Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008658.1 Hibiscus syriacus cultivar Beakdansim tig00111653_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: 445414
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:8841 original size:23 final size:23
Alignment explanation
Indices: 8815--8865 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8805 CAAAACAATT
*
8815 AATAAAC-ATAATTAAAATAATAA
1 AATAAACAATAATAAAAATAA-AA
8838 AAT-AACAATAATAAAAATAAAA
1 AATAAACAATAATAAAAATAAAA
8860 AATAAA
1 AATAAA
8866 AACAGTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (23 bp):
AATAAACAATAATAAAAATAAAA
Found at i:8849 original size:14 final size:13
Alignment explanation
Indices: 8827--8866 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
8817 TAAACATAAT
8827 TAAAATAATAAAA
1 TAAAATAATAAAA
8840 TAACAATAATAAAAA
1 TAA-AATAAT-AAAA
8855 TAAAA-AATAAAA
1 TAAAATAATAAAA
8867 ACAGTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 8 0.32
15 7 0.28
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:8876 original size:22 final size:23
Alignment explanation
Indices: 8828--8893 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
8818 AAACATAATT
* *
8828 AAAATAATAAAATAACAATAATA
1 AAAATAATAAAATAAAAACAATA
*
8851 AAAATAA-AAAATAAAAACAGTGA
1 AAAATAATAAAATAAAAACAAT-A
*
8874 AAACATAATAGAATACAAAA
1 AAA-ATAATAAAATA-AAAA
8894 TAAAATAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 11 0.31
23 11 0.31
24 4 0.11
25 5 0.14
26 4 0.11
ACGTcount: A:0.73, C:0.06, G:0.05, T:0.17
Consensus pattern (23 bp):
AAAATAATAAAATAAAAACAATA
Found at i:10457 original size:23 final size:22
Alignment explanation
Indices: 10428--10486 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
10418 CTTGGTTAGA
*
10428 TTTGGGTTATTTTATAAGGGGGT
1 TTTGGGTTATTTTATAA-AGGGT
*
10451 TTTGGGTT-TTTTGTAAAGGGT
1 TTTGGGTTATTTTATAAAGGGT
*
10472 TTTAGGTTATGTTTA
1 TTTGGGTTAT-TTTA
10487 GCTGAGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.37
22 8 0.27
23 11 0.37
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (22 bp):
TTTGGGTTATTTTATAAAGGGT
Found at i:10750 original size:59 final size:59
Alignment explanation
Indices: 10671--11521 Score: 1159
Period size: 59 Copynumber: 14.4 Consensus size: 59
10661 GTGATATGTC
* ** * * *
10671 GCTGATTCAAAGCATTGTGAATCGAACAAAGGAAATATTAACCCCTCTGGTGGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
10730 GTTGATTCGAAGTATTGTGAATCGAGCAAAGGAAATGTTAATCCCTCTGGTGGGGCGTC
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * ** * *
10789 GTTGATTCGAAGTGTTATGAATTTAGCAAAAGAAATCTTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * *
10848 GCTGATTCGAAGTATTATGAATCGAGCAATAGGAAATGTTAACCCC-CTTGGTGGGGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTTAACCCCTC-TGGTGGGGCGTT
* * *
10908 GTTGATTCAAAGTGTTTTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
*
10967 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATATTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * * ** *
11027 GTTGATTCAAAGTGTTGTGAATCAAGAAAAGGAAATGTTAACCCCTCTGGTGAAGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
11086 GTTGATTCGAAGTGTTGTGAATCGAGCGAAGGAAATGTTAACTCCTCTGGTGGGGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * * * * *
11145 GCTGATTCGAAGTGTTATGAATCGAGCGAAGGAAATGTTAATCTCTTTGGTTGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * **
11204 GCTGATTCGAAGCGTTGTGAATTGAGCAAAGGAAATGTTAACCCCTCTGGTGGCGTATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* *
11263 CCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGCTAACCCCTCTGGT-GGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* *
11321 GCTGATTCGAAGTGTTATGAATCGAGTAAAGGAAATGTTAA-CCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
*
11379 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
11438 GCTGATTCGAAGTGTTGTGAATAGAGAAAAGGAAATGTTAACCCCTCTGGTGGGACATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
11497 GCTGATTCGAAGTGTTGTGAATCGA
1 GCTGATTCGAAGTGTTGTGAATCGA
11522 TCAATAGGTC
Statistics
Matches: 700, Mismatches: 86, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
57 9 0.01
58 87 0.12
59 499 0.71
60 105 0.15
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (59 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
Found at i:11062 original size:178 final size:177
Alignment explanation
Indices: 10671--11521 Score: 1186
Period size: 178 Copynumber: 4.8 Consensus size: 177
10661 GTGATATGTC
* ** * * **
10671 GCTGATTCAAAGCATTGTGAATCGAACAAAGGAAATATTAACCCCTCTGGTGGGGTGTTGTTGAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCATTGTTGAT
* * * *
10736 TCGAAGTATTGTGAATCGAGCAAAGGAAATGTTAATCCCTCTGGTGGGGCGTCGTTGATTCGAAG
66 TCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGAAG
** * *
10801 TGTTATGAATTTAGCAAAAGAAATCTTAACCCCTCTGGTGGGGCGTT
131 TGTTATGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* *
10848 GCTGATTCGAAGTATTATGAATCGAGCAATAGGAAATGTTAACCCC-CTTGGTGGGGCATTGTTG
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTTAACCCCTC-TGGTGGGGCATTGTTG
* *
10912 ATTCAAAGTGTTTTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGA
64 ATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGA
* *
10977 AGTGTTGTGAATCGAGCAATAGGAAATATTAACCCCTCTGGTGGGGCGTT
129 AGTGTTATGAATCGAGCAA-AGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * * **
11027 GTTGATTCAAAGTGTTGTGAATCAAGAAAAGGAAATGTTAACCCCTCTGGTGAAGCATTGTTGAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCATTGTTGAT
* * *
11092 TCGAAGTGTTGTGAATCGAGCGAAGGAAATGTTAACTCCTCTGGTGGGGCATTGCTGATTCGAAG
66 TCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGAAG
* * * * * *
11157 TGTTATGAATCGAGCGAAGGAAATGTTAATCTCTTTGGTTGGGTGTT
131 TGTTATGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * * **
11204 GCTGATTCGAAGCGTTGTGAATTGAGCAAAGGAAATGTTAACCCCTCTGGTGGCGTATTCCTGAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCATTGTTGAT
*
11269 TCGAAGTGTTGTGAATCGAGCAAAGGAAATGCTAACCCCTCTGGT-GGGCGTTGCTGATTCGAAG
66 TCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGAAG
*
11333 TGTTATGAATCGAGTAAAGGAAATGTTAA-CCCTCTGGTGGGGCGTT
131 TGTTATGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * *
11379 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCGTTGCTGAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCATTGTTGAT
* * * *
11444 TCGAAGTGTTGTGAATAGAGAAAAGGAAATGTTAACCCCTCTGGTGGGACATTGCTGATTCGAAG
66 TCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGAAG
*
11509 TGTTGTGAATCGA
131 TGTTATGAATCGA
11522 TCAATAGGTC
Statistics
Matches: 596, Mismatches: 73, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
175 113 0.19
176 74 0.12
177 146 0.24
178 211 0.35
179 52 0.09
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (177 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCATTGTTGAT
TCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATTCGAAG
TGTTATGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
Found at i:12562 original size:12 final size:12
Alignment explanation
Indices: 12542--12592 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
12532 TGAACCTCTC
12542 CTTTCTTTTTTTT
1 CTTT-TTTTTTTT
12555 C-TTTTTTTTTT
1 CTTTTTTTTTTT
* *
12566 CTCTTTTTTTCT
1 CTTTTTTTTTTT
*
12578 CTTTTTTTATTT
1 CTTTTTTTTTTT
12590 CTT
1 CTT
12593 AAGAGTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
11 9 0.28
12 22 0.69
13 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:12563 original size:11 final size:11
Alignment explanation
Indices: 12547--12592 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
12537 CTCTCCTTTC
12547 TTTTTTTTCTT
1 TTTTTTTTCTT
12558 TTTTTTTTCTCT
1 TTTTTTTTCT-T
*
12570 TTTTTTCTCTT
1 TTTTTTTTCTT
12581 TTTTTATTTCTT
1 TTTTT-TTTCTT
12593 AAGAGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:12563 original size:13 final size:13
Alignment explanation
Indices: 12542--12591 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 13
12532 TGAACCTCTC
12542 CTTTCTTTTTTT-T
1 CTTT-TTTTTTTCT
12555 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
12568 C---TTTTTTTCT
1 CTTTTTTTTTTCT
12578 CTTTTTTTATTTCT
1 CTTTTTTT-TTTCT
12592 TAAGAGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.31
12 7 0.22
13 10 0.31
14 5 0.16
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:12571 original size:22 final size:24
Alignment explanation
Indices: 12545--12591 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
12535 ACCTCTCCTT
12545 TCTTTTTTT-TCTTTTTTT-TTTC
1 TCTTTTTTTCTCTTTTTTTATTTC
12567 TCTTTTTTTCTCTTTTTTTATTTC
1 TCTTTTTTTCTCTTTTTTTATTTC
12591 T
1 T
12592 TAAGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.39
23 9 0.39
24 5 0.22
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (24 bp):
TCTTTTTTTCTCTTTTTTTATTTC
Found at i:12574 original size:21 final size:20
Alignment explanation
Indices: 12543--12585 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
12533 GAACCTCTCC
*
12543 TTTCTTTTTTTTCTTTTTTT
1 TTTCTTTTTTTTCTCTTTTT
12563 TTTCTCTTTTTTTCTCTTTTT
