Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009179.1 Hibiscus syriacus cultivar Beakdansim tig00112746_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: 314897
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2477 original size:25 final size:25
Alignment explanation
Indices: 2428--2479 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
2418 CATCTTTAGT
2428 TCTTAGGAGATAAACTTTTGTTATA
1 TCTTAGGAGATAAACTTTTGTTATA
2453 TCTTGAGGAGATAAACTTTTG-TATA
1 TCTT-AGGAGATAAACTTTTGTTATA
2478 TC
1 TC
2480 AATATCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (25 bp):
TCTTAGGAGATAAACTTTTGTTATA
Found at i:4953 original size:6 final size:6
Alignment explanation
Indices: 4942--5020 Score: 140
Period size: 6 Copynumber: 13.2 Consensus size: 6
4932 GACACGTATT
*
4942 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
4990 ACCTCG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
5021 GCCGAGCCGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.32, C:0.49, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:5028 original size:5 final size:5
Alignment explanation
Indices: 5018--5066 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
5008 ACCACGACCA
* * * *
5018 CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
5067 ACGGACGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.16, C:0.37, G:0.41, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:10717 original size:6 final size:6
Alignment explanation
Indices: 10706--10838 Score: 212
Period size: 6 Copynumber: 22.2 Consensus size: 6
10696 GACACGTATT
10706 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
10754 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * * * *
10802 ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
10839 GCCGAGCCGA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 125 1.00
ACGTcount: A:0.29, C:0.50, G:0.17, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:10846 original size:5 final size:5
Alignment explanation
Indices: 10836--10894 Score: 64
Period size: 5 Copynumber: 11.8 Consensus size: 5
10826 ACCTCGACCA
* * * * *
10836 CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGTGC CGAGC CGAGC CGAGA
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
*
10886 CGAGA CGAG
1 CGAGC CGAG
10895 ACGGACGGCG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.17, C:0.36, G:0.41, T:0.07
Consensus pattern (5 bp):
CGAGC
Found at i:13891 original size:25 final size:26
Alignment explanation
Indices: 13841--13897 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
13831 GCTAACCAAG
* *
13841 AATAAAGATTAAGATAATAAATAT-A
1 AATAAAGATAAAGATAATAAACATAA
*
13866 AATAAAGATAAAGA-AGATTAACATAA
1 AATAAAGATAAAGATA-ATAAACATAA
13892 AATAAA
1 AATAAA
13898 TTATTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.70
26 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (26 bp):
AATAAAGATAAAGATAATAAACATAA
Found at i:17612 original size:20 final size:21
Alignment explanation
Indices: 17587--17638 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
17577 TTTTCCCAAT
*
17587 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
17607 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
17628 TCGCAATGCGA
1 TCGCAATGCGA
17639 TAATACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:17674 original size:20 final size:20
Alignment explanation
Indices: 17649--17701 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
17639 TAATACAAAA
*
17649 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
17669 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
17689 TCGCAACGCGATA
1 TCGCAACGCGATA
17702 ATACATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:17715 original size:21 final size:21
Alignment explanation
Indices: 17626--17721 Score: 65
Period size: 20 Copynumber: 4.7 Consensus size: 21
17616 GAATTGGGAA
* *
17626 AATCGCAATGCGATAAT-ACAA
1 AATCGCAACGCGATAATGAC-T
* *
17647 AATCGCAACGAGATACTGACT
1 AATCGCAACGCGATAATGACT
* **
17668 -TTCGCAACGCGATTCTGACT
1 AATCGCAACGCGATAATGACT
*
17688 -TTCGCAACGCGATAAT-ACAT
1 AATCGCAACGCGATAATGAC-T
*
17708 AATCGCAATGCGAT
1 AATCGCAACGCGAT
17722 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 32 0.52
21 25 0.41
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (21 bp):
AATCGCAACGCGATAATGACT
Found at i:17917 original size:22 final size:22
Alignment explanation
Indices: 17889--17932 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17879 CACTCTCTCA
*
17889 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
17911 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
17933 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:18250 original size:20 final size:20
Alignment explanation
Indices: 18196--18254 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
18186 GCGATTCTCT
**
18196 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
18216 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
18236 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
18255 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:19595 original size:18 final size:18
Alignment explanation
Indices: 19574--19619 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
19564 CTCCACTTCG
* *
19574 AGAGCCATCACCTCGCCT
1 AGAGCCATCACCTCACCC
* *
19592 AGAGCTATTACCTCACCC
1 AGAGCCATCACCTCACCC
19610 AGAGCCATCA
1 AGAGCCATCA
19620 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.39, G:0.15, T:0.17
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:20155 original size:19 final size:20
Alignment explanation
Indices: 20112--20156 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
20102 CGCAACACGA
20112 AAATGACTATCACAACGCGG
1 AAATGACTATCACAACGCGG
* * *
20132 AAATGGCTATCGCAATGC-G
1 AAATGACTATCACAACGCGG
20151 AAATGA
1 AAATGA
20157 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:20162 original size:19 final size:19
Alignment explanation
Indices: 20140--20235 Score: 61
Period size: 19 Copynumber: 5.6 Consensus size: 19
20130 GGAAATGGCT
20140 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
20159 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
* *
20173 ATTGCAATGCAAAATG-AA
1 ATCGCAATGCGAAATGAAA
* *
20191 ATCACAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
20205 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20224 ATCGCAATGCGA
1 ATCGCAATGCGA
20236 TTTGTTAAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 22
0.62 0.12 0.25
Matches are distributed among these distances:
14 18 0.33
15 1 0.02
16 4 0.07
17 2 0.04
18 9 0.16
19 21 0.38
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:20188 original size:33 final size:33
Alignment explanation
Indices: 20140--20230 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
20130 GGAAATGGCT
20140 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* * *
20173 ATTGCAATGCAAAATG-AAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
20205 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
20231 TGCGATTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 28 0.56
33 22 0.44
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:20488 original size:20 final size:20
Alignment explanation
Indices: 20460--20497 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20450 GTTGAAGGTA
*
20460 AAACAGACTGTCGCAACACG
1 AAACAGACTATCGCAACACG
*
20480 AAACTGACTATCGCAACA
1 AAACAGACTATCGCAACA
20498 AGAGAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (20 bp):
AAACAGACTATCGCAACACG
Found at i:20524 original size:19 final size:19
Alignment explanation
Indices: 20497--20561 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
20487 CTATCGCAAC
*
20497 AAGAGAATCGCAATGCGAA
1 AAGAAAATCGCAATGCGAA
20516 AAGAAAATCGCAAT--G-A
1 AAGAAAATCGCAATGCGAA
*
20532 TAG--AATCGCAATGCGAA
1 AAGAAAATCGCAATGCGAA
*
20549 ATGAAAATCGCAA
1 AAGAAAATCGCAA
20562 CGACAAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 9 0.24
16 4 0.11
17 3 0.08
19 21 0.57
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.14
Consensus pattern (19 bp):
AAGAAAATCGCAATGCGAA
Found at i:20537 original size:33 final size:33
Alignment explanation
Indices: 20489--20575 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
20479 GAAACTGACT
* *
20489 ATCGCAACAAGAGAATCGCAATGCGAAAAGAAA
1 ATCGCAACGACAGAATCGCAATGCGAAAAGAAA
* * *
20522 ATCGCAATGATAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGACAGAATCGCAATGCGAAAAGAAA
*
20555 ATCGCAACGACAAAATCGCAA
1 ATCGCAACGACAGAATCGCAA
20576 CACGAAACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGACAGAATCGCAATGCGAAAAGAAA
Found at i:20582 original size:33 final size:34
Alignment explanation
Indices: 20470--20595 Score: 116
Period size: 33 Copynumber: 3.8 Consensus size: 34
20460 AAACAGACTG
** * *
20470 TCGCAACACGAAACTGACTATCGCAACAAGAGAA
1 TCGCAACACGAAACTGAAAATCGCAACGACAGAA
** * * *
20504 TCGCAATGCGAAA-AGAAAATCGCAATGATAGAA
1 TCGCAACACGAAACTGAAAATCGCAACGACAGAA
** *
20537 TCGCAATGCGAAA-TGAAAATCGCAACGACAAAA
1 TCGCAACACGAAACTGAAAATCGCAACGACAGAA
20570 TCGCAACACGAAACT--AAATCGCAACG
1 TCGCAACACGAAACTGAAAATCGCAACG
