Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007265.1 Hibiscus syriacus cultivar Beakdansim tig00019258_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: 150881
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
File 1 of 2
Found at i:667 original size:11 final size:11
Alignment explanation
Indices: 653--693 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
643 TTTTTTTTTT
653 TTTTAATTTCA
1 TTTTAATTTCA
*
664 TTTTATTTTCA
1 TTTTAATTTCA
675 TTTTAATTTC-
1 TTTTAATTTCA
*
685 TCTTAATTT
1 TTTTAATTT
694 TTAGCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAATTTCA
Found at i:2676 original size:34 final size:34
Alignment explanation
Indices: 2633--2704 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
2623 GGAGTATTCT
2633 TTTTCCCTCTCTTTGTTTGTTAATTTAATATACG
1 TTTTCCCTCTCTTTGTTTGTTAATTTAATATACG
2667 TTTTCCCTCTCTTTGTTTGTTAATTTAATATACG
1 TTTTCCCTCTCTTTGTTTGTTAATTTAATATACG
2701 TTTT
1 TTTT
2705 GGGACAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (34 bp):
TTTTCCCTCTCTTTGTTTGTTAATTTAATATACG
Found at i:5256 original size:8 final size:8
Alignment explanation
Indices: 5239--5272 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
5229 TTTTATAATA
5239 ATTA-TTT
1 ATTATTTT
5246 ATTATTTT
1 ATTATTTT
5254 ATTATTTT
1 ATTATTTT
*
5262 ATTATTAT
1 ATTATTTT
5270 ATT
1 ATT
5273 TTTATCCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
ATTATTTT
Found at i:5262 original size:16 final size:15
Alignment explanation
Indices: 5239--5277 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
5229 TTTTATAATA
*
5239 ATTATTTATTATTTT
1 ATTATTTATTATTAT
5254 ATTATTTTATTATTAT
1 ATTA-TTTATTATTAT
5270 ATT-TTTAT
1 ATTATTTAT
5278 CCTTATCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTATTTATTATTAT
Found at i:8557 original size:9 final size:10
Alignment explanation
Indices: 8523--8595 Score: 87
Period size: 10 Copynumber: 7.5 Consensus size: 10
8513 ATGTTGTTTG
*
8523 ACCGGTCTAA
1 ACCGGTCTGA
*
8533 ACCGGCCTGA
1 ACCGGTCTGA
*
8543 ACCGGTTTG-
1 ACCGGTCTGA
8552 ACCGGTCTGA
1 ACCGGTCTGA
*
8562 ACCGGACTGA
1 ACCGGTCTGA
8572 ACCGGTCTG-
1 ACCGGTCTGA
*
8581 ACCGGTCCGA
1 ACCGGTCTGA
8591 ACCGG
1 ACCGG
8596 GTTGACCCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
9 16 0.30
10 37 0.70
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (10 bp):
ACCGGTCTGA
Found at i:8561 original size:19 final size:20
Alignment explanation
Indices: 8523--8595 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 20
8513 ATGTTGTTTG
* *
8523 ACCGGTCTAAACCGGCCTGA
1 ACCGGTCTGAACCGGTCTGA
*
8543 ACCGGTTTG-ACCGGTCTGA
1 ACCGGTCTGAACCGGTCTGA
*
8562 ACCGGACTGAACCGGTCTG-
1 ACCGGTCTGAACCGGTCTGA
*
8581 ACCGGTCCGAACCGG
1 ACCGGTCTGAACCGG
8596 GTTGACCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 29 0.64
20 16 0.36
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (20 bp):
ACCGGTCTGAACCGGTCTGA
Found at i:8564 original size:29 final size:29
Alignment explanation
Indices: 8518--8595 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
8508 GGGTGATGTT
* *
8518 GTTTGACCGGTCTAAACCGGCCTGAACCG
1 GTTTGACCGGTCTGAACCGGACTGAACCG
8547 GTTTGACCGGTCTGAACCGGACTGAACCG
1 GTTTGACCGGTCTGAACCGGACTGAACCG
* *
8576 GTCTGACCGGTCCGAACCGG
1 GTTTGACCGGTCTGAACCGG
8596 GTTGACCCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (29 bp):
GTTTGACCGGTCTGAACCGGACTGAACCG
Found at i:8675 original size:29 final size:29
Alignment explanation
Indices: 8610--8768 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
8600 ACCCGACCCA
*
8610 GTGATATTTTAGTAATTATTTTG--AAAG
1 GTGATATTTTGGTAATTATTTTGAAAAAG
** *
8637 CAGATATTTTAGTAATTATTTTGAAAAAG
1 GTGATATTTTGGTAATTATTTTGAAAAAG
*
8666 GTGATATTTTGGTAATTATTTTAAAAAAG
1 GTGATATTTTGGTAATTATTTTGAAAAAG
8695 GTGATATTTTGGTAATTATTTTGAAAAAG
1 GTGATATTTTGGTAATTATTTTGAAAAAG
* *
8724 GTGATATTTTGGTAATTATTTTAAAAAAT
1 GTGATATTTTGGTAATTATTTTGAAAAAG
* *
8753 GTGCTATTTTCGTAAT
1 GTGATATTTTGGTAAT
8769 AGTTAACTGT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 21 0.18
29 98 0.82
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (29 bp):
GTGATATTTTGGTAATTATTTTGAAAAAG
Found at i:15935 original size:19 final size:19
Alignment explanation
Indices: 15908--15955 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
15898 GTTTGACCAA
*
15908 TCTGAACCGGACTGAAACGG
1 TCTG-ACCGGACTAAAACGG
*
15928 TCTGACCGAACTAAAACGG
1 TCTGACCGGACTAAAACGG
15947 TCTGACCGG
1 TCTGACCGG
15956 TCCGAACTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (19 bp):
TCTGACCGGACTAAAACGG
Found at i:16028 original size:29 final size:29
Alignment explanation
Indices: 15996--16124 Score: 186
Period size: 29 Copynumber: 4.4 Consensus size: 29
15986 TGACAACCAA
* **
15996 ATATTTTAGTAATTATTTTGAAACCGGTG
1 ATATTTTGGTAATTATTTTGAAAAAGGTG
* *
16025 ATATTTGGGTAATTATTTTGAAAAAGATG
1 ATATTTTGGTAATTATTTTGAAAAAGGTG
16054 ATATTTTGGTAATTATTTTGAAAAAGGTG
1 ATATTTTGGTAATTATTTTGAAAAAGGTG
*
16083 ATATTTTGGTAATTATTTTAAAAAAGGTG
1 ATATTTTGGTAATTATTTTGAAAAAGGTG
* *
16112 CTATTTTCGTAAT
1 ATATTTTGGTAAT
16125 AGTTGACTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (29 bp):
ATATTTTGGTAATTATTTTGAAAAAGGTG
Found at i:16439 original size:21 final size:22
Alignment explanation
Indices: 16399--16439 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16389 TCCGTTTGGT
16399 CAAATTCATACTCGAAAGCCTC
1 CAAATTCATACTCGAAAGCCTC
* *
16421 CAAATTGATAGTC-AAAGCC
1 CAAATTCATACTCGAAAGCC
16440 AAAAAATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (22 bp):
CAAATTCATACTCGAAAGCCTC
Found at i:17948 original size:23 final size:23
Alignment explanation
Indices: 17914--17997 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
17904 TTTCGTAAGA
*
17914 GTACTTTATGTACTATGTCAAGT
1 GTACTTTGTGTACTATGTCAAGT
* *
17937 GTACTTTGTGTACTATGGCAAGA
1 GTACTTTGTGTACTATGTCAAGT
17960 GTACTTTGTGTACT-TGT--AGT
1 GTACTTTGTGTACTATGTCAAGT
* *
17980 CGTGCTTTGTTTACTATG
1 -GTACTTTGTGTACTATG
17998 GCACTTTGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 4 0.08
23 34 0.65
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (23 bp):
GTACTTTGTGTACTATGTCAAGT
Found at i:18487 original size:2 final size:2
Alignment explanation
Indices: 18480--18510 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18470 TTAAACGTTA
18480 AT 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 AT A
18511 GTTGAAGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19585 original size:15 final size:16
Alignment explanation
Indices: 19565--19594 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19555 CTTTGACTTT
19565 AAGATATTTT-AATGA
1 AAGATATTTTCAATGA
19580 AAGATATTTTCAATG
1 AAGATATTTTCAATG
19595 GAAATTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (16 bp):
AAGATATTTTCAATGA
Found at i:25561 original size:13 final size:12
Alignment explanation
Indices: 25545--25676 Score: 60
Period size: 13 Copynumber: 10.8 Consensus size: 12
25535 ATACTATTTC
25545 CATCACCATAAT
1 CATCACCATAAT
* *
25557 CCATCTTCCATTAT
1 -CATC-ACCATAAT
*
25571 CA-CGCC-TATAT
1 CATCACCATA-AT
*
25582 CATCACCATAGT
1 CATCACCATAAT
*
25594 CCATCACCATTAT
1 -CATCACCATAAT
*
25607 CA-CGCC-TATAT
1 CATCACCATA-AT
*
25618 CATCACCATAGT
1 CATCACCATAAT
*
25630 CCATCACCATTAT
1 -CATCACCATAAT
*
25643 CA-CGCC-TATAT
1 CATCACCATA-AT
*
25654 CATCACCATATT
1 CATCACCATAAT
25666 CCATCACCATA
1 -CATCACCATA
25677 TCACGCCTAT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
10 3 0.03
11 20 0.23
12 17 0.19
13 42 0.48
14 6 0.07
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (12 bp):
CATCACCATAAT
Found at i:25590 original size:23 final size:23
Alignment explanation
Indices: 25545--25679 Score: 75
Period size: 23 Copynumber: 5.6 Consensus size: 23
25535 ATACTATTTC
*
25545 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCATTAT
*
25571 CA-CGCCTATATCATCACCA-TAGT
1 CATCACC-ATATCATCACCATTA-T
*
25594 CCATCACCAT-T-ATCACGCCTATAT
1 -CATCACCATATCATCAC-CAT-TAT
25618 CATCACCATAGTCCATCACCATTAT
1 CATCACCATA-T-CATCACCATTAT
*
25643 CA-CGCCTATATCATCACCA-TATT
1 CATCACC-ATATCATCACCATTA-T
25666 CCATCACCATATCA
1 -CATCACCATATCA
25680 CGCCTATATT
Statistics
Matches: 87, Mismatches: 7, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
22 9 0.10
23 24 0.28
24 21 0.24
25 22 0.25
26 6 0.07
27 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (23 bp):
CATCACCATATCATCACCATTAT
Found at i:25611 original size:36 final size:36
Alignment explanation
Indices: 25545--25696 Score: 252
Period size: 36 Copynumber: 4.2 Consensus size: 36
25535 ATACTATTTC
* *
25545 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAGTCCATC-ACCATTATCACGCCTATAT
25582 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
25618 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
25654 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
25689 TATCACCA
1 CATCACCA
25697 ACTTATAAAT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 21 0.19
36 74 0.67
37 16 0.14
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACGCCTATAT
Found at i:29485 original size:22 final size:23
Alignment explanation
Indices: 29437--29486 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
29427 AATAAAGAAT
**
29437 AATAAAAAAACAATAAAACATGG
1 AATAAAAAAACAATAAAACATAA
29460 AATAAAAATAA-AAT-AAACATAA
1 AATAAAAA-AACAATAAAACATAA
29482 AATAA
1 AATAA
29487 GGACCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 11 0.46
24 2 0.08
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (23 bp):
AATAAAAAAACAATAAAACATAA
Found at i:30821 original size:22 final size:22
Alignment explanation
Indices: 30796--30841 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
30786 TTGGGGTTTG
* *
30796 GTTT-GGTTTGGTTTTGGGTACT
1 GTTTGGGTTTGATGTTGGGT-CT
30818 GTTTGGGTTTGATGTTGGGTCT
1 GTTTGGGTTTGATGTTGGGTCT
30840 GT
1 GT
30842 AAAAATGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.04, C:0.04, G:0.39, T:0.52
Consensus pattern (22 bp):
GTTTGGGTTTGATGTTGGGTCT
Found at i:31323 original size:20 final size:20
Alignment explanation
Indices: 31298--31344 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
31288 TCAAAAATTC
31298 GACTCGACTCAACTCAACTT