1 TTTCT-TTTTTTTCTCTTTTT
12584 TT
1 TT
12586 ATTTCTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTCTTTTTTTTCTCTTTTT
Found at i:16992 original size:19 final size:19
Alignment explanation
Indices: 16968--17004 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16958 TTGTGAACCA
16968 TTTAGGTCGGATTGCCTTC
1 TTTAGGTCGGATTGCCTTC
16987 TTTAGGTCGGATTGCCTT
1 TTTAGGTCGGATTGCCTT
17005 GGTGTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.19, G:0.27, T:0.43
Consensus pattern (19 bp):
TTTAGGTCGGATTGCCTTC
Found at i:20520 original size:31 final size:31
Alignment explanation
Indices: 20485--20547 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20475 CTTTGACTTA
20485 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
1 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
20516 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
1 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
20547 T
1 T
20548 AATGGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.03, G:0.38, T:0.37
Consensus pattern (31 bp):
TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
Found at i:27550 original size:31 final size:31
Alignment explanation
Indices: 27515--27637 Score: 219
Period size: 31 Copynumber: 4.0 Consensus size: 31
27505 CTTTGACTTA
27515 TGGAAGATGATAACGGTTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
27546 TGGAAGATGATAACGGTTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
*
27577 TGGAAGATGATAACGGCTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
* *
27608 TGGAAGATGATAAGGGTTAGGTGTCTTGGT
1 TGGAAGATGATAACGGTTATGTGTCTTGGT
27638 AAATGGTAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.37
Consensus pattern (31 bp):
TGGAAGATGATAACGGTTATGTGTCTTGGTT
Found at i:28390 original size:31 final size:32
Alignment explanation
Indices: 28336--28397 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
28326 AGTAAAATTT
**
28336 GGGGACCATTTTGTAATTATTG-AAAAGTTGG
1 GGGGACCATTTTACAATTATTGAAAAAGTTGG
28367 GGGGACCATTTTAACAATT-TTGAAAAAGTTG
1 GGGGACCATTTT-ACAATTATTGAAAAAGTTG
28398 TGAATGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (32 bp):
GGGGACCATTTTACAATTATTGAAAAAGTTGG
Found at i:30837 original size:22 final size:23
Alignment explanation
Indices: 30793--30841 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
30783 CTTGGTCGGG
30793 TTTGGGTTATTTTGTAAGAGGGT
1 TTTGGGTTATTTTGTAAGAGGGT
30816 TTTGGGTTATTTTGTAAG-GGGT
1 TTTGGGTTATTTTGTAAGAGGGT
30838 TTTG
1 TTTG
30842 TGTAATACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (23 bp):
TTTGGGTTATTTTGTAAGAGGGT
Found at i:31468 original size:12 final size:12
Alignment explanation
Indices: 31453--31496 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
31443 AATTATGGGA
*
31453 TTGATGATGGTC
1 TTGATGATGGTG
*
31465 TTGATGAAGGATG
1 TTGATGATGG-TG
*
31478 TTGATGATGTTG
1 TTGATGATGGTG
31490 TTGATGA
1 TTGATGA
31497 AATGAAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.41
Consensus pattern (12 bp):
TTGATGATGGTG
Found at i:35695 original size:8 final size:8
Alignment explanation
Indices: 35682--35725 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
35672 GAATCTTTTT
35682 TTTTCTTC
1 TTTTCTTC
35690 TTTTCTTC
1 TTTTCTTC
35698 TTTTCTTC
1 TTTTCTTC
*
35706 TTTT-GTC
1 TTTTCTTC
35713 TTTTCTTTC
1 TTTTC-TTC
35722 TTTT
1 TTTT
35726 TGCACTCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 6 0.19
8 20 0.62
9 6 0.19
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTCTTC
Found at i:37710 original size:55 final size:54
Alignment explanation
Indices: 37601--37978 Score: 393
Period size: 55 Copynumber: 6.9 Consensus size: 54
37591 TATACAGAAG
* * * ** * * *
37601 TTCATCAACTTATGATGAATTTCGTGGGT-TTCACACATAGTGCCTATATGGTGA
1 TTCATCAACTCATGATGAATTCCGAGAATATGCACACA-AGTGCCTGTACGGTGA
* * * * * *
37655 TTCATTAACTCATGATAAACTCCGAGGATTTGCACACAAGGTGCCTGTACAGTGA
1 TTCATCAACTCATGATGAATTCCGAGAATATGCACACAA-GTGCCTGTACGGTGA
* * * **
37710 TTCATCAACTCATGATGAATTCC-ATGAATATTCACGCGAATTGCCTGTAATGTGA
1 TTCATCAACTCATGATGAATTCCGA-GAATATGCACAC-AAGTGCCTGTACGGTGA
* * *
37765 TTCATCAACTCATGATGAATTCCGTGAATATGCACATGAAGTGCTTGTACGGTGA
1 TTCATCAACTCATGATGAATTCCGAGAATATGCACA-CAAGTGCCTGTACGGTGA
* * *
37820 TTCATCAACTCATGATGAATTCC-ATGAATATACACATGAAGTCCCTGTACGGTGA
1 TTCATCAACTCATGATGAATTCCGA-GAATATGCACA-CAAGTGCCTGTACGGTGA
* *
37875 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAGGTGCCTGTACGGTGA
1 TTCATCAACTCATGATGAATTCCGAGAATATGCACAC-AAGTGCCTGTACGGTGA
* *
37930 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGACTGTA
1 TTCATCAACTCATGATGAATTCCGAGAATATGCACAC-AAGTGCCTGTA
37979 GTACACATAG
Statistics
Matches: 275, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
54 24 0.09
55 249 0.91
56 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (54 bp):
TTCATCAACTCATGATGAATTCCGAGAATATGCACACAAGTGCCTGTACGGTGA
Found at i:37799 original size:110 final size:110
Alignment explanation
Indices: 37639--37978 Score: 466
Period size: 110 Copynumber: 3.1 Consensus size: 110
37629 TTTCACACAT
* * * * * * * *
37639 AGTGCCTATATGGTGATTCATTAACTCATGATAAACTCCGAGGATTTGCACACAAGGTGCCTGTA
1 AGTGCCTGTAAGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACAAGGTGCCTGTA
* * *
37704 CAGTGATTCATCAACTCATGATGAATTCCATGAATATTCACGCGA
66 CGGTGATTCATCAACTCATGATGAATTCCATGAATATACACACGA
* * * *
37749 ATTGCCTGTAATGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACATGAA-GTGCTTGT
1 AGTGCCTGTAAGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACA-CAAGGTGCCTGT
*
37813 ACGGTGATTCATCAACTCATGATGAATTCCATGAATATACACATGA
65 ACGGTGATTCATCAACTCATGATGAATTCCATGAATATACACACGA
* * *
37859 AGTCCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAGGTGCCTGTA
1 AGTGCCTGTAAGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACAAGGTGCCTGTA
* *
37924 CGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
66 CGGTGATTCATCAACTCATGATGAATTCCATGAATATACACACGA
*
37969 AGTGACTGTA
1 AGTGCCTGTA
37979 GTACACATAG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.00
110 197 0.99
111 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (110 bp):
AGTGCCTGTAAGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACAAGGTGCCTGTA
CGGTGATTCATCAACTCATGATGAATTCCATGAATATACACACGA
Found at i:37835 original size:165 final size:165
Alignment explanation
Indices: 37601--37972 Score: 464
Period size: 165 Copynumber: 2.3 Consensus size: 165
37591 TATACAGAAG
* * ** * * * * *
37601 TTCATCAACTTATGATGAATTTCGTGGGT-TTCACAC-ATAGTGCCTATATGGTGATTCATTAAC
1 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGA-AGTGCTTGTACGGTGATTCATCAAC
* * * *
37664 TCATGATAAACTCCGA-GGATTTGCACA-CAAGGTGCCTGTACAGTGATTCATCAACTCATGATG
65 TCATGATAAACTCC-ATGAATATACACATCAA-GTCCCTGTACAGTGATTCATCAACTCATGATG
* * * *
37727 AATTCCATGAATATTCACGCGAATTGCCTGTAATGTGA
128 AATTCCATGAATATGCACACGAAGTGCCTGTAAGGTGA
*
37765 TTCATCAACTCATGATGAATTCCGTGAATATGCACATGAAGTGCTTGTACGGTGATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCTTGTACGGTGATTCATCAACT
* * * *
37830 CATGATGAATTCCATGAATATACACATGAAGTCCCTGTACGGTGATTCATCAACTCATGATGAAT
66 CATGATAAACTCCATGAATATACACATCAAGTCCCTGTACAGTGATTCATCAACTCATGATGAAT
* * *
37895 TCCGTGAATATGCACACGAGGTGCCTGTACGGTGA
131 TCCATGAATATGCACACGAAGTGCCTGTAAGGTGA
37930 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTG
1 TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTG
37973 ACTGTAGTAC
Statistics
Matches: 178, Mismatches: 26, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
164 26 0.15
165 149 0.84
166 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (165 bp):
TTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCTTGTACGGTGATTCATCAACT
CATGATAAACTCCATGAATATACACATCAAGTCCCTGTACAGTGATTCATCAACTCATGATGAAT
TCCATGAATATGCACACGAAGTGCCTGTAAGGTGA
Found at i:38447 original size:22 final size:20
Alignment explanation
Indices: 38400--38455 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
38390 CGATGTTTCC
*
38400 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
*
38420 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
*
38442 TGGTATTGATACCC
1 TGGTATCGATACCC
38456 CCTTCTGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:38479 original size:95 final size:96
Alignment explanation
Indices: 38325--38531 Score: 231
Period size: 95 Copynumber: 2.2 Consensus size: 96
38315 ACTACAAGCC
* * * *
38325 TGGTACCGATACTTCTATACTATGGTACCAATACCCCCTTCAAGTATCAATACCAAAATTA-AGT
1 TGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCAAGTACCAATACCAAAATTAGA-T
*
38389 TCGATGTT-TCCTGGTATCGATA-CCCTTACCA
65 TCAATGTTAT-CTGGTATCGATACCCCTTACCA
*** ** * **
38420 TGGTATCGATACTACCATACTATGGTATTGATACCCCCTTCTGGTACCGATACTGAAATTAGATT
1 TGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCAAGTACCAATACCAAAATTAGATT
* *
38485 CAATGTTATTTGGTATCGATACCCCTTATCA
66 CAATGTTATCTGGTATCGATACCCCTTACCA
*
38516 TGGTATCAATACTACC
1 TGGTATCGATACTACC
38532 TCGTAGGTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
95 68 0.73
96 25 0.27