20596 CGAAACTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
32 11 0.14
33 54 0.70
34 12 0.16
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (34 bp):
TCGCAACACGAAACTGAAAATCGCAACGACAGAA
Found at i:20609 original size:19 final size:19
Alignment explanation
Indices: 20535--20610 Score: 76
Period size: 18 Copynumber: 4.3 Consensus size: 19
20525 GCAATGATAG
*
20535 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
20554 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
20568 AATCGCAACACGAAACT-A
1 AATCGCAACGCGAAACTAA
20586 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
20605 AATCGC
1 AATCGC
20611 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 19 0.39
19 15 0.31
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:20672 original size:33 final size:33
Alignment explanation
Indices: 20610--20737 Score: 148
Period size: 33 Copynumber: 3.8 Consensus size: 33
20600 ACTAAAATCG
* * *
20610 CGTTGCGATTTTAATTTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
* *
20644 CGTTACGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** * *
20677 CGTTGCCTTTTTCATTTCGCATTGCGATTATAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
20710 CGTTGTGATTTGCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
20738 GGTCAAATGA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
33 67 0.85
34 12 0.15
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:21554 original size:24 final size:24
Alignment explanation
Indices: 21527--21580 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
21517 GTATTCGAAA
*
21527 TTTGATCTTGGTCAAGACCCGGAC
1 TTTGATATTGGTCAAGACCCGGAC
* * *
21551 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAAGACCCGGAC
21575 TTTGAT
1 TTTGAT
21581 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAAGACCCGGAC
Found at i:21772 original size:12 final size:12
Alignment explanation
Indices: 21755--21779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21745 ATATAATCCT
21755 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21767 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21779 G
1 G
21780 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:24107 original size:33 final size:33
Alignment explanation
Indices: 24070--24196 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
24060 GGAAATTACT
*
24070 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
24103 ATCGCAATACGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
24135 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
24169 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
24197 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:24161 original size:19 final size:19
Alignment explanation
Indices: 24070--24200 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
24060 GGAAATTACT
*
24070 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
24089 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
24103 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
24122 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
24136 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
24155 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
24169 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
24188 ATCGCAACGCGAA
1 ATCGCAATGCGAA
24201 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 27 0.33
15 3 0.04
16 6 0.07
17 5 0.06
18 3 0.04
19 39 0.47
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:24182 original size:66 final size:66
Alignment explanation
Indices: 24071--24203 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
24061 GAAATTACTA
* *
24071 TCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
24136 T
66 T
* *
24137 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
24202 T
66 T
24203 T
1 T
24204 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
T
Found at i:24228 original size:14 final size:14
Alignment explanation
Indices: 24211--24267 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
24201 TTTAATTTCG
24211 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
24225 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
24244 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
24258 CGTTGCGATT
1 CGTTGCGATT
24268 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:24247 original size:33 final size:33
Alignment explanation
Indices: 24196--24285 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
24186 AAATCGCAAC
* *
24196 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
24229 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
24262 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
24286 AGTACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:24249 original size:19 final size:19
Alignment explanation
Indices: 24225--24285 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
24215 GCGATTCTCT
24225 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
24244 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
24258 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
24277 CATTGCGAT
1 CGTTGCGAT
24286 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:24411 original size:14 final size:15
Alignment explanation
Indices: 24392--24428 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
24382 CATCAATTAA
24392 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
24406 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
24420 ACAAATCAA
1 ACAAATCAA
24429 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:25869 original size:42 final size:42
Alignment explanation
Indices: 25823--25902 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
25813 CGATGACAGT
* * *
25823 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
25865 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
25903 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:26233 original size:93 final size:89
Alignment explanation
Indices: 26124--26306 Score: 271
Period size: 93 Copynumber: 2.0 Consensus size: 89
26114 ATTTCAAACT
*
26124 TTCAACCAAAAGACAAA-ACAAAGACAAATACTAACTTCACAATGTTAA-AGAATACACAGTTTA
1 TTCAACCAAAAGACAAACA-AAAGACAAATAATAACTTCACAATGTTAATA-AAT----AGTTTA
26187 GCAGAATTGGCAGCAACCGAATAAATTTAC
60 GCAGAATTGGCAGCAACCGAATAAATTTAC
* *
26217 TTCAACCAAAAGACAAACAAAAGACAAATAATAACTTCACAGTGTTAATAAATAGTTTAGCAGTA
1 TTCAACCAAAAGACAAACAAAAGACAAATAATAACTTCACAATGTTAATAAATAGTTTAGCAGAA
26282 TTGGCAGCAACCGAATAAATTTAC
66 TTGGCAGCAACCGAATAAATTTAC
26306 T
1 T
26307 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
89 36 0.42
93 47 0.55
94 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (89 bp):
TTCAACCAAAAGACAAACAAAAGACAAATAATAACTTCACAATGTTAATAAATAGTTTAGCAGAA
TTGGCAGCAACCGAATAAATTTAC
Found at i:28022 original size:20 final size:19
Alignment explanation
Indices: 27991--28128 Score: 89
Period size: 19 Copynumber: 7.7 Consensus size: 19
27981 TCTTTTGGTT
27991 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
28010 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
28031 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
28050 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
28064 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
* *
28083 G--A-G--AATCGCAATGC
1 GAAATGAAAATCGCAACGA
*
28097 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
28116 GAAATGAAAATCG
1 GAAATGAAAATCG
28129 TAATGCGATT
Statistics
Matches: 92, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
14 18 0.20
16 4 0.04
17 4 0.04
19 35 0.38
20 29 0.32
21 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:28073 original size:33 final size:33
Alignment explanation
Indices: 28016--28114 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
28006 ACGAGATAAT
28016 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
28050 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
28083 GAGAATCGCAATGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
28115 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 46 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:28108 original size:19 final size:19
Alignment explanation
Indices: 28086--28136 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
28076 GCGACGAGAG
28086 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28105 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28124 AATCGTAATGCGA
1 AATCGCAATGCGA
28137 TTTTGGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:28734 original size:20 final size:20
Alignment explanation
Indices: 28709--28761 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
28699 GCGCTATGTA
28709 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
28729 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
28749 TATCTCGTTGCGA
1 AATCGCGTTGCGA
28762 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:28799 original size:20 final size:20
Alignment explanation
Indices: 28770--28823 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
28760 GATTTTGTAT
28770 TATCGAATTGCGATAGTAAG
1 TATCGAATTGCGATAGTAAG
* *
28790 TATCGCATTGCGATAGTCAG
1 TATCGAATTGCGATAGTAAG
*