1 GACTCGACTCAACTCAACTT
31318 GACTCGACTCAACTCAACTT
1 GACTCGACTCAACTCAACTT
31338 GACTCGA
1 GACTCGA
31345 ATATTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
GACTCGACTCAACTCAACTT
Found at i:31922 original size:2 final size:2
Alignment explanation
Indices: 31915--31946 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31905 AGTACAATTA
31915 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
31947 TACTTGATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36305 original size:21 final size:21
Alignment explanation
Indices: 36274--36326 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
36264 TTTACCAATC
*
36274 AAATATGTATAAAAAATGGCT
1 AAATATATATAAAAAATGGCT
* *
36295 TAATATATATAAAAAATGTCT
1 AAATATATATAAAAAATGGCT
36316 AAACTATATAT
1 AAA-TATATAT
36327 TTTTCTCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATATATATAAAAAATGGCT
Found at i:38362 original size:42 final size:42
Alignment explanation
Indices: 38303--38528 Score: 398
Period size: 42 Copynumber: 5.4 Consensus size: 42
38293 CGTTGCGATT
*
38303 TTGGACTATCGCAACGAATTTGGAATAAAGCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
38345 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
38387 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
38429 TTCGACTATCGCAACAAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
38471 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
38513 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
38529 CGAACTTGGA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 174 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:38523 original size:21 final size:21
Alignment explanation
Indices: 38303--38553 Score: 216
Period size: 21 Copynumber: 12.0 Consensus size: 21
38293 CGTTGCGATT
*
38303 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
38322 TTGGAATAAAGCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
38345 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
38364 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
38387 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
38406 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
38429 TTCGACTATCGCAA--CAAAC
1 TTGGACTATCGCAACGCGAAC
*
38448 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
38471 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
38490 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
38513 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
38534 TTGGACCATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
38554 TATGTAAATC
Statistics
Matches: 187, Mismatches: 25, Indels: 38
0.75 0.10 0.15
Matches are distributed among these distances:
19 46 0.25
21 92 0.49
23 49 0.26
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:40649 original size:24 final size:24
Alignment explanation
Indices: 40612--40672 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
40602 CAGTCCAACA
40612 TTGACTTTTGACCGACCGTTGACCG
1 TTGAC-TTTGACCGACCGTTGACCG
40637 TTGACTTTGACCGACCGTTGACCG
1 TTGACTTTGACCGACCGTTGACCG
40661 TTGACTTTGACC
1 TTGACTTTGACC
40673 AAGAAGTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.33
Consensus pattern (24 bp):
TTGACTTTGACCGACCGTTGACCG
Found at i:41485 original size:39 final size:38
Alignment explanation
Indices: 41443--41638 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 38
41433 ACCGTTTTCC
*
41443 GCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACC
1 GCAGGCTCCTCG-CTTTGTGCTCAGGGTAAGTCCTTACT
* * *
41482 GCAGGTTTCTCGGCTTTGTGCTCAGGGTAAGTCTTTACT
1 GCAGGCTCCTC-GCTTTGTGCTCAGGGTAAGTCCTTACT
* * *
41521 GCAGGCTCCTCTTCTTTGTACTTAGGGTAAGTCCTTACT
1 GCAGGCTCCTC-GCTTTGTGCTCAGGGTAAGTCCTTACT
* * * * * * *
41560 GCAAGCTCATCTGCTTTGTGCACATGATAAGACATTACT
1 GCAGGCTCCTC-GCTTTGTGCTCAGGGTAAGTCCTTACT
* * *
41599 GCAGGCTCCTCTGCTTTATGCACAAGGTAAGTCCTTACT
1 GCAGGCTCCTC-GCTTTGTGCTCAGGGTAAGTCCTTACT
41638 G
1 G
41639 GGTGTATAGA
Statistics
Matches: 128, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 127 0.99
40 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (38 bp):
GCAGGCTCCTCGCTTTGTGCTCAGGGTAAGTCCTTACT
Found at i:41576 original size:78 final size:78
Alignment explanation
Indices: 41443--41638 Score: 223
Period size: 78 Copynumber: 2.5 Consensus size: 78
41433 ACCGTTTTCC
* * * * *
41443 GCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACCGCAGGTTTCTCGGCTTTGTGCTCAGG
1 GCAGGCTCCTCTACTTTGTGCTCAGGGTAAGTCCTTACTGCAAGTCTCTCGGCTTTGTGCACAGG
* * *
41508 GTAAGTCTTTACT
66 ATAAGACATTACT
* * * * *
41521 GCAGGCTCCTCTTCTTTGTACTTAGGGTAAGTCCTTACTGCAAG-CTCATCTGCTTTGTGCACAT
1 GCAGGCTCCTCTACTTTGTGCTCAGGGTAAGTCCTTACTGCAAGTCTC-TCGGCTTTGTGCACAG
41585 GATAAGACATTACT
65 GATAAGACATTACT
* * * *
41599 GCAGGCTCCTCTGCTTTATGCACAAGGTAAGTCCTTACTG
1 GCAGGCTCCTCTACTTTGTGCTCAGGGTAAGTCCTTACTG
41639 GGTGTATAGA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
77 2 0.02
78 96 0.98
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (78 bp):
GCAGGCTCCTCTACTTTGTGCTCAGGGTAAGTCCTTACTGCAAGTCTCTCGGCTTTGTGCACAGG
ATAAGACATTACT
Found at i:48658 original size:13 final size:13
Alignment explanation
Indices: 48640--48677 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
48630 TTCAAGTAAA
48640 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
*
48653 AAAAAGAAAAAGT
1 AAAAAGAAAAAGG
48666 AAAGAA-AAAAAG
1 AAA-AAGAAAAAG
48678 CAATCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:51963 original size:149 final size:149
Alignment explanation
Indices: 51696--51986 Score: 386
Period size: 149 Copynumber: 2.0 Consensus size: 149
51686 AGTAGAGTCA
*
51696 AGAGGGAGTCTACCTACCAAAGAGACAAGCCAGACATCTGCCTACTGAGGTAGCAAGTTGGACTC
1 AGAGGGAGTCTACCTACCAAAGAGACAAGCCAGACATCTGCCTACTGAGGTAACAAGTTGGACTC
** * ** * * *
51761 GAGATGATTCGATGCTGAAGCCAACAATTGAAGACCACAAACCAGCTTGAAAGATTTCTGGAAAT
66 GAGACAATTCGACGCTGAAGCCAACAATTGAAGACCACAAACCAGCTCAAAAGACTTATGCAAAT
*
51826 ATGAGATGAAGTAGGAGCC
131 AGGAGATGAAGTAGGAGCC
* * * * * *
51845 AGAGGGAGTCTATCTACCAAGGAGACGATCCAGACATTTGCCTGCTGAGGTAACAAGTTGGACTC
1 AGAGGGAGTCTACCTACCAAAGAGACAAGCCAGACATCTGCCTACTGAGGTAACAAGTTGGACTC
* * * *
51910 GAGACAATTCTACG-TCGAAGCCAACAGTTGAAGATCACAAACCAGCTCAAAAGACTTATGCAAG
66 GAGACAATTCGACGCT-GAAGCCAACAATTGAAGACCACAAACCAGCTCAAAAGACTTATGCAAA
51974 TAGGAGATGAAGT
130 TAGGAGATGAAGT
51987 GGAAGCTTTG
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
148 1 0.01
149 120 0.99
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (149 bp):
AGAGGGAGTCTACCTACCAAAGAGACAAGCCAGACATCTGCCTACTGAGGTAACAAGTTGGACTC
GAGACAATTCGACGCTGAAGCCAACAATTGAAGACCACAAACCAGCTCAAAAGACTTATGCAAAT
AGGAGATGAAGTAGGAGCC
Found at i:54829 original size:100 final size:103
Alignment explanation
Indices: 54704--54919 Score: 278
Period size: 100 Copynumber: 2.1 Consensus size: 103
54694 CTTTGAGATT
* *
54704 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA-TAAA-CTTTGAGA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGA-A
** * * *
54767 AC-GTTTCCCTTGAAATGAATTTCGTCTCTCTTTAGACC
65 ACTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
* * * *
54805 G-TTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAAT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGAAA
*
54869 CTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
66 CTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
*
54907 GTTTCTCTTGAAA
1 GTTTCCCTTGAAA
54920 TATAAACTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 45 0.46
101 6 0.06
102 37 0.38
103 10 0.10
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (103 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGAAA
CTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:54891 original size:67 final size:65
Alignment explanation
Indices: 54806--54983 Score: 220
Period size: 67 Copynumber: 2.7 Consensus size: 65
54796 CTTTAGACCG
* *
54806 TTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGA-ATC
1 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAA-CTTTGAGAAC
54870 TGT
64 -GT
* * *
54873 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAACTTTGAGAACGT
1 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAACTTTGAGAACGT
** *
54938 TTCCCTTGAAATTAATTTT-T-TCTCTTGAGACCA-TTTCCCTTGAAAC
1 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCTCTTGAAAC
54984 GAATTTATTC
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
63 20 0.20
64 3 0.03
65 25 0.25
66 5 0.05
67 46 0.46
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (65 bp):
TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAACTTTGAGAACGT
Found at i:54975 original size:34 final size:35
Alignment explanation
Indices: 54928--55019 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 35
54918 AATATAAACT
* **
54928 TTGAGAACGTTTCCCTTGAAATTAATTT-TT-TCTC
1 TTGAG-ACATTTCCCTTGAAACGAATTTATTCTCTC
54962 TTGAGACCATTTCCCTTGAAACGAATTTATTCTCTC
1 TTGAGA-CATTTCCCTTGAAACGAATTTATTCTCTC
*
54998 TTGAGACAGTTTCTCTTGAAAC
1 TTGAGACA-TTTCCCTTGAAAC
55020 ACAAAATCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
33 1 0.02
34 23 0.46
35 4 0.08
36 22 0.44
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (35 bp):
TTGAGACATTTCCCTTGAAACGAATTTATTCTCTC
Found at i:54989 original size:99 final size:102
Alignment explanation
Indices: 54871--55113 Score: 300
Period size: 99 Copynumber: 2.4 Consensus size: 102
54861 CTTTGAATCT
* *
54871 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATA-TAAA-CTTTGAGA
1 GTTTCCCTTGAAACAAATTTT-TCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGA-A
**
54934 -ACGTTTCCCTTGAAATTAATTTT-T-TCTCTTGAGACCA
64 TACGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGA-CA
* *
54971 -TTTCCCTTGAAACGAATTTATTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAAT
1 GTTTCCCTTGAAACAAATTT-TTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAAT
**
55035 TTGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
65 ACGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
* *
55073 GTTTCTCTTGAAACAAATTTTATCTCCCTTGAAACAAGTTT
1 GTTTCCCTTGAAACAAATTTT-TCTCCCTTGAGAC-AGTTT
55114 TGTCTCCCTG
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
99 45 0.37
100 5 0.04
101 25 0.20
102 4 0.03
103 38 0.31
104 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (102 bp):
GTTTCCCTTGAAACAAATTTTTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAATA
CGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
Found at i:55016 original size:36 final size:35
Alignment explanation
Indices: 54761--55113 Score: 167
Period size: 36 Copynumber: 10.3 Consensus size: 35
54751 AACATAAACT
* *
54761 TTGAGA-ACGTTTCCCTTGAAATGAATTTCGTCTCTC
1 TTGAGACA-GTTTCCCTTGAAACGAATTT-TTCTCTC
* *
54797 TTTAGACCG-TTCCCTTGAAACGAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACGAATTTT-TCTCTC
* ***
54832 TTGAGACAGTTTCTCTTGAAAC-ACA---AAATCT-
1 TTGAGACAGTTTCCCTTGAAACGA-ATTTTTCTCTC
* * *
54863 TTGA-ATCTGTTTCCCTTGAAACAAATTTTGTCTCCC
1 TTGAGA-CAGTTTCCCTTGAAACGAATTTT-TCTCTC
* * ***
54899 TTGAGACAGTTTCTCTTG--A--AA-TATAAACT-
1 TTGAGACAGTTTCCCTTGAAACGAATTTTTCTCTC
**
54928 TTGAGA-ACGTTTCCCTTGAAATTAATTTTT-TCTC
1 TTGAGACA-GTTTCCCTTGAAACGAATTTTTCTCTC
54962 TTGAGACCA-TTTCCCTTGAAACGAATTTATTCTCTC
1 TTGAGA-CAGTTTCCCTTGAAACGAATTT-TTCTCTC
* ***
54998 TTGAGACAGTTTCTCTTGAAAC-ACA---AAATCT-
1 TTGAGACAGTTTCCCTTGAAACGA-ATTTTTCTCTC
**
55029 TTGA-ATTTGTTTCCCTTGAAACGAATTTTGTCTCTC
1 TTGAGA-CAGTTTCCCTTGAAACGAATTTT-TCTCTC
* * *
55065 TTGAGACAGTTTCTCTTGAAACAAATTTTATCTCCC
1 TTGAGACAGTTTCCCTTGAAACGAATTTT-TCTCTC
*
55101 TTGAAACAAGTTT
1 TTGAGAC-AGTTT
55114 TGTCTCCCTG
Statistics
Matches: 237, Mismatches: 46, Indels: 67
0.68 0.13 0.19
Matches are distributed among these distances:
28 1 0.00
29 15 0.06
30 3 0.01
31 40 0.17
32 10 0.04
33 4 0.02
34 26 0.11
35 41 0.17
36 90 0.38
37 7 0.03
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (35 bp):
TTGAGACAGTTTCCCTTGAAACGAATTTTTCTCTC
Found at i:55045 original size:166 final size:166
Alignment explanation
Indices: 54694--55087 Score: 641
Period size: 166 Copynumber: 2.4 Consensus size: 166
54684 AATTGATAAA
* *
54694 CTTTGAGA-TTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACATAA
1 CTTTGA-ATTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAA
*
54758 ACTTTGAGAACGTTTCCCTTGAAATGAATTTCGTCTCTCTTTAGACCGTTCCCTTGAAACGAATT
65 ACTTTGAGAACGTTTCCCTTGAAATGAATTTC-TCTCTCTTGAGACCGTTCCCTTGAAACGAATT
54823 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAAT
129 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAAT
* *
54861 CTTTGAATCTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAA
1 CTTTGAATTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
* * *
54926 CTTTGAGAACGTTTCCCTTGAAATTAATTT-TTTCTCTTGAGACCATTTCCCTTGAAACGAATTT
66 CTTTGAGAACGTTTCCCTTGAAATGAATTTCTCTCTCTTGAGACC-GTTCCCTTGAAACGAATTT
54990 AT-TCTCTCTTGAGACAGTTTCTCTTGAAACACAAAAT
130 -TGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAAT
* *
55027 CTTTGAATTTGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 CTTTGAATTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
55088 AATTTTATCT
Statistics
Matches: 212, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
165 12 0.06
166 111 0.52
167 89 0.42
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (166 bp):
CTTTGAATTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
CTTTGAGAACGTTTCCCTTGAAATGAATTTCTCTCTCTTGAGACCGTTCCCTTGAAACGAATTTT
GTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAAT
Found at i:55103 original size:21 final size:21
Alignment explanation
Indices: 55079--55122 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
55069 GACAGTTTCT
55079 CTTGAAACAAATTTTATCTCC
1 CTTGAAACAAATTTTATCTCC
* *
55100 CTTGAAACAAGTTTTGTCTCC
1 CTTGAAACAAATTTTATCTCC
55121 CT
1 CT
55123 GAGACAGTTT
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:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (21 bp):
CTTGAAACAAATTTTATCTCC
Found at i:55283 original size:75 final size:71
Alignment explanation
Indices: 55160--55435 Score: 272
Period size: 75 Copynumber: 3.8 Consensus size: 71
55150 CTTTGAACAT
*
55160 GTTTCCCTTGAAACAAAA-TTATCTCACTTGAGAT-TGTTTCTATCAAAACAAGTTTCGTCTCAC
1 GTTTCCCTTGAAACAAAATTTATCTCACTTGAGATGTTTTTCT-T-AAAACAAGTTTCGTCTCAC
*
55223 TGGAGACA
64 TAGAGACA
* * * *
55231 GTTTCCTTTGAAACTAAATTTTTTATCTCACTTGAGATGTTTGTTCTTAAAACCAGTTTCATCTC
1 GTTTCCCTTGAAAC-AAA--ATTTATCTCACTTGAGATGTTT-TTCTTAAAACAAGTTTCGTCTC
*
55296 ATTAGAGACA
62 ACTAGAGACA
* * * * *
55306 ATTTCCCTTGAAACAAAATTTATCTAACTCGAGATGGTTTTTCTTAAAACCAA-CTTCGTCTCGC
1 GTTTCCCTTGAAACAAAATTTATCTCACTTGAGAT-GTTTTTCTTAAAA-CAAGTTTCGTCTCAC
*
55370 TTGAGACA
64 TAGAGACA
* * * *
55378 GTTTTACCTCGAAACAAAATTTATCTCACTAGAG-TGCTCTTCTCTTAAAACAAGTTTC
1 G-TTTCCCTTGAAACAAAATTTATCTCACTTGAGATG-T-TTTTCTTAAAACAAGTTTC
55436 TTATTTATTT
Statistics
Matches: 168, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
71 14 0.08
72 46 0.27
73 47 0.28
74 3 0.02
75 51 0.30
76 3 0.02
77 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (71 bp):
GTTTCCCTTGAAACAAAATTTATCTCACTTGAGATGTTTTTCTTAAAACAAGTTTCGTCTCACTA
GAGACA
Found at i:56850 original size:18 final size:18
Alignment explanation
Indices: 56827--56927 Score: 52
Period size: 17 Copynumber: 5.8 Consensus size: 18
56817 TAATTTGTGC
56827 CTGATAACTGTAAAACAT
1 CTGATAACTGTAAAACAT
*
56845 CTGATATA-TGT-AAATAT
1 CTGATA-ACTGTAAAACAT
* * *
56862 CTTATAATTGT-AACCAT
1 CTGATAACTGTAAAACAT
* * *
56879 CTAATATA-T-TTAAATAT
1 CTGATA-ACTGTAAAACAT
*
56896 CTGATAACT-AAAAATCAT
1 CTGATAACTGTAAAA-CAT
*
56914 CTAATAACTGTAAA
1 CTGATAACTGTAAA
56928 CATTTATAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
16 3 0.05
17 36 0.57
18 20 0.32
19 4 0.06
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.36
Consensus pattern (18 bp):
CTGATAACTGTAAAACAT
Found at i:56873 original size:17 final size:17
Alignment explanation
Indices: 56853--56927 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
56843 ATCTGATATA
*
56853 TGTAAATATCTTATAAT
1 TGTAAATATCTAATAAT
**
56870 TGTAACCATCTAATATAT
1 TGTAAATATCTAATA-AT
* *
56888 T-TAAATATCTGATAAC
1 TGTAAATATCTAATAAT
** *
56904 TAAAAATCATCTAATAAC
1 TGTAAAT-ATCTAATAAT
56922 TGTAAA
1 TGTAAA
56928 CATTTATAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
16 2 0.05
17 26 0.59
18 16 0.36
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (17 bp):
TGTAAATATCTAATAAT
Found at i:60190 original size:21 final size:21
Alignment explanation
Indices: 60164--60205 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60154 TTTTCTTATT
60164 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
*
60185 TACATTACATGGTATACATTG
1 TACATTACATGATATACATTG
60206 CATCTCAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:61545 original size:19 final size:19
Alignment explanation
Indices: 61514--61577 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
61504 ATAACAAAAG
*
61514 GAAAAAACAAAAAAA-AGTAA
1 GAAAAAAGAAAAAAAGAG--A
61534 GAAAAAAGAAAAAAAGAGA
1 GAAAAAAGAAAAAAAGAGA
* *
61553 TAAAAAAGAAAAAATAAAGA
1 GAAAAAAGAAAAAA-AGAGA
61573 GAAAA
1 GAAAA
61578 TAAAGCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 14 0.37
20 22 0.58
21 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (19 bp):
GAAAAAAGAAAAAAAGAGA
Found at i:61574 original size:22 final size:18
Alignment explanation
Indices: 61509--61566 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
61499 AATACATAAC
61509 AAAAG-GAAAAAACA-AAA
1 AAAAGAGAAAAAA-AGAAA
61526 AAAAGTA-AGAAAAAAGAAA
1 AAAAG-AGA-AAAAAAGAAA
61545 AAAAGAGATAAAAAAGAAA
1 AAAAGAGA-AAAAAAGAAA
61564 AAA
1 AAA
61567 TAAAGAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 5 0.14
18 3 0.09
19 27 0.77
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAGAGAAAAAAAGAAA
Found at i:61577 original size:11 final size:10
Alignment explanation
Indices: 61522--61582 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
61512 AGGAAAAAAC
61522 AAAAAAA-AG
1 AAAAAAAGAG
61531 TAAGAAAAA-AG
1 -AA-AAAAAGAG
61542 AAAAAAAGAG
1 AAAAAAAGAG
*
61552 ATAAAAAAGAA
1 A-AAAAAAGAG
61563 AAAATAAAGAG
1 AAAA-AAAGAG
61574 AAAATAAAG
1 AAAA-AAAG
61583 CCAAAAAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
9 5 0.11
10 10 0.22
11 30 0.67
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.07
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:61588 original size:22 final size:21
Alignment explanation
Indices: 61522--61582 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 21
61512 AGGAAAAAAC
*
61522 AAAAAAAAGTA-AGAAAAAAG-
1 AAAAAAAAG-AGATAAAAAAGA
61542 -AAAAAAAGAGATAAAAAAGA
1 AAAAAAAAGAGATAAAAAAGA
61562 AAAAATAAAGAGA-AAATAAAG
1 AAAAA-AAAGAGATAAA-AAAG
61583 CCAAAAAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 1 0.03
19 16 0.46
21 7 0.20
22 11 0.31
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAAAAAAGAGATAAAAAAGA
Found at i:63145 original size:110 final size:110
Alignment explanation
Indices: 62985--63380 Score: 515
Period size: 110 Copynumber: 3.5 Consensus size: 110
62975 CCAAACAACA
* * *
62985 TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATT
1 TGATGTTTTCAAATGAATTTTT--AGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATGATT
63050 TCCAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
64 TCCAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
63097 TGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGAAGATGATTTC
1 TGATGTTTTCAAATGAATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATGATTTC
* *
63162 CAATGAATTTTTAAAATAAGCTAAGCCTAAATTTTAGGGGGTTTTT
66 CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTA-GGGGTTTCT
* * * *
63208 TGATGTTTTCAAATGAGTTTTTAGAAACTATGCCTGATTTTCAGGGGTTTCTTGATGATTATTTC
1 TGATGTTTTCAAATGAATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATGATTTC
* * * *
63273 CAAAGAATTTTT-AAAGAAGTTATGCCTAATTTTTAGGGGTTTCT
66 CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
* ** * * *
63317 TGATGATAACTGAAAACGAAATATTTGAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
1 TGATG-T--TTTCAAATG-AAT-TTT-TAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGA
63381 GTAAGTCCTT
Statistics
Matches: 251, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
109 13 0.05
110 95 0.38
111 80 0.32
112 25 0.10
113 2 0.01
114 3 0.01
115 33 0.13
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (110 bp):
TGATGTTTTCAAATGAATTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATGATTTC
CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:63256 original size:111 final size:110
Alignment explanation
Indices: 62985--63321 Score: 523
Period size: 110 Copynumber: 3.0 Consensus size: 110
62975 CCAAACAACA
* * *
62985 TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATT
1 TGATGTTTTCAAATGAGTTTTT--AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATT
63050 TCCAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
64 TCCAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
63097 TGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGAAGATGATTTC
1 TGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTC
* *
63162 CAATGAATTTTTAAAATAAGCTAAGCCTAAATTTTAGGGGGTTTTT
66 CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTA-GGGGTTTCT
* *
63208 TGATGTTTTCAAATGAGTTTTTAGAAACTATGCCTGATTTTCAGGGGTTTCTTGATGATTATTTC
1 TGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTC
* * * *
63273 CAAAGAATTTTT-AAAGAAGTTATGCCTAATTTTTAGGGGTTTCT
66 CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
63317 TGATG
1 TGATG
63322 ATAACTGAAA
Statistics
Matches: 207, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
109 13 0.06
110 94 0.45
111 80 0.39
112 20 0.10
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (110 bp):
TGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTC
CAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:63666 original size:60 final size:59
Alignment explanation
Indices: 63510--63666 Score: 226
Period size: 59 Copynumber: 2.6 Consensus size: 59
63500 AGATGTTTTC
* * * *
63510 AACATTTCCTTTGCTCGATTCACAGCACTTTGAATCATCAACACCCCACCAGAGTGGTT
1 AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACACCCCACCAGAGGGGTT
* *
63569 AACATTTCCTTTGCTCGTTTCACAACACTTCAAATCAGCAACGA-CCCACCAGAGGGGTT
1 AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAC-ACCCCACCAGAGGGGTT
*
63628 AACATTTCCTATTGCTTGATTCACAACACTTCGAATCAG
1 AACATTTCCT-TTGCTCGATTCACAACACTTCGAATCAG
63667 TTTAAGTCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
59 61 0.70
60 26 0.30
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (59 bp):
AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACACCCCACCAGAGGGGTT
Found at i:63765 original size:41 final size:41
Alignment explanation
Indices: 63689--63775 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
63679 GGGAAATCAG
* *
63689 TAAGTCTTTCAAGCATGATACTTAAATCCTTCGGGTCATCTA
1 TAAGTCTTTCAAGCAAGATAC-TAAATCCTTCGGGTCATCCA
* *
63731 TAAGTCTTTCGAGCAAGATGA-TAACTCCTTCGGGTCATCCA
1 TAAGTCTTTCAAGCAAGAT-ACTAAATCCTTCGGGTCATCCA
63772 TAAG
1 TAAG
63776 ACCTTCGGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 22 0.55
42 17 0.43
43 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (41 bp):
TAAGTCTTTCAAGCAAGATACTAAATCCTTCGGGTCATCCA
Found at i:65365 original size:19 final size:19
Alignment explanation
Indices: 65338--65375 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
65328 AGTCACTTTT
*
65338 ACATTTTATTTTAATTTGC
1 ACATGTTATTTTAATTTGC
*
65357 ACATGTTATTTTTATTTGC
1 ACATGTTATTTTAATTTGC
65376 TTATATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.58
Consensus pattern (19 bp):
ACATGTTATTTTAATTTGC
Found at i:65923 original size:14 final size:14
Alignment explanation
Indices: 65906--65946 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
65896 TTTCAGTCTG
65906 TTAATTTTATTATT
1 TTAATTTTATTATT
65920 TTAATTTTATTATT
1 TTAATTTTATTATT
65934 TT-A-TTTATTATT
1 TTAATTTTATTATT
65946 T
1 T
65947 ATTTTTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 10 0.37
13 1 0.04
14 16 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTAATTTTATTATT
Found at i:71764 original size:24 final size:24
Alignment explanation
Indices: 71737--71792 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
71727 AGAGCACATT
71737 CTTTGGAATACCAAATGTTCCAAC
1 CTTTGGAATACCAAATGTTCCAAC
71761 CTTTGGAATACCAAATGTTCCAAC
1 CTTTGGAATACCAAATGTTCCAAC
71785 CTTTGGAA
1 CTTTGGAA
71793 CTTCAATGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (24 bp):
CTTTGGAATACCAAATGTTCCAAC
Found at i:78429 original size:194 final size:193
Alignment explanation
Indices: 78075--78593 Score: 642
Period size: 194 Copynumber: 2.7 Consensus size: 193
78065 ACAAAACCGT
* * * * * *
78075 TTGAAATATGACAAAATCGATTTCAATTTGACACAATCAGTTAAGAGATACCAGAATTGTTGGAA
1 TTGAAATTTGACAAAA-CGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAATTGTT-GAA
* * * * *
78140 TTTGTATCGATACTT-TTATAAGTACATGTACAAAAGTATCGGTACTTTGGGAAATT-AAAAGAA
64 --AGTATCGATA-TTGTTATAAGTATATGTACCATAGTATCGGTACTTTAGG-AATTGAAAAGAA
* *
78203 TTGCAATAATAGTGCCTATAAAGTATCAATACCTTAGACACATGTATAGATACATGACAATATAA
125 TTGCAATAATAGCGCCTAAAAAGTATCAATACCTTAGACACATGTATAGATACATGACAATATAA
*
78268 CATG
190 CAAG
*
78272 TTGAAATTTGACAAAACAGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAAAATTGTTGAAA
1 TTGAAATTTGACAAAAC-GGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAATTGTTGAAA
* * *
78337 GTATCGATATTGTTATAAGTATATGTACCATAGTATTGGTATTTTAGGAATTGAAAGGAATTGCA
65 GTATCGATATTGTTATAAGTATATGTACCATAGTATCGGTACTTTAGGAATTGAAAAGAATTGCA
* * * *
78402 ATAATAGCGCCTAAAAAGTATCAATACCTTAGACACATGTTTCGTTATATGACAATATAACAAG
130 ATAATAGCGCCTAAAAAGTATCAATACCTTAGACACATGTATAGATACATGACAATATAACAAG
* * * *
78466 TTGAAATTTGACAAAACTGGATTCAATTTGACAAAACCGATAAAGCGCTA-CAGGAATTGTTGAA
1 TTGAAATTTGACAAAAC-GGTTTCAATTTGACAAAACCGGTAAAGAGATACCA-GAATTGTTGAA
* *
78530 ATTATCGATA-CG-T-T---TATATGTACCATAGTATCGGTACTTTAGGAATTGAAAAGAATTGC
64 AGTATCGATATTGTTATAAGTATATGTACCATAGTATCGGTACTTTAGGAATTGAAAAGAATTGC
78589 AATAA
129 AATAA
78594 GAAAAATGTA
Statistics
Matches: 285, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
188 47 0.16
191 1 0.00
192 1 0.00
193 9 0.03
194 171 0.60
196 4 0.01
197 52 0.18
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (193 bp):
TTGAAATTTGACAAAACGGTTTCAATTTGACAAAACCGGTAAAGAGATACCAGAATTGTTGAAAG
TATCGATATTGTTATAAGTATATGTACCATAGTATCGGTACTTTAGGAATTGAAAAGAATTGCAA
TAATAGCGCCTAAAAAGTATCAATACCTTAGACACATGTATAGATACATGACAATATAACAAG
Found at i:79740 original size:3 final size:3
Alignment explanation
Indices: 79732--79791 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
79722 ATATTCCAGG
* * *
79732 TTA TTA TTA ATA TTTA ATA ATA TTA TTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
79778 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
79792 GTTTTTTACA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 1 0.02
3 46 0.92
4 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:89602 original size:257 final size:257
Alignment explanation
Indices: 89140--89686 Score: 681
Period size: 257 Copynumber: 2.1 Consensus size: 257
89130 ATTAAGTTAT
* * * *
89140 TTTG-AAAATGAAAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGGAAATGAAAGTTTT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAAGTTTT
* * * * * *
89204 GAAAAGTAAGAAAGTGATTTTCAATGTTTTTTACCCAGTAAATTATCTCCAAAATTAATAAGTCA
66 GAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATCTCCAAAATTAATAAGGCA
*
89269 TTCGAGCCATCAGTAAGCCTTTCGACCATGATGATTAAATCCTTCGGGTCATTTATAAGTCTTTC
131 TTCGAGCCATCAGTAAGCCTTTCGACCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTC
* * ** * * *
89334 GAGCGAGATGATAAGTCTTTTGGGCCATTCGTAAGACCT-TCGAGTATGAAGCTTTCACATGAA
196 GAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACCTCT-GAGTAGGAAG-TTTCACATGAA
* * * *
89397 TTTGAAAAATGAGAAAGCGGTTTCCAAAGTTTCTCCTTTAGTAT-TTTT-AGAAAATGAAATTTT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTA-AATCTTTTCAGAAAATGAAAGTTT
* * * **
89460 TGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAATAAACTATTTCCCAAATTTTTAAGAG
65 TGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATCTCCAAAATTAATAAG-G
* * * * * *
89525 C-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTCTT
129 CATTCGAGCCATCAGTAAGCCTTTCGACCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTT
* * *
89589 TCGAGCAAGATGATAAGTCATTCATGCCATCCATAAGACCTCTGGGTAGGATGTTTCACATGAA
194 TCGAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACCTCTGAGTAGGAAGTTTCACATGAA
* *
89653 TTTGAAAAATGGGGAAGCGATTTCCAAAGTTTCT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCT
89687 TACCCAGTAA
Statistics
Matches: 247, Mismatches: 39, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
256 42 0.17
257 166 0.67
258 37 0.15
259 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (257 bp):
TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAAGTTTT
GAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATCTCCAAAATTAATAAGGCA
TTCGAGCCATCAGTAAGCCTTTCGACCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTC
GAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACCTCTGAGTAGGAAGTTTCACATGAA
Found at i:90141 original size:3 final size:3
Alignment explanation
Indices: 90135--90163 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90125 TATTAATATT
90135 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
90164 TTATTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92720 original size:20 final size:19
Alignment explanation
Indices: 92695--92745 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
92685 GAAATCCCTT
**
92695 TGAAAATACATGATTTTTAA
1 TGAAAATACATG-TCGTTAA
*
92715 TGAAAATACAAGTCGTTAA
1 TGAAAATACATGTCGTTAA
92734 TGAAAATACATG
1 TGAAAATACATG
92746 CTCTTGGCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (19 bp):
TGAAAATACATGTCGTTAA
Found at i:95436 original size:37 final size:37
Alignment explanation
Indices: 95346--95450 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
95336 TCTTTTCGTC
*
95346 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
95383 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
95420 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
95451 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:95907 original size:2 final size:2
Alignment explanation
Indices: 95900--95940 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
95890 CCTTATTATT
95900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95941 TAATTATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96015 original size:2 final size:2
Alignment explanation
Indices: 96008--96038 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95998 TATTTCCTAT
96008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96039 TATTTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96205 original size:19 final size:18
Alignment explanation
Indices: 96183--96218 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
96173 ATTTTTCATT
*
96183 TATTTATTATTATTATTAC
1 TATTTAGTATT-TTATTAC
96202 TATTTAGTATTTTATTA
1 TATTTAGTATTTTATTA
96219 TAATATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTTAGTATTTTATTAC
Found at i:96241 original size:2 final size:2
Alignment explanation
Indices: 96234--96260 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96224 TACATACATT
96234 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
96261 TTATTTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96276 original size:13 final size:12
Alignment explanation
Indices: 96242--96281 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
96232 TTTATATATA
* *
96242 TATATATATATA
1 TATATATTTATT
96254 TATATATTTATT
1 TATATATTTATT
96266 TATACTATTTATT
1 TATA-TATTTATT
96279 TAT
1 TAT
96282 TTTCATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATTTATT
Found at i:100768 original size:16 final size:14
Alignment explanation
Indices: 100743--100811 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 14
100733 CAAAAAGGGC
100743 AAAAAACAAAAAAG
1 AAAAAACAAAAAAG
100757 AAAAGAAGCAAAAAAG
1 AAAA-AA-CAAAAAAG
100773 AAGAAAACAAAAAA-
1 AA-AAAACAAAAAAG
*
100787 AAAGAAC-AAAAAG
1 AAAAAACAAAAAAG
*
100800 AAAAAAGAAAAA
1 AAAAAACAAAAA
100812 GGGACAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 5 0.11
13 9 0.19
14 10 0.21
15 9 0.19
16 12 0.26
17 2 0.04
ACGTcount: A:0.83, C:0.06, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAG
Found at i:100769 original size:15 final size:13
Alignment explanation
Indices: 100743--100812 Score: 70
Period size: 13 Copynumber: 5.0 Consensus size: 13
100733 CAAAAAGGGC
100743 AAAAAACAAAAAAG
1 AAAAAAC-AAAAAG
100757 AAAAGAAGCAAAAAAG
1 AAAA-AA-C-AAAAAG
100773 AAGAAAACAAAAA-
1 AA-AAAACAAAAAG
100786 AAAAGAACAAAAAG
1 AAAA-AACAAAAAG
*
100800 AAAAAAGAAAAAG
1 AAAAAACAAAAAG
100813 GGACAAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
12 2 0.04
13 18 0.36
14 13 0.26
15 3 0.06
16 12 0.24
17 2 0.04
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAG
Found at i:100778 original size:19 final size:17
Alignment explanation
Indices: 100750--100808 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
100740 GGCAAAAAAC
100750 AAAA-AAGAAAAGAAGCAA
1 AAAAGAAGAAAA-AAG-AA
*
100768 AAAAGAAGAAAACAAAAA
1 AAAAGAAGAAAA-AAGAA
*
100786 AAAAGAA-CAAAAAGAA
1 AAAAGAAGAAAAAAGAA
100802 AAAAGAA
1 AAAAGAA
100809 AAAGGGACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 13 0.36
19 9 0.25
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAAAAAAGAA
Found at i:100818 original size:23 final size:24
Alignment explanation
Indices: 100773--100821 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
100763 AGCAAAAAAG
100773 AAGAAAACAAAAAAAAAGAACAAA
1 AAGAAAACAAAAAAAAAGAACAAA
* * *
100797 AAGAAAA-AAGAAAAAGGGACAAA
1 AAGAAAACAAAAAAAAAGAACAAA
100820 AA
1 AA
100822 AGCACATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (24 bp):
AAGAAAACAAAAAAAAAGAACAAA
Found at i:102380 original size:106 final size:106
Alignment explanation
Indices: 102193--103239 Score: 1565
Period size: 106 Copynumber: 9.9 Consensus size: 106
102183 GAGAGTGGAT
* * * *
102193 TTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*** *
102258 CAACTTCACGGTGAAGGATGTTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
102299 TTCAACTTCATGACGAAGGTACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
102364 CAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * * * * *
102405 TTCAACTTCATGATGAAGGGACTGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCTAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
102470 CAACTTCACAACGAAGCATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
102511 TTCAACTTCACGACAAAGGGACAGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
102576 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
102617 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
102682 CAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
102723 TTCAACATCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
102788 CAACTTCACAGCGAATGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * **
102829 TTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAATAACTTTTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
102894 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
102935 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* * *
103000 TAACTTCACAGCGAAGGATAATGGAC-CCGAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAG
* * * *
103041 TTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGATCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* * *
103106 CAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * * * * * *
103147 TTCAACTTCACAACAAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
103212 CAACTTCACGACGGAGGATATTGGACTC
66 CAACTTCACAACGAAGGATATTGGACTC
103240 GGAACAATGC
Statistics
Matches: 863, Mismatches: 76, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
105 2 0.00
106 860 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:104027 original size:37 final size:37
Alignment explanation
Indices: 103974--104078 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
103964 TCTTTTCGTC
103974 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
104011 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
104048 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
104079 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:104651 original size:10 final size:9
Alignment explanation
Indices: 104619--104653 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
104609 ATTATTTTCC
104619 TATTATATA
1 TATTATATA
104628 TATCTATATA
1 TAT-TATATA
104638 TATTATATA
1 TATTATATA
104647 TTATTAT
1 -TATTAT
104654 TATTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTATATA
Found at i:104852 original size:2 final size:2
Alignment explanation
Indices: 104845--104879 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
104835 TACATACATT
104845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104880 TATTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105633 original size:15 final size:15
Alignment explanation
Indices: 105613--105668 Score: 112
Period size: 15 Copynumber: 3.7 Consensus size: 15
105603 AAGGAGTAGC
105613 ATCGATACCAAGGGT
1 ATCGATACCAAGGGT
105628 ATCGATACCAAGGGT
1 ATCGATACCAAGGGT
105643 ATCGATACCAAGGGT
1 ATCGATACCAAGGGT
105658 ATCGATACCAA
1 ATCGATACCAA
105669 TGCACAAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (15 bp):
ATCGATACCAAGGGT
Found at i:106368 original size:23 final size:23
Alignment explanation
Indices: 106310--106383 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
106300 GAGTCGAGGG
* *
106310 TTCTACGCGGTCATTCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAT
*
106333 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
**
106356 TTCTACGCGGTCCTTCAAGACAT
1 TTCTACGCGGTCCTTCGGGACAT
106379 TTCTA
1 TTCTA
106384 TGTGGCACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:117582 original size:59 final size:58
Alignment explanation
Indices: 117500--117641 Score: 137
Period size: 59 Copynumber: 2.4 Consensus size: 58
117490 ATAATGGGTT
* * *
117500 AAGTACACAAATGG-CTTCGTGACTGTA-AGATATTATTTTGTTGAGTCTCTCAA-CTATTAA
1 AAGTACA-AAATGGTCATC-TGACT-TAGAGA-ATTACTTTGTTGAGTCCCTCAATC-ATTAA
* * * * *
117560 AAGTACAAAATGGTCCTCTGACTTAGGGAGTTGCTTTGTTGAGTCCCTCGATCATTAA
1 AAGTACAAAATGGTCATCTGACTTAGAGAATTACTTTGTTGAGTCCCTCAATCATTAA
117618 AAGTTACAAAATGGTCATCTGACT
1 AAG-TACAAAATGGTCATCTGACT
117642 ATTTATTATG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
58 27 0.39
59 33 0.47
60 10 0.14
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (58 bp):
AAGTACAAAATGGTCATCTGACTTAGAGAATTACTTTGTTGAGTCCCTCAATCATTAA
Found at i:119590 original size:40 final size:41
Alignment explanation
Indices: 119535--119615 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
119525 TTAAGTTACA
*
119535 ATTAACAAAAGCACATTGA-GGGGGAAGTTTTTATTTTCTT
1 ATTAACAAAAGCACATTGAGGGGGGAAGTTTGTATTTTCTT
*
119575 ATTAACATAAGCACATTGAGGGGGGAAGTTTGTATTTTCTT
1 ATTAACAAAAGCACATTGAGGGGGGAAGTTTGTATTTTCTT
119616 GTTTACATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 18 0.47
41 20 0.53
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (41 bp):
ATTAACAAAAGCACATTGAGGGGGGAAGTTTGTATTTTCTT
Found at i:120686 original size:19 final size:20
Alignment explanation
Indices: 120626--120693 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
120616 GGTAACGAAT
*
120626 TTGACAAAATCGATTAGAAA
1 TTGACAAAACCGATTAGAAA
*
120646 TTGACAAAACCGATTGGAAA
1 TTGACAAAACCGATTAGAAA
*
120666 TTGACAAAACCGGTT-GAAA
1 TTGACAAAACCGATTAGAAA
120685 TTTGACAAA
1 -TTGACAAA
120694 TCCAGTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 4 0.09
20 40 0.91
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.24
Consensus pattern (20 bp):
TTGACAAAACCGATTAGAAA
Found at i:121180 original size:196 final size:193
Alignment explanation
Indices: 120831--121202 Score: 505
Period size: 199 Copynumber: 1.9 Consensus size: 193
120821 AAATGTCTCG
* **
120831 AAAGTATCGATACCTTACACATGTATCGATACATGACAATATAACAGGTTGAGGTTTGAAAAAAC
1 AAAGTATCGATACCTTACACATGTATCGATACATGACAATATAACAGGTTAAAATTTGAAAAAAC
* * *
120896 CAGTTTCAATTTAACAAAACCGGTAAAGAGATACCAGAATGGTTAACGTAAGTATCGATACTTTT
66 CAATATCAATATAACAAAACCGGTAAAGAGATACCAGAATGGTTAAC--AAGTATCGATACTTTT
*
120961 ATAAGTATATGCACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGTAATAATAGCTCGTAT
129 ATAAGTATATGCACCAAAGTATCGGTACTTTAGGAATTAAAAAGAATTGTAATAATAGCTCGTAT
* * * * *
121026 AAAGTATTGATACCTTAGAGACATGTATCGATACATGATAGTATATAACATGTTAAAATTTGACA
1 AAAGTATCGATACCTT--ACACATGTATCGATACATGACA--ATATAACAGGTTAAAATTTGAAA
* * *
121091 AAACCAATATCAATATAACAAAACCGGTAAAGTGATACCCGATAT-GTTGAC-AGTATCGATACT
62 AAACCAATATCAATATAACAAAACCGGTAAAGAGATACCAGA-ATGGTTAACAAGTATCGATACT
* * *
121154 TTTATAAGTATATGTATCATAGTATCGGTACTTTAGGAATTAAAAAGAA
126 TTTATAAGTATATGCACCAAAGTATCGGTACTTTAGGAATTAAAAAGAA
121203 ATGACAAAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
195 15 0.10
196 57 0.37
197 20 0.13
199 60 0.39
200 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (193 bp):
AAAGTATCGATACCTTACACATGTATCGATACATGACAATATAACAGGTTAAAATTTGAAAAAAC
CAATATCAATATAACAAAACCGGTAAAGAGATACCAGAATGGTTAACAAGTATCGATACTTTTAT
AAGTATATGCACCAAAGTATCGGTACTTTAGGAATTAAAAAGAATTGTAATAATAGCTCGTAT
Found at i:121657 original size:3 final size:3
Alignment explanation
Indices: 121644--121723 Score: 112
Period size: 3 Copynumber: 26.7 Consensus size: 3
121634 GCAAAGTATG
121644 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
121690 TAA -AGA TAA -AGA TAA TAA TAA T-A TAA TAA TAA TA
1 TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
121724 TTTTTTCGAG
Statistics
Matches: 71, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.06
3 62 0.87
4 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:122171 original size:43 final size:43
Alignment explanation
Indices: 122045--122171 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 43
122035 GGATGGTTCA
* * *
122045 TTATCTAGGGGTGACACGGCTTCTACGTGATAAGGAGATCTAG
1 TTATCTAAGGGTGACACGGCTCCTACGTGATAAGGAGATCTGG
*** * * *
122088 ---TCGGTGGATGACACGGTTCCTACGTGATAAGAACGA-CTGG
1 TTATCTAAGGGTGACACGGCTCCTACGTGATAAGGA-GATCTGG
* *
122128 TTATCTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGG
1 TTATCTAAGGGTGACACGGCTCCTACGTGATAAGGAGATCTGG
122171 T
1 T
122172 CGGGGGATGT
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
40 29 0.46
41 2 0.03
42 2 0.03
43 30 0.48
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
TTATCTAAGGGTGACACGGCTCCTACGTGATAAGGAGATCTGG
Found at i:122207 original size:83 final size:83
Alignment explanation
Indices: 122017--122207 Score: 247
Period size: 83 Copynumber: 2.3 Consensus size: 83
122007 GGGTGATAAT
* ** * * *
122017 ACGGTTCCTACGCGATGAGGATGGTTCATTATCTAGGGGTGACACGGCTTCTACGTGATAAGGAG
1 ACGGTTCCTACGCGATGAGGACGACTCATTATCTAAGGGTGACACGACTCCTACGTGATAAGGAG
*
122082 ATCTAGTCGGTGGATGAC
66 ATCTAGTCGGGGGATGAC
* * * ** *
122100 ACGGTTCCTACGTGATAAGAACGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGGAG
1 ACGGTTCCTACGCGATGAGGACGACTCATTATCTAAGGGTGACACGACTCCTACGTGATAAGGAG
* *
122165 ATCTGGTCGGGGGATGTC
66 ATCTAGTCGGGGGATGAC
122183 ACGGTTCCTACGCGATGAGGACGAC
1 ACGGTTCCTACGCGATGAGGACGAC
122208 ATGCCATCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (83 bp):
ACGGTTCCTACGCGATGAGGACGACTCATTATCTAAGGGTGACACGACTCCTACGTGATAAGGAG
ATCTAGTCGGGGGATGAC
Found at i:122339 original size:65 final size:65
Alignment explanation
Indices: 122224--122440 Score: 215
Period size: 67 Copynumber: 3.3 Consensus size: 65
122214 TCTTTAGGGA
* * * * * *
122224 TTTGTTTCAAGGGAAACAGACTCAAAGATAATGT-ATTAAAGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCAAGAGAAACAAACTCAAAGAT-TTTTCTTTAAA-GAAATTGTCTCAAGAGAGACAAA
122288 A-
64 AC
*
122289 TTTGTTTCAAGAGAAACAAACTCAAAGATTTTTCTTTGAAAGAAATTGTCTCAAGAAAGACAAAA
1 TTTGTTTCAAGAGAAACAAACTCAAAGATTTTTCTTT-AAAGAAATTGTCTCAAGAGAGACAAAA
122354 C
65 C
* * ** * * *
122355 GTTTTTTTCGAGAGAAACGGACTCAACA-AGTTTTCTTCAAAAGAAATTGTCTCAAGAGAGATAA
1 -TTTGTTTCAAGAGAAACAAACTCAA-AGATTTTTCTT-TAAAGAAATTGTCTCAAGAGAGACAA
*
122419 AAT
63 AAC
*
122422 TTTATTTCAAGAGAAACAA
1 TTTGTTTCAAGAGAAACAA
122441 TTTCAAAGTC
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
64 2 0.02
65 51 0.40
66 18 0.14
67 54 0.43
68 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (65 bp):
TTTGTTTCAAGAGAAACAAACTCAAAGATTTTTCTTTAAAGAAATTGTCTCAAGAGAGACAAAAC
Found at i:122389 original size:67 final size:65
Alignment explanation
Indices: 122265--122440 Score: 219
Period size: 67 Copynumber: 2.7 Consensus size: 65
122255 TGTATTAAAG
* * * **
122265 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAAACTCAAAGATTTTTCTTTGAAA
1 GAAATTGTCTCAAGAGAGACAAAATTTTTTTCAAGAGAAACAAACTCAAAGAGTTTTCTTCAAAA
* * **
122330 GAAATTGTCTCAAGAAAGACAAAACGTTTTTTTCGAGAGAAACGGACTCAACA-AGTTTTCTTCA
1 GAAATTGTCTCAAGAGAGACAAAA--TTTTTTTCAAGAGAAACAAACTCAA-AGAGTTTTCTTCA
122394 AAA
63 AAA
*
122397 GAAATTGTCTCAAGAGAGATAAAATTTTATTTCAAGAGAAACAA
1 GAAATTGTCTCAAGAGAGACAAAATTTT-TTTCAAGAGAAACAA
122441 TTTCAAAGTC
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
65 26 0.28
66 12 0.13
67 54 0.58
68 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (65 bp):
GAAATTGTCTCAAGAGAGACAAAATTTTTTTCAAGAGAAACAAACTCAAAGAGTTTTCTTCAAAA
Found at i:122461 original size:67 final size:63
Alignment explanation
Indices: 122265--122466 Score: 192
Period size: 67 Copynumber: 3.0 Consensus size: 63
122255 TGTATTAAAG
* * *
122265 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAAACTCAAAGATTTTTCTTT-GAA
1 GAAATTGTCTCAAGAGAGACAAAATTTTTTTCAAGAGAAAC-AACTCAAAG-TTTTT-TTTCAAA
122329 A
63 A
* * * *
122330 GAAATTGTCTCAAGAAAGACAAAACGTTTTTTTCGAGAGAAACGGACTCAACAAG-TTTTCTTCA
1 GAAATTGTCTCAAGAGAGACAAAA--TTTTTTTCAAGAGAAAC-AACTC-A-AAGTTTTTTTTCA
122394 AAA
61 AAA
* *
122397 GAAATTGTCTCAAGAGAGATAAAATTTTATTTCAAGAGAAACAATTTCAAAGTCTTTTGTTTCAA
1 GAAATTGTCTCAAGAGAGACAAAATTTT-TTTCAAGAGAAACAA-CTCAAAGT-TTTT-TTTCAA
*
122462 GA
62 AA
122464 GAA
1 GAA
122467 GCAATTTCAA
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
64 3 0.03
65 28 0.25
66 20 0.18
67 57 0.51
68 1 0.01
69 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (63 bp):
GAAATTGTCTCAAGAGAGACAAAATTTTTTTCAAGAGAAACAACTCAAAGTTTTTTTTCAAAA
Found at i:122462 original size:30 final size:30
Alignment explanation
Indices: 122421--122479 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
122411 AGAGATAAAA
122421 TTTTATTTCAAGAGAAACAATTTCAAAGTC
1 TTTTATTTCAAGAGAAACAATTTCAAAGTC
* *
122451 TTTTGTTTCAAGAGAAGCAATTTCAAAGT
1 TTTTATTTCAAGAGAAACAATTTCAAAGT
122480 TTGTCTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (30 bp):
TTTTATTTCAAGAGAAACAATTTCAAAGTC
Found at i:122515 original size:36 final size:36
Alignment explanation
Indices: 122475--122555 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
122465 AAGCAATTTC
* **
122475 AAAGTTTGTCTTAAGAAAGACTGTCTCAAGTGAGAT
1 AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGAT
* *
122511 AAAGTTTGTTTTGAGAAAAACAATCTCAAGTGAGAT
1 AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGAT
*
122547 AAAATTTGT
1 AAAGTTTGT
122556 TTCAAGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (36 bp):
AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGAT
Found at i:123855 original size:15 final size:15
Alignment explanation
Indices: 123835--123863 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
123825 TTCTTTTGCT
123835 TTTTGTCTTTGTTTC
1 TTTTGTCTTTGTTTC
123850 TTTTGTCTTTGTTT
1 TTTTGTCTTTGTTT
123864 GATTGGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.14, T:0.76
Consensus pattern (15 bp):
TTTTGTCTTTGTTTC
Found at i:125729 original size:30 final size:31
Alignment explanation
Indices: 125695--125757 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
125685 TGATGAAAAA
125695 TAACACAAACAAAAGA-GAAAAATGAGTTAG
1 TAACACAAACAAAAGAGGAAAAATGAGTTAG
*
125725 TAACACATACAAAAGAGGAAAAATGAGTTAG
1 TAACACAAACAAAAGAGGAAAAATGAGTTAG
125756 TA
1 TA
125758 CAAGCAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (31 bp):
TAACACAAACAAAAGAGGAAAAATGAGTTAG
Found at i:127003 original size:3 final size:3
Alignment explanation
Indices: 126995--127041 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
126985 AACAATTAAA
* *
126995 AAT AAT AAT AAT AAT AA- AAT AAT GAT AAT AAT AAT -AT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
127041 A
1 A
127042 TTTTTTGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:127015 original size:17 final size:17
Alignment explanation
Indices: 126993--127041 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
126983 GTAACAATTA
126993 AAAATAATAATAATAAT
1 AAAATAATAATAATAAT
*
127010 AAAATAATGATAATAAT
1 AAAATAATAATAATAAT
* *
127027 AATATTATAATAATA
1 AAAATAATAATAATA
127042 TTTTTTGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATAATAATAATAAT
Found at i:127017 original size:14 final size:15
Alignment explanation
Indices: 126995--127041 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
126985 AACAATTAAA
126995 AATAATAATAATAAT
1 AATAATAATAATAAT
*
127010 AA-AATAATGATAAT
1 AATAATAATAATAAT
*
127024 AATAAT-ATTATAAT
1 AATAATAATAATAAT
127038 AATA
1 AATA
127042 TTTTTTGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 24 0.83
15 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AATAATAATAATAAT
Found at i:127026 original size:23 final size:23
Alignment explanation
Indices: 126996--127040 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
126986 ACAATTAAAA
126996 ATAATAATAATAATAAAATAATG
1 ATAATAATAATAATAAAATAATG
* *
127019 ATAATAATAATATTATAATAAT
1 ATAATAATAATAATAAAATAAT
127041 ATTTTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATAATAATAATAAAATAATG
Found at i:128339 original size:13 final size:13
Alignment explanation
Indices: 128321--128345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128311 ATGTCTATCG
128321 TTGATGGAGGAAT
1 TTGATGGAGGAAT
128334 TTGATGGAGGAA
1 TTGATGGAGGAA
128346 AATGTAGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (13 bp):
TTGATGGAGGAAT
Found at i:128425 original size:39 final size:39
Alignment explanation
Indices: 128370--128449 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
128360 TATGGTGATT
* *
128370 ATTCATTTCTTTTGTGGGTCCCATGTGTTGTAGTAGAAG
1 ATTCATTTCCTCTGTGGGTCCCATGTGTTGTAGTAGAAG
*
128409 ATTCATTTCCTCTGTGGGTCTCATGTGTTGTAGTAGAAG
1 ATTCATTTCCTCTGTGGGTCCCATGTGTTGTAGTAGAAG
128448 AT
1 AT
128450 AATGGTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (39 bp):
ATTCATTTCCTCTGTGGGTCCCATGTGTTGTAGTAGAAG
Found at i:129083 original size:8 final size:8
Alignment explanation
Indices: 129070--129099 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
129060 AATTATTAAG
129070 AATATAAA
1 AATATAAA
129078 AATATAAA
1 AATATAAA
129086 AATATAAA
1 AATATAAA
129094 AATATA
1 AATATA
129100 TATTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATATAAA
Found at i:131019 original size:18 final size:18
Alignment explanation
Indices: 131007--131046 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
130997 GATGTAAGCC
131007 AAATTTTGTATGTGAATG
1 AAATTTTGTATGTGAATG
131025 AAATTTTGTATGTGAATG
1 AAATTTTGTATGTGAATG
131043 AAAT
1 AAAT
131047 AATGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (18 bp):
AAATTTTGTATGTGAATG
Found at i:131052 original size:18 final size:18
Alignment explanation
Indices: 131013--131053 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
131003 AGCCAAATTT
**
131013 TGTATGTGAATGAAATTT
1 TGTATGTGAATGAAATAA
131031 TGTATGTGAATGAAATAA
1 TGTATGTGAATGAAATAA
131049 TGTAT
1 TGTAT
131054 ATGTTGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (18 bp):
TGTATGTGAATGAAATAA
Found at i:132541 original size:9 final size:9
Alignment explanation
Indices: 132527--132560 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
132517 GAAATCGGTT
132527 AATTAACCG
1 AATTAACCG
*
132536 AATTAACTG
1 AATTAACCG
132545 AATTAACCG
1 AATTAACCG
132554 AATTAAC
1 AATTAAC
132561 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:132707 original size:17 final size:17
Alignment explanation
Indices: 132685--132723 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
132675 TGAATCAAAT
132685 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
132702 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
132719 -AATTA
1 TAATTA
132724 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:134826 original size:200 final size:199
Alignment explanation
Indices: 134464--134942 Score: 620
Period size: 200 Copynumber: 2.4 Consensus size: 199
134454 TTTTATATTT
* *
134464 GTATCAATACTTTTAGTCCAGTATGCATCTCAAACAATTTGCTCGCAATAAAGTATTGATACACG
1 GTATC-ATACTTTTAGTCCAGTATGCATCTCAAACAATTTGCACGCAA-AAAGTATCGATACACG
* * * ***
134529 TATATCAAGTATCGATACTTATAATTTCAAAACTTATTACTTTACAGTAATAGGTAAATATATGT
64 TATAACAAGTATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATATACAA
* *
134594 TCATAACGGTAAAAATCTACAGGTTGAATGATAATAGGTGTAAAAATAAAGTATCGATACGTACT
129 TCAAAACGGTAAAAATCTACAGGTTAAATGATAATAGGTGTAAAAATAAAGTATCGATACGTACT
134659 AAATACA
194 AAATA-A
* *
134666 -TATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATAAACGT
1 GTATC-ATACTTTTAGTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACGT
** * * *
134730 ATAACAAGTATCGATACTTATAATTTTGAAACCTATTTCTTTAAAGTAATAGGTAATTTTACAAT
65 ATAACAAGTATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATATACAAT
* * * * * *
134795 GAAAACGGTAAAAATCTATC-GGTTAAATGATAATAGGTGTAAACATAAAGTTTTGATACTTATT
130 CAAAACGGTAAAAATCTA-CAGGTTAAATGATAATAGGTGTAAAAATAAAGTATCGATACGTACT
*
134859 ATATAA
194 AAATAA
* * * *
134865 GTATCACTACTTTTATTCCAGTGTGCATCTGAAACAATTTGCACGCAAAAAAGTATCGATACACA
1 GTATCA-TACTTTTAGTCCAGTATGCATCTCAAACAATTTGCACGC-AAAAAGTATCGATACACG
*
134930 TATAAAAAGTATC
64 TATAACAAGTATC
134943 AATATAATGA
Statistics
Matches: 241, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
199 2 0.01
200 166 0.69
201 73 0.30
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (199 bp):
GTATCATACTTTTAGTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACGTA
TAACAAGTATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATATACAATC
AAAACGGTAAAAATCTACAGGTTAAATGATAATAGGTGTAAAAATAAAGTATCGATACGTACTAA
ATAA
Found at i:135062 original size:128 final size:128
Alignment explanation
Indices: 134820--135069 Score: 317
Period size: 128 Copynumber: 2.0 Consensus size: 128
134810 CTATCGGTTA
* ** * *
134820 AATGATAATAGGTGTAAACATAAAGTTTTGATACTTATTATATAAGTATCACTACTTTTATTCCA
1 AATGATAATAGGTGTAAACATAAAGTGTCAATACTTATTATATAAGTATCACTACTATTAGTCCA
* *
134885 GTGTGCATCTGAAACAATTTGCACGCAAAAAAGTATCGATACACATATAAAAAGTATCAATAT
66 GTATGCATCTGAAACAATTTACACGCAAAAAAGTATCGATACACATATAAAAAGTATCAATAT
* * * *
134948 AATGATAATAGGTGTAAACATAGAGTGTCAATACTTTTTGTATAGGTATCGA-TACTATTAGTCC
1 AATGATAATAGGTGTAAACATAAAGTGTCAATACTTATTATATAAGTATC-ACTACTATTAGTCC
* * * * * *
135012 AGTATGCTTCT-CAACAATTTACACG-TAAAATGTATCGATACACATGTATAAAGTATCA
65 AGTATGCATCTGAAACAATTTACACGCAAAAAAGTATCGATACACATATAAAAAGTATCA
135070 GTACCTATAA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
126 29 0.28
127 12 0.12
128 62 0.60
129 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (128 bp):
AATGATAATAGGTGTAAACATAAAGTGTCAATACTTATTATATAAGTATCACTACTATTAGTCCA
GTATGCATCTGAAACAATTTACACGCAAAAAAGTATCGATACACATATAAAAAGTATCAATAT
Found at i:135263 original size:21 final size:19
Alignment explanation
Indices: 135239--135277 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
135229 TGCACGCACA
135239 AAGTATCGATACATGTATAAC
1 AAGTATCGATA-AT-TATAAC
135260 AAGTATCGATAATTATAA
1 AAGTATCGATAATTATAA
135278 TTTTGAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (19 bp):
AAGTATCGATAATTATAAC
Found at i:135332 original size:525 final size:527
Alignment explanation
Indices: 134464--135466 Score: 1259
Period size: 525 Copynumber: 1.9 Consensus size: 527
134454 TTTTATATTT
* * * * *
134464 GTATCAATACTTTTAGTCCAGTATGCATCTCAAACAATTTGCTCGCAATAAAGTATTGATACACG
1 GTATCAATACTATTAGTCCAGTATGCATCTCAAACAATTTACACGCAATAAAGTATCGATACACA
* * * * *
134529 TATATCAAGTATCGATACTTATAATTTCAAAACTTATTACTTTACAGTAATAGGTAAATATATGT
66 TATATAAAGTATCGATACCTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATAAATGT
* *
134594 TCATAACGGTAAAAATCTACAGGTTGAATGATAATAGGTGTAAAAATAAAGTATCGATACGTACT
131 TCA-AACGGTAAAAATCTACAGGTTGAATGATAATAGGCGTAAAAATAAAGTATAGATACGTACT
134659 AAATACATATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGAT
195 AAATACATATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGAT
* * *
134724 AAACGTATAACAAGTATCGATACTTATAATTTTGAAACCTATTTCTTTAAAGTAATAGGTAATTT
260 AAACGTATAACAAGTATCGATAATTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATT
* * * *
134789 TACAATGAAAACGGTAAAAATCTATCGGTTAAATGATAATAGGTGTAAACATAAAGTTTTGATAC
325 CACAATGAAAACGGTAAAAATCTATCGGTTAAATGATAATAGGCGTAAACATAAAGTATTAATAC
* * * * *
134854 TTATTATATAAGTATC-ACTACTTTTATTCCAGTGTGCATCTGAAACAATTTGCACGCAAAAAAG
390 TTATTATATAAGTATCGA-TAATTTTAGTCCAATATGCATCTCAAACAATTTGCACGC-AAAAAG
134918 TATCGATACACATATAAAAAGTATCAATATAATGATAATAGGTGTAAACATAGAGTGTCAATACT
453 TATCGATACACATATAAAAAGTATCAATATAATGATAATAGGTGTAAACATAGAGTGTCAATACT
134983 TTTTGTATAG
518 TTTTGTATAG
* * * *
134993 GTATCGATACTATTAGTCCAGTATGCTTCTC-AACAATTTACACGTAA-AATGTATCGATACACA
1 GTATCAATACTATTAGTCCAGTATGCATCTCAAACAATTTACACGCAATAAAGTATCGATACACA
* * *
135056 TGTATAAAGTATC-AGTACCTATAATTTCGAAACCTATTACTTTAAAGTTATAGGTAAATTAAAA
66 TATATAAAGTATCGA-TACCTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAA-T-AAA
* * * * * * *
135120 TG-TC-AATGGTAAAAGTCTACCA-GTTTAGTGATAATAGGCGTAAACATAAAGTATATATACTT
128 TGTTCAAACGGTAAAAATCTA-CAGGTTGAATGATAATAGGCGTAAAAATAAAGTATAGATACGT
** ** ** * * * * *
135182 TTTGTATAGGTATCGATACTTTTCGTCCAGTATGCTTCT-TAACAATTTGCACGCACAAAGTATC
192 ACTAAATACATATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATC
* * **
135246 GATACATGTATAACAAGTATCGATAATTATAATTTTGAAACC-ACTTACTTTAAAGTTTTAGGTA
257 GATAAACGTATAACAAGTATCGATAATTATAATTTTGAAACCTA-TTACTTTAAAGTAATAGGTA
** * * * * * *
135310 AATTCACAATGTCAATGGTAAAAGTCTATCGGTTTAATGATAGTAGGCGTAAATATATAGTATTA
321 AATTCACAATGAAAACGGTAAAAATCTATCGGTTAAATGATAATAGGCGTAAACATAAAGTATTA
* * * * *
135375 ATAGTTTTTGTATAGGTATCGATAATTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCAAAA
386 ATACTTATTATATAAGTATCGATAATTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAA
* *
135440 TGTATCGATACACATATATAAAGTATC
451 AGTATCGATACACATATAAAAAGTATC
135467 GATACTTATA
Statistics
Matches: 400, Mismatches: 68, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
524 30 0.08
525 180 0.45
526 78 0.19
527 64 0.16
528 16 0.04
529 32 0.08
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (527 bp):
GTATCAATACTATTAGTCCAGTATGCATCTCAAACAATTTACACGCAATAAAGTATCGATACACA
TATATAAAGTATCGATACCTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATAAATGT
TCAAACGGTAAAAATCTACAGGTTGAATGATAATAGGCGTAAAAATAAAGTATAGATACGTACTA
AATACATATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATA
AACGTATAACAAGTATCGATAATTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTC
ACAATGAAAACGGTAAAAATCTATCGGTTAAATGATAATAGGCGTAAACATAAAGTATTAATACT
TATTATATAAGTATCGATAATTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTAT
CGATACACATATAAAAAGTATCAATATAATGATAATAGGTGTAAACATAGAGTGTCAATACTTTT
TGTATAG
Found at i:135539 original size:200 final size:199
Alignment explanation
Indices: 134947--135565 Score: 809
Period size: 198 Copynumber: 3.1 Consensus size: 199
134937 AGTATCAATA
* * * * *
134947 TAATGATAATAGGTGTAAACATAGAGTGTCAATACTTTTTGTATAGGTATCGATACTATTAGTCC
1 TAATGATAATAGGCGTAAACATAAAGTATTAATACTTTTTGTATAGGTATCGATACTTTTAGTCC
* * * *
135012 AGTATGCTTCTCAACAATTTACACGTAAAATGTATCGATACACATGTATAAAGTATC-AGTACCT
66 AGTATGCTTCTCAACAATTTGCACGCAAAATGTATCGATACACATATATAAAGTATCGA-TACTT
* * * *
135076 ATAATTTCGAAACCTATTACTTTAAAGTTATAGG-TAAATTAAAATGTCAATGGTAAAAGTCTAC
130 ATAATTTTGAAACCTATTACTTTAAAGTTATAGGTTAATTTACAATGTCAATGGTAAAAGTCTAT
*
135140 CAGTT
195 CGGTT
* *
135145 TAGTGATAATAGGCGTAAACATAAAGTA-TATATACTTTTTGTATAGGTATCGATACTTTTCGTC
1 TAATGATAATAGGCGTAAACATAAAGTATTA-ATACTTTTTGTATAGGTATCGATACTTTTAGTC
* ** *
135209 CAGTATGCTTCTTAACAATTTGCACGCACAAA-GTATCGATACATGTATA-ACAAGTATCGATAA
65 CAGTATGCTTCTCAACAATTTGCACGCA-AAATGTATCGATACACATATATA-AAGTATCGATAC
* * *
135272 TTATAATTTTGAAACC-ACTTACTTTAAAGTTTTAGGTAAATTCACAATGTCAATGGTAAAAGTC
128 TTATAATTTTGAAACCTA-TTACTTTAAAGTTATAGGTTAATTTACAATGTCAATGGTAAAAGTC
135336 TATCGGTT
192 TATCGGTT
* * * * *
135344 TAATGATAGTAGGCGTAAATATATAGTATTAATAGTTTTTGTATAGGTATCGATAATTTTAGTCC
1 TAATGATAATAGGCGTAAACATAAAGTATTAATACTTTTTGTATAGGTATCGATACTTTTAGTCC
*
135409 AATATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATATATAAAGTATCGATACTT
66 AGTATGCTTCTC-AACAATTTGCACGCAAAATGTATCGATACACATATATAAAGTATCGATACTT
* * * ** * *
135474 ATAATTTTGAAACCTATTACTATAAGGTAATAGGTTAATTTACAATGAAAACGGTAAATGTCTAT
130 ATAATTTTGAAACCTATTACTTTAAAGTTATAGGTTAATTTACAATGTCAATGGTAAAAGTCTAT
*
135539 CGGTA
195 CGGTT
135544 TAATGATAATAGGCGTAAACAT
1 TAATGATAATAGGCGTAAACAT
135566 CAACTATCGA
Statistics
Matches: 362, Mismatches: 48, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
197 3 0.01
198 134 0.37
199 101 0.28
200 122 0.34
201 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (199 bp):
TAATGATAATAGGCGTAAACATAAAGTATTAATACTTTTTGTATAGGTATCGATACTTTTAGTCC
AGTATGCTTCTCAACAATTTGCACGCAAAATGTATCGATACACATATATAAAGTATCGATACTTA
TAATTTTGAAACCTATTACTTTAAAGTTATAGGTTAATTTACAATGTCAATGGTAAAAGTCTATC
GGTT
Found at i:135619 original size:128 final size:129
Alignment explanation
Indices: 135442--135788 Score: 306
Period size: 130 Copynumber: 2.7 Consensus size: 129
135432 ACGCAAAATG
* * * ** **
135442 TATCGATACACATATATAAAGTATCGATACTTATAATTTTGAAACCTATTACTATAAGGTAATAG
1 TATCGATACACATATATAAAATATCGATACGTACAATTTCAAAACCTATTACTATAAAATAATAG
* * * * *
135507 GTTAATTTACAATGAAAACGGTAAA-TGTCTATCGGTATAATGATAATAGGCGTAAACATCAAC
66 GTAAATTAACAATGAAAACGGTAAACTGTCTACCGATATAATGAAAATAGGCGTAAACATCAAC
* * * *
135570 TATCGATACACATGTATAAAATATCGATACGTGCAATTTCAAAACCTATTCCTTTAAAATAATAG
1 TATCGATACACATATATAAAATATCGATACGTACAATTTCAAAACCTATTACTATAAAATAATAG
* * * * *
135635 GTAAATTAACAATGTACATGGTAAACGTTTCTACCGATATAATGAAAATAGGCGTAAATGTAT-A
66 GTAAATTAACAATGAAAACGGTAAAC-TGTCTACCGATATAATGAAAATAGGCGTAAA--CATCA
*
135699 AG
128 AC
*** * * * * * * * * *
135701 TATCGATA-TTTTCATAT-AAGTATCAATTCTTATAATTTCGAAACATATTACTTTAAAGTAATA
1 TATCGATACACAT-ATATAAAATATCGATACGTACAATTTCAAAACCTATTACTATAAAATAATA
* *
135764 GGTAAATTAACAATGTACACGGTAA
65 GGTAAATTAACAATGAAAACGGTAA
135789 TATGTTGATA
Statistics
Matches: 177, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
128 74 0.42
130 88 0.50
131 13 0.07
132 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (129 bp):
TATCGATACACATATATAAAATATCGATACGTACAATTTCAAAACCTATTACTATAAAATAATAG
GTAAATTAACAATGAAAACGGTAAACTGTCTACCGATATAATGAAAATAGGCGTAAACATCAAC
Found at i:137835 original size:18 final size:15
Alignment explanation
Indices: 137803--137847 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 15
137793 TTTATTTACA
137803 TTTTTATATTAAATAT
1 TTTTTATATT-AATAT
137819 ATATTTTACTATTAATAT
1 -T-TTTTA-TATTAATAT
137837 TTTTTATATTA
1 TTTTTATATTA
137848 TGTTTACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.19
16 5 0.19
17 2 0.08
18 10 0.38
19 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTATATTAATAT
Found at i:137919 original size:2 final size:2
Alignment explanation
Indices: 137855--137905 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
137845 TTATGTTTAC
* * * *
137855 AT AT AT A- AT AT TT AT AA AT CT AT AT CT 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
137896 AT AT AT AT AT
1 AT AT AT AT AT
137906 TACATTTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:137978 original size:20 final size:20
Alignment explanation
Indices: 137891--137980 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
137881 TATATATATA
*
137891 TATATATATATATATTACATTT
1 TATATATACATAT-TTA-ATTT
*
137913 TATATATTA-ATATATAA-TT
1 TATATA-TACATATTTAATTT
* ** **
137932 TAGATATTTATATTT-ATCG
1 TATATATACATATTTAATTT
137951 TATCATATACATATTTAATTT
1 TAT-ATATACATATTTAATTT
137972 TATATATAC
1 TATATATAC
137981 CATTGTTTAC
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
18 2 0.04
19 14 0.27
20 17 0.33
21 7 0.13
22 10 0.19
23 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATATACATATTTAATTT
Found at i:138002 original size:3 final size:3
Alignment explanation
Indices: 137994--138024 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
137984 TGTTTACCTA
137994 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
138025 TCCTTTTCAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:138621 original size:16 final size:16
Alignment explanation
Indices: 138597--138651 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
138587 TTCGATGAGT
*
138597 TTAACGAGCAACGCGC
1 TTAACGAGCAACGAGC
* *
138613 TTAATGAGCAACGAAC
1 TTAACGAGCAACGAGC
*
138629 TTAACAAGCAACGAGC
1 TTAACGAGCAACGAGC
138645 TTAACGA
1 TTAACGA
138652 ACAATTAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (16 bp):
TTAACGAGCAACGAGC
Found at i:141623 original size:20 final size:20
Alignment explanation
Indices: 141586--141624 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
141576 TTTGAAACTT
*
141586 AAATTCGCAATACAAAAATG
1 AAATTCGCAACACAAAAATG
*
141606 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACAAAAAT
141625 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATTCGCAACACAAAAATG
Found at i:141710 original size:20 final size:20
Alignment explanation
Indices: 141648--141713 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
141638 TAGTTTTGCA
*
141648 TTGCAATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
**
141668 TTAAGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
*
141688 TTGCGATTTTCATTTTCGTG
1 TTGCGATTTTCATTTTCGCG
141708 TTGCGA
1 TTGCGA
141714 ATTTAAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.18, T:0.50
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGCG
Found at i:141724 original size:20 final size:20
Alignment explanation
Indices: 141681--141724 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
141671 AGATTTTCAT
* * *
141681 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
141701 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
141721 TTTC
1 TTTC
141725 AAAAACTACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:143414 original size:21 final size:21
Alignment explanation
Indices: 143367--143416 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
143357 GTTAGGCGAG
* *
143367 TTACGAGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
143388 TTACGTGATGAGTTCGGTACT
1 TTACGTGATGAGGTCAGTACT
143409 TTACGTGA
1 TTACGTGA
143417 CGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:143864 original size:21 final size:21
Alignment explanation
Indices: 143839--143935 Score: 131
Period size: 21 Copynumber: 4.6 Consensus size: 21
143829 ATTCACCTAA
*
143839 CATCGTTCAAGAGGCTCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* *
143860 TATCGTTCAATAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
143881 CATCGTTCAAGAGGCCCCTCT
1 CATCGTTCAAGAGGCCCCTCC
* *
143902 TATCGTTCAAAAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
143923 CACCGTTCAAGAG
1 CATCGTTCAAGAG
143936 CCCGATTCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:143886 original size:42 final size:42
Alignment explanation
Indices: 143839--143935 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
143829 ATTCACCTAA
* *
143839 CATCGTTCAAGAGGCTCCTCCTATCGTTCAATAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCC
*
143881 CATCGTTCAAGAGGCCCCTCTTATCGTTCAAAAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCC
*
143923 CACCGTTCAAGAG
1 CATCGTTCAAGAG
143936 CCCGATTCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (42 bp):
CATCGTTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCC
Found at i:144891 original size:19 final size:19
Alignment explanation
Indices: 144869--144929 Score: 122
Period size: 19 Copynumber: 3.2 Consensus size: 19
144859 CAGAGGGGAT
144869 TGTGGTCCTCTTGTATGCA
1 TGTGGTCCTCTTGTATGCA
144888 TGTGGTCCTCTTGTATGCA
1 TGTGGTCCTCTTGTATGCA
144907 TGTGGTCCTCTTGTATGCA
1 TGTGGTCCTCTTGTATGCA
144926 TGTG
1 TGTG
144930 CTTGGAACGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.10, C:0.20, G:0.28, T:0.43
Consensus pattern (19 bp):
TGTGGTCCTCTTGTATGCA
Found at i:145384 original size:16 final size:16
Alignment explanation
Indices: 145363--145397 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
145353 TGTAAATAAG
*
145363 AATTGATTTTTTGTTT
1 AATTGATTTGTTGTTT
145379 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
145395 AAT
1 AAT
145398 CGACAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:145511 original size:20 final size:20
Alignment explanation
Indices: 145488--145552 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
145478 GAAAGTCAAA
*
145488 TTCGCGTTGCG-ATTTTGATT
1 TTCGCGTTGCGAATTTT-ACT
*
145508 TTCGCATTGCGAATTTTACT
1 TTCGCGTTGCGAATTTTACT
** *
145528 TTCGCGTTTTGAATTTGACT
1 TTCGCGTTGCGAATTTTACT
145548 TTCGC
1 TTCGC
145553 AACAATCGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 33 0.87
21 5 0.13
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTTACT
Found at i:148116 original size:24 final size:24
Alignment explanation
Indices: 148082--148135 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
148072 CTGAAACATC
148082 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
148106 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
148130 ATCAAA
1 ATCAAA
148136 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:149092 original size:20 final size:19
Alignment explanation
Indices: 149046--149154 Score: 80
Period size: 20 Copynumber: 5.6 Consensus size: 19
149036 CAAAACATTT
* *
149046 GTGTTGCGAAAATAAAAGC
1 GTGTTGCGAAATTAAAATC
*
149065 -TATTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
149084 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
* *
149104 GAGTTGCGAAAATAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
149124 GTGTTGCG-ATTTAAAAAATC
1 GTGTTGCGAAATT--AAAATC
*
149144 TTGTTGCGAAA
1 GTGTTGCGAAA
149155 AGGAAACTTG
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
18 14 0.20
19 11 0.16
20 33 0.47
21 12 0.17
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:149120 original size:40 final size:40
Alignment explanation
Indices: 149067--149173 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
149057 ATAAAAGCTA
* **
149067 TTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAG
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAAAAAATCGAG
* **
149107 TTGCGAAAATAAAATTCGTGTTGCGATTTAAAAAATCTTG
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAAAAAATCGAG
* *
149147 TTGCGAAAAGGAAACTT-GTGTTGCGAA
1 TTGCGAAAA-TAAAATTCGTGTTGCGAA
149174 AAAGAAATTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (40 bp):
TTGCGAAAATAAAATTCGTGTTGCGAATTAAAAAATCGAG
Done.