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (96 bp):
TGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCAAGTACCAATACCAAAATTAGATT
CAATGTTATCTGGTATCGATACCCCTTACCA
Found at i:39602 original size:412 final size:412
Alignment explanation
Indices: 38838--39662 Score: 1436
Period size: 412 Copynumber: 2.0 Consensus size: 412
38828 CTTTATCCCA
* * *
38838 TCTAATACTTCTAATCTCTCATTTGCCTCTATGACAAGTAAAATCTACCACAAAACCTCTATAAA
1 TCTAATACTTCTAATCTCTCATTTACCTCTATGAAAAGTAAAATCTACCACAAAACCTCCATAAA
*
38903 CACTCCTATATTAACATCTCGTTTTAAAACCCATTTTATAAAATCCCCTCTATTTCTTCCATTTC
66 CACTCCTATATTAACATCTCGTTTAAAAACCCATTTTATAAAATCCCCTCTATTTCTTCCATTTC
* *
38968 TTAGTTTTAGTCTCATTTAATGCTTCCTTAAGCTTCTATACCACTTAAGGTTGTAAAAAAAAACT
131 TTAGTTTTAATCTCATTTAATGCTTCCTTAAGATTCTATACCACTTAAGGTTGTAAAAAAAAACT
*
39033 CATAATCAACCTAAAAAACTAATCAATTGAAACTTACTTTTGGGATCTATGGAGAAGCTTATCAC
196 CATAATCAACCTAAAAAACTAATCAATTGAAACTTACTTTTGGGAGCTATGGAGAAGCTTATCAC
* *
39098 GTGAAAGAATAAGAAGACGAAAGAGTTTTTGGTTGATAACCACTTTCTCCTTTTTCCCTTACCTT
261 GTGAAAGAAGAAGAAGACGAAAGAGTTTTTGGTTGATAACCACTTTCCCCTTTTTCCCTTACCTT
39163 TTATGTCTTATAAAATAAGAATTTTAAATTCATATTTCTTTAAAGGACTAAAATGCCCTCTAAAC
326 TTATGTCTTATAAAATAAGAATTTTAAATTCATATTTCTTTAAAGGACTAAAATGCCCTCTAAAC
39228 CATCCCTTATTACAATTTAGTC
391 CATCCCTTATTACAATTTAGTC
* * *
39250 TCTAATACTTTTAATCTCTCATTTACCTCTATGAAAAGTCAAATCTACCATAAAACCTCCATAAA
1 TCTAATACTTCTAATCTCTCATTTACCTCTATGAAAAGTAAAATCTACCACAAAACCTCCATAAA
39315 CACTCCTATATTAACATCTCGTTTAAAAACCCATTTTATAAAATCCCCTCTATTTCTTCCATTTC
66 CACTCCTATATTAACATCTCGTTTAAAAACCCATTTTATAAAATCCCCTCTATTTCTTCCATTTC
**
39380 TTAGTTTTAATCTCATTTAATGCTTCCTTAAGATTCTATACCACTTAAGGTTGT-AAAATTAACT
131 TTAGTTTTAATCTCATTTAATGCTTCCTTAAGATTCTATACCACTTAAGGTTGTAAAAAAAAACT
* *
39444 CATAATCAACCTGAAAAACTAATCAATTGAAACTTTCTTTTGGGAGCTATGGAGGAAGCTTATCA
196 CATAATCAACCTAAAAAACTAATCAATTGAAACTTACTTTTGGGAGCTATGGA-GAAGCTTATCA
* * *
39509 CGTGAAAGAAGAAGAAGAGGAAAGAGTTTTTGGTTGATATCCACTTTCCCCTTTTTCCCTTATCT
260 CGTGAAAGAAGAAGAAGACGAAAGAGTTTTTGGTTGATAACCACTTTCCCCTTTTTCCCTTACCT
* *
39574 TTTATGTCTTATAAAATAAGAATTTTAAATTCATTTTTCTTTAAAGGACTAAAATTCCCTCTAAA
325 TTTATGTCTTATAAAATAAGAATTTTAAATTCATATTTCTTTAAAGGACTAAAATGCCCTCTAAA
*
39639 CCATCCCTTGTTACAATTTAGTC
390 CCATCCCTTATTACAATTTAGTC
39662 T
1 T
39663 AATTCACTAA
Statistics
Matches: 390, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
411 58 0.15
412 332 0.85
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (412 bp):
TCTAATACTTCTAATCTCTCATTTACCTCTATGAAAAGTAAAATCTACCACAAAACCTCCATAAA
CACTCCTATATTAACATCTCGTTTAAAAACCCATTTTATAAAATCCCCTCTATTTCTTCCATTTC
TTAGTTTTAATCTCATTTAATGCTTCCTTAAGATTCTATACCACTTAAGGTTGTAAAAAAAAACT
CATAATCAACCTAAAAAACTAATCAATTGAAACTTACTTTTGGGAGCTATGGAGAAGCTTATCAC
GTGAAAGAAGAAGAAGACGAAAGAGTTTTTGGTTGATAACCACTTTCCCCTTTTTCCCTTACCTT
TTATGTCTTATAAAATAAGAATTTTAAATTCATATTTCTTTAAAGGACTAAAATGCCCTCTAAAC
CATCCCTTATTACAATTTAGTC
Found at i:41512 original size:30 final size:30
Alignment explanation
Indices: 41476--41532 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
41466 TTCTAGGATA
**
41476 AAATTGATATTTTATTTAAAGTTTAAGTTT
1 AAATTGATATTTTATCAAAAGTTTAAGTTT
41506 AAATTGATATTTTATCAAAAGTTTAAG
1 AAATTGATATTTTATCAAAAGTTTAAG
41533 GGTGAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (30 bp):
AAATTGATATTTTATCAAAAGTTTAAGTTT
Found at i:41934 original size:2 final size:2
Alignment explanation
Indices: 41927--41958 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41917 TATAAAATTA
41927 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
41959 TTTATAAAAA
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:43786 original size:54 final size:52
Alignment explanation
Indices: 43688--43910 Score: 182
Period size: 49 Copynumber: 4.4 Consensus size: 52
43678 AAGCTTAATG
* *
43688 CCATTGGAATGTGTTTGA-T-TA-TATAATTTAG-CTCTCATCCGATTATCA
1 CCATTGGAATGTGTGTGATTGTATTATAATTTAGTTTCTCATCCGATTATCA
*
43736 CCATTGGAATGTGTGTGATTGTATTGTATAATTTAGTTTCTCATCAGATTATC-
1 CCATTGGAATGTGTGTGATTGTA-T-TATAATTTAGTTTCTCATCCGATTATCA
* *** * *
43789 CCTATGGGAATGCAAGTGA-T-TATT-TAATTTAGTTCCTCATCCGGTTATCA
1 CC-ATTGGAATGTGTGTGATTGTATTATAATTTAGTTTCTCATCCGATTATCA
* * * * *
43839 CCATTAGAATGTGTATGATTG-A-T-TAATTTAGTTTCTAATCCAATTACTGA
1 CCATTGGAATGTGTGTGATTGTATTATAATTTAGTTTCTCATCCGATTA-TCA
* *
43889 -CATTGGAATGTGGGTGGTTGTA
1 CCATTGGAATGTGTGTGATTGTA
43911 CCATTTGGAG
Statistics
Matches: 138, Mismatches: 25, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
48 17 0.12
49 69 0.50
50 10 0.07
51 1 0.01
52 2 0.01
53 13 0.09
54 26 0.19
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (52 bp):
CCATTGGAATGTGTGTGATTGTATTATAATTTAGTTTCTCATCCGATTATCA
Found at i:44814 original size:20 final size:20
Alignment explanation
Indices: 44791--44853 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
44781 ATCTAAATTC
44791 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
* **
44811 TAAACATATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
44834 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
44854 AATAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 5 0.15
23 13 0.39
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:45009 original size:24 final size:27
Alignment explanation
Indices: 44948--45001 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
44938 CCAATATATA
*
44948 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
44975 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
45002 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:47228 original size:138 final size:138
Alignment explanation
Indices: 47040--47435 Score: 417
Period size: 138 Copynumber: 2.9 Consensus size: 138
47030 CCTAAAAGAA
* * ** * *
47040 TAAACTTAAAATGAAGGCT-TTAATATTAAATTAATC-ATCTTTAATGAATTATTGAGTCAAATA
1 TAAACATAAAATGAAGGCTCTAAATATTAACCTAATCAAT-TTTAATCAATTATTGATTCAAATA
* *
47103 GTTAAAATGGAACCTCAAGCAAAAGCAAGGACCAAATAAAAAATTCTCCTAAATTAAAGGATTAA
65 ATTAAAATGGAACCTCAAGCAAAAGCAAGGACCAAATAAAAAATTCTCCTAAATTAAAGGACTAA
*
47168 GTTTGAAAT
130 ATTTGAAAT
* * * * **
47177 TAAACCTAAAATGGAGGCTCTAAATATTAACCTAGTCAATTTTAATTAATTATTGATTTGAATAA
1 TAAACATAAAATGAAGGCTCTAAATATTAACCTAATCAATTTTAATCAATTATTGATTCAAATAA
** * *
47242 TTAAAATGGAACCTTGAGCAAAAGCAAGGACCAAATTAAGAATTCTCCTAAATTAAAGGACTAAA
66 TTAAAATGGAACCTCAAGCAAAAGCAAGGACCAAATAAAAAATTCTCCTAAATTAAAGGACTAAA
47307 TTTGAAAT
131 TTTGAAAT
* * * * *
47315 TAAA-AAAAAATGAAGGATCTAAATATTAGCCTATTCAA--TTAATCAATTATTAATTCAAATAA
1 TAAACATAAAATGAAGGCTCTAAATATTAACCTAATCAATTTTAATCAATTATTGATTCAAATAA
* * * * * * * * *
47377 AT-AATTCAGAACCTCGAGCATAACTGCGAGGACCAAATCAAATATTCTTCTAAATTAAA
66 TTAAAAT-GGAACCTCAAGCA-AA-AGCAAGGACCAAATAAAAAATTCTCCTAAATTAAA
47436 ATAGTTTAGG
Statistics
Matches: 217, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
134 3 0.01
135 32 0.15
136 2 0.01
137 74 0.34
138 104 0.48
139 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.30
Consensus pattern (138 bp):
TAAACATAAAATGAAGGCTCTAAATATTAACCTAATCAATTTTAATCAATTATTGATTCAAATAA
TTAAAATGGAACCTCAAGCAAAAGCAAGGACCAAATAAAAAATTCTCCTAAATTAAAGGACTAAA
TTTGAAAT
Found at i:47757 original size:29 final size:28
Alignment explanation
Indices: 47687--47764 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
47677 ATTTAAAGAA
*
47687 CTGAAATATAAATGCTAAAATGTAAAGG
1 CTGAAATATAAATACTAAAATGTAAAGG
* *
47715 -TAGAAATTAAAAATACATTAAAT-TAAAGGG
1 CT-GAAA-TATAAATAC-TAAAATGTAAA-GG
*
47745 CTGAAATATAAATAATAAAA
1 CTGAAATATAAATACTAAAA
47765 ATAAGTCAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
27 1 0.03
28 8 0.21
29 18 0.46
30 11 0.28
31 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (28 bp):
CTGAAATATAAATACTAAAATGTAAAGG
Found at i:49542 original size:20 final size:20
Alignment explanation
Indices: 49517--49574 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
49507 ATCATATTCC
49517 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
49537 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
*
49557 CTGGTAATCTTATATTCC
1 CTGGTAATCTTACATTCC
49575 ATGAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:51179 original size:138 final size:137
Alignment explanation
Indices: 50901--51268 Score: 402
Period size: 138 Copynumber: 2.7 Consensus size: 137
50891 AACCCTAATT
* * * * * * *
50901 AATTCTTAACCAATTATTGAATCGAATAATTAAAATGGAACCTCGAGCAAAAGCAAGGACCAAAT
1 AATT-TTAATCAATTATTGAATCAAATAATTAAAA-CGAACCTCGAGCAAAAACGATGACTAAAT
* * * * * * * * * *
50966 T-AAGATTTCTCTAAATTAAAGGACTAATTATGAAATTGAGCCTAAAGTGGAGGTTTTGATTATT
64 TAAAAATTCCCCTAAATTAAAGGACTAATTATGAAATTAAACCTAAAATGGAGCTTCTAAATATT
*
51030 AACCTAGTC
129 AACCTACTC
* *
51039 AATTTTAATCAATTATTGAATCAAATAATTAAAACGAATCCTCGTGCAAAAACGATGACTGAATT
1 AATTTTAATCAATTATTGAATCAAATAATTAAAACGAA-CCTCGAGCAAAAACGATGACTAAATT
51104 AAAAATTCCCCCT-AATTAAAGGACTAAGTT-TGAAATTAAACCTAAAATGGAGCTTCTAAATAT
65 AAAAATT-CCCCTAAATTAAAGGACTAA-TTATGAAATTAAACCTAAAATGGAGCTTCTAAATAT
*
51167 TGACCTACTC
128 TAACCTACTC
* * * * *
51177 AATTTTAATCAACTATTTATTCAAATAATTAAAATGGAGCCTCGAGCAAAATA-GATGACTAAAT
