Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004018.1 Hibiscus syriacus cultivar Beakdansim tig00008775_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: 67986
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:483 original size:29 final size:31
Alignment explanation
Indices: 427--496 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 31
417 TAATACTTAA
**
427 ACATTATATTTTATTTTATTTGATAATTTAG
1 ACATTATATTTTATTTTATGAGATAATTTAG
*
458 ACATTATATTTT-TTTT-TGAGGTAATTTAG
1 ACATTATATTTTATTTTATGAGATAATTTAG
487 ACATTATATT
1 ACATTATATT
497 AAAAGAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 20 0.56
30 4 0.11
31 12 0.33
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (31 bp):
ACATTATATTTTATTTTATGAGATAATTTAG
Found at i:1677 original size:21 final size:22
Alignment explanation
Indices: 1651--1691 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
1641 CAAATATTTA
1651 ATTTAAATTAAT-T-AAATAAAG
1 ATTT-AATTAATCTGAAATAAAG
1672 ATTTAATTAATCTGAAATAA
1 ATTTAATTAATCTGAAATAA
1692 TAAAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTAATTAATCTGAAATAAAG
Found at i:3748 original size:2 final size:2
Alignment explanation
Indices: 3741--3779 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
3731 TAATGATCAT
3741 TA TA TA TA TA TA TA -A TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3780 TCTTTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3760 original size:11 final size:12
Alignment explanation
Indices: 3741--3779 Score: 64
Period size: 11 Copynumber: 3.4 Consensus size: 12
3731 TAATGATCAT
3741 TATATATATATA
1 TATATATATATA
3753 TA-ATATATATA
1 TATATATATATA
3764 TATAT-TATATA
1 TATATATATATA
3775 TATAT
1 TATAT
3780 TCTTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATATA
Found at i:3760 original size:13 final size:13
Alignment explanation
Indices: 3742--3779 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3732 AATGATCATT
3742 ATATATATATATA
1 ATATATATATATA
3755 ATATATATATATA
1 ATATATATATATA
*
3768 TTATATATATAT
1 ATATATATATAT
3780 TCTTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATATA
Found at i:3761 original size:15 final size:15
Alignment explanation
Indices: 3741--3779 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3731 TAATGATCAT
3741 TATATATATATATAA
1 TATATATATATATAA
*
3756 TATATATATATATTA
1 TATATATATATATAA
3771 TATATATAT
1 TATATATAT
3780 TCTTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:8093 original size:19 final size:19
Alignment explanation
Indices: 8065--8112 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
8055 AATGTGACAC
8065 CTCGAATCGGATCGGGTCA
1 CTCGAATCGGATCGGGTCA
*
8084 CTCGAGTCGGATCGGGTCA
1 CTCGAATCGGATCGGGTCA
*
8103 CTCGTATCGG
1 CTCGAATCGG
8113 TCTGTGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (19 bp):
CTCGAATCGGATCGGGTCA
Found at i:12287 original size:30 final size:30
Alignment explanation
Indices: 12252--12317 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
12242 AACATTAAAA
**
12252 ATTTTA-TGTTTACCTTAACTTATTAATTAT
1 ATTTTATTGTTTACCTTAACTTAAAAATT-T
* *
12282 ATTTTATTTTTTATCTTAACTTAAAAATTT
1 ATTTTATTGTTTACCTTAACTTAAAAATTT
12312 ATTTTA
1 ATTTTA
12318 ACTTAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (30 bp):
ATTTTATTGTTTACCTTAACTTAAAAATTT
Found at i:12318 original size:18 final size:18
Alignment explanation
Indices: 12291--12325 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12281 TATTTTATTT
12291 TTTATCTTAACTTAAAAA
1 TTTATCTTAACTTAAAAA
*
12309 TTTATTTTAACTTAAAA
1 TTTATCTTAACTTAAAA
12326 CATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATCTTAACTTAAAAA
Found at i:12334 original size:18 final size:18
Alignment explanation
Indices: 12297--12341 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
12287 ATTTTTTATC
*
12297 TTAACTTAAAAATTTATT
1 TTAACTTAAAAATATATT
12315 TTAACTTAAAACATAT-TT
1 TTAACTTAAAA-ATATATT
12333 TTAATCTTA
1 TTAA-CTTA
12342 TTTTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAACTTAAAAATATATT
Found at i:12449 original size:31 final size:31
Alignment explanation
Indices: 12411--12486 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
12401 TTAATTTAAG
*
12411 ATATATTTTTAAAAGTTAATATAAGAAT-AAA
1 ATATATTTTTAAAAGTTAAAATAA-AATAAAA
*
12442 ATATATTTTT--AATTTAAAATAAAATAAAAA
1 ATATATTTTTAAAAGTTAAAATAAAAT-AAAA
12472 ATATATTTTTTAAAA
1 ATATA-TTTTTAAAA
12487 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 3 0.08
29 10 0.26
30 8 0.21
31 15 0.39
33 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATATTTTTAAAAGTTAAAATAAAATAAAA
Found at i:12463 original size:29 final size:28
Alignment explanation
Indices: 12411--12538 Score: 88
Period size: 28 Copynumber: 4.6 Consensus size: 28
12401 TTAATTTAAG
* *
12411 ATATATTTTTAAAAGTTAATATAAGAATAAA
1 ATATATTTTT--AATTTAAAATAA-AATAAA
12442 ATATATTTTTAATTTAAAATAAAATAAA
1 ATATATTTTTAATTTAAAATAAAATAAA
* *
12470 AAATATATTT--TTTAAAAT-AAA-AAA
1 ATATATTTTTAATTTAAAATAAAATAAA
** * * *
12494 ATAT-TTAATAAGTTAAGATAAAA-ATA
1 ATATATTTTTAATTTAAAATAAAATAAA
12520 ATATATTTTTTAATGTTAA
1 ATATA-TTTTTAAT-TTAA
12539 GATGTGAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
23 2 0.03
24 6 0.08
25 9 0.12
26 17 0.22
28 19 0.25
29 14 0.18
31 10 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
ATATATTTTTAATTTAAAATAAAATAAA
Found at i:12487 original size:21 final size:20
Alignment explanation
Indices: 12461--12499 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
12451 TAATTTAAAA
12461 TAAAATAAAAAATATATTTTT
1 TAAAATAAAAAA-ATATTTTT
12482 TAAAATAAAAAAATATTT
1 TAAAATAAAAAAATATTT
12500 AATAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATAAAAAAATATTTTT
Found at i:12552 original size:19 final size:18
Alignment explanation
Indices: 12528--12572 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
12518 TAATATATTT
12528 TTTAATGTTAAGATGTGAA
1 TTTAAT-TTAAGATGTGAA
**
12547 TTTAATTTATTATGTGAA
1 TTTAATTTAAGATGTGAA
12565 TTTCAATT
1 TTT-AATT
12573 AAAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (18 bp):
TTTAATTTAAGATGTGAA
Found at i:13418 original size:21 final size:21
Alignment explanation
Indices: 13388--13614 Score: 184
Period size: 21 Copynumber: 11.0 Consensus size: 21
13378 GATTTACATA
*
13388 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
13409 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
13430 TTTGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
13453 TT--CGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
13472 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
13493 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
13514 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
13533 TTCGCATTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
13556 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
13575 TTCGCGTTGCAATTTATTCCAA-
1 TTCGCGTTGCGA--TAGTCCAAG
13597 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
13615 AATCGCAACG
Statistics
Matches: 164, Mismatches: 30, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
18 7 0.04
19 32 0.20
20 7 0.04
21 93 0.57
22 2 0.01
23 23 0.14
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:13475 original size:63 final size:61
Alignment explanation
Indices: 13394--13545 Score: 250
Period size: 63 Copynumber: 2.5 Consensus size: 61
13384 CATATTCGCA
* *
13394 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
*
13457 TTGTGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
13518 TTGCGATAGTCGAAGTTCGCATTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGAT
13546 TTATTCCAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
61 37 0.44
62 2 0.02
63 45 0.54
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (61 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:13521 original size:19 final size:19
Alignment explanation
Indices: 13497--13607 Score: 71
Period size: 19 Copynumber: 5.5 Consensus size: 19
13487 TCGAAGTTCG
13497 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** * *
13516 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
13535 CGCATTGCGATTTATTCCAAATT
1 CG--TTGCGA-TT-TTCCAAATT
** *
13558 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
*
13577 CGCGTTGCAATTTATTCC-AATT
1 --CGTTGCGA-TT-TTCCAAATT
13599 CGTTGCGAT
1 CGTTGCGAT
13608 AGTCCAAAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
19 25 0.37
20 8 0.12
21 19 0.28
22 5 0.07
23 11 0.16
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:14232 original size:6 final size:6
Alignment explanation
Indices: 14215--14247 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
14205 TCTCGTCTCG
14215 GGTCGT -GTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
14248 ATACGTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.18, G:0.48, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:14406 original size:19 final size:19
Alignment explanation
Indices: 14343--14411 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
14333 ATTTTGGACT
14343 ATCGC-ACGAATTTGGAATAA
1 ATCGCAACGAATTTGG-A-AA
* * **
14363 ATCGCAACACGAACTTCGACT
1 ATCGC-A-ACGAATTTGGAAA
14384 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
14403 ATCGCAACG
1 ATCGCAACG
14412 CGAACTTGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.47
20 6 0.16
21 5 0.13
22 1 0.03
23 8 0.21
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:14416 original size:40 final size:42
Alignment explanation
Indices: 14339--14430 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 42
14329 TGCGATTTTG
14339 GACTATCGC-ACGAATTTGGAATAAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTC
* *
14380 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTC
14420 GACTATCGCAA
1 GACTATCGCAA
14431 TGCGAATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
40 28 0.58
41 10 0.21
42 10 0.21
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTC
Found at i:14435 original size:21 final size:21
Alignment explanation
Indices: 14363--14436 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
14353 TTTGGAATAA
* *
14363 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* **
14384 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
14403 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
14424 ATCGCAATGCGAA
1 ATCGCAACGCGAA
14437 TATGTAAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.35
21 28 0.65
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:14517 original size:21 final size:21
Alignment explanation
Indices: 14493--14547 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
14483 AATTTGGAAA
* *
14493 ATCGCAACGCGAACTTTGACT
1 ATCGCAATGCGAACTTGGACT
14514 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
14535 ATCGCAATGCGAA
1 ATCGCAATGCGAA
14548 TATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:14566 original size:90 final size:89
Alignment explanation
Indices: 14392--14570 Score: 229
Period size: 90 Copynumber: 2.0 Consensus size: 89
14382 CTATCGCAAC
*
14392 GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGAT
1 GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGGAAATCGCAATGCGAT
* **
14457 AGTCGAAGTTCGCGTTGCGATAGTT
66 AGTC-AAGATCGCAATGCGATAGTT
* *
14482 GAATTTGGAAAATCGCAACGCGAACTTTGACTATCGCAATGCGAACT-TGGACTATCGCAATGCG
1 GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAA-TATGGA-AATCGCAATGCG
*
14546 AATATGT-AA-ATCGTAATGCGATAGT
64 -ATA-GTCAAGATCGCAATGCGATAGT
14571 CGAAGTTCGC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
90 59 0.76
91 14 0.18
92 3 0.04
93 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGGAAATCGCAATGCGAT
AGTCAAGATCGCAATGCGATAGTT
Found at i:15848 original size:30 final size:28
Alignment explanation
Indices: 15814--15922 Score: 87
Period size: 30 Copynumber: 3.9 Consensus size: 28
15804 AAAATATATG
15814 TTTTTAAGTTAAAATAAAAATAAATACACA
1 TTTTTAAGTTAAAATAAAAATAAA-ACA-A
** * * *
15844 TTTTTAAGTTATGATAAGAATAAAATAT
1 TTTTTAAGTTAAAATAAAAATAAAACAA
* *** *
15872 TTTTTAAATTAAAATAAGTTTAAAA-TA
1 TTTTTAAGTTAAAATAAAAATAAAACAA
*
15899 TTTTTAAGTTAAGAT-AAAATAAAA
1 TTTTTAAGTTAAAATAAAAATAAAA
15923 TATTAAATAA
Statistics
Matches: 62, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
26 6 0.10
27 13 0.21
28 20 0.32
29 2 0.03
30 21 0.34
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.39
Consensus pattern (28 bp):
TTTTTAAGTTAAAATAAAAATAAAACAA
Found at i:15888 original size:28 final size:28
Alignment explanation
Indices: 15797--16092 Score: 126
Period size: 28 Copynumber: 10.5 Consensus size: 28
15787 TAAGTAAAGT
*
15797 TAAGAATAAAATATATGTTTTTAAGTTAAAA
1 TAAGAAT-AAA-ATAT-TTTTTAAATTAAAA
* * * * **
15828 TAAAAATAAATACACATTTTTAAGTTATGA
1 TAAGAATAAA-ATA-TTTTTTAAATTAAAA
15858 TAAGAATAAAATATTTTTTAAATTAAAA
1 TAAGAATAAAATATTTTTTAAATTAAAA
** * *
15886 TAAGTTTAAAATA-TTTTTAAGTTAAGA
1 TAAGAATAAAATATTTTTTAAATTAAAA
*** *
15913 TAA-AATAAAATATTAAATAATTTAAAA
1 TAAGAATAAAATATTTTTTAAATTAAAA
* * * *
15940 TAATAATATAAT-TTATTT-AA-TAAAT
1 TAAGAATAAAATATTTTTTAAATTAAAA
*
15965 TAAG-ATAAATATATACTTTTAAAAGTTAAAA
1 TAAGAATAAA-ATAT--TTTTTAAA-TTAAAA
* * * *
15996 TAATAATAAAATACCTTTTTTATATGGAGAA
1 TAAGAATAAAATA--TTTTTTAAAT-TAAAA
* *
16027 TAA-AAT-ACA-A-TTTTAAAATTAAAA
1 TAAGAATAAAATATTTTTTAAATTAAAA
* ** * **
16051 TAATAATAAAATAGATTTTCAATTAAGT
1 TAAGAATAAAATATTTTTTAAATTAAAA
16079 TAAGAATAAAATAT
1 TAAGAATAAAATAT
16093 ATTTAATAAG
Statistics
Matches: 197, Mismatches: 50, Indels: 39
0.69 0.17 0.14
Matches are distributed among these distances:
24 10 0.05
25 19 0.10
26 11 0.06
27 32 0.16
28 54 0.27
29 6 0.03
30 31 0.16
31 28 0.14
32 5 0.03
33 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (28 bp):
TAAGAATAAAATATTTTTTAAATTAAAA
Found at i:15938 original size:17 final size:18
Alignment explanation
Indices: 15918--15954 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15908 TAAGATAAAA
*
15918 TAAAATATTAA-ATAATT
1 TAAAATAATAATATAATT
15935 TAAAATAATAATATAATT
1 TAAAATAATAATATAATT
15953 TA
1 TA
15955 TTTAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATAATAATATAATT
Found at i:15979 original size:30 final size:29
Alignment explanation
Indices: 15907--15979 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 29
15897 TATTTTTAAG
*
15907 TTAAGATAAA-ATA-AAATATTAAATAAT
1 TTAAGATAAATATATAAATATTAAATAAA
* * *
15934 TTAAAAT-AATAATATAATTTATTTAATAAA
1 TTAAGATAAAT-ATATAA-ATATTAAATAAA
15964 TTAAGATAAATATATA
1 TTAAGATAAATATATA
15980 CTTTTAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.06
27 6 0.17
28 3 0.08
29 2 0.06
30 20 0.56
31 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
TTAAGATAAATATATAAATATTAAATAAA
Found at i:17625 original size:13 final size:13
Alignment explanation
Indices: 17604--17676 Score: 101
Period size: 13 Copynumber: 5.6 Consensus size: 13
17594 ACTTTGTGAA
17604 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
*
17617 TTGTCTCTCAAAG
1 TTGTGTCTCAAAG
*
17630 TTATGTCTCAAAG
1 TTGTGTCTCAAAG
*
17643 TTGTTTCTCAAAG
1 TTGTGTCTCAAAG
* *
17656 TTATTTCTCAAAG
1 TTGTGTCTCAAAG
17669 TTGTGTCT
1 TTGTGTCT
17677 AAGATTGTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGTGTCTCAAAG
Found at i:17643 original size:26 final size:26
Alignment explanation
Indices: 17607--17672 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
17597 TTGTGAATTG
17607 TGTCTCAAAGTTGTCTCTCAAAGTTA
1 TGTCTCAAAGTTGTCTCTCAAAGTTA
*
17633 TGTCTCAAAGTTGTTTCTCAAAGTTA
1 TGTCTCAAAGTTGTCTCTCAAAGTTA
*
17659 TTTCTCAAAGTTGT
1 TGTCTCAAAGTTGT
17673 GTCTAAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (26 bp):
TGTCTCAAAGTTGTCTCTCAAAGTTA
Found at i:21046 original size:24 final size:24
Alignment explanation
Indices: 21015--21086 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
21005 AATACATGAC
21015 CTGAATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATATCTGAT
*
21039 CTGGATTCTGTTATGATATCT-ATT
1 CTGAATTCTGTTATGATATCTGA-T
* *
21063 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATATCTGAT
21087 ATCTCCGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATATCTGAT
Found at i:21253 original size:2 final size:2
Alignment explanation
Indices: 21246--21296 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
21236 AAGGATGGGG
21246 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
21288 TA TA TA TA T
1 TA TA TA TA T
21297 GTTTTAAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21962 original size:27 final size:27
Alignment explanation
Indices: 21913--21964 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21903 AAATAAGTCC
* * * *
21913 ATTCACTAAGTGAGATTAGTTATTACT
1 ATTCACCAAGTGACATAACTTATTACT
21940 ATTCACCAAGTGACATAACTTATTA
1 ATTCACCAAGTGACATAACTTATTA
21965 TAAATAGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (27 bp):
ATTCACCAAGTGACATAACTTATTACT
Found at i:22134 original size:3 final size:3
Alignment explanation
Indices: 22126--22165 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
22116 TTAATCCAAG
22126 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22166 ATATTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22528 original size:13 final size:13
Alignment explanation
Indices: 22507--22566 Score: 75
Period size: 13 Copynumber: 4.6 Consensus size: 13
22497 ACTTCGTGAA
22507 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
* *
22520 TTGTCTCTCAAAA
1 TTGTGTCTCAAAG
*
22533 TTGTGTCTCAAAT
1 TTGTGTCTCAAAG
* *
22546 TTGTTTCTTAAAG
1 TTGTGTCTCAAAG
22559 TTGTGTCT
1 TTGTGTCT
22567 GAGATTGTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (13 bp):
TTGTGTCTCAAAG
Found at i:22541 original size:26 final size:26
Alignment explanation
Indices: 22505--22566 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
22495 CAACTTCGTG
22505 AATTGTGTCTCAAAGTTGTCTCTCAA
1 AATTGTGTCTCAAAGTTGTCTCTCAA
* * *
22531 AATTGTGTCTCAAATTTGTTTCTTAA
1 AATTGTGTCTCAAAGTTGTCTCTCAA
*
22557 AGTTGTGTCT
1 AATTGTGTCT
22567 GAGATTGTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (26 bp):
AATTGTGTCTCAAAGTTGTCTCTCAA
Found at i:23152 original size:21 final size:21
Alignment explanation
Indices: 23121--23177 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
23111 GATTCTGACT
**
23121 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATAGTCCAAA
* *
23142 TTCGCAATGCGATAGTCCAAA
1 ATCGCATTGCGATAGTCCAAA
23163 ATCGCATTGCGATAG
1 ATCGCATTGCGATAG
23178 CATTGTTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCCAAA
Found at i:23191 original size:21 final size:21
Alignment explanation
Indices: 23167--23281 Score: 158
Period size: 21 Copynumber: 5.5 Consensus size: 21
23157 TCCAAAATCG
*
23167 CATTGCGATAGCATTGTTCAC
1 CATTGCGATAGCACTGTTCAC
*
23188 CATTGCGATAGCACTGCTCAC
1 CATTGCGATAGCACTGTTCAC
* * *
23209 CGTTACGATAGTACTGTTCAC
1 CATTGCGATAGCACTGTTCAC
* *
23230 CGTTGCGATAGCACTGTTCCC
1 CATTGCGATAGCACTGTTCAC
*
23251 CGTTGCGATAGCACTGTTCAC
1 CATTGCGATAGCACTGTTCAC
23272 CATTGCGATA
1 CATTGCGATA
23282 ATGATCAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 83 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (21 bp):
CATTGCGATAGCACTGTTCAC
Found at i:23977 original size:28 final size:28
Alignment explanation
Indices: 23945--24008 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
23935 ACAACAATAA
23945 TATCGCAAATTCGCAATGTGAACAGTGC
1 TATCGCAAATTCGCAATGTGAACAGTGC
*
23973 TATCGCAAATTCGCAATGTGAATAGTGC
1 TATCGCAAATTCGCAATGTGAACAGTGC
24001 TATCGCAA
1 TATCGCAA
24009 CGGTGAACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (28 bp):
TATCGCAAATTCGCAATGTGAACAGTGC
Found at i:24068 original size:21 final size:21
Alignment explanation
Indices: 24027--24115 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
24017 AGTGCTATCA
* **
24027 CAATGCGATTTTGGACTATCG
1 CAATGCGAATTTGGAAAATCG
* *
24048 CATTGCGAATTCGGAAAATCG
1 CAATGCGAATTTGGAAAATCG
* *
24069 CAACGCGAATTTGGAAAATTG
1 CAATGCGAATTTGGAAAATCG
24090 CAATGCGAATTTGGAAAATCG
1 CAATGCGAATTTGGAAAATCG
24111 CAATG
1 CAATG
24116 TGATAGTCAG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (21 bp):
CAATGCGAATTTGGAAAATCG
Found at i:31190 original size:24 final size:23
Alignment explanation
Indices: 31147--31191 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31137 AAGAAGTCAC
* *
31147 AAATGAAAATAATGGAAACAGGA
1 AAATGAAAAAAATGAAAACAGGA
31170 AAATGAAAAAAATGAATAACAG
1 AAATGAAAAAAATGAA-AACAG
31192 AGCATAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.64, C:0.04, G:0.18, T:0.13
Consensus pattern (23 bp):
AAATGAAAAAAATGAAAACAGGA
Found at i:32778 original size:19 final size:19
Alignment explanation
Indices: 32751--32794 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
32741 GTTATCAATT
*
32751 TATTAAATATTAATCATTCA
1 TATTTAATA-TAATCATTCA
*
32771 -ATTTAATATATTCATTCA
1 TATTTAATATAATCATTCA
32789 TATTTA
1 TATTTA
32795 TACATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATATAATCATTCA
Found at i:33235 original size:3 final size:3
Alignment explanation
Indices: 33229--33259 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33219 TTTATTTTAA
33229 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
33260 ACATTACATT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34372 original size:30 final size:27
Alignment explanation
Indices: 34336--34391 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
34326 AAATCTTACT
34336 TTTCATTTTGAGCTCTATATTTGTTTTATA
1 TTTCATTTT-AG-TC-ATATTTGTTTTATA
*
34366 TTTCATTTTAGTCATCTTTGTTTTAT
1 TTTCATTTTAGTCATATTTGTTTTAT
34392 TATATTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 12 0.48
28 2 0.08
29 2 0.08
30 9 0.36
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (27 bp):
TTTCATTTTAGTCATATTTGTTTTATA
Found at i:36752 original size:4 final size:4
Alignment explanation
Indices: 36743--41091 Score: 8458
Period size: 4 Copynumber: 1095.5 Consensus size: 4
36733 TCGAGAAAAG
36743 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
36791 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
36839 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
36887 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
36935 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
36983 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37031 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37079 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37127 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37175 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37222 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37270 CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37316 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37364 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37412 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37460 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37508 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37556 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37604 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37652 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37700 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37748 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37796 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37844 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37892 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37940 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37986 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38034 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38082 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38130 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38178 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38226 CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38272 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38320 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38368 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38416 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38464 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38512 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38560 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38608 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38656 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38704 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38752 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38800 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38848 CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38894 C--A CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38938 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
38986 CAT- C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39032 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39080 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39128 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39176 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39224 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39272 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39320 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39368 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39416 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39464 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39512 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39560 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39608 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39654 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39702 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39750 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39798 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39846 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39893 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39941 CATA CATA C--A CATA CATA C--A CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
39985 CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40031 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40079 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40125 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40173 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40221 CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
40267 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CCTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40315 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40363 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40411 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40459 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40507 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40555 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40603 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40651 CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40697 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40745 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40793 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40841 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40889 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40936 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
40984 CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
41030 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
41078 CATA CATA CATA CA
1 CATA CATA CATA CA
41092 ATTTTATCAA
Statistics
Matches: 4310, Mismatches: 2, Indels: 66
0.98 0.00 0.02
Matches are distributed among these distances:
2 29 0.01
3 11 0.00
4 4270 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:41590 original size:153 final size:153
Alignment explanation
Indices: 41366--41643 Score: 378
Period size: 153 Copynumber: 1.8 Consensus size: 153
41356 GGTGTTTTTT
* *
41366 CTTGAAATAAAATTATGTCTCGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACGAAT
1 CTTGAAACAAAATTATGTCTCGCTTGAGACA-TTTTCCACAAATTTTGAGAATTTTAAAACAAAT
* * * * *
41431 TTTGTCTCGCTTGAGACAATTTCTATCAAAGCAAATTTCGTATTGCTTGAGACATTTTTTCTCTA
65 CTTGTCTCACTTAAGACAATTTCTATCAAAACAAACTTCGTATTGCTTGAGACATTTTTTCTCTA
41496 AGATACAAATTTAAATTTGTTGTA
130 AGATACAAATTTAAATTTGTTGTA
* * * *
41520 CTTGAAACAAAATTCTTTCTCGCTTGAGACA-TTTCCGATACATTTTGAGAATTTTAAAACAAAT
1 CTTGAAACAAAATTATGTCTCGCTTGAGACATTTTCC-ACAAATTTTGAGAATTTTAAAACAAAT
* ** * * *
41584 CTTGTCTCATTTAAGGTAATTTCTCTTAAAACAAACTTCGTCTTGCTTGAGACATTTTTT
65 CTTGTCTCACTTAAGACAATTTCTATCAAAACAAACTTCGTATTGCTTGAGACATTTTTT
41644 TTCCTTTGAT
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
152 5 0.05
153 73 0.69
154 28 0.26
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (153 bp):
CTTGAAACAAAATTATGTCTCGCTTGAGACATTTTCCACAAATTTTGAGAATTTTAAAACAAATC
TTGTCTCACTTAAGACAATTTCTATCAAAACAAACTTCGTATTGCTTGAGACATTTTTTCTCTAA
GATACAAATTTAAATTTGTTGTA
Found at i:41926 original size:36 final size:35
Alignment explanation
Indices: 41815--41926 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 35
41805 CTTGAGATCG
* *
41815 TTTTCTCATAAACAAACTTTGCCTCGCTTGAGACAAT
1 TTTTCT-AAAAACAAA-TTTGTCTCGCTTGAGACAAT
* * *
41852 TTCTCTAAAAACAATTTTTGTCTCGTTTGAGACAAT
1 TTTTCTAAAAACAA-ATTTGTCTCGCTTGAGACAAT
*
41888 TTTTCTAAAAACAAATGTTGTCTCACTTGAGACAAT
1 TTTTCTAAAAACAAAT-TTGTCTCGCTTGAGACAAT
41924 TTT
1 TTT
41927 CCAAATTATG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.02
36 58 0.91
37 5 0.08
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (35 bp):
TTTTCTAAAAACAAATTTGTCTCGCTTGAGACAAT
Found at i:42264 original size:30 final size:31
Alignment explanation
Indices: 42230--42287 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
42220 AAAAAAAAAT
* * *
42230 CTTTGAGTTTGTTTCTTTTAAAA-AAATCAC
1 CTTTGAGTCTATTTCTATTAAAACAAATCAC
42260 CTTTGAGTCTATTTCTATTAAAACAAAT
1 CTTTGAGTCTATTTCTATTAAAACAAAT
42288 TTTTGTCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (31 bp):
CTTTGAGTCTATTTCTATTAAAACAAATCAC
Found at i:43197 original size:31 final size:28
Alignment explanation
Indices: 43159--43255 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
43149 GAGACAGTTG
*
43159 CTTTTGAAACACATCACCTTTGAGTTTGTTT
1 CTTTTGAAACA-A--ACCTTTGAGTCTGTTT
*
43190 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAACCTTTGAGTCTGTTT
* *
43218 CTTTTGAAACAAATCTTTGAGTCAGTTT
1 CTTTTGAAACAAACCTTTGAGTCTGTTT
**
43246 CCCTTGAAAC
1 CTTTTGAAAC
43256 CATAATTCCT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
28 46 0.78
29 2 0.03
30 3 0.05
31 8 0.14
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (28 bp):
CTTTTGAAACAAACCTTTGAGTCTGTTT
Found at i:43208 original size:28 final size:28
Alignment explanation
Indices: 43176--43255 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
43166 AACACATCAC
*
43176 CTTTGAGTTTGTTT-TTCTTGAAACAAAT
1 CTTTGAGTCTGTTTCTT-TTGAAACAAAT
43204 CTTTGAGTCTGTTTCTTTTGAAACAAAT
1 CTTTGAGTCTGTTTCTTTTGAAACAAAT
* **
43232 CTTTGAGTCAGTTTCCCTTGAAAC
1 CTTTGAGTCTGTTTCTTTTGAAAC
43256 CATAATTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 45 0.96
29 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (28 bp):
CTTTGAGTCTGTTTCTTTTGAAACAAAT
Found at i:43462 original size:40 final size:40
Alignment explanation
Indices: 43406--43482 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
43396 TCCTAAAGAT
* * *
43406 GACCAGAACTCTTCATCACATATGAGTCGTGTCATCCCCC
1 GACCAGAACTCCTCATCACATAGGAGCCGTGTCATCCCCC
* * *
43446 GACCAGATCTCCTCATCGCGTAGGAGCCGTGTCATCC
1 GACCAGAACTCCTCATCACATAGGAGCCGTGTCATCC
43483 TTAGATAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.23
Consensus pattern (40 bp):
GACCAGAACTCCTCATCACATAGGAGCCGTGTCATCCCCC
Found at i:43501 original size:134 final size:134
Alignment explanation
Indices: 43261--43621 Score: 506
Period size: 134 Copynumber: 2.7 Consensus size: 134
43251 GAAACCATAA
** *
43261 TTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGTAATGTCATCCCCTGACCAGATCTCCTC
1 TTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTC
* * *
43326 ATCGCATAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCATGTAGGAACCGAGTTATC
66 ATCGCGTAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATC
*
43391 ACTC
131 ACCC
*
43395 TTCCTAAAGATGACCAGAACTCTTCATCACATATGAGTCGTGTCATCCCCCGACCAGATCTCCTC
1 TTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTC
* * * * * * *
43460 ATCGCGTAGGAGCCGTGTCATCCTTAGATAACTAGCCGTCCTTATCGCGTAGGAACCAAGTTATT
66 ATCGCGTAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATC
43525 ACCC
131 ACCC
* * * * *
43529 TTCCTAAAGATGACCAGAACTCTTCATCACGTTTGAGCCGTGTCATTCCCCGACCAGATTTCCTA
1 TTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTC
* * * *
43594 ATCACGTAGGAACTGTATCACCCTTAGA
66 ATCGCGTAGGAACCGTGTCACCCCTAGA
43622 CGACTCGAAC
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 201 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (134 bp):
TTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTC
ATCGCGTAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATC
ACCC
Found at i:48859 original size:2 final size:2
Alignment explanation
Indices: 48852--48877 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48842 TCAGACTCAG
48852 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
48878 ATCAAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54474 original size:20 final size:20
Alignment explanation
Indices: 54449--54488 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
54439 TCGATAAAAA
54449 TTATTGGAAATATTATTATT
1 TTATTGGAAATATTATTATT
*
54469 TTATTGGAAATGTTATTATT
1 TTATTGGAAATATTATTATT
54489 GGACGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (20 bp):
TTATTGGAAATATTATTATT
Found at i:55272 original size:22 final size:22
Alignment explanation
Indices: 55246--55324 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
55236 TTAATGTAAA
55246 TTTAAATTCGATTCAATTTAAT
1 TTTAAATTCGATTCAATTTAAT
* * * * *
55268 TTTAAGACTCAACTAAATTAATGTAAA
1 TTTAA-ATTCGA-T---TCAATTTAAT
55295 TTTAAATTCGATTCAATTTAAT
1 TTTAAATTCGATTCAATTTAAT
55317 TTTAAATT
1 TTTAAATT
55325 ATACATTAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
22 20 0.48
23 4 0.10
24 1 0.02
25 1 0.02
26 4 0.10
27 12 0.29
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTAAATTCGATTCAATTTAAT
Found at i:55280 original size:49 final size:49
Alignment explanation
Indices: 55219--55321 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 49
55209 ATAGTTCAAG
55219 TTTAACACTCAACTAAATTAATGTAAATTTAAATTCGATTCAATTTAAT
1 TTTAACACTCAACTAAATTAATGTAAATTTAAATTCGATTCAATTTAAT
*
55268 TTTAAGACTCAACTAAATTAATGTAAATTTAAATTCGATTCAATTTAAT
1 TTTAACACTCAACTAAATTAATGTAAATTTAAATTCGATTCAATTTAAT
55317 TTTAA
1 TTTAA
55322 ATTATACATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (49 bp):
TTTAACACTCAACTAAATTAATGTAAATTTAAATTCGATTCAATTTAAT
Found at i:55520 original size:92 final size:92
Alignment explanation
Indices: 55363--55571 Score: 294
Period size: 92 Copynumber: 2.3 Consensus size: 92
55353 AATTAAAAAA
* * *
55363 TTTATATAACAAAGGAACTTTCAACCTTCCAATCCAACAAATCTATTCCCGTTCTACTAGCATTT
1 TTTATATAACAAATGAACTTTCAACCTTCAAATCCAACAAATCTATTCCCGTTCTACTAACATTT
*
55428 ACACAAAATCGAGATTTCAACGCTTCT
66 ACACAAAATCGAGATTTCAACACTTCT
* * *
55455 TTTATACAACAAATGAACTTTCAACCTTCAAATCTAACAAATCTATTCTCGTTCCT-CTAACATT
1 TTTATATAACAAATGAACTTTCAACCTTCAAATCCAACAAATCTATTCCCGTT-CTACTAACATT
* ** *
55519 TACATAAAATCTCGATTTCACCACTTCT
65 TACACAAAATCGAGATTTCAACACTTCT
*
55547 TTTATATAACAAATGAATTTTCAAC
1 TTTATATAACAAATGAACTTTCAAC
55572 AAAATGAGGG
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 101 0.98
93 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (92 bp):
TTTATATAACAAATGAACTTTCAACCTTCAAATCCAACAAATCTATTCCCGTTCTACTAACATTT
ACACAAAATCGAGATTTCAACACTTCT
Found at i:58301 original size:3 final size:3
Alignment explanation
Indices: 58293--58376 Score: 109
Period size: 3 Copynumber: 27.7 Consensus size: 3
58283 GGCCCGTTTG
**
58293 TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
58338 TAA TATA TAA -AA TAA TAA TAA TAAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
58377 GAAAATGGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 59 0.82
4 9 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:58335 original size:27 final size:27
Alignment explanation
Indices: 58294--58371 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
58284 GCCCGTTTGT
**
58294 AATAATAATTTTAATAATAATAAATAA
1 AATAATAATAATAATAATAATAAATAA
*
58321 AATAATAATAATAATAATAATATATAA
1 AATAATAATAATAATAATAATAAATAA
58348 AATAATAATAATAAATAATAATAA
1 AATAATAATAAT-AATAATAATAA
58372 TAATAGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 36 0.78
28 10 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AATAATAATAATAATAATAATAAATAA
Found at i:58936 original size:116 final size:116
Alignment explanation
Indices: 58727--59258 Score: 780
Period size: 116 Copynumber: 4.7 Consensus size: 116
58717 ATAGAATTAT
** *
58727 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTC-TTCTTCTTCAGAT---GAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
* * * * * * **
58785 CTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 CTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAA
*
58836 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
*
58901 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTTAA
66 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
*
58952 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
*
59017 CTCATTATGAACTCTACTTGGCAATGTTGATCCATCAAATGATGAATTCAA
66 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
* *
59068 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
59133 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
66 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
* * * *
59184 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCA-A--ATGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
*
59246 CTCATTAAGAACT
66 CTCATTATGAACT
59259 TTCTCTGGGA
Statistics
Matches: 394, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
109 30 0.08
112 4 0.01
113 34 0.09
115 1 0.00
116 323 0.82
117 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (116 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
Found at i:59076 original size:232 final size:230
Alignment explanation
Indices: 58727--59433 Score: 812
Period size: 232 Copynumber: 3.1 Consensus size: 230
58717 ATAGAATTAT
** *
58727 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTC-TTCTTCTTCAGAT-GAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAGAGTTCTTCT
* * * ** *
58787 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA
66 CATTATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAA
* *
58852 ATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
131 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
*
58917 CCTGGCAATGTTGATCCATCAAATGATGAATTTAA
196 CCTGGCAATGTTGATCCATCAAATGATGAATTCAA
*
58952 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTT
* * *
59017 CTCATTATGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAA
64 CTCATTATGAACT-TACTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAA
59081 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACT
128 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACT
59146 CTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
193 CTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
* * * *
59184 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAAAT-GAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAGAGTTCTTCT
* * * * *** **
59248 CATTAAGAACTTTCTCTGGGAAAGTTGATGTTGATCTATCTTCTTCTGTGATAGAATT-ATGCAA
66 CATTATGAACTTACTCT-GGAAA----A-GCTGATC---CATC--AAATGAT-GAATTCAAACAA
**
59312 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC-
119 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCA
59373 ---T--A---T--CTGGCAATGTTGATCCAT-AGAATGATGAATTCAA
184 TTATGAACTCTACCTGGCAATGTTGATCCATCA-AATGATGAATTCAA
* *
59410 GCAAAAAGTTGAACAAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCT
59434 TTCTTCAGAT
Statistics
Matches: 424, Mismatches: 36, Indels: 43
0.84 0.07 0.09
Matches are distributed among these distances:
225 30 0.07
226 53 0.12
228 8 0.02
229 34 0.08
230 4 0.01
231 1 0.00
232 208 0.49
233 4 0.01
235 7 0.02
237 11 0.03
238 3 0.01
240 56 0.13
241 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (230 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAGAGTTCTTCT
CATTATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAA
ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
CCTGGCAATGTTGATCCATCAAATGATGAATTCAA
Found at i:60408 original size:114 final size:114
Alignment explanation
Indices: 60208--60430 Score: 383
Period size: 114 Copynumber: 2.0 Consensus size: 114
60198 AATCATGCAG
* * *
60208 TTCATCTTTCAATTCTAATGATTGGTTTTGTGGTTCATACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
60273 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
*
60322 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
60387 ACACTTCCAGAAGATGTTATTGGGCCTCCTTATTTCTACCATGA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
60431 TAACGTGGCA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
Found at i:60748 original size:19 final size:17
Alignment explanation
Indices: 60724--60772 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
60714 AAAATAAAAG
60724 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
60743 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
60759 AATAAATTGAATTT
1 AATAAATTGAATTT
60773 AGAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:61151 original size:12 final size:11
Alignment explanation
Indices: 61125--61173 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
61115 TCTTGACCCC
61125 CTTTTTTCTCTT
1 CTTTTTT-TCTT
*
61137 -TTTTTTCCTT
1 CTTTTTTTCTT
61147 CTTTTTTTCTT
1 CTTTTTTTCTT
*
61158 -TTTTTTTTTT
1 CTTTTTTTCTT
61168 CTTTTT
1 CTTTTT
61174 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 12 0.38
11 20 0.62
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:61152 original size:21 final size:21
Alignment explanation
Indices: 61127--61175 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
61117 TTGACCCCCT
61127 TTTTTCTCTTTTTTTTCCTTC
1 TTTTTCTCTTTTTTTTCCTTC
* **
61148 TTTTTTTCTTTTTTTTTTTTC
1 TTTTTCTCTTTTTTTTCCTTC
61169 TTTTTCT
1 TTTTTCT
61176 TCAAGCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTCTTTTTTTTCCTTC
Found at i:61169 original size:13 final size:13
Alignment explanation
Indices: 61135--61173 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
61125 CTTTTTTCTC
*
61135 TTTTTTTTC-CTT
1 TTTTTTTTCTTTT
*
61147 CTTTTTTTCTTTT
1 TTTTTTTTCTTTT
61160 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
61173 T
1 T
61174 CTTCAAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Done.