28810 TATCGTATTGCGAT
1 TATCGAATTGCGAT
28824 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGAATTGCGATAGTAAG
Found at i:28842 original size:61 final size:61
Alignment explanation
Indices: 28710--28844 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 61
28700 CGCTATGTAA
* * * * ** *
28710 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCTCATTGCGATTTTCCAAT
** * *
28771 ATCGAATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGT-ATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATC-TCATTGCGATTTT-CCAAT
28833 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
28845 TTACTTATTC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
61 56 0.95
62 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCTCATTGCGATTTTCCAAT
Found at i:32617 original size:14 final size:16
Alignment explanation
Indices: 32591--32653 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
32581 TTATATCTCA
32591 TCTT-ATTTCTCTTC-
1 TCTTCATTTCTCTTCT
32605 TCTTCATTTTCTTCTTCT
1 TCTTCA-TTTC-TCTTCT
*
32623 TCTTCGTTTCTTCTT-T
1 TCTTCATTTC-TCTTCT
32639 TCTTTCATCTTCTCT
1 TC-TTCAT-TTCTCT
32654 AAGTAGCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.10
15 1 0.02
16 7 0.17
17 21 0.51
18 8 0.20
ACGTcount: A:0.05, C:0.29, G:0.02, T:0.65
Consensus pattern (16 bp):
TCTTCATTTCTCTTCT
Found at i:32635 original size:8 final size:8
Alignment explanation
Indices: 32596--32642 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
32586 TCTCATCTTA
32596 TTTC-TCT
1 TTTCTTCT
*
32603 TCTCTTCAT
1 TTTCTTC-T
32612 TTTCTTCT
1 TTTCTTCT
*
32620 TCTTCTTCG
1 T-TTCTTCT
32629 TTTCTTCT
1 TTTCTTCT
32637 TTTCTT
1 TTTCTT
32643 TCATCTTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 3 0.09
8 16 0.48
9 14 0.42
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTCTTCT
Found at i:43959 original size:15 final size:15
Alignment explanation
Indices: 43939--43996 Score: 116
Period size: 15 Copynumber: 3.9 Consensus size: 15
43929 GGTCTTTAAA
43939 TTAATTTTTAATAAT
1 TTAATTTTTAATAAT
43954 TTAATTTTTAATAAT
1 TTAATTTTTAATAAT
43969 TTAATTTTTAATAAT
1 TTAATTTTTAATAAT
43984 TTAATTTTTAATA
1 TTAATTTTTAATA
43997 TCTTTATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTTAATAAT
Found at i:43963 original size:7 final size:7
Alignment explanation
Indices: 43939--43995 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
43929 GGTCTTTAAA
43939 TTAATTT
1 TTAATTT
*
43946 TTAATAAT
1 TTAAT-TT
43954 TTAATTT
1 TTAATTT
*
43961 TTAATAAT
1 TTAAT-TT
43969 TTAATTT
1 TTAATTT
*
43976 TTAATAAT
1 TTAAT-TT
43984 TTAATTT
1 TTAATTT
43991 TTAAT
1 TTAAT
43996 ATCTTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
7 23 0.56
8 18 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTAATTT
Found at i:44009 original size:30 final size:30
Alignment explanation
Indices: 43939--44011 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
43929 GGTCTTTAAA
*
43939 TTAATTTTTAATAATTTAATTTTTAATAAT
1 TTAATATTTAATAATTTAATTTTTAATAAT
*
43969 TTAATTTTTAATAATTTAATTTTTAAT-AT
1 TTAATATTTAATAATTTAATTTTTAATAAT
*
43998 CTTTATATTTAATA
1 -TTAATATTTAATA
44012 TATTAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 2 0.05
30 38 0.95
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TTAATATTTAATAATTTAATTTTTAATAAT
Found at i:44142 original size:31 final size:31
Alignment explanation
Indices: 44078--44142 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
44068 AACTTTTTTT
* *
44078 AAAAAAATTAAATAGGTTCTCAAACTTTCTA
1 AAAAAAATTAAATAGGTCCTCAAACTTACTA
* *
44109 AAAAAAATTAATTA-GTCCTTCAAACTTAGTA
1 AAAAAAATTAAATAGGTCC-TCAAACTTACTA
44140 AAA
1 AAA
44143 TAAACAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (31 bp):
AAAAAAATTAAATAGGTCCTCAAACTTACTA
Found at i:48193 original size:23 final size:23
Alignment explanation
Indices: 48167--48211 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48157 CACCACAGCT
*
48167 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
48190 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
48212 ATATAAAAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:48429 original size:149 final size:149
Alignment explanation
Indices: 48179--48493 Score: 551
Period size: 149 Copynumber: 2.1 Consensus size: 149
48169 TATAATTGCA
48179 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
*
48243 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
48308 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
* **
48328 CCGAAGGACTGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
48393 TCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
48458 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
48477 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
48494 CCCTCGACTC
Statistics
Matches: 157, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:48613 original size:14 final size:14
Alignment explanation
Indices: 48594--48621 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48584 AACTTGTAAT
48594 TCACGTATCACATA
1 TCACGTATCACATA
48608 TCACGTATCACATA
1 TCACGTATCACATA
48622 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:53486 original size:31 final size:31
Alignment explanation
Indices: 53444--53634 Score: 337
Period size: 31 Copynumber: 6.2 Consensus size: 31
53434 GGTCACAATA
*
53444 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
53475 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
53506 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53537 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53568 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
53599 TAAACTGTTCATATGTGCCTTCAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53630 TAAAC
1 TAAAC
53635 CCTCGACTCT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:54252 original size:64 final size:64
Alignment explanation
Indices: 54144--54320 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
54134 TAATGAAGGT
* * * ** ** * * **
54144 ATGCATCGATGCACTACTGATGCAGCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-GTCACTATTAATGGG
* *
54208 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTGTCACTATTAATGGG
*
54272 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
54321 CTTTATTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 93 0.98
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTGTCACTATTAATGGG
Found at i:54341 original size:64 final size:64
Alignment explanation
Indices: 54207--54368 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 64
54197 TTATTGCTGG
* * *
54207 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
* * *
54271 GATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTCTTTA-TTTTAAA-
1 GATGCATCGATGCACTACTTATGCATCGATGCACCG-ATTGCATTCGATGT-TTCACTATTAAAG
54333 A
64 A
** *
54334 GAGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 GA-TGCATCGATGCACTACTTATGCATCGATGCAC
54369 ATTCAAACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 3 0.04
64 79 0.93
65 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
Found at i:56982 original size:31 final size:31
Alignment explanation
Indices: 56937--57189 Score: 461
Period size: 31 Copynumber: 8.2 Consensus size: 31
56927 GGTCACAATA
* *
56937 TAAACTATTCATATGTGCCTTTAAACATGTG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
56968 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
56999 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57030 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57061 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57092 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
57123 TAAACTGTTCATATATGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57154 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57185 TAAAC
1 TAAAC
57190 CCTCGACTCT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 214 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:57044 original size:15 final size:15
Alignment explanation
Indices: 57024--57107 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
57014 TGCCTTTAAA
57024 CATATGTAAACTGTT
1 CATATGTAAACTGTT
**
57039 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
57052 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
**
57070 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
57083 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
57101 CATATGT
1 CATATGT
57108 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (15 bp):
CATATGTAAACTGTT
Found at i:57803 original size:64 final size:63
Alignment explanation
Indices: 57697--57873 Score: 203
Period size: 64 Copynumber: 2.8 Consensus size: 63
57687 TAATGAAGGT
* * * ** * *
57697 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-AGATTGTATTCGATGT-GTCACTATTGATGGG
* * *
57761 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGTATTCGATGTTTCACTATTGATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-AGATTGTATTCGATGTGTCACTATTGATGGG
* *
57825 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCAAG-ATTGTATTCGATGT
57874 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
63 2 0.02
64 95 0.98
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCAAGATTGTATTCGATGTGTCACTATTGATGGG
Found at i:57894 original size:64 final size:64
Alignment explanation
Indices: 57760--57921 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 64
57750 TTATTGCTGG
* * * * *
57760 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGTATTCGATGTTTCACTATTGATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
* * *
57824 GATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTCTTTA-TTTTAAA-
1 GATGCATCGATGCACTACTTATGCATCGATGCACCG-ATTGCATTCGATGT-TTCACTATTAAAG
57886 A
64 A
** *
57887 GAGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 GA-TGCATCGATGCACTACTTATGCATCGATGCAC
57922 ATTCAAACAA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 3 0.04
64 77 0.93
65 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
Found at i:58800 original size:34 final size:33
Alignment explanation
Indices: 58758--58845 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
58748 AATGGTAATA
*
58758 AACAAAATTAACCAAAATACATTAACAA-AAAGTCC
1 AACAAAATTAA-CAAAATAAATTAA-AATAAA-TCC
*
58793 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAAATTAACAAAATAAATTAAAATAAATCC
**
58826 AACAAAATTAATGAAATAAA
1 AACAAAATTAACAAAATAAA
58846 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 15 0.32
35 10 0.21
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTAAAATAAATCC
Found at i:59732 original size:23 final size:23
Alignment explanation
Indices: 59706--59750 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
59696 CACCACAGCT
*
59706 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
59729 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
59751 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:60463 original size:21 final size:21
Alignment explanation
Indices: 60439--60481 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60429 TTCATATTCG
* *
60439 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
60460 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
60481 T
1 T
60482 AGCCCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:63041 original size:17 final size:19
Alignment explanation
Indices: 63021--63062 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
63011 ATTAATTAAA
63021 TAAAATA-TTAAA-AAATT
1 TAAAATACTTAAATAAATT
63038 T-AAATACTTAAATAAATT
1 TAAAATACTTAAATAAATT
*
63056 AAAAATA
1 TAAAATA
63063 AAATATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 5 0.24
19 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTTAAATAAATT
Found at i:63050 original size:24 final size:23
Alignment explanation
Indices: 63006--63083 Score: 56
Period size: 24 Copynumber: 3.3 Consensus size: 23
62996 TATATGCAAA
*
63006 AAAAAATTAATTAA-ATAAAATATT
1 AAAAAATTAA--AATATTAAATATT
*
63030 AAAAAATTTAAATACTTAAATAAATT
1 AAAAAATTAAAATA-TTAAAT--ATT
63056 -AAAAA-TAAAATATTAAATA-T
1 AAAAAATTAAAATATTAAATATT
63076 AATAAAAT
1 AA-AAAAT
63084 ATACCTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.02
21 2 0.05
22 6 0.14
23 7 0.16
24 20 0.45
25 5 0.11
26 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAAATTAAAATATTAAATATT
Found at i:77107 original size:18 final size:18
Alignment explanation
Indices: 77086--77136 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
77076 CTGCTCATGA
*
77086 TCCAGCACTTCCTCGTGT
1 TCCACCACTTCCTCGTGT
*
77104 TCCATCACTTCCTCGTGT
1 TCCACCACTTCCTCGTGT
77122 TCCACCACTTCCTCG
1 TCCACCACTTCCTCG
77137 ATTTGCGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (18 bp):
TCCACCACTTCCTCGTGT
Found at i:82891 original size:2 final size:2
Alignment explanation
Indices: 82884--82913 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
82874 TACACTGTTA
82884 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
82914 TGAAGTGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91978 original size:47 final size:47
Alignment explanation
Indices: 91909--92013 Score: 201
Period size: 47 Copynumber: 2.2 Consensus size: 47
91899 CCGCTTTCAG
91909 AACCAGAACTAGATCATCGATCCATTGCTAATTATATGTGCAAATTC
1 AACCAGAACTAGATCATCGATCCATTGCTAATTATATGTGCAAATTC
91956 AACCAGAACTAGATCATCGATCCATTGCTAATTATATGTGCAAATTC
1 AACCAGAACTAGATCATCGATCCATTGCTAATTATATGTGCAAATTC
*
92003 AACCTGAACTA
1 AACCAGAACTA
92014 AGAACTATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (47 bp):
AACCAGAACTAGATCATCGATCCATTGCTAATTATATGTGCAAATTC
Found at i:93484 original size:36 final size:36
Alignment explanation
Indices: 93406--93547 Score: 164
Period size: 36 Copynumber: 4.0 Consensus size: 36
93396 TGAACAATTA
* *
93406 AATCGAAAGTGCGGATGTTTCCTTCCGTTC-ACTTG
1 AATCGAAAGTGCGGATGCTTCCTTCCGTTCTTCTTG
* *
93441 AATCGAAAGTGTC-GATGCTTCTTTTCGTTCTTCTTG
1 AATCGAAAGTG-CGGATGCTTCCTTCCGTTCTTCTTG
* *
93477 AATCGAAAGTGCCGATGCTTTCTTCCGTTCATT-TTG
1 AATCGAAAGTGCGGATGCTTCCTTCCGTTC-TTCTTG
* * *
93513 AATCGGAAGTGCTGATGCTTCCTTTCGTTCTTCTT
1 AATCGAAAGTGCGGATGCTTCCTTCCGTTCTTCTT
93548 ATTCACCTTC
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
35 28 0.31
36 61 0.67
37 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (36 bp):
AATCGAAAGTGCGGATGCTTCCTTCCGTTCTTCTTG
Found at i:93539 original size:72 final size:71
Alignment explanation
Indices: 93406--93547 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 71
93396 TGAACAATTA
* *
93406 AATCGAAAGTGCGGATGTTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCTTTTCGTTC
1 AATCGAAAGTGCCGATGTTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
93471 TTCTTG
66 TTCTTG
* *
93477 AATCGAAAGTGCCGATGCTTT-CTTCCGTTCATTTTGAATCGGAAGTG-CTGATGCTTCCTTTCG
1 AATCGAAAGTGCCGATG-TTTCCTTCCGTTCA-CTTGAATCGAAAGTGTC-GATGCTTCCTTTCG
93540 TTCTTCTT
63 TTCTTCTT
93548 ATTCACCTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
71 27 0.42
72 37 0.58
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (71 bp):
AATCGAAAGTGCCGATGTTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
TTCTTG
Found at i:94434 original size:21 final size:21
Alignment explanation
Indices: 94408--94452 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94398 GATTTCTGGG
* *
94408 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
94429 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
94450 CAA
1 CAA
94453 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:95800 original size:32 final size:32
Alignment explanation
Indices: 95759--95854 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 32
95749 GAGTCGAGGG
95759 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
95791 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
95822 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
95854 T
1 T
95855 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:95882 original size:30 final size:29
Alignment explanation
Indices: 95846--95908 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
95836 AAGGAACATA
*
95846 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCG-GGATCTGTATGACCTC
* *
95876 TGGACAGTTACCGGGGTCTGTGTGACCTC
1 TGGACAGTTACCGGGATCTGTATGACCTC
95905 TGGA
1 TGGA
95909 TAGGTTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGACAGTTACCGGGATCTGTATGACCTC
Found at i:97681 original size:27 final size:27
Alignment explanation
Indices: 97651--97702 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
97641 AAATAAGCCC
97651 TTTTATAGATAAACACCTAAGTCAAAG
1 TTTTATAGATAAACACCTAAGTCAAAG
97678 TTTTATAGATAAACACCTAAGTCAA
1 TTTTATAGATAAACACCTAAGTCAA
97703 GTTGATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (27 bp):
TTTTATAGATAAACACCTAAGTCAAAG
Found at i:103966 original size:32 final size:31
Alignment explanation
Indices: 103873--103968 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
103863 TAAGATTCAT
* * *
103873 AGGTTAAATTGATATTTTATCTAAAGTTAAA
1 AGGTCAAATTAATATTTTATCTAAAATTAAA
* * * *
103904 GGGTCAAATTAATATATCACCTAAAATTAAA
1 AGGTCAAATTAATATTTTATCTAAAATTAAA
*
103935 AGGTCAAATTAATATTTTATTTAAAACTTAAA
1 AGGTCAAATTAATATTTTATCTAAAA-TTAAA
103967 AG
1 AG
103969 ATTATTTAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 45 0.87
32 7 0.13
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (31 bp):
AGGTCAAATTAATATTTTATCTAAAATTAAA
Found at i:104081 original size:2 final size:2
Alignment explanation
Indices: 104074--104099 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104064 TTTACCGTAT
104074 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
104100 ATTTACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110301 original size:22 final size:24
Alignment explanation
Indices: 110276--110319 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
110266 ATAAATCAAT
*
110276 AAATTTAA-CTTTTTA-TATTTAA
1 AAATTTAATCATTTTAGTATTTAA
110298 AAATTTAATCATTTTAGTATTT
1 AAATTTAATCATTTTAGTATTT
110320 GTTGTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (24 bp):
AAATTTAATCATTTTAGTATTTAA
Found at i:118309 original size:222 final size:222
Alignment explanation
Indices: 117923--118366 Score: 879
Period size: 222 Copynumber: 2.0 Consensus size: 222
117913 ATCAAGCTCT
*
117923 GCCCAAGCTCTCCTTTCTCTTCTTCCATTCTGAAATCTAGATCTTGCTTAAGCGCAGCGTTTTCG
1 GCCCAAGCTCTCCTTTCTCTTCTTCCATTCTGAAATCTAGATCTTGCTTAAGCGCAGCGTTTTCA
117988 AACCTGAAGGCTCTGATTTGAAGGCAGACTCAGCTCAGTTTTGAAGGCCAAAATGAGGAAGTACA
66 AACCTGAAGGCTCTGATTTGAAGGCAGACTCAGCTCAGTTTTGAAGGCCAAAATGAGGAAGTACA
118053 TCTCCACTGGAGAGAAGACTTTGACGGAAAGAAATTTTTTTGGGGTAAAATACAAATTTCGTCAC
131 TCTCCACTGGAGAGAAGACTTTGACGGAAAGAAATTTTTTTGGGGTAAAATACAAATTTCGTCAC
118118 TTTATTTTACTATGTTTTCTATTTCAC
196 TTTATTTTACTATGTTTTCTATTTCAC
118145 GCCCAAGCTCTCCTTTCTCTTCTTCCATTCTGAAATCTAGATCTTGCTTAAGCGCAGCGTTTTCA
1 GCCCAAGCTCTCCTTTCTCTTCTTCCATTCTGAAATCTAGATCTTGCTTAAGCGCAGCGTTTTCA
118210 AACCTGAAGGCTCTGATTTGAAGGCAGACTCAGCTCAGTTTTGAAGGCCAAAATGAGGAAGTACA
66 AACCTGAAGGCTCTGATTTGAAGGCAGACTCAGCTCAGTTTTGAAGGCCAAAATGAGGAAGTACA
118275 TCTCCACTGGAGAGAAGACTTTGACGGAAAGAAATTTTTTTGGGGTAAAATACAAATTTCGTCAC
131 TCTCCACTGGAGAGAAGACTTTGACGGAAAGAAATTTTTTTGGGGTAAAATACAAATTTCGTCAC
118340 TTTATTTTACTATGTTTTCTATTTCAC
196 TTTATTTTACTATGTTTTCTATTTCAC
118367 TCACTAAACA
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 221 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (222 bp):
GCCCAAGCTCTCCTTTCTCTTCTTCCATTCTGAAATCTAGATCTTGCTTAAGCGCAGCGTTTTCA
AACCTGAAGGCTCTGATTTGAAGGCAGACTCAGCTCAGTTTTGAAGGCCAAAATGAGGAAGTACA
TCTCCACTGGAGAGAAGACTTTGACGGAAAGAAATTTTTTTGGGGTAAAATACAAATTTCGTCAC
TTTATTTTACTATGTTTTCTATTTCAC
Found at i:119510 original size:30 final size:32
Alignment explanation
Indices: 119476--119543 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
119466 ATAGTTTTTA
119476 TATTTTATAGT-AAT-ATAATTATATAAATAT
1 TATTTTATAGTAAATAATAATTATATAAATAT
* * * *
119506 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATAGT-AAATAATAATTATATAAATAT
119539 TATTT
1 TATTT
119544 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 9 0.29
32 3 0.10
33 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TATTTTATAGTAAATAATAATTATATAAATAT
Found at i:119545 original size:30 final size:28
Alignment explanation
Indices: 119504--119567 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
119494 TTATATAAAT
* *
119504 ATTATTTTTTATTAAAATAATATTTATATA
1 ATTATTATTTATTAAAAT-ATATTAAT-TA
* *
119534 ATTATTATTTATTTAAATTTATTAATTA
1 ATTATTATTTATTAAAATATATTAATTA
119562 ATTATT
1 ATTATT
119568 TTTTGTGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.27
29 6 0.20
30 16 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTATTATTTATTAAAATATATTAATTA
Found at i:119713 original size:24 final size:25
Alignment explanation
Indices: 119663--119718 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
119653 AATGATATGG
*
119663 TAATATTT-TTTTTATAATTAATGT
1 TAATATTTATTATTATAATTAATGT
**
119687 TAATATTTATTATTATTTTTAAT-T
1 TAATATTTATTATTATAATTAATGT
119711 TAA-ATTTA
1 TAATATTTA
119719 CAATGAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 12 0.43
25 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TAATATTTATTATTATAATTAATGT
Found at i:120280 original size:86 final size:86
Alignment explanation
Indices: 120132--120301 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 86
120122 AAAGTAATTG
120132 CACAGCGATTTAGAGTGGTTCGACTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCAC
1 CACAGCGATTTAGAGTGGTTCGACTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCAC
120197 ACTAAGGATTTTCCAACAAAT
66 ACTAAGGATTTTCCAACAAAT
* *
120218 CACAGTGATTTAGAGTGGTTCGACTTTCTCAATCAAAGTCTACGTCCACTACCTTAGTTATCCAC
1 CACAGCGATTTAGAGTGGTTCGACTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCAC
120283 ACTAAGGATTTTCCAACAA
66 ACTAAGGATTTTCCAACAA
120302 TTTCACTAAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (86 bp):
CACAGCGATTTAGAGTGGTTCGACTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCAC
ACTAAGGATTTTCCAACAAAT
Found at i:120996 original size:21 final size:21
Alignment explanation
Indices: 120972--121070 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
120962 GCGGGCGGGA
* *
120972 CCTCTTGAACGATGACAGTGG
1 CCTCTTGAACGATGAGAGGGG
* *
120993 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
121014 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
* *
121035 CCTATTGAACGATGAGAGGCG
1 CCTCTTGAACGATGAGAGGGG
121056 CCTCTTGAACGATGA
1 CCTCTTGAACGATGA
121071 TAGGTGCATC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:121018 original size:42 final size:42
Alignment explanation
Indices: 120952--121070 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
120942 GTGAATCGGG
* * * *
120952 CTCTTGAACGGCGGGCGGGACCTCTTGAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
* *
120994 CTCTTGAACGGTGGGAGGGGCCTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTT-GAACGATGACAGGGGC
* * * *
121036 CTATTGAACGATGAGAGGCGCCTCTTGAACGATGA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGA
121071 TAGGTGCATC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.36, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
Found at i:121733 original size:51 final size:48
Alignment explanation
Indices: 121608--121733 Score: 177
Period size: 45 Copynumber: 2.6 Consensus size: 48
121598 CATGAGGTGA
*
121608 TAGTGGAGAAGAGGCTCGATGATGTGATGAAATAGGTGATGGTGGAGG
1 TAGTGGAGAAGAGGCTCGATGATGTGATGGAATAGGTGATGGTGGAGG
121656 TA---GAGAAGAGGCTCGATGATGTGATGGAATAGGTGATGGTGGAGG
1 TAGTGGAGAAGAGGCTCGATGATGTGATGGAATAGGTGATGGTGGAGG
* *
121701 TGGAGGTGGAGAAGAGGCTCGATCAGGTGATGG
1 T--A-GTGGAGAAGAGGCTCGATGATGTGATGG
121734 CTCCGGGTGT
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
45 43 0.62
47 1 0.01
48 2 0.03
51 23 0.33
ACGTcount: A:0.28, C:0.06, G:0.45, T:0.21
Consensus pattern (48 bp):
TAGTGGAGAAGAGGCTCGATGATGTGATGGAATAGGTGATGGTGGAGG
Found at i:123294 original size:20 final size:20
Alignment explanation
Indices: 123267--123322 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
123257 AATTCACAAT
123267 GCGAAAATGAAAATCGCAAC
1 GCGAAAATGAAAATCGCAAC
* *
123287 GTGAAAATGAAAACCGCAAC
1 GCGAAAATGAAAATCGCAAC
*
123307 GCGAAACT-AAAATCGC
1 GCGAAAATGAAAATCGC
123323 GTTGCGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (20 bp):
GCGAAAATGAAAATCGCAAC
Found at i:123346 original size:20 final size:20
Alignment explanation
Indices: 123319--123369 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
123309 GAAACTAAAA
123319 TCGCGTTGCGATTTTCATGTT
1 TCGCGTTGCGATTTTCAT-TT
123340 T-GCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
*
123359 TCGTGTTGCGA
1 TCGCGTTGCGA
123370 ATTTAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.10, C:0.18, G:0.25, T:0.47
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:123719 original size:22 final size:22
Alignment explanation
Indices: 123689--123747 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
123679 AGATAGAGAT
* *
123689 AGACGGATTTTGCCGGAGATGG
1 AGACAGATTTCGCCGGAGATGG
*
123711 AGACAGATTTCGTCGGAGATAGG
1 AGACAGATTTCGCCGGAGAT-GG
* *
123734 -GACGGATGTCGCCG
1 AGACAGATTTCGCCG
123748 TAGAGAGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.20
Consensus pattern (22 bp):
AGACAGATTTCGCCGGAGATGG
Found at i:123920 original size:20 final size:20
Alignment explanation
Indices: 123895--123965 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
123885 TAAGCGCGCT
*
123895 TTGCGAATTTGACTAATGTG
1 TTGCGAATTTGACTTATGTG
*
123915 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTATGTG
*
123935 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
123955 TTGCGAATTTG
1 TTGCGAATTTG
123966 GAAACTGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:141253 original size:24 final size:24
Alignment explanation
Indices: 141225--141271 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
141215 TTTTAAAATA
* *
141225 TTAAATATGTCCCTTGTATTTTTT
1 TTAAAAATGTCCCTTATATTTTTT
141249 TTAAAAATGTCCCTTATATTTTT
1 TTAAAAATGTCCCTTATATTTTT
141272 AATTCTATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (24 bp):
TTAAAAATGTCCCTTATATTTTTT
Found at i:141523 original size:41 final size:40
Alignment explanation
Indices: 141478--141554 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
141468 AAAGTCTGGC
*
141478 TTAACTAAACAGGTCAGGCCCAGGCCTTTTTAAAAGCATAT
1 TTAACTAAACAGGTCAGGCCCAGGCC-TATTAAAAGCATAT
* **
141519 TTAACTAAACAGTTCAGGCTTAGGCCTATTAAAAGC
1 TTAACTAAACAGGTCAGGCCCAGGCCTATTAAAAGC
141555 CTTATAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 9 0.28
41 23 0.72
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (40 bp):
TTAACTAAACAGGTCAGGCCCAGGCCTATTAAAAGCATAT
Found at i:141721 original size:18 final size:17
Alignment explanation
Indices: 141682--141721 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
141672 TATTGTTAAA
*
141682 CAGGCTTTTAAAAAGGC
1 CAGGCTTTTAAAAAGCC
*
141699 CAGGCTTTTAAACAGACC
1 CAGGCTTTTAAAAAG-CC
141717 CAGGC
1 CAGGC
141722 CAGACCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (17 bp):
CAGGCTTTTAAAAAGCC
Found at i:146993 original size:33 final size:32
Alignment explanation
Indices: 146886--147100 Score: 138
Period size: 32 Copynumber: 6.3 Consensus size: 32
146876 AACGGTTTCC
*
146886 GAAAATATATATAATATAGTTTGTTTAAAA-CTTTTT
1 GAAAAT-TATAT-ATATA--TT-TTTAAAATCATTTT
*
146922 GAAAACTTATATACAATATAAGTTTT-AAAT-ATTTT
1 GAAAA-TTATAT---ATAT-ATTTTTAAAATCATTTT
* *
146957 GAAAATTATATAACATATTTTTGAAATCATTTT
1 GAAAATTATAT-ATATATTTTTAAAATCATTTT
* * *
146990 GAAAA-TATAATGTATATTTTAAAAAAAACATTTTT
1 GAAAATTAT-ATATATATTTT--TAAAATCA-TTTT
147025 GAAAATT-TATATATATTTTTTAAAAAT-ATTTT
1 GAAAATTATATATATA-TTTTT-AAAATCATTTT
147057 GGAAAACTTATATA-ATATTTTTAAAATCATTTT
1 -GAAAA-TTATATATATATTTTTAAAATCATTTT
*
147090 GAAAACTATAT
1 GAAAATTATAT
147101 GGTATAGTTT
Statistics
Matches: 148, Mismatches: 13, Indels: 41
0.73 0.06 0.20
Matches are distributed among these distances:
31 10 0.07
32 32 0.22
33 28 0.19
34 26 0.18
35 30 0.20
36 14 0.09
37 2 0.01
38 5 0.03
39 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (32 bp):
GAAAATTATATATATATTTTTAAAATCATTTT
Found at i:147083 original size:32 final size:32
Alignment explanation
Indices: 146948--147100 Score: 111
Period size: 33 Copynumber: 4.7 Consensus size: 32
146938 TATAAGTTTT
* *
146948 AAATATTTTGAAAA-TTATATAACATATTTTT-G
1 AAATATTTTGAAAACTTATAT-ATAT-TTTTTAA
* **
146980 AAATCATTTTGAAAA-TATAATGTATATTTTAAAAA
1 AAAT-ATTTTGAAAACT-T-ATATATATTTT-TTAA
* *
147015 AAACATTTTTGAAAATTTATATATATTTTTTAA
1 AAATA-TTTTGAAAACTTATATATATTTTTTAA
147048 AAATATTTTGGAAAACTTATATA-ATATTTTT-A
1 AAATATTTT-GAAAACTTATATATAT-TTTTTAA
147080 AAATCATTTTGAAAAC-TATAT
1 AAAT-ATTTTGAAAACTTATAT
147101 GGTATAGTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
31 5 0.05
32 21 0.21
33 42 0.42
34 15 0.15
35 16 0.16
36 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (32 bp):
AAATATTTTGAAAACTTATATATATTTTTTAA
Found at i:147193 original size:14 final size:16
Alignment explanation
Indices: 147164--147199 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
147154 GATATATATA
147164 TATTATAGTCTATTAT
1 TATTATAGTCTATTAT
147180 TATTATA-T-TATTAT
1 TATTATAGTCTATTAT
147194 TATTAT
1 TATTAT
147200 TTCTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
15 1 0.05
16 7 0.35
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTATAGTCTATTAT
Found at i:148248 original size:26 final size:26
Alignment explanation
Indices: 148219--148280 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
148209 AGAAAACGGT
*
148219 GCCGTTTTGCTACCAAACGAAACGAC
1 GCCGTTTGGCTACCAAACGAAACGAC
148245 GCCGTTTGGCTACCAAACGAAACGAC
1 GCCGTTTGGCTACCAAACGAAACGAC
148271 GCCGTTTGGC
1 GCCGTTTGGC
148281 CTCTATCACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (26 bp):
GCCGTTTGGCTACCAAACGAAACGAC
Found at i:148743 original size:14 final size:14
Alignment explanation
Indices: 148719--148753 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
148709 TAATTATCAT
148719 TATTTTTTTTTG-A
1 TATTTTTTTTTGAA
148732 TATTTCTTTTTTGAA
1 TATTT-TTTTTTGAA
148747 TATTTTT
1 TATTTTT
148754 AGTAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (14 bp):
TATTTTTTTTTGAA
Found at i:152354 original size:106 final size:106
Alignment explanation
Indices: 152222--153524 Score: 2252
Period size: 106 Copynumber: 12.3 Consensus size: 106
152212 CTCGAGAGTA
*
152222 AATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
152287 GACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
152328 AATTTCAACTTCACAACGAAGGATATTGGAC-CCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
152392 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
152433 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
152498 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
152539 AATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
152604 GACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
152645 AATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
152710 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
152751 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
152816 GACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
152857 AATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
152922 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
152963 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * **
153028 GACCACTGGTTGTCAATAAACAATTTCCCAAACTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
**
153069 AATTTCAACTTCACCGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
153134 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
153175 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAATTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
153240 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
153281 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * **
153346 GACCGCTGGTTGTCAATAAACAATTTCCCAAACTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
** * * * *
153387 AATTTCAACTTCACTGCGAAGGATATTGGACTCGAGGCAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
153452 GA-CGACTGGTTGTCAATAAACAA-TTTTCCAGTTCCAGAGCC
66 GACCG-CTGGTTGTCAATAAACAACTTCT-CAATTTCAGAGCC
* *
153493 AATTTCAACTTCACAGCGGAGGATATTGGACT
1 AATTTCAACTTCACAACGAAGGATATTGGACT
153525 TGGAACAATA
Statistics
Matches: 1144, Mismatches: 50, Indels: 6
0.95 0.04 0.00
Matches are distributed among these distances:
105 108 0.09
106 1036 0.91
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
Found at i:154410 original size:35 final size:33
Alignment explanation
Indices: 154231--154502 Score: 157
Period size: 35 Copynumber: 7.8 Consensus size: 33
154221 AACGGTTTCC
*
154231 GAAAATATATATATAATATAGTTTGTTTAAAACGTTTTT
1 GAAAAT-TATATAT-ATATAG--T-TTTAAAAC-ATTTT
* *
154270 GAAAACTTATATACAATATATTTTTTAAAACATTTT
1 GAAAA-TTATATA-TATATA-GTTTTAAAACATTTT
* * *
154306 GAAAATTATATAACATATATTTTTGAAATCATTTT
1 GAAAATTATAT-ATATATAGTTTT-AAAACATTTT
*
154341 GAAAA-TATA-ATGTATAGTTTTAAAAAAAACATTTT
1 GAAAATTATATATATATAGTTTT----AAAACATTTT
*
154376 GAAAAATTTATATATATATAGTTTTAAAATATTTT
1 G-AAAA-TTATATATATATAGTTTTAAAACATTTT
154411 GGAAAACTTATATA-ATATA---TTAAAATCATTTTT
1 -GAAAA-TTATATATATATAGTTTTAAAA-CA-TTTT
* * *
154444 GAAAACTATATGGTATATAGTTTTGAAAACGTTTT
1 GAAAATTATAT-ATATATAGTTTT-AAAACATTTT
* *
154479 -TAAA-TATA-ATATATAGTTTAAAAA
1 GAAAATTATATATATATAGTTTTAAAA
154503 ATATTTTTTG
Statistics
Matches: 192, Mismatches: 20, Indels: 51
0.73 0.08 0.19
Matches are distributed among these distances:
30 4 0.02
31 21 0.11
32 15 0.08
33 13 0.07
34 17 0.09
35 59 0.31
36 18 0.09
37 12 0.06
38 5 0.03
39 27 0.14
40 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (33 bp):
GAAAATTATATATATATAGTTTTAAAACATTTT
Found at i:154574 original size:18 final size:17
Alignment explanation
Indices: 154535--154593 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
154525 ATAGTCTATA
*
154535 TTATTATTAGTATT-ATT
1 TTATTATT-TTATTCATT
*
154552 ATTATTATTTCTTTTCATT
1 -TTATTATTT-TATTCATT
154571 TTATTTATTTTATTCATT
1 TTA-TTATTTTATTCATT
154589 TTATT
1 TTATT
154594 TCATTTATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 2 0.06
18 24 0.69
19 9 0.26
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTATTTTATTCATT
Found at i:154594 original size:18 final size:18
Alignment explanation
Indices: 154565--154603 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
154555 ATTATTTCTT
154565 TTCATTTTATTT-ATTTTA
1 TTCATTTTATTTCA-TTTA
154583 TTCATTTTATTTCATTTA
1 TTCATTTTATTTCATTTA
154601 TTC
1 TTC
154604 TGTTTTGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCATTTTATTTCATTTA
Found at i:154602 original size:9 final size:10
Alignment explanation
Indices: 154564--154599 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
154554 TATTATTTCT
154564 TTTCATTTTA
1 TTTCATTTTA
154574 TTT-ATTTTA
1 TTTCATTTTA
154583 -TTCATTTTA
1 TTTCATTTTA
154592 TTTCATTT
1 TTTCATTT
154600 ATTCTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.08
9 12 0.50
10 10 0.42
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTCATTTTA
Found at i:156958 original size:21 final size:22
Alignment explanation
Indices: 156932--156976 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
156922 CTAATATCAA
156932 GTCAAAATTAAGTATCA-AATT
1 GTCAAAATTAAGTATCACAATT
*
156953 GTCAAAATTAATTATCACAATT
1 GTCAAAATTAAGTATCACAATT
156975 GT
1 GT
156977 TGTTGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
GTCAAAATTAAGTATCACAATT
Found at i:160196 original size:66 final size:66
Alignment explanation
Indices: 160090--160213 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
160080 GATGAGTGTC
*
160090 GCTTGATTGGCACATGTATGATAATGGGAGACATCTACTAGTGGCAAGGTAATGGGTTATGGAGC
1 GCTTGATTGGCACATGTATGATAATGGGAGACATCTACTAGTGGCAAGGAAATGGGTTATGGAGC
160155 T
66 T
* *
160156 GCTTGGTTGGCACGA-GTATGATCATGGGAGACATCTACTAGTGGCAAGGAAATGGGTT
1 GCTTGATTGGCAC-ATGTATGATAATGGGAGACATCTACTAGTGGCAAGGAAATGGGTT
160214 GGTGCTTGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 53 0.98
67 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (66 bp):
GCTTGATTGGCACATGTATGATAATGGGAGACATCTACTAGTGGCAAGGAAATGGGTTATGGAGC
T
Found at i:161077 original size:42 final size:42
Alignment explanation
Indices: 160949--161212 Score: 201
Period size: 42 Copynumber: 6.1 Consensus size: 42
160939 AGGTCTTATG
*
160949 GATGACCCGAAGGATTT-ATCATCATGCTCGAAAGACTTACA
1 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
* *
160990 AATGACCCGAAGGATTTCATCATTATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
* * * *
161032 GATGGCCCAAAGGATTTCATCATCATGTTCGAAAGACTTATT
1 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
* * * * * * *
161074 GATGGCACTTACTGATGGATTTGCTTCA-CTACT-CTTTGGTGAAGGCTTACA
1 GAT-G-AC---CCGAAGGATTT-CATCATC-A-TGC--TCG-AAAGACTTACT
* * * *
161125 AATTACCCGAAGCATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
* * * * *
161167 GATGGCCCAAAAGACTTCCTCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
161209 GATG
1 GATG
161213 GCGCTTACTG
Statistics
Matches: 169, Mismatches: 40, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
41 16 0.09
42 106 0.63
43 3 0.02
44 2 0.01
45 5 0.03
46 9 0.05
47 9 0.05
48 5 0.03
49 3 0.02
50 2 0.01
51 9 0.05
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (42 bp):
GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
Found at i:161155 original size:135 final size:135
Alignment explanation
Indices: 160984--161318 Score: 517
Period size: 135 Copynumber: 2.5 Consensus size: 135
160974 GCTCGAAAGA
* * *
160984 CTTACAAATGACCCGAAGGATTTCATCATTATGCTCGAAAGACTTACTGATGGCCCAAAGGATTT
1 CTTACAAATTACCCGAAGGATTTAATCATTATGCTCGAAAGACTTACTGATGGCCCAAAGGACTT
* * **
161049 CATCATCATGTTCGAAAGACTTATTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTTGGT
66 CATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCAGT
161114 GAAGG
131 GAAGG
* * *
161119 CTTACAAATTACCCGAAGCATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAAGACTT
1 CTTACAAATTACCCGAAGGATTTAATCATTATGCTCGAAAGACTTACTGATGGCCCAAAGGACTT
* *
161184 CCTCATCATGCTCGAAAGACTTACTGATGGCGCTTACTGATGGATTTGCTTCACTACTCTTCAGT
66 CATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCAGT
161249 GAAGG
131 GAAGG
* * * * *
161254 CTTATAAATTACTCGAAGGATTTAATTATTATGCTCGAAAGACTTATTGATGGCCCGAAGGACTT
1 CTTACAAATTACCCGAAGGATTTAATCATTATGCTCGAAAGACTTACTGATGGCCCAAAGGACTT
161319 ATATAGTGCA
Statistics
Matches: 180, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 180 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (135 bp):
CTTACAAATTACCCGAAGGATTTAATCATTATGCTCGAAAGACTTACTGATGGCCCAAAGGACTT
CATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCAGT
GAAGG
Found at i:161204 original size:22 final size:22
Alignment explanation
Indices: 161144--161208 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
161134 AAGCATTTAA
161144 TCATCATGCTCGAAAGACTTAC
1 TCATCATGCTCGAAAGACTTAC
* * * * *
161166 TGAT--GGCCCAAAAGACTTCC
1 TCATCATGCTCGAAAGACTTAC
161186 TCATCATGCTCGAAAGACTTAC
1 TCATCATGCTCGAAAGACTTAC
161208 T
1 T
161209 GATGGCGCTT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 15 0.48
22 16 0.52
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (22 bp):
TCATCATGCTCGAAAGACTTAC
Found at i:161531 original size:42 final size:41
Alignment explanation
Indices: 161435--161536 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
161425 AGGTCTCATG
* * *
161435 GATGGCCCGAATGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
161476 AATGACCCAAAGGATTTACTCATCATGCTCGAAAGACTTA-A
1 GATGGCCCGAAGGACTTA-TCATCATGCTCGAAAGACTTACA
161517 TGATGGCCCGAAGGACTTAT
1 -GATGGCCCGAAGGACTTAT
161537 ATAGTGCGAA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:161645 original size:216 final size:216
Alignment explanation
Indices: 161269--161988 Score: 823
Period size: 216 Copynumber: 3.2 Consensus size: 216
161259 AAATTACTCG
* * * * *
161269 AAGGATTTAATTATTATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATATAGTGCAAAATA
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATATAGTGCGAAATT
* * *
161334 TTAGAAATCGCCGTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATTATTTTCTCATTTTTCA
66 TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATTACTTTCTCATTTTTCA
* * *
161399 ACTTCATATGAAAACATCCTACCCGAAGGTCTCATGGATGGCCCGAATGACTTATCATCTTGCTC
131 ACTTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTC
*
161464 TAAAGACTTACAAATGACCCA
196 TAAAGACTTACAGATGACCCA
*
161485 AAGGATTTACTCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATATAGTGCGAAATT
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATATAGTGCGAAATT
* * * * * *
161550 TTGGAAATCACCTTCTTACTTCTAAAAAATTTCATTTTCTTAAAACATCACTTTCTTATTTCTCA
66 TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATTACTTTCTCATTTTTCA
* * * * *
161615 AATTCATGTGGAAACATCATACCTGAAGGTCTTATGGATGGCACGAAGGACTTATGGATGACACG
131 ACTTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGAC-T-T--AT----C-
* * * *
161680 AAGGACTTATCATCTTACTCTAA-AGGCTTACAGATAACCCG
187 -A--TCTT-GC-TC-TA----AAGA--CTTACAGATGACCCA
* * * * * * *
161721 AAGGATTTAAACATTATGCACGAAAGACATATTGATGGTCTGAAGGACTTACTA-AGTGCGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTA-TATAGTGCGAAAT
* * *
161785 TTTGGAAATCGCCTTCTTAGTTTTCAAAGATTTCGTTTTCTTAAAACATTACTTTCTCATTTTTT
65 TTTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATTACTTTCTCA-TTTTT
* *
161850 CAACTTTATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGTCCGAAGGACTTATCATCTTGC
129 CAACTTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGC
*
161915 TCTAAAGACTTATAGATGACCCA
194 TCTAAAGACTTACAGATGACCCA
* * *
161938 AAGGATTTACTCATCATGCTCAAAAGACTTAATGATGACCCGAAGGACTTA
1 AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTA
161989 AATTGTTTAC
Statistics
Matches: 413, Mismatches: 67, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
216 158 0.38
217 54 0.13
218 3 0.01
219 1 0.00
220 2 0.00
222 2 0.00
223 2 0.00
224 2 0.00
225 3 0.01
226 1 0.00
227 1 0.00
228 3 0.01
229 2 0.00
230 2 0.00
231 2 0.00
233 2 0.00
234 1 0.00
235 3 0.01
236 117 0.28
237 52 0.13
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (216 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTTATATAGTGCGAAATT
TTGGAAATCGCCTTCTTACTTCTCAAAGATTTCATTTTCTTAAAACATTACTTTCTCATTTTTCA
ACTTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTC
TAAAGACTTACAGATGACCCA
Found at i:161668 original size:20 final size:20
Alignment explanation
Indices: 161639--161689 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
161629 CATCATACCT
* *
161639 GAAGGTCTTATGGATGGCAC
1 GAAGGACTTATGGATGACAC
161659 GAAGGACTTATGGATGACAC
1 GAAGGACTTATGGATGACAC
161679 GAAGGACTTAT
1 GAAGGACTTAT
161690 CATCTTACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (20 bp):
GAAGGACTTATGGATGACAC
Found at i:161958 original size:42 final size:41
Alignment explanation
Indices: 161897--161988 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 41
161887 GGATGGTCCG
* *
161897 AAGGACTTATCATCTTGCTCTAAAGACTT-ATAGATGACCCA
1 AAGGACTTATCATCATGCTCAAAAGACTTAAT-GATGACCCA
* *
161938 AAGGATTTACTCATCATGCTCAAAAGACTTAATGATGACCCG
1 AAGGACTTA-TCATCATGCTCAAAAGACTTAATGATGACCCA
161980 AAGGACTTA
1 AAGGACTTA
161989 AATTGTTTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 8 0.18
42 34 0.77
43 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCAAAAGACTTAATGATGACCCA
Found at i:171276 original size:28 final size:25
Alignment explanation
Indices: 171245--171296 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
171235 ATTTCAAAAT
171245 TATAATTATGAGAAAAAAATAATTTATA
1 TATAATTAT-A-AAAAAAAT-ATTTATA
* *
171273 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
171297 TTATTTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 1 0.05
28 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:171309 original size:23 final size:26
Alignment explanation
Indices: 171255--171309 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
171245 TATAATTATG
171255 AGAAA-AAAATAATTTATATATATTT
1 AGAAATAAAATAATTTATATATATTT
*
171280 ATAAATAAAAT-ATTTAT-T-TATTT
1 AGAAATAAAATAATTTATATATATTT
*
171303 AGGAATA
1 AGAAATA
171310 TCAGAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 10 0.38
26 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (26 bp):
AGAAATAAAATAATTTATATATATTT
Found at i:171383 original size:23 final size:22
Alignment explanation
Indices: 171359--171403 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
171349 CTTCGATATT
171359 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
171383 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
171404 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:172993 original size:3 final size:3
Alignment explanation
Indices: 172987--173032 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
172977 TAATATTTAT
172987 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
173031 TA
1 TA
173033 TTTAAATGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.85
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:173379 original size:124 final size:121
Alignment explanation
Indices: 173163--173446 Score: 362
Period size: 124 Copynumber: 2.3 Consensus size: 121
173153 GTTGAATAAA
* * *
173163 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCCACTGGGGATGATGTTGACCTA
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAA-CTTCCACTGAGGATGATGCTAACCTA
* * *
173228 TTTCCTTCTGTGATAGAGTTATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC
63 TCTCCTTCTGTGATAGAATTATTCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
* * * *
173287 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAGGTTGATGCTAATCTA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCCACT-G--AGGATGATGCTAACCTA
* *
173352 TCTGCTTCTGTGATAGAATT-TTGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
63 TCTCCTTCTGTGATAGAATTATT-CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
173411 TTC-TTC---TTCAGATGAGTTCTTCTCATTATGAACTTC
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTC
173447 TTCTTCTTCA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
120 29 0.20
121 6 0.04
122 27 0.19
123 10 0.07
124 71 0.50
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (121 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCCACTGAGGATGATGCTAACCTATCT
CCTTCTGTGATAGAATTATTCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
Found at i:173432 original size:36 final size:36
Alignment explanation
Indices: 173392--173553 Score: 288
Period size: 36 Copynumber: 4.5 Consensus size: 36
173382 TTGAACAAGC
*
173392 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
*
173428 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
173464 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
* *
173500 TCTTCTCATTATGAACTTCTTATTCTTTAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
173536 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
173554 TCTCTGGAAA
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 121 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:173651 original size:34 final size:36
Alignment explanation
Indices: 173608--173699 Score: 143
Period size: 36 Copynumber: 2.6 Consensus size: 36
173598 GTTGAACAAA
173608 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
* *
173642 TTCTTCTCATTATAAACTTCTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
173678 TTCTTCTCATTATGAACTTTCT
1 TTCTTCTCATTATGAA-TTTCT
173700 CTGGAAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 21 0.41
35 1 0.02
36 25 0.49
37 4 0.08
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.50
Consensus pattern (36 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
Found at i:173660 original size:143 final size:145
Alignment explanation
Indices: 173461--173951 Score: 688
Period size: 143 Copynumber: 3.4 Consensus size: 145
173451 TCTTCAGATG
* *
173461 AATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTATTCT
1 AATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCT
* *
173526 TTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCAAGTGATGGATTTGA
66 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCTATCAAGTGATGGATTTGA
*
173591 ACAAAAGGTTGAACA
131 ACAAAAAGTTGAACA
*
173606 AATTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAGTTCTTCTCATTATAAACTTCTTCTTCT
1 AATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCT
* *
173669 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGTTTTGA
66 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCTATCAAGTGATGGATTTGA
173734 ACAAAAAGTTGAACA
131 ACAAAAAGTTGAACA
173749 AATTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCT
1 AATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCT
* * * **** * * * * *
173812 ACAGATGAGTTCTTATTATTATGAACTCGAACTGGTAATGTTGATCTATTGAA-TGAT-GAATTC
66 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCTA-TCAAGTGATGGATTTG
*
173875 AAGTAAAAAGTTGAACA
130 AA-CAAAAAGTTGAACA
*
173892 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACT
173952 CGAACTGGTA
Statistics
Matches: 313, Mismatches: 25, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
142 5 0.02
143 244 0.78
144 4 0.01
145 25 0.08
146 5 0.02
147 1 0.00
148 1 0.00
149 28 0.09
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (145 bp):
AATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCT
TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCTATCAAGTGATGGATTTGA
ACAAAAAGTTGAACA
Found at i:173773 original size:17 final size:17
Alignment explanation
Indices: 173751--173808 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
173741 GTTGAACAAA
*
173751 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
173768 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
173785 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
173802 TTCTTCT
1 TTCTTCT
173809 TCTACAGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 21 0.64
18 3 0.09
19 3 0.09
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.52
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:173794 original size:34 final size:36
Alignment explanation
Indices: 173751--173838 Score: 135
Period size: 34 Copynumber: 2.5 Consensus size: 36
173741 GTTGAACAAA
*
173751 TTCTTCTCATTATGAATTTCTTCTT-T-CAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCTACAGATGAG
173785 TTCTTCTCATTATGAACTTCTTCTTCTACAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCTACAGATGAG
* *
173821 TTCTTATTATTATGAACT
1 TTCTTCTCATTATGAACT
173839 CGAACTGGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 24 0.49
35 1 0.02
36 24 0.49
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (36 bp):
TTCTTCTCATTATGAACTTCTTCTTCTACAGATGAG
Found at i:173977 original size:113 final size:113
Alignment explanation
Indices: 173783--174516 Score: 1289
Period size: 113 Copynumber: 6.5 Consensus size: 113
173773 CTTTCAGATG
* * *
173783 AGTTCTTCTCATTATGAA---CTTCTT-CTTCTACAGATGAGTTCTTATTATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
*** * * *
173844 TGGTAATGTTGATCTATTGAATGATGAATTCAAGTAAAAAGTTGAACA
66 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
173892 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
173957 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
66 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
* *
174005 AGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
174070 TGGTAACGA-TGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
66 TGGTAAC-ACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
*
174118 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
*
174183 TGGTAACGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
66 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
174231 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
*
174296 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAATA
66 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
174344 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
*
174409 TGGTAACGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
66 TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
174457 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
174517 TTTTTCTGGA
Statistics
Matches: 599, Mismatches: 20, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
109 18 0.03
112 6 0.01
113 574 0.96
114 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGTAACACTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACA
Found at i:175416 original size:116 final size:114
Alignment explanation
Indices: 175243--175473 Score: 338
Period size: 116 Copynumber: 2.0 Consensus size: 114
175233 GATCATGCAG
* * * *
175243 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAATTCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * *
175308 ACGCTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 ACACTTCCAGAAGATGCTATTGGGCCCTCTTATTTCTACTATGAGCACA
* *
175357 TTCATCTTTCAAATT-CAATGATTGGTTTTTCGGGGTTCATATCAAACCAGATCAGATAACTCAA
1 TTCATCTTT-AAATTCCAATGATTGG-TTCT-GGGGTTCATACCAAACCAGATCAGATAACTCAA
175421 AGAACACTTCCAGAAGATGCTATTGGGCCCTCTTATTTCTACTATGAGCACA
63 AGAACACTTCCAGAAGATGCTATTGGGCCCTCTTATTTCTACTATGAGCACA
175473 T
1 T
175474 GGCACTTGCT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
114 19 0.18
115 7 0.07
116 78 0.75
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTAAATTCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGCCCTCTTATTTCTACTATGAGCACA
Found at i:176741 original size:7 final size:7
Alignment explanation
Indices: 176729--176792 Score: 76
Period size: 7 Copynumber: 8.9 Consensus size: 7
176719 TCTTGACACC
176729 CTTTTTT
1 CTTTTTT
176736 CTTTTTT
1 CTTTTTT
176743 CTCTTTTT
1 CT-TTTTT
176751 -TTTATTT
1 CTTT-TTT
*
176758 TTTTTTT
1 CTTTTTT
*
176765 CTTTCTT
1 CTTTTTT
176772 CTTTTTTT
1 C-TTTTTT
176780 CTTTTTT
1 CTTTTTT
176787 CTTTTT
1 CTTTTT
176793 CTTCAAGCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.04
7 34 0.68
8 14 0.28
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:176764 original size:15 final size:16
Alignment explanation
Indices: 176746--176792 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
176736 CTTTTTTCTC
176746 TTTTTTTTATT-TTTT
1 TTTTTTTTATTCTTTT
* *
176761 TTTTCTTTCTTCTTTT
1 TTTTTTTTATTCTTTT
*
176777 TTTCTTTT-TTCTTTT
1 TTTTTTTTATTCTTTT
176792 T
1 T
176793 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTTATTCTTTT
Found at i:188037 original size:23 final size:24
Alignment explanation
Indices: 187990--188037 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
187980 ATTATGAGAA
*
187990 AAAATAATTTATATATTTATAAAT
1 AAAATAATTTATATATTTAGAAAT
* *
188014 AAAAT-ATTTATTTATTTAGGAAT
1 AAAATAATTTATATATTTAGAAAT
188037 A
1 A
188038 TCAGAAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAATAATTTATATATTTAGAAAT
Done.