1 AATTTTAATCAATTATTGAATCAAATAATTAAAA-CGAACCTCGAGCAAAA-ACGATGACTAAAT
*
51241 TAAAAATTCTCCTAAATTAAAGGACTAA
64 TAAAAATTCCCCTAAATTAAAGGACTAA
51269 ATTAAAATGA
Statistics
Matches: 194, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
136 3 0.02
137 52 0.27
138 131 0.68
139 8 0.04
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (137 bp):
AATTTTAATCAATTATTGAATCAAATAATTAAAACGAACCTCGAGCAAAAACGATGACTAAATTA
AAAATTCCCCTAAATTAAAGGACTAATTATGAAATTAAACCTAAAATGGAGCTTCTAAATATTAA
CCTACTC
Found at i:51605 original size:29 final size:28
Alignment explanation
Indices: 51555--51609 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
51545 TAAAGAAAAA
51555 TTGGAAATTAAGGGATTAAAATGTAAATG
1 TTGGAAATTAAGGGATTAAAAT-TAAATG
*
51584 TTGGAAATTTAAGGG-TTGAAATTAAA
1 TTGGAAA-TTAAGGGATTAAAATTAAA
51610 AATACCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.33
Consensus pattern (28 bp):
TTGGAAATTAAGGGATTAAAATTAAATG
Found at i:51650 original size:30 final size:30
Alignment explanation
Indices: 51588--51651 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
51578 TAAATGTTGG
* *
51588 AAATTTAAGGGTTGAAATTAAAAATACCAA
1 AAATTAAAGGGTTGAAATTAAAAATACAAA
*
51618 AAATTAAAGGGTTGAAATGTAAATA-ACAAA
1 AAATTAAAGGGTTGAAAT-TAAAAATACAAA
51648 AAAT
1 AAAT
51652 AAACAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.25
Consensus pattern (30 bp):
AAATTAAAGGGTTGAAATTAAAAATACAAA
Found at i:53353 original size:44 final size:43
Alignment explanation
Indices: 53296--53484 Score: 144
Period size: 44 Copynumber: 4.3 Consensus size: 43
53286 GCTGATCTAA
*
53296 CTCCTTCTGTGATGGAATCGAGCAAAATGAAAATGTTGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCAAAAAG-AAATGTTGATCCAC
* * * * *** *
53340 CTCCTTCTTTGATGAAATTGAACAAAATATTGATGTTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCAAAA-AGAAATGTTGATCCAC
* * * * ** * *
53384 CTCCTTCTATGATAGAATCGGGTAAAAGAGTGATGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCAAAA-AGAAATGTTGATCCAC
* * *
53428 CTCCTTATGTGATGGAATCTAGCAAAAAAGGAATGTTGATCCAC
1 CTCCTTCTGTGATGGAATCGAGC-AAAAAGAAATGTTGATCCAC
* *
53472 CTCATTATGTGAT
1 CTCCTTCTGTGAT
53485 ATAATCCAAT
Statistics
Matches: 111, Mismatches: 32, Indels: 4
0.76 0.22 0.03
Matches are distributed among these distances:
44 107 0.96
45 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (43 bp):
CTCCTTCTGTGATGGAATCGAGCAAAAAGAAATGTTGATCCAC
Found at i:71808 original size:30 final size:32
Alignment explanation
Indices: 71723--71812 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
71713 AGAGTTGAGG
71723 GTTACCTATGTTCTTTGGGACATATGGACAAT
1 GTTACCTATGTTCTTTGGGACATATGGACAAT
* * *
71755 ATTACCTATGTCCTTCGGGACATATGGAC-A-
1 GTTACCTATGTTCTTTGGGACATATGGACAAT
* *
71785 GTTACCTATGTTCTTTAGAACATATGGA
1 GTTACCTATGTTCTTTGGGACATATGGA
71813 TAGGTCATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
30 23 0.46
31 1 0.02
32 26 0.52
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (32 bp):
GTTACCTATGTTCTTTGGGACATATGGACAAT
Found at i:77134 original size:7 final size:7
Alignment explanation
Indices: 77090--77194 Score: 61
Period size: 7 Copynumber: 14.4 Consensus size: 7
77080 TACTACACTT
77090 GAAGAAA
1 GAAGAAA
77097 TGAA-AAA
1 -GAAGAAA
77104 GAGAGAAAA
1 GA-AG-AAA
* *
77113 TAATAAA
1 GAAGAAA
77120 GCAAGAAA
1 G-AAGAAA
77128 GAAGAAAA
1 GAAG-AAA
77136 GGAAGAAA
1 -GAAGAAA
*
77144 AAAGAAA
1 GAAGAAA
*
77151 AAAGAAA
1 GAAGAAA
*
77158 AAAGAAA
1 GAAGAAA
*
77165 AAAGAAA
1 GAAGAAA
*
77172 AAAGAAA
1 GAAGAAA
* *
77179 AAAGAGA
1 GAAGAAA
77186 GAA-AAA
1 GAAGAAA
77192 GAA
1 GAA
77195 ATAAAAAGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
6 7 0.08
7 52 0.63
8 16 0.19
9 8 0.10
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (7 bp):
GAAGAAA
Found at i:77188 original size:78 final size:77
Alignment explanation
Indices: 77099--77249 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
77089 TGAAGAAATG
* * *
77099 AAAAAGAGAG-AAAA-TAATAAAGCAAGAAAGAAGAAAAGGAAGAAAAAAGAAAAAAGAAAAAAG
1 AAAAAGAGAGAAAAAGAAATAAA--AAGAAAGAAAAAAAAGAA-AAAAAAGAAAAAAGAAAAAAG
77162 AAAAAAGAAAAAAGA
63 AAAAAAGAAAAAAGA
* * * *
77177 AAAAAGAGAGAAAAAGAAATAAAAAGAAATAAAAAAAAGAAAAAAAAGAGAAAAGAGAAAAGGAA
1 AAAAAGAGAGAAAAAGAAATAAAAAGAAAGAAAAAAAAGAAAAAAAAGAAAAAAGAAAAAAGAAA
*
77242 AAGGAAAA
66 AAAGAAAA
77250 GGGTGTCCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
77 28 0.44
78 25 0.40
79 4 0.06
80 6 0.10
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (77 bp):
AAAAAGAGAGAAAAAGAAATAAAAAGAAAGAAAAAAAAGAAAAAAAAGAAAAAAGAAAAAAGAAA
AAAGAAAAAAGA
Found at i:77221 original size:7 final size:7
Alignment explanation
Indices: 77122--77249 Score: 109
Period size: 7 Copynumber: 18.0 Consensus size: 7
77112 ATAATAAAGC
*
77122 AAGAAAG
1 AAGAAAA
77129 AAGAAAA
1 AAGAAAA
77136 GGAAGAAAA
1 --AAGAAAA
77145 AAGAAAA
1 AAGAAAA
77152 AAGAAAA
1 AAGAAAA
77159 AAGAAAA
1 AAGAAAA
77166 AAGAAAA
1 AAGAAAA
77173 AAGAAAA
1 AAGAAAA
*
77180 AAGAGAGA
1 AAGA-AAA
*
77188 AA-AAGA
1 AAGAAAA
*
77194 AA-TAAA
1 AAGAAAA
77200 AAGAAATA
1 AAGAAA-A
77208 AA-AAAA
1 AAGAAAA
*
77214 AGAAAAAA
1 A-AGAAAA
*
77222 AAGAGAA
1 AAGAAAA
*
77229 AAGAGAA
1 AAGAAAA
*
77236 AAGGAAA
1 AAGAAAA
*
77243 AGGAAAA
1 AAGAAAA
77250 GGGTGTCCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
6 11 0.11
7 73 0.71
8 12 0.12
9 7 0.07
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:77238 original size:56 final size:54
Alignment explanation
Indices: 77125--77238 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
77115 ATAAAGCAAG
* *
77125 AAAGAAGAAAAGGAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAGAAGAAAAAGAAGAAAAAAGAAAAAAGAAAAAAAAAAAAAGAAAAAAGAAA
* *
77179 AAAGAGAGAAAAAGAA-ATAAAAAGAAATAAA-AAAAAGAAAAAAAAGAGAAAAGAGA
1 AAAGA-AGAAAAAGAAGA-AAAAAGAAA-AAAGAAAAA-AAAAAAAAGAAAAAAGAAA
77235 AAAG
1 AAAG
77239 GAAAAGGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
54 6 0.12
55 23 0.44
56 23 0.44
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (54 bp):
AAAGAAGAAAAAGAAGAAAAAAGAAAAAAGAAAAAAAAAAAAAGAAAAAAGAAA
Found at i:77793 original size:2 final size:2
Alignment explanation
Indices: 77788--77815 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77778 AAAAATGTCA
77788 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
77816 GTAAAGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77830 original size:10 final size:9
Alignment explanation
Indices: 77814--77852 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
77804 ATATATATAT
77814 ATGTAAAGA
1 ATGTAAAGA
77823 ATGATAAAGA
1 ATG-TAAAGA
77833 ATGTAAA-A
1 ATGTAAAGA
*
77841 ATGTATAGA
1 ATGTAAAGA
77850 ATG
1 ATG
77853 ATTACCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 7 0.26
9 11 0.41
10 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (9 bp):
ATGTAAAGA
Found at i:77838 original size:19 final size:17
Alignment explanation
Indices: 77814--77852 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
77804 ATATATATAT
77814 ATGTAAAGAATGATAAAGA
1 ATGTAAA-AATG-TAAAGA
*
77833 ATGTAAAAATGTATAGA
1 ATGTAAAAATGTAAAGA
77850 ATG
1 ATG
77853 ATTACCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (17 bp):
ATGTAAAAATGTAAAGA
Found at i:80244 original size:20 final size:21
Alignment explanation
Indices: 80190--80249 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
80180 TGAACCATTT
80190 TAAACCGATCTGAGTCAACTCG
1 TAAACCGATCTGAGTCAAC-CG
* * *
80212 T--ACTGAACCGAGTCAACC-
1 TAAACCGATCTGAGTCAACCG
80230 TAAACCGATCTGAGTCAACC
1 TAAACCGATCTGAGTCAACC
80250 CCAACCAGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 27 0.90
22 1 0.03
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (21 bp):
TAAACCGATCTGAGTCAACCG
Found at i:84767 original size:17 final size:17
Alignment explanation
Indices: 84736--84769 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84726 TGACTTTAAC
*
84736 CAAAAAGTTAAATTTTA
1 CAAAAAGTCAAATTTTA
*
84753 CAAAAAGTCATATTTTA
1 CAAAAAGTCAAATTTTA
84770 TGTTTTTTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTA
Found at i:86499 original size:130 final size:131
Alignment explanation
Indices: 86266--86570 Score: 454
Period size: 130 Copynumber: 2.4 Consensus size: 131
86256 GCACGAGGGT
* * *
86266 TCATTTATTCTCGATTGGAAATAATTAGATATTATC--GTTCTCTTAAACCAATATTGATTTTTA
1 TCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCAAACCAATATTGATATTTA
* * *
86329 AGATGAAATAGTGATATTTCTTCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATAAGAG
66 AGACGAAATAGTGATATCTCTTCATTTCGATTCGAGTAATAAATGACTACTTTAAGGCATAAGAG
86394 G
131 G
* * * *
86395 TCATTTATTCTCAATTGGAAATAATTAGTTATTATCATTTTCTCTCGAATCAATATTGA-ATTTA
1 TCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCAAACCAATATTGATATTTA
* **
86459 AGACGAAATAGTGATATCTCTTCATTTCGATTCGAGTAATAAATGACTGCTTTAAGGCATGGGAG
66 AGACGAAATAGTGATATCTCTTCATTTCGATTCGAGTAATAAATGACTACTTTAAGGCATAAGAG
86524 G
131 G
* *
86525 TCATTTATTCTCGTTTCGAAATAATTAGATATTATCATTTTCTCTC
1 TCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTC
86571 TTAGTGCTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
129 34 0.22
130 106 0.68
131 17 0.11
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (131 bp):
TCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCAAACCAATATTGATATTTA
AGACGAAATAGTGATATCTCTTCATTTCGATTCGAGTAATAAATGACTACTTTAAGGCATAAGAG
G
Found at i:89633 original size:19 final size:19
Alignment explanation
Indices: 89588--89629 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
89578 TATTTGACTT
* *
89588 TATTTATAATTTTTACATA
1 TATTTATAATTTTAAAATA
89607 TATTTATAATTTTAAAAT-
1 TATTTATAATTTTAAAATA
89625 TATTT
1 TATTT
89630 TATATGTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATAATTTTAAAATA
Found at i:90426 original size:81 final size:82
Alignment explanation
Indices: 90338--90517 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 82
90328 AGTCATTTTC
** * * *
90338 AGATTTGATGTCATCAAATGTAGGAAAAAATCATCTAAATGCGACTAGACA-TCCTCAACATGAA
1 AGATTTGACATCATCAAAAGAAGGAAAAAATCATCCAAATGCGACTAGA-AGTCCTCAACATGAA
*
90402 GCAACAATGTCGTCAACA
65 GCAACAATGTCATCAACA
* ** * *
90420 A-ATTTGACATCCTCAAAAGAAGGAGCAAATCATCCGAATGTGACTAGAAGTCCTCAACATGAAG
1 AGATTTGACATCATCAAAAGAAGGAAAAAATCATCCAAATGCGACTAGAAGTCCTCAACATGAAG
*
90484 GAACAATGTCATCAACA
66 CAACAATGTCATCAACA
*
90501 AGATTT-ACATCCTCAAA
1 AGATTTGACATCATCAAA
90518 CAAGAGAATG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 78 0.93
82 5 0.06
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.22
Consensus pattern (82 bp):
AGATTTGACATCATCAAAAGAAGGAAAAAATCATCCAAATGCGACTAGAAGTCCTCAACATGAAG
CAACAATGTCATCAACA
Found at i:90516 original size:40 final size:40
Alignment explanation
Indices: 90386--90516 Score: 99
Period size: 40 Copynumber: 3.2 Consensus size: 40
90376 ATGCGACTAG
* *
90386 ACATCCTCAACATGAAGCAACAATGTCGTCAACAA-ATTT
1 ACATCCTCAACATGAAGGAACAATGTCATCAACAAGATTT
* * * *** *
90425 GACATCCTCAA-AAGAAGGAGCAA-ATCATCCGAATGTGA-CT
1 -ACATCCTCAACATGAAGGAACAATGTCAT-C-AACAAGATTT
*
90465 AGAAGTCCTCAACATGAAGGAACAATGTCATCAACAAGATTT
1 A-CA-TCCTCAACATGAAGGAACAATGTCATCAACAAGATTT
90507 ACATCCTCAA
1 ACATCCTCAA
90517 ACAAGAGAAT
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
38 3 0.05
39 11 0.17
40 21 0.32
41 13 0.20
42 13 0.20
43 4 0.06
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (40 bp):
ACATCCTCAACATGAAGGAACAATGTCATCAACAAGATTT
Found at i:90532 original size:81 final size:81
Alignment explanation
Indices: 90359--90575 Score: 230
Period size: 81 Copynumber: 2.7 Consensus size: 81
90349 CATCAAATGT
* * * * *
90359 AGGAAAAAATCATCTAAATGCGACTAGACA-TCCTCAACATGAAGCAACAATGTCGTCAACAAAT
1 AGGAGAAAATCATCTGAATGTGACTAGA-AGTCCTCAACATGAAGGAACAATGTCATCAACAAAT
*
90423 TTGACATCCTCAAAAGA
65 TTGACATCCTCAAAACA
* *
90440 AGGAGCAAATCATCCGAATGTGACTAGAAGTCCTCAACATGAAGGAACAATGTCATCAACAAGAT
1 AGGAGAAAATCATCTGAATGTGACTAGAAGTCCTCAACATGAAGGAACAATGTCATCAACAA-AT
90505 TT-ACATCCTC-AAACA
65 TTGACATCCTCAAAACA
* ** * *
90520 A-GAGAATGAATCAT-TGAAATATGA-TTCATGTCCTCAACGTGAAGGAACAATGTCAT
1 AGGAGAA--AATCATCTG-AATGTGACTAGAAGTCCTCAACATGAAGGAACAATGTCAT
90576 TTTCAATTTG
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
79 4 0.03
80 35 0.30
81 73 0.63
82 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (81 bp):
AGGAGAAAATCATCTGAATGTGACTAGAAGTCCTCAACATGAAGGAACAATGTCATCAACAAATT
TGACATCCTCAAAACA
Found at i:93594 original size:21 final size:21
Alignment explanation
Indices: 93569--93621 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
93559 ATGCATGCTT
93569 ATGATAGAATAGAATGTATAA
1 ATGATAGAATAGAATGTATAA
93590 ATGATAGAATAGAATGTATAA
1 ATGATAGAATAGAATGTATAA
93611 ATGATAGAATA
1 ATGATAGAATA
93622 TAAGATAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGATAGAATAGAATGTATAA
Found at i:99126 original size:140 final size:137
Alignment explanation
Indices: 98918--99325 Score: 468
Period size: 137 Copynumber: 2.9 Consensus size: 137
98908 AGCTTAGGGG
* * * * *
98918 ATTAAACCTAAAAATGTAGGATCT-AATATTAACCAATTCAATTCTTAACCAATTATTGAATTGA
1 ATTAAACCT-AAAATGGAGGCTCTAAATATTAACCTATTCAATT-TTAATCAATTATTGAATCGA
* *
98982 ATAATTAAAAT-AGAACCTTGAGCAAAAGCGATGAACAAATTAAGAATTC-CCTAAATTAAAGGA
64 ATAATTAAAATGA-AACCTCGAGCAAAAGCGATGAACAAATTAAAAATTCACCTAAATTAAAGGA
*
99045 CTAGTTATGAA
128 CTAGTT-TAAA
* * * * * * *
99056 ATTGAGCCTAAAGTGGAGGTTCTAATTATTATTAACCTAGTCAATTTTAATAAATTATTTAATCG
1 ATTAAACCTAAAATGGAGGCTCTAA--A-TATTAACCTATTCAATTTTAATCAATTATTGAATCG
* * * * *
99121 AATAATTAAAACGAAACCTCAAGCAAAAGCGATGACCATATTAAAAATTCCACCT-AAGTAAAGG
63 AATAATTAAAATGAAACCTCGAGCAAAAGCGATGAACAAATTAAAAATT-CACCTAAATTAAAGG
99185 -CTAAGTTTAAA
127 ACT-AGTTTAAA
* *
99196 ATTAAACCTAAAATGGAGGCTCTAAATATTATCCTATTCAATTTTAATCAATTATTGATTCGAAT
1 ATTAAACCTAAAATGGAGGCTCTAAATATTAACCTATTCAATTTTAATCAATTATTGAATCGAAT
* *
99261 AATTAAAATGAAACCTCGAGCAAAAGCGA-GAACCAAATTAAAAATTCTCCAAAATTAAAGGACT
66 AATTAAAATGAAACCTCGAGCAAAAGCGATGAA-CAAATTAAAAATTCACCTAAATTAAAGGACT
99325 A
130 A
99326 AATTAAAAAG
Statistics
Matches: 224, Mismatches: 35, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
136 5 0.02
137 93 0.42
138 11 0.05
140 83 0.37
141 29 0.13
142 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (137 bp):
ATTAAACCTAAAATGGAGGCTCTAAATATTAACCTATTCAATTTTAATCAATTATTGAATCGAAT
AATTAAAATGAAACCTCGAGCAAAAGCGATGAACAAATTAAAAATTCACCTAAATTAAAGGACTA
GTTTAAA
Found at i:99657 original size:29 final size:28
Alignment explanation
Indices: 99609--99663 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
99599 ATAAGAAAAA
*
99609 CTGGAAATTAAGGGATTAAAATGTAAATG
1 CTGGAAATTAAGGGACTAAAAT-TAAATG
99638 CTGGAAATTTAAGGG-CTAAAATTAAA
1 CTGGAAA-TTAAGGGACTAAAATTAAA
99664 AATACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.27
Consensus pattern (28 bp):
CTGGAAATTAAGGGACTAAAATTAAATG
Found at i:104676 original size:138 final size:136
Alignment explanation
Indices: 104310--104727 Score: 452
Period size: 138 Copynumber: 3.0 Consensus size: 136
104300 AGATTAGGGG
** * * *
104310 ATTAAACCTAAAAATATAGGATCT-AATATTAACCAATTCAATTCTTAACCAATTATTGAATT-G
1 ATTAAACCT-AAAATGGAGGATCTAAATATTAACCTATTC-ATTTTTAATCAATTATTG-ATTCG
* * * *
104373 AATAATTAAAAT-AGAACCTTGAGCAAAAGCGAGGAACAAATTAAGAATTCCCTAAACTAAAGGA
63 AATAATTAAAATGA-AACCTCGAGCAAAAGCGA-GACCAAATTAAAAATTCCCTAAATTAAAGGA
*
104437 CTAATTATGAA
126 CTAATTATAAA
* * * * * * * *
104448 ATTAAACCTAAAGTGGAGGTTCTAATTATTATTAACATAGTCAATTTTAATAAATTATTTAATCG
1 ATTAAACCTAAAATGGAGGATCTAA--A-TATTAACCTATTCATTTTTAATCAATTATTGATTCG
* *
104513 AATAATTAAAAAGAAACCTCAAGCAAAAGCGATGACCAAATTAAAAATTCCACCT-AATTAAAGG
63 AATAATTAAAATGAAACCTCGAGCAAAAGCGA-GACCAAATTAAAAATT-C-CCTAAATTAAAGG
104577 ACTAAGTT-TAAA
125 ACTAA-TTATAAA
* * *
104589 ATTAAACCTAAAATGGAGGCTCTAAATATTATCCTATTCATTTTTAATCAATTATTGATTCAAAT
1 ATTAAACCTAAAATGGAGGATCTAAATATTAACCTATTCATTTTTAATCAATTATTGATTCGAAT
104654 AATTAAAATGAAACCTCGAGCAAAAGCGAGAACCAAATTAAAAATTCTCCTAAATTAAAGGACTA
66 AATTAAAATGAAACCTCGAGCAAAAGCGAG-ACCAAATTAAAAATTC-CCTAAATTAAAGGACT-
104719 AATTA-AAA
128 AATTATAAA
104727 A
1 A
104728 GAATCTAAAT
Statistics
Matches: 233, Mismatches: 34, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
137 15 0.06
138 101 0.43
139 5 0.02
140 56 0.24
141 51 0.22
142 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (136 bp):
ATTAAACCTAAAATGGAGGATCTAAATATTAACCTATTCATTTTTAATCAATTATTGATTCGAAT
AATTAAAATGAAACCTCGAGCAAAAGCGAGACCAAATTAAAAATTCCCTAAATTAAAGGACTAAT
TATAAA
Found at i:105049 original size:29 final size:29
Alignment explanation
Indices: 104998--105086 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
104988 ATAAAGAAAA
*
104998 ACTAGAAA-TTAAGGGATTAAAATGTAAAT
1 ACTAGAAATTTAAGGG-TTGAAATGTAAAT
* *
105027 GCTAGAAATTTAAGGGCTGAAAT-TAAAAAT
1 ACTAGAAATTTAAGGGTTGAAATGT--AAAT
* * *
105057 ACAAAAAATTAAAGGGTTGAAATGTAAAT
1 ACTAGAAATTTAAGGGTTGAAATGTAAAT
105086 A
1 A
105087 ATTGAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 1 0.02
29 17 0.35
30 29 0.60
31 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.18, T:0.26
Consensus pattern (29 bp):
ACTAGAAATTTAAGGGTTGAAATGTAAAT
Found at i:108299 original size:30 final size:30
Alignment explanation
Indices: 108263--108326 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
108253 AAATGATACT
108263 CTCTCAACCCATAAACATCACACAACAATC
1 CTCTCAACCCATAAACATCACACAACAATC
* *
108293 CTCTCAACCCGTAAACATCACCCAACAATC
1 CTCTCAACCCATAAACATCACACAACAATC
108323 CTCT
1 CTCT
108327 TATCTTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.42, G:0.02, T:0.19
Consensus pattern (30 bp):
CTCTCAACCCATAAACATCACACAACAATC
Found at i:110123 original size:29 final size:30
Alignment explanation
Indices: 110072--110135 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
110062 ACAAGCCTCA
* * * *
110072 GAAAAATTGGGGATCATTTTGTAAGTTTT-
1 GAAAAATTGGGGATAAATATGTAAATTTTG
*
110101 GAAAAGTTGGGGATAAATATGTAAATTTTG
1 GAAAAATTGGGGATAAATATGTAAATTTTG
110131 GAAAA
1 GAAAA
110136 TTGATGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATATGTAAATTTTG
Found at i:115513 original size:23 final size:23
Alignment explanation
Indices: 115487--115564 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
115477 ATGGGATGGG
*
115487 GTGTGAACGATCGGATAAGGAGA
1 GTGTGAACGATCGGATAAGGGGA
*
115510 GTGTGAACGATCAGATAAGGGGA
1 GTGTGAACGATCGGATAAGGGGA
*
115533 GTGTGAAGGATCGGATAAGGGGA
1 GTGTGAACGATCGGATAAGGGGA
115556 GTGTGAACG
1 GTGTGAACG
115565 GTCCGGATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.42, T:0.18
Consensus pattern (23 bp):
GTGTGAACGATCGGATAAGGGGA
Found at i:115740 original size:49 final size:48
Alignment explanation
Indices: 115681--115806 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 48
115671 TCCAGCTGCT
* *
115681 GTAAGGCGCGGTGCATGGGCCATGCCTTAACCCA-TATCGCCACATCA
1 GTAAGGCGCGGTGCATGGGCCACGCCTTAACCCACTAGCGCCACATCA
* * *
115728 GCGTAAGGCGCGGTGCATGGGCCGCGCCTTACCCCACGTGGCGCCACATCA
1 --GTAAGGCGCGGTGCATGGGCCACGCCTTAACCCAC-TAGCGCCACATCA
* * *
115779 GTAAGGCACGGTGCATGGGTCGCGCCTT
1 GTAAGGCGCGGTGCATGGGCCACGCCTT
115807 TCTGCAAAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 57 0.84
51 11 0.16
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (48 bp):
GTAAGGCGCGGTGCATGGGCCACGCCTTAACCCACTAGCGCCACATCA
Found at i:117608 original size:263 final size:262
Alignment explanation
Indices: 117122--117648 Score: 1029
Period size: 263 Copynumber: 2.0 Consensus size: 262
117112 CTGACAGAGG
117122 TGATCAAGTTAGATCTACCTAAAGATCATATAAAGAATCAGGGCTTTGGTCAAGAAGTCACAACA
1 TGATCAAGTTAGATCTACCTAAAGATCATATAAAGAATCAGGGCTTTGGTCAAGAAGTCACAACA
117187 AATATGCTAAGCATCACAACTCTCAATATTTATTTGTTAATAAAGATGAATTTTGACTATAGATC
66 AATATGCTAAGCATCACAACTCTCAATATTTATTTGTTAATAAAGATGAATTTTGACTATAGATC
117252 AAGAAGTATGACATTAAACTAAAGCTTCCTCAGAAAGTATGACTGAACTGATACATACTATGAAT
131 AAGAAGTATGACATTAAACTAAAGCTTCCTCAGAAAGTATGACTGAACTGATACATACTATGAAT
117317 ATGTTAAAAATATTAACTTCGGATTAAACAACTAAGCTATGAAGGCAAGCTAATTATAAGAT-TT
196 ATGTTAAAAATATTAACTTCGGATTAAACAACTAAGCTATGAAGGCAAGCTAATTATAAGATATT
117381 TA
261 TA
117383 TGATCAAGTTAGATCTACCTAAAAGATCATATAAAGAATCAGGGCTTTGGTCAAGAAGTCACAAC
1 TGATCAAGTTAGATCTACCT-AAAGATCATATAAAGAATCAGGGCTTTGGTCAAGAAGTCACAAC
117448 AAATATGCTAAGCAGTCACAACTCTCAATATTTATTTGTTAATAAAGATGAATTTTGACTATAGA
65 AAATATGCTAAGCA-TCACAACTCTCAATATTTATTTGTTAATAAAGATGAATTTTGACTATAGA
117513 TCAAGAAGTATGACATTAAACTAAAGCTTCCTCAGAAAGTATGACTGAACTGATACATACTATGA
129 TCAAGAAGTATGACATTAAACTAAAGCTTCCTCAGAAAGTATGACTGAACTGATACATACTATGA
117578 ATATGTTAAAAATATTAACTTCGGATTAAACAACTAAGCTATGAAGGCAAGCTAATTATAAGATA
194 ATATGTTAAAAATATTAACTTCGGATTAAACAACTAAGCTATGAAGGCAAGCTAATTATAAGATA
117643 TTTA
259 TTTA
117647 TG
1 TG
117649 GAGCAAAAAA
Statistics
Matches: 263, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
261 20 0.08
262 58 0.22
263 179 0.68
264 6 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (262 bp):
TGATCAAGTTAGATCTACCTAAAGATCATATAAAGAATCAGGGCTTTGGTCAAGAAGTCACAACA
AATATGCTAAGCATCACAACTCTCAATATTTATTTGTTAATAAAGATGAATTTTGACTATAGATC
AAGAAGTATGACATTAAACTAAAGCTTCCTCAGAAAGTATGACTGAACTGATACATACTATGAAT
ATGTTAAAAATATTAACTTCGGATTAAACAACTAAGCTATGAAGGCAAGCTAATTATAAGATATT
TA
Found at i:118993 original size:21 final size:21
Alignment explanation
Indices: 118964--119026 Score: 94
Period size: 20 Copynumber: 3.1 Consensus size: 21
118954 ATAACAACAC
*
118964 TATAA-TTAAGAATAAATTGA
1 TATAATTTAAGAATAAATTAA
118984 TATAATTTAAGAATAAATTAA
1 TATAATTTAAGAATAAATTAA
*
119005 TA-AATTCAAGAATAAATTAA
1 TATAATTTAAGAATAAATTAA
119025 TA
1 TA
119027 CAACAAACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
TATAATTTAAGAATAAATTAA
Found at i:121831 original size:21 final size:21
Alignment explanation
Indices: 121805--121872 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
121795 TATAGATATA
* *
121805 TTAATTTAATTTAAGAGTAAG
1 TTAATTTAATTCAAGAATAAG
121826 TTAATTTAATTCAAGAATAAG
1 TTAATTTAATTCAAGAATAAG
*
121847 TTAATTTAATTCAAGAATAAA
1 TTAATTTAATTCAAGAATAAG
121868 TTAAT
1 TTAAT
121873 ACAACAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (21 bp):
TTAATTTAATTCAAGAATAAG
Found at i:123862 original size:64 final size:64
Alignment explanation
Indices: 123785--123907 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
123775 GCATCAATCC
*
123785 ATGCATCGATGCACCATT-GAATAAATT-GAACATCGAATGCATTTCATGCATCGATGCACTCTC
1 ATGCATCGATGCA-C-TTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTC
123848 T
64 T
* ** **
123849 ATGCATTGATGCACTTGGGTTTTATTAAAACATCGAATGCATTTCATGCATCGATGCAC
1 ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCAC
123908 GAGCAATGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 2 0.04
63 6 0.12
64 43 0.84
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTTGGAATAAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTCT
Found at i:131040 original size:21 final size:21
Alignment explanation
Indices: 130998--131041 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
130988 ACTTCGGGAG
* *
130998 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
131019 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
131040 CT
1 CT
131042 CCTCCGGCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:131705 original size:19 final size:20
Alignment explanation
Indices: 131681--131720 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
131671 GAGAAGTGTA
*
131681 AAATGTTTTA-AAGGGGGAG
1 AAATGTTATAGAAGGGGGAG
131700 AAATGTTATAGTAAGGGGGAG
1 AAATGTTATAG-AAGGGGGAG
131721 TAATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (20 bp):
AAATGTTATAGAAGGGGGAG
Found at i:132075 original size:20 final size:20
Alignment explanation
Indices: 132050--132103 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
132040 CATTCAAAGG
*
132050 CATGCACCGATGCATCAATC
1 CATGCATCGATGCATCAATC
132070 CATGCATCGATGCATCAATC
1 CATGCATCGATGCATCAATC
132090 CATGCATCGATGCA
1 CATGCATCGATGCA
132104 CCATTGAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (20 bp):
CATGCATCGATGCATCAATC
Found at i:132160 original size:19 final size:19
Alignment explanation
Indices: 132136--132207 Score: 144
Period size: 19 Copynumber: 3.8 Consensus size: 19
132126 ATTGCATTTC
132136 ATGCATCGATGCACTCTCT
1 ATGCATCGATGCACTCTCT
132155 ATGCATCGATGCACTCTCT
1 ATGCATCGATGCACTCTCT
132174 ATGCATCGATGCACTCTCT
1 ATGCATCGATGCACTCTCT
132193 ATGCATCGATGCACT
1 ATGCATCGATGCACT
132208 TGGGTTTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
ATGCATCGATGCACTCTCT
Found at i:132370 original size:20 final size:20
Alignment explanation
Indices: 132341--132393 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
132331 TGCATCGATG
*
132341 ATGCACCGATGCATCAATCC
1 ATGCATCGATGCATCAATCC
132361 ATGCATCGATGCATCAATCC
1 ATGCATCGATGCATCAATCC
132381 ATGCATCGATGCA
1 ATGCATCGATGCA
132394 CCATTGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (20 bp):
ATGCATCGATGCATCAATCC
Found at i:132450 original size:19 final size:19
Alignment explanation
Indices: 132426--132497 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
132416 ATTGCATTTC
132426 ATGCATCGATGCACTCTCT
1 ATGCATCGATGCACTCTCT
132445 ATGCATCGATGCACTCTCT
1 ATGCATCGATGCACTCTCT
*
132464 ATGCATCGATGTACTCTCT
1 ATGCATCGATGCACTCTCT
132483 ATGCATCGATGCACT
1 ATGCATCGATGCACT
132498 TGGGTTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (19 bp):
ATGCATCGATGCACTCTCT
Found at i:152339 original size:21 final size:21
Alignment explanation
Indices: 152303--152401 Score: 128
Period size: 21 Copynumber: 4.8 Consensus size: 21
152293 ATATAAAATT
* *
152303 TGTCCTGAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
152324 TATCTCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
152345 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
152366 TGTCCCAAAGGACCACATAGA
1 TGTCCCGAAGGACCACATATA
*
152387 TGT-CCGGAGGACCAC
1 TGTCCCGAAGGACCAC
152402 TCCTTAAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
20 10 0.15
21 58 0.85
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:156093 original size:21 final size:21
Alignment explanation
Indices: 156031--156095 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
156021 ACAACACTAT
* *
156031 AATTTAAGAATAAATTGATAT
1 AATTTAAGAATAAATTAATAC
156052 AATTTAAGAATAAATTAATAC
1 AATTTAAGAATAAATTAATAC
*
156073 AATTCAAGAATAAATTAATAC
1 AATTTAAGAATAAATTAATAC
156094 AA
1 AA
156096 CAAACTGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (21 bp):
AATTTAAGAATAAATTAATAC
Found at i:158769 original size:55 final size:55
Alignment explanation
Indices: 158685--158943 Score: 437
Period size: 55 Copynumber: 4.7 Consensus size: 55
158675 ATGTATGGTG
* *
158685 ATTTCCGTATGAGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTATATGA
1 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
* *
158740 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCGTGCTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
*
158795 ATTTCTGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
* *
158850 ATTTCCGTATGGGCACTATGTGTGTAAAATTAAGAAATTCAAACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
* *
158905 ATTTCCGTATGGGCACTATGGGTGCAAAAGTAAGAAATT
1 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATT
158944 TATAATAGGA
Statistics
Matches: 191, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 191 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (55 bp):
ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGA
Found at i:158867 original size:27 final size:27
Alignment explanation
Indices: 158837--158922 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
158827 AGAAATTCAT
158837 ACTAAGTGTATGAATTTCCGTATGGGC
1 ACTAAGTGTATGAATTTCCGTATGGGC
* * * * ** * ****
158864 ACTATGTGTGTAAAATTAAGAAATTCAA
1 ACTAAGTGTATGAATTTCCG-TATGGGC
158892 ACTAAGTGTATGAATTTCCGTATGGGC
1 ACTAAGTGTATGAATTTCCGTATGGGC
158919 ACTA
1 ACTA
158923 TGGGTGCAAA
Statistics
Matches: 36, Mismatches: 22, Indels: 2
0.60 0.37 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.33
Consensus pattern (27 bp):
ACTAAGTGTATGAATTTCCGTATGGGC
Found at i:165539 original size:55 final size:55
Alignment explanation
Indices: 165455--165856 Score: 626
Period size: 55 Copynumber: 7.3 Consensus size: 55
165445 ATGTATGGTG
* *
165455 ATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACGAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
* ** *
165510 ATTTCCGTATGGGCACTATGCGTGTAAAATTAAGAAATTCCTACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
* *
165565 ATTTCCGTATGGGCACTATGTCTACGAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
* *
165620 ATTTCTGTAGGGGCAC-ATTGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTA-TGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
** * *
165675 ATTTTTGTATCGGAACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
* * *
165730 ATTTCCATATGAGCACTATGTGTGTGAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
*
165785 ATTTCCATATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
1 ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
165840 ATTTCCGTATGGGCACT
1 ATTTCCGTATGGGCACT
165857 TTGGGTGCAA
Statistics
Matches: 317, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
54 1 0.00
55 315 0.99
56 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (55 bp):
ATTTCCGTATGGGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGA
Found at i:165720 original size:28 final size:28
Alignment explanation
Indices: 165689--165840 Score: 76
Period size: 28 Copynumber: 5.5 Consensus size: 28
165679 TTGTATCGGA
* *
165689 ACTATGTGTGCGAAATTAAGAAATTCAT
1 ACTAAGTGTGTGAAATTAAGAAATTCAT
* *** * * *
165717 ACTAAGTGTATG-AATTTCCATA-TGAGC
1 ACTAAGTGTGTGAAATTAAGAAATTCA-T
*
165744 ACTATGTGTGTGAAATTAAGAAATTCAT
1 ACTAAGTGTGTGAAATTAAGAAATTCAT
* *** * ****
165772 ACTAAGTGTATG-AATTTCCATATGGGC
1 ACTAAGTGTGTGAAATTAAGAAATTCAT
* *
165799 ACTATGTGTGCGAAATTAAGAAATTCAT
1 ACTAAGTGTGTGAAATTAAGAAATTCAT
*
165827 ACTAAGTGTATGAA
1 ACTAAGTGTGTGAA
165841 TTTCCGTATG
Statistics
Matches: 79, Mismatches: 41, Indels: 8
0.62 0.32 0.06
Matches are distributed among these distances:
26 2 0.03
27 32 0.41
28 43 0.54
29 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (28 bp):
ACTAAGTGTGTGAAATTAAGAAATTCAT
Found at i:165747 original size:27 final size:27
Alignment explanation
Indices: 165717--165807 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 27
165707 AGAAATTCAT
165717 ACTAAGTGTATGAATTTCCATATGAGC
1 ACTAAGTGTATGAATTTCCATATGAGC
* * *** * * *
165744 ACTATGTGTGTGAAATTAAGAAATTCA-T
1 ACTAAGTGTATG-AATTTCCATA-TGAGC
*
165772 ACTAAGTGTATGAATTTCCATATGGGC
1 ACTAAGTGTATGAATTTCCATATGAGC
*
165799 ACTATGTGT
1 ACTAAGTGT
165808 GCGAAATTAA
Statistics
Matches: 43, Mismatches: 18, Indels: 6
0.64 0.27 0.09
Matches are distributed among these distances:
26 1 0.02
27 24 0.56
28 16 0.37
29 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
ACTAAGTGTATGAATTTCCATATGAGC
Found at i:166829 original size:20 final size:20
Alignment explanation
Indices: 166804--166845 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
166794 CTGCAGCTTT
166804 CAGCTCTTAAATTCAACTTC
1 CAGCTCTTAAATTCAACTTC
166824 CAGCTCTTAAATTCAACTTC
1 CAGCTCTTAAATTCAACTTC
166844 CA
1 CA
166846 ATGGTCGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (20 bp):
CAGCTCTTAAATTCAACTTC
Found at i:168043 original size:16 final size:17
Alignment explanation
Indices: 168019--168052 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
168009 ATGCAATTTT
*
168019 GGTTTATTTTT-ATGTA
1 GGTTGATTTTTGATGTA
168035 GGTTGATTTTTGATGTA
1 GGTTGATTTTTGATGTA
168052 G
1 G
168053 ATGAGGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (17 bp):
GGTTGATTTTTGATGTA
Found at i:170128 original size:2 final size:2
Alignment explanation
Indices: 170117--170158 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
170107 TTTCATATGT
170117 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
170158 T
1 T
170159 GATCTATAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:179016 original size:3 final size:3
Alignment explanation
Indices: 179010--179036 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
179000 GATGATGATG
179010 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
179037 GCACATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:182918 original size:23 final size:23
Alignment explanation
Indices: 182888--182938 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
182878 CTGACACAAA
182888 GGACATAAGTACACCATGTAATC
1 GGACATAAGTACACCATGTAATC
182911 GGACATAAGTACACCATGTAATC
1 GGACATAAGTACACCATGTAATC
182934 GGACA
1 GGACA
182939 ATCTCTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
GGACATAAGTACACCATGTAATC
Found at i:183684 original size:2 final size:2
Alignment explanation
Indices: 183677--183728 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
183667 TATCAAACTT
183677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
183719 TA TA TA TA TA
1 TA TA TA TA TA
183729 GAACCTAATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:183970 original size:92 final size:92
Alignment explanation
Indices: 183757--184078 Score: 351
Period size: 92 Copynumber: 3.4 Consensus size: 92
183747 AACAGGTTCG
* * * *
183757 TATAT-TTTAAAAAATAGATAATTATTTTAATTATCAAACTCCATTAAAATATATATTTATATGA
1 TATATATTTAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATATTTATATGA
** * *
183821 TAAAATTTTATTTGATTTGAAATATGTT
66 T-AAACCTTATTTGAATTGAAATAAGTT
* *
183849 TACATATTTAAAAGAGAGATAATTATTGTAATTATCAACCTCTATTAAAATATATATTTATATGA
1 TATATATTTAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATATTTATATGA
* *
183914 TAAACCTTATCTGAGTTGAAATAAGTT
66 TAAACCTTATTTGAATTGAAATAAGTT
* * * *
183941 TATATATTTAAAAGAGAGATAATTGTTGTAATTGTCAAAATCTAATAATATATATATATATATAT
1 TATATATTTAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAA-A-ATATATAT-T-TAT
* * * **
184006 TTGATAGAACCTAATTTAAATTGCGATAAGTT
62 ATGATA-AACCTTATTTGAATTGAAATAAGTT
* * *
184038 T-TAATAATTAAAAGAAAGATAATTATTATAATTATCAAACT
1 TAT-ATATTTAAAAGAGAGATAATTATTGTAATTATCAAACT
184079 TTTTTAATAT
Statistics
Matches: 193, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
92 67 0.35
93 56 0.29
94 8 0.04
95 1 0.01
96 9 0.05
97 52 0.27
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (92 bp):
TATATATTTAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATATTTATATGA
TAAACCTTATTTGAATTGAAATAAGTT
Found at i:184058 original size:97 final size:92
Alignment explanation
Indices: 183712--184076 Score: 304
Period size: 93 Copynumber: 3.9 Consensus size: 92
183702 ATATATATAT
* * * * * * * *
183712 ATATATATATATAT-ATAGAACCTAATCTCAATTCAAACAGGTTCGTATAT-TTTAAAAAATAGA
1 ATATATATTTATATGATA-AACCTAATCTAAATTGAAATAAGTT--TACATATTTAAAAGAGAGA
* * * *
183775 TAATTATTTTAATTATCAAACTCCATTAAA
63 TAATTATTGTAATTATCAAAATCTAATAAA
** * * * * *
183805 ATATATATTTATATGATAAAATTTTATTTGATTTGAAATATGTTTACATATTTAAAAGAGAGATA
1 ATATATATTTATATGAT-AAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAGAGATA
** *
183870 ATTATTGTAATTATCAACCTCTATTAAA
65 ATTATTGTAATTATCAAAATCTAATAAA
* * * *
183898 ATATATATTTATATGATAAACCTTATCTGAGTTGAAATAAGTTTATATATTTAAAAGAGAGATAA
1 ATATATATTTATATGATAAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAGAGATAA
* *
183963 TTGTTGTAATTGTCAAAATCTAATAATA
66 TTATTGTAATTATCAAAATCTAATAA-A
* * ** * *
183991 TATATATATATATATTTGATAGAACCTAATTTAAATTGCGATAAGTTTTA-ATAATTAAAAGAAA
1 -ATATATAT-T-TATATGATA-AACCTAATCTAAATTGAAATAAG-TTTACATATTTAAAAGAGA
*
184055 GATAATTATTATAATTATCAAA
61 GATAATTATTGTAATTATCAAA
184077 CTTTTTTAAT
Statistics
Matches: 224, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
92 67 0.30
93 69 0.31
94 26 0.12
95 2 0.01
96 8 0.04
97 48 0.21
98 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.40
Consensus pattern (92 bp):
ATATATATTTATATGATAAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAGAGATAA
TTATTGTAATTATCAAAATCTAATAAA
Found at i:184087 original size:97 final size:95
Alignment explanation
Indices: 183706--184097 Score: 336
Period size: 92 Copynumber: 4.1 Consensus size: 95
183696 ATATATATAT
* * * * *
183706 ATATATATATATATATATAT-ATAGAACCTAATCTCAATTCAAACAGGTTCGTATAT-TTTAAAA
1 ATATATATATATAT-TATATGATA-AACCTAATCTAAATTGAAATAAGTT--TACATATTTAAAA
* * * *
183769 AATAGATAATTATTTTAATTATCAAACTCCATTA
62 GAGAGATAATTATTGTAATTATCAAACTCTATTA
** * * * * *
183803 A-A-ATATATAT-TTATATGATAAAATTTTATTTGATTTGAAATATGTTTACATATTTAAAAGAG
1 ATATATATATATATTATATGAT-AAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAG
*
183865 AGATAATTATTGTAATTATCAACCTCTATTA
65 AGATAATTATTGTAATTATCAAACTCTATTA
* * * *
183896 A-A-ATATATAT-TTATATGATAAACCTTATCTGAGTTGAAATAAGTTTATATATTTAAAAGAGA
1 ATATATATATATATTATATGATAAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAGA
* * * *
183958 GATAATTGTTGTAATTGTCAAAATCTAATA
66 GATAATTATTGTAATTATCAAACTCTATTA
* * ** *
183988 ATATATATATATATATATTTGATAGAACCTAATTTAAATTGCGATAAGTTTTA-ATAATTAAAAG
1 ATATATATATATAT-TATATGATA-AACCTAATCTAAATTGAAATAAG-TTTACATATTTAAAAG
* * * *
184052 AAAGATAATTATTATAATTATCAAACTTTTTTA
63 AGAGATAATTATTGTAATTATCAAACTCTATTA
184085 ATATATA-ATATAT
1 ATATATATATATAT
184098 CAGTTTAAGA
Statistics
Matches: 244, Mismatches: 42, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
92 67 0.27
93 61 0.25
94 27 0.11
95 10 0.04
96 15 0.06
97 60 0.25
98 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (95 bp):
ATATATATATATATTATATGATAAACCTAATCTAAATTGAAATAAGTTTACATATTTAAAAGAGA
GATAATTATTGTAATTATCAAACTCTATTA
Found at i:185268 original size:16 final size:16
Alignment explanation
Indices: 185247--185277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
185237 GTTGTATGTT
*
185247 ATGTTTGATATGCATG
1 ATGTTTGAAATGCATG
185263 ATGTTTGAAATGCAT
1 ATGTTTGAAATGCAT
185278 AGTTATAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (16 bp):
ATGTTTGAAATGCATG
Found at i:190799 original size:54 final size:53
Alignment explanation
Indices: 190741--190884 Score: 171
Period size: 53 Copynumber: 2.7 Consensus size: 53
190731 CCATTCATAA
* ** * *
190741 ACATATTATGAACCCCGTGAAATGCACATTTAGTGCTGAAACGGTTATTCATCC
1 ACATATGATGAATTCCGTGGAATGCACA-TTAGTGCCGAAACGGTTATTCATCC
* * ** *
190795 ACATAGGATTAATTATGTGGAATGCACACTAGTGCCGAAACGGTTATTCATCC
1 ACATATGATGAATTCCGTGGAATGCACATTAGTGCCGAAACGGTTATTCATCC
*
190848 ACATATGATGAATTCCATGGAATGCACACTTAGTGCC
1 ACATATGATGAATTCCGTGGAATGCACA-TTAGTGCC
190885 TATTTGGTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 46 0.63
54 27 0.37
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (53 bp):
ACATATGATGAATTCCGTGGAATGCACATTAGTGCCGAAACGGTTATTCATCC
Found at i:200614 original size:20 final size:21
Alignment explanation
Indices: 200576--200614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
200566 CATCAAGGTC
200576 TTTGTTGAGGCCATGAAATCT
1 TTTGTTGAGGCCATGAAATCT
*
200597 TTTGTTGATGCCAT-AAAT
1 TTTGTTGAGGCCATGAAAT
200615 TCATGCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (21 bp):
TTTGTTGAGGCCATGAAATCT
Found at i:207581 original size:23 final size:23
Alignment explanation
Indices: 207555--207603 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
207545 ATAAAGAACC
207555 AAAATAAACT-TAAATATTCCATT
1 AAAATAAACTCTAAATA-TCCATT
*
207578 AAAATAAAGTCTAAATATCCATT
1 AAAATAAACTCTAAATATCCATT
207601 AAA
1 AAA
207604 CCAACTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAACTCTAAATATCCATT
Found at i:210898 original size:20 final size:20
Alignment explanation
Indices: 210873--210915 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
210863 AGATAAAAGT
* *
210873 AAAGTTAAAGATGAAATAGA
1 AAAGTTAAAGAAGAAAGAGA
*
210893 AAAGTTAAGGAAGAAAGAGA
1 AAAGTTAAAGAAGAAAGAGA
210913 AAA
1 AAA
210916 AAAGTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (20 bp):
AAAGTTAAAGAAGAAAGAGA
Found at i:215435 original size:21 final size:21
Alignment explanation
Indices: 215409--215468 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
215399 GCTATGGCTT
215409 TGAAGTAAGGCGCCTTGACTA
1 TGAAGTAAGGCGCCTTGACTA
215430 TGAAGTAAGGCGCCTTGACTA
1 TGAAGTAAGGCGCCTTGACTA
* *
215451 TGAAGTAAAGCTCCTTGA
1 TGAAGTAAGGCGCCTTGA
215469 TTTTTAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (21 bp):
TGAAGTAAGGCGCCTTGACTA
Found at i:217429 original size:425 final size:425
Alignment explanation
Indices: 216639--217490 Score: 1704
Period size: 425 Copynumber: 2.0 Consensus size: 425
216629 AACATTGCCT
216639 AATGCCGCAGCATTCTGATTTCCATCATCCTAACCAATGCCTTGGTTTCCAATCTGATACTTGTT
1 AATGCCGCAGCATTCTGATTTCCATCATCCTAACCAATGCCTTGGTTTCCAATCTGATACTTGTT
216704 TCCTCTAGCGCGTTGAGCATGTCTCCTTTGTCTAAAGAGTCTTTCAATCTCAGGTTCTATCAGTT
66 TCCTCTAGCGCGTTGAGCATGTCTCCTTTGTCTAAAGAGTCTTTCAATCTCAGGTTCTATCAGTT
216769 CCAAAGGCTCTTTAGAATTTCTTCTAAGCATACACTAAGTAAACCTGAAAAATAAAACAAAAATA
131 CCAAAGGCTCTTTAGAATTTCTTCTAAGCATACACTAAGTAAACCTGAAAAATAAAACAAAAATA
216834 TAAAGTAAACAATACAAAAATAAAAATGCAAAACAAAATAAAATGCTCTAGCAAAACTAAATAAC
196 TAAAGTAAACAATACAAAAATAAAAATGCAAAACAAAATAAAATGCTCTAGCAAAACTAAATAAC
216899 TTCAGGCTGCCAATGCGCGGCAACGACGCCAAAAACTCGTCCGTATGTGTGAGTACTATAAAATA
261 TTCAGGCTGCCAATGCGCGGCAACGACGCCAAAAACTCGTCCGTATGTGTGAGTACTATAAAATA
216964 TACGCAGATAATGTGAAAGTATACACAATTGTTCAAGTAATATAATGATGAGTGAGTATCGTCTC
326 TACGCAGATAATGTGAAAGTATACACAATTGTTCAAGTAATATAATGATGAGTGAGTATCGTCTC
217029 CACAGGGATTGGGCGAAATTACAAAAGTCTAACCA
391 CACAGGGATTGGGCGAAATTACAAAAGTCTAACCA
217064 AATGCCGCAGCATTCTGATTTCCATCATCCTAACCAATGCCTTGGTTTCCAATCTGATACTTGTT
1 AATGCCGCAGCATTCTGATTTCCATCATCCTAACCAATGCCTTGGTTTCCAATCTGATACTTGTT
217129 TCCTCTAGCGCGTTGAGCATGTCTCCTTTGTCTAAAGAGTCTTTCAATCTCAGGTTCTATCAGTT
66 TCCTCTAGCGCGTTGAGCATGTCTCCTTTGTCTAAAGAGTCTTTCAATCTCAGGTTCTATCAGTT
217194 CCAAAGGCTCTTTAGAATTTCTTCTAAGCATACACTAAGTAAACCTGAAAAATAAAACAAAAATA
131 CCAAAGGCTCTTTAGAATTTCTTCTAAGCATACACTAAGTAAACCTGAAAAATAAAACAAAAATA
217259 TAAAGTAAACAATACAAAAATAAAAATGCAAAACAAAATAAAATGCTCTAGCAAAACTAAATAAC
196 TAAAGTAAACAATACAAAAATAAAAATGCAAAACAAAATAAAATGCTCTAGCAAAACTAAATAAC
217324 TTCAGGCTGCCAATGCGCGGCAACGACGCCAAAAACTCGTCCGTATGTGTGAGTACTATAAAATA
261 TTCAGGCTGCCAATGCGCGGCAACGACGCCAAAAACTCGTCCGTATGTGTGAGTACTATAAAATA
217389 TACGCAGATAATGTGAAAGTATACACAATTGTTCAAGTAATATAATGATGAGTGAGTATCGTCTC
326 TACGCAGATAATGTGAAAGTATACACAATTGTTCAAGTAATATAATGATGAGTGAGTATCGTCTC
217454 CACAGGGATTGGGCGAAATTACAAAAGTCTAACCA
391 CACAGGGATTGGGCGAAATTACAAAAGTCTAACCA
217489 AA
1 AA
217491 GCTAAGCATT
Statistics
Matches: 427, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
425 427 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (425 bp):
AATGCCGCAGCATTCTGATTTCCATCATCCTAACCAATGCCTTGGTTTCCAATCTGATACTTGTT
TCCTCTAGCGCGTTGAGCATGTCTCCTTTGTCTAAAGAGTCTTTCAATCTCAGGTTCTATCAGTT
CCAAAGGCTCTTTAGAATTTCTTCTAAGCATACACTAAGTAAACCTGAAAAATAAAACAAAAATA
TAAAGTAAACAATACAAAAATAAAAATGCAAAACAAAATAAAATGCTCTAGCAAAACTAAATAAC
TTCAGGCTGCCAATGCGCGGCAACGACGCCAAAAACTCGTCCGTATGTGTGAGTACTATAAAATA
TACGCAGATAATGTGAAAGTATACACAATTGTTCAAGTAATATAATGATGAGTGAGTATCGTCTC
CACAGGGATTGGGCGAAATTACAAAAGTCTAACCA
Found at i:219327 original size:54 final size:54
Alignment explanation
Indices: 219268--219404 Score: 177
Period size: 53 Copynumber: 2.6 Consensus size: 54
219258 TAAACATATT
* * * * *
219268 ATGAATCCCATGAAATGCACACTTATTGCCAAAACATTTATTCATCCACATAGG
1 ATGAATTCCATGGAATGCACACTTAGTGCCAAAACAGTTATTAATCCACATAGG
* * * * *
219322 ATGAATTCCGTGGAATGCAC-CTGAGTGCCGAAACGGTTATTAATCCATATAGG
1 ATGAATTCCATGGAATGCACACTTAGTGCCAAAACAGTTATTAATCCACATAGG
219375 ATGAATTCCATGGAATGCACACTTAGTGCC
1 ATGAATTCCATGGAATGCACACTTAGTGCC
219405 TATTTGGTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
53 45 0.64
54 25 0.36
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (54 bp):
ATGAATTCCATGGAATGCACACTTAGTGCCAAAACAGTTATTAATCCACATAGG
Found at i:219901 original size:93 final size:95
Alignment explanation
Indices: 219720--219940 Score: 299
Period size: 94 Copynumber: 2.3 Consensus size: 95
219710 TGGCTCCATA
* * * *
219720 GTATCGATACTGC-TACCCTGGTATCAATACTTCTATACTATGGTACCGATACCCCCTTCCGGTA
1 GTATCGATAC-CCTTACCATGGTATCAATACTACAATACTATGGTACCGATACCCCCTTCCGGTA
* *
219784 TCGATACCAAATTTAGGTTTGATGTT-TCCTT-
65 TCGATACCAAATTTAGATTCGATGTTGT--TTG
* **
219815 GTATCGAT-GCCTTACCATGGTATTGATACTACAATACTATGGTACCGATA-CCCCTTCCGGTAT
1 GTATCGATACCCTTACCATGGTATCAATACTACAATACTATGGTACCGATACCCCCTTCCGGTAT
219878 CGATACCAAATTTAGATTCGATGTTGTTTG
66 CGATACCAAATTTAGATTCGATGTTGTTTG
219908 GTATCGATACCCTTACCATGGTATCAATACTAC
1 GTATCGATACCCTTACCATGGTATCAATACTAC
219941 CTCAATGGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
92 2 0.02
93 45 0.41
94 55 0.50
95 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCAATACTACAATACTATGGTACCGATACCCCCTTCCGGTAT
CGATACCAAATTTAGATTCGATGTTGTTTG
Found at i:223070 original size:20 final size:19
Alignment explanation
Indices: 222997--223111 Score: 60
Period size: 20 Copynumber: 5.9 Consensus size: 19
222987 CACAAAAAAT
* *
222997 ATAAAAAATATATATATAA-
1 ATAAAAAATAAAAATA-AAG
223016 ATAAAATACAT-AAAATAAAG
1 ATAAAA-A-ATAAAAATAAAG
* * *
223036 A-AGATAATAACAATAACA-
1 ATAAAAAATAAAAATAA-AG
223054 ATACAAAAATAAAAATAGAAG
1 ATA-AAAAATAAAAATA-AAG
223075 ATAAAAAATAAAAGATAAA-
1 ATAAAAAATAAAA-ATAAAG
* *
223094 ATGAAATATATAAAATAA
1 ATAAAAAATA-AAAATAