
390 AAGTGTCGAT
124607 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
*
124672 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATTTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACT
*
124737 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAAGGTGCAACCATAAAGTGT
131 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
124802 CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAA
196 CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAA
124867 TTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
261 TTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
124932 CACTATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAA
326 CACTATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAA
124997 AGTGTCGAT
391 AGTGTCGAT
125006 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* * *
125071 TCAATCTAACAGGTACAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATTTCGACACT
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACT
125136 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
131 ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
125201 CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAA
196 CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAA
125266 TTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
261 TTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
** *
125331 CACGGTT-TAGTTTGTGTCGATAGTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AA
326 CACTATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAA
125394 AGTGTCGAT
391 AGTGTCGAT
* *
125403 CCATATATAAAAAGTGTCGATCCCAAAAACATCAAACCCAAAAGTATAATGTAATATGTAATTTT
1 CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
* * *
125468 TCAATCTAACCGGTA-CAGTATA-CGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACAC-
66 TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACT
*
125530 GTTTTAGTTTGTGTCGATA
131 ATTTTAGTTTGTGTCGATA
125549 CTAATTTAAA
Statistics
Matches: 914, Mismatches: 28, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
394 18 0.02
395 38 0.04
396 5 0.01
397 88 0.10
398 53 0.06
399 533 0.58
400 179 0.20
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (399 bp):
CCATATATAAAAAGTGTCGATCCTAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTT
TCAATCTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACT
ATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGT
CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAA
TTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
CACTATTATAGTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAA
AGTGTCGAT
Found at i:127032 original size:12 final size:12
Alignment explanation
Indices: 127015--127101 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
127005 GGTCGCAGAA
*
127015 GATGAAGCTGAC
1 GATGAAGATGAC
127027 GATGAAGATGAC
1 GATGAAGATGAC
*
127039 GATGATGA-GAC
1 GATGAAGATGAC
*
127050 GATGAAGCTGAC
1 GATGAAGATGAC
*
127062 GATGAAGATGAT
1 GATGAAGATGAC
* *
127074 GATGATGATGAT
1 GATGAAGATGAC
*
127086 GATGATGATGA-
1 GATGAAGATGAC
127097 GATGA
1 GATGA
127102 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.21
12 53 0.79
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:127036 original size:6 final size:6
Alignment explanation
Indices: 127012--127101 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
127002 AGCGGTCGCA
* * * * * *
127012 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGA- GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * *
127059 GACGAT GAAGAT GATGAT GATGAT GATGAT GATGAT G-AGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
127102 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
5 8 0.12
6 60 0.88
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:127061 original size:35 final size:36
Alignment explanation
Indices: 127015--127090 Score: 127
Period size: 35 Copynumber: 2.1 Consensus size: 36
127005 GGTCGCAGAA
127015 GATGAAGCTGACGATGAAGATGACGATGATGA-GAC
1 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
* *
127050 GATGAAGCTGACGATGAAGATGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
127086 GATGA
1 GATGA
127091 TGATGAGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGATGATGATGAC
Found at i:127076 original size:3 final size:3
Alignment explanation
Indices: 127027--127105 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
127017 TGAAGCTGAC
* * * * * * *
127027 GAT GAA GAT GAC GAT GAT GA- GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
127074 GAT GAT GAT GAT GAT GAT GAT GA- GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
127106 CCAAACAAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
2 4 0.07
3 57 0.93
ACGTcount: A:0.37, C:0.05, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:128318 original size:16 final size:16
Alignment explanation
Indices: 128286--128319 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
128276 TATCCACAAC
* *
128286 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
128302 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
128318 AA
1 AA
128320 TGCAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:128707 original size:23 final size:23
Alignment explanation
Indices: 128676--128748 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
128666 ATAGGTAAAA
*
128676 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128699 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128722 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
128745 ATAT
1 ATAT
128749 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:129083 original size:22 final size:22
Alignment explanation
Indices: 129039--129083 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
129029 ATTACATATC
*
129039 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
129061 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
129083 T
1 T
129084 CAACATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:129398 original size:183 final size:181
Alignment explanation
Indices: 129125--129614 Score: 766
Period size: 183 Copynumber: 2.7 Consensus size: 181
129115 AATGCTATCG
* *
129125 GTATAAATATATCGGTTTTATGCGTGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
1 GTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
*
129190 GTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATT
66 GTCGGTACTTTATGTCCAGATTGGAA-AAAAATGTGTCGATACATT-TAAAAAAGTGTCGACATT
*
129255 TACACATCAGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCA
129 TACACATCAGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCA
* * * *
129308 GTATAAATATACCAGTTTTATGCGCAAATCGATCTACAACCTATATCGACACTTTTTAATATTGT
1 GTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
*
129373 GTCGGTACTTTATGTCCATATTGGAAAAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATT
66 GTCGGTACTTTATGTCCAGATTGG-AAAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACATT
* * *
129438 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCG
129 TACACATCAGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCA
* * * *
129491 GTATAAGTATACCGGTTTTTATGAGCGAATAGGTCTACAACCTATATCGATACTTTCTAATATTG
1 GTATAAATATACCGG-TTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTG
*
129556 TGTCGGTACTTAATGT-CAGATTGGAAAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
65 TGTCGGTACTTTATGTCCAGATTGGAAAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
129615 GTAATTTTAA
Statistics
Matches: 281, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
182 33 0.12
183 185 0.66
184 63 0.22
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (181 bp):
GTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
GTCGGTACTTTATGTCCAGATTGGAAAAAAATGTGTCGATACATTTAAAAAAGTGTCGACATTTA
CACATCAGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCA
Found at i:132087 original size:25 final size:25
Alignment explanation
Indices: 132059--132118 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
132049 TTATCATTAA
132059 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
132084 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
132109 ATTTAGGTAT
1 ATTTAGGTAT
132119 ATATCTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:132441 original size:20 final size:21
Alignment explanation
Indices: 132397--132441 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
132387 AAATTACATA
132397 ACTTTTAAAAAAGTATCGATC
1 ACTTTTAAAAAAGTATCGATC
* *
132418 -CTTTTTAAAAAGTATGGA-C
1 ACTTTTAAAAAAGTATCGATC
132437 ACTTT
1 ACTTT
132442 CATATAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (21 bp):
ACTTTTAAAAAAGTATCGATC
Found at i:132489 original size:23 final size:22
Alignment explanation
Indices: 132458--132534 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
132448 ATAGGTAAAA
132458 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
132481 ATATAATGTAATAGGTATCGTTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
132504 ATATATGTAATAGGTAGTGGTT
1 ATATATGTAATAGGTAGCGCTT
132526 ATAT-TGTAA
1 ATATATGTAA
132535 ATTCTAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.10
22 19 0.40
23 24 0.50
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:132668 original size:23 final size:24
Alignment explanation
Indices: 132642--132687 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
132632 AAATCAATTA
*
132642 AACATTGTTGT-GGTACATTATTG
1 AACATTGTTATGGGTACATTATTG
132665 AACATTGTTATGGGTACATTATT
1 AACATTGTTATGGGTACATTATT
132688 TGGAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (24 bp):
AACATTGTTATGGGTACATTATTG
Found at i:133290 original size:38 final size:38
Alignment explanation
Indices: 133225--133310 Score: 145
Period size: 38 Copynumber: 2.2 Consensus size: 38
133215 CTTCGAGCTC
*
133225 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAAT-CAAAGCTCATATGATGCCAAGCAAAAGGAA
*
133264 ATCAAAATCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCAAAGCTCATATGATGCCAAGCAAAAGGAA
133302 ATCAAAATC
1 ATCAAAATC
133311 TACAACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 37 0.82
39 8 0.18
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (38 bp):
ATCAAAATCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:134095 original size:23 final size:23
Alignment explanation
Indices: 134064--134126 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
134054 ATAGGTAAAA
*
134064 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
134087 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
134110 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
134127 GTGGTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:134134 original size:23 final size:22
Alignment explanation
Indices: 134064--134136 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
134054 ATAGGTAAAA
* *
134064 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGT-ATGCTT
*
134087 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAT-GCTT
*
134110 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TGCTT
134133 ATAT
1 ATAT
134137 GTAAAGTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGGTATGCTT
Found at i:134524 original size:23 final size:23
Alignment explanation
Indices: 134493--134555 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
134483 ATAGGTAAAA
*
134493 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
134516 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
134539 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
134556 GTGGTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:134563 original size:23 final size:22
Alignment explanation
Indices: 134493--134565 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
134483 ATAGGTAAAA
* *
134493 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGT-ATGCTT
*
134516 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAT-GCTT
*
134539 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TGCTT
134562 ATAT
1 ATAT
134566 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGGTATGCTT
Found at i:134839 original size:429 final size:431
Alignment explanation
Indices: 133954--135574 Score: 2954
Period size: 430 Copynumber: 3.8 Consensus size: 431
133944 TTATGTGGTG
133954 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAGAAGTATCG
1 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG
134018 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
66 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
134083 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATA-TGTAAAGTATC
131 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
134147 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
196 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
*
134212 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACG
261 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
* *
134277 ATATATATGATTATTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATA
326 ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
134342 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
391 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
134383 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAGAAGTATCG
1 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG
**
134447 ATCCTTTTTATAAAAAGTATAAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
66 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
134512 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
131 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
* *
134577 TATCCTTTTTATAAAAGTGTCCATATTTTTTTCACAGTGGAAAACATTAATTTAAGGTTATCTTT
196 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
*
134642 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTACGTTACG
261 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
*
134707 ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATAAAAACAATCAAATA
326 ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
134772 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
391 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
*
134813 GGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTGCATAACTTTAAAAGAAGTATCG
1 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG
*
134877 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGC
66 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
*
134942 GCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
131 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
* * *
135007 TATCTTTTTTTTAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCATT
196 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
135072 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
261 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
135137 ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
326 ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
135202 TTTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
391 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
*
135243 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAATTTTAAAAGAAGTATCG
1 GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG
* *
135308 ATCCTTTTTATAAAAAGTATTGACACTTTCAATATAATAGGTAAAAAATATGAT-TAATAGGTAG
66 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAAATATGATGTAATAGGTAA
135372 CGC-T-TATAATGTAATA-GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTAT
130 CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTAT
* *
135434 CTATCCTTTTT-TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAAGTTATCCT
195 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
* *
135498 TTGAGTGGGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTACGTTAC
260 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
*
135563 GATATATTTTAT
325 GATATATATTAT
135575 ATAAGCGCTA
Statistics
Matches: 1157, Mismatches: 31, Indels: 10
0.97 0.03 0.01
Matches are distributed among these distances:
427 125 0.11
428 56 0.05
429 222 0.19
430 647 0.56
431 96 0.08
432 11 0.01
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (431 bp):
GGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG
ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAAC
GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
ATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGT
Found at i:134954 original size:23 final size:23
Alignment explanation
Indices: 134923--134995 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
134913 ATAGGTAAAA
*
134923 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
134946 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
134969 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
134992 ATAT
1 ATAT
134996 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:135388 original size:21 final size:21
Alignment explanation
Indices: 135362--135428 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
135352 AAAATATGAT
135362 TAATAGGTAGCGCTTATAATG
1 TAATAGGTAGCGCTTATAATG
* *
135383 TAATA-GTATCGTTTATATAATG
1 TAATAGGTAGCG-CT-TATAATG
* * *
135405 TAATAGGTAGTGGTTATATTG
1 TAATAGGTAGCGCTTATAATG
135426 TAA
1 TAA
135429 AGTATCTATC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.14
21 15 0.41
22 13 0.35
23 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (21 bp):
TAATAGGTAGCGCTTATAATG
Found at i:135643 original size:23 final size:23
Alignment explanation
Indices: 135571--135634 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
135561 ACGATATATT
135571 TTATATAAGCGCTACCTATTACA
1 TTATATAAGCGCTACCTATTACA
*
135594 TTATATAAACGCTACCTATTACA
1 TTATATAAGCGCTACCTATTACA
135617 TTATATAAGCGCTACCTA
1 TTATATAAGCGCTACCTA
135635 GTATGTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
TTATATAAGCGCTACCTATTACA
Found at i:141297 original size:41 final size:41
Alignment explanation
Indices: 141252--141334 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
141242 ATGCATGATG
141252 TTCGCTACTATCATTGGGATGAACACTACCATTCAGCTTCA
1 TTCGCTACTATCATTGGGATGAACACTACCATTCAGCTTCA
141293 TTCGCTACTATCATTGGGATGAACACTACCATTCAGCTTCA
1 TTCGCTACTATCATTGGGATGAACACTACCATTCAGCTTCA
141334 T
1 T
141335 GTGGAGAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (41 bp):
TTCGCTACTATCATTGGGATGAACACTACCATTCAGCTTCA
Found at i:144838 original size:29 final size:30
Alignment explanation
Indices: 144779--144840 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
144769 AAATATTTTT
* *
144779 TTTTTTAAATTACACTTTAGGTCCTTAAAC
1 TTTTCTAAATTACACTTTAGGTCCTCAAAC
*
144809 TTTTCTAAATTATACTTT-GG-CCATCAAAC
1 TTTTCTAAATTACACTTTAGGTCC-TCAAAC
144838 TTT
1 TTT
144841 CAAAATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 10 0.36
30 16 0.57
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTCTAAATTACACTTTAGGTCCTCAAAC
Found at i:149002 original size:29 final size:28
Alignment explanation
Indices: 148967--149055 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 28
148957 ACTATATAAA
*
148967 ATATATACTACTTTTATTTTCAAAACTAT
1 ATATATAATA-TTTTATTTTCAAAACTAT
* * *
148996 ATATATATTATGTCTACTTTCAAAA-T-T
1 ATATATAATAT-TTTATTTTCAAAACTAT
*
149023 ATATATAATATATTATTTTCAAAACTAT
1 ATATATAATATTTTATTTTCAAAACTAT
149051 ATATA
1 ATATA
149056 AGTATTATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 10 0.20
27 12 0.24
28 8 0.16
29 20 0.40
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATATAATATTTTATTTTCAAAACTAT
Found at i:149190 original size:19 final size:18
Alignment explanation
Indices: 149153--149188 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
149143 TAATATTTAT
149153 TTTTAAAACTATACTATA
1 TTTTAAAACTATACTATA
*
149171 TTTTAAAAC-ATACCATA
1 TTTTAAAACTATACTATA
149188 T
1 T
149189 ATAATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTTAAAACTATACTATA
Found at i:152708 original size:20 final size:20
Alignment explanation
Indices: 152683--152730 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
152673 CAACATCTAT
152683 ACCTAACAACACAACCCTAA
1 ACCTAACAACACAACCCTAA
152703 ACCTAACAACACAACCCTAA
1 ACCTAACAACACAACCCTAA
152723 ACCTAACA
1 ACCTAACA
152731 GATACATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (20 bp):
ACCTAACAACACAACCCTAA
Found at i:164879 original size:28 final size:28
Alignment explanation
Indices: 164848--164937 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 28
164838 AAGTTTTTAC
164848 TTTAGTTATCAACTTTCATTTTATTCAT
1 TTTAGTTATCAACTTTCATTTTATTCAT
** * * * * *
164876 TTTAGTCCCTAAATTTTTAATTTA-T-AC
1 TTTAGT-TATCAACTTTCATTTTATTCAT
*
164903 TTTAGCTATCAAACTTTCATTTTATTCAT
1 TTTAGTTATC-AACTTTCATTTTATTCAT
164932 TTTAGT
1 TTTAGT
164938 CACTAACCAT
Statistics
Matches: 42, Mismatches: 16, Indels: 7
0.65 0.25 0.11
Matches are distributed among these distances:
26 1 0.02
27 16 0.38
28 8 0.19
29 17 0.40
ACGTcount: A:0.27, C:0.14, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTAGTTATCAACTTTCATTTTATTCAT
Found at i:164913 original size:55 final size:58
Alignment explanation
Indices: 164818--164943 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 58
164808 TAAAATTAAT
* *
164818 ATTTTAGTCCC-AAATTTTCCAAGTTTTTACTTTAGTTATC-AACTTTCATTTTATTC
1 ATTTTAGTCCCTAAATTTTCCAAGTTTATACTTTAGCTATCAAACTTTCATTTTATTC
*
164874 ATTTTAGTCCCTAAATTTT-TAA-TTTATACTTTAGCTATCAAACTTTCATTTTATTC
1 ATTTTAGTCCCTAAATTTTCCAAGTTTATACTTTAGCTATCAAACTTTCATTTTATTC
*
164930 ATTTTAGTCACTAA
1 ATTTTAGTCCCTAA
164944 CCATATTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
55 15 0.23
56 42 0.66
57 7 0.11
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.51
Consensus pattern (58 bp):
ATTTTAGTCCCTAAATTTTCCAAGTTTATACTTTAGCTATCAAACTTTCATTTTATTC
Found at i:168757 original size:39 final size:39
Alignment explanation
Indices: 168703--168784 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
168693 CATTATTTTT
*
168703 TATTATACTATTTCTCGCATTATACTATTTTTGTTAATA
1 TATTATACTACTTCTCGCATTATACTATTTTTGTTAATA
168742 TATTATACTACTTCTCGCATTATACTATTTTTGTTAATA
1 TATTATACTACTTCTCGCATTATACTATTTTTGTTAATA
168781 TATT
1 TATT
168785 GTATATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (39 bp):
TATTATACTACTTCTCGCATTATACTATTTTTGTTAATA
Found at i:169240 original size:23 final size:23
Alignment explanation
Indices: 169180--169260 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 23
169170 AATGTCATAT
* *
169180 AATGCACACACA-GTGCCAGACA
1 AATGCACACAAATGTGTCAGACA
*
169202 GAA-GCACACATA-GTGTCAGA-A
1 -AATGCACACAAATGTGTCAGACA
*
169223 AGATGCATACAAATGTGTCAGACA
1 A-ATGCACACAAATGTGTCAGACA
169247 AATGCACACAAATG
1 AATGCACACAAATG
169261 CACACACATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 22 0.45
23 22 0.45
24 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (23 bp):
AATGCACACAAATGTGTCAGACA
Found at i:177258 original size:3 final size:3
Alignment explanation
Indices: 177252--177327 Score: 68
Period size: 3 Copynumber: 26.0 Consensus size: 3
177242 ATTTATTATT
* * * *
177252 TAA TAA TAA -AGA TAA TAA TAA TAT TAT TAT TAA TAA TAT TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
177297 -AA TAA TAA TAT TAA TAA TAA TAT TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
177328 AATGGGGAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
2 5 0.08
3 55 0.90
4 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:178080 original size:201 final size:203
Alignment explanation
Indices: 177734--178150 Score: 739
Period size: 201 Copynumber: 2.1 Consensus size: 203
177724 TATGAATGGT
* *
177734 CCAGAGGTCTTATCATCTTGCTCGGAAGACTTACAGATGACCCGGAGGATTTACACATCAAGAAA
1 CCAGAGGTCTTATCATCTTGCTCGGAAGAATTACAGATGACCCGGAGGATTTAAACATCAAGAAA
*
177799 CCCTTAAAAATCAATCTTAGTTTCTTGGTTGTCAAGAAACCCCTTAAAAGGCTTAGCTTCCTTTA
66 CCCTTAAAAATCAAGCTTAGTTTCTTGGTTGTCAAGAAACCCCTTAAAAGGCTTAGCTTCCTTTA
*
177864 ACAACTCTTTTGAGATAATTAACAAACCCCTGAAAGGCTTAGTTT-CCAAAATCTCATTTGAAAA
131 ACAACTCTTTTGAGATAATTAACAAACCCATGAAAGGCTTAGTTTCCCAAAATCTCATTTGAAAA
177928 CATCCTGC
196 CATCCTGC
*
177936 CCAGAGGTCTTATCATCTTGCTCGGAAGAATTACAGAT-ACCCGGAGGATTTAAACATCTAGAAA
1 CCAGAGGTCTTATCATCTTGCTCGGAAGAATTACAGATGACCCGGAGGATTTAAACATCAAGAAA
*
178000 CCCTTGAAAATCAAGCTTAGTTTCTTGGTTGTCAAGAAACCCCTTAAAAGGCTTAGCTTCCTTTA
66 CCCTTAAAAATCAAGCTTAGTTTCTTGGTTGTCAAGAAACCCCTTAAAAGGCTTAGCTTCCTTTA
* *
178065 ACAACTTTTTTGAGATAATTAAGAAACCCATGAAAGGCTTAGTTTCCCAAAATCTCATTTGAAAA
131 ACAACTCTTTTGAGATAATTAACAAACCCATGAAAGGCTTAGTTTCCCAAAATCTCATTTGAAAA
*
178130 CATCTTGC
196 CATCCTGC
178138 CCAGAGGTCTTAT
1 CCAGAGGTCTTAT
178151 GGATGGCCCG
Statistics
Matches: 205, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
201 129 0.63
202 76 0.37
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (203 bp):
CCAGAGGTCTTATCATCTTGCTCGGAAGAATTACAGATGACCCGGAGGATTTAAACATCAAGAAA
CCCTTAAAAATCAAGCTTAGTTTCTTGGTTGTCAAGAAACCCCTTAAAAGGCTTAGCTTCCTTTA
ACAACTCTTTTGAGATAATTAACAAACCCATGAAAGGCTTAGTTTCCCAAAATCTCATTTGAAAA
CATCCTGC
Found at i:180517 original size:14 final size:13
Alignment explanation
Indices: 180498--180531 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
180488 CTTTATAACC
180498 TCTCTTTTTTTCTT
1 TCTCTTTTTTT-TT
180512 TCTCTTTTTTTTT
1 TCTCTTTTTTTTT
180525 TCT-TTTT
1 TCTCTTTT
180532 GCTATTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 5 0.25
14 11 0.55
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTCTTTTTTTTT
Found at i:184052 original size:21 final size:21
Alignment explanation
Indices: 184014--184093 Score: 124
Period size: 21 Copynumber: 3.8 Consensus size: 21
184004 AAATGTGTAT
184014 CGATGCACTGCTACAGTGCAC
1 CGATGCACTGCTACAGTGCAC
* * *
184035 CGATGTACTACTATAGTGCAC
1 CGATGCACTGCTACAGTGCAC
*
184056 CGATGCACTGCTACAATGCAC
1 CGATGCACTGCTACAGTGCAC
184077 CGATGCACTGCTACAGT
1 CGATGCACTGCTACAGT
184094 ATTTTCAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (21 bp):
CGATGCACTGCTACAGTGCAC
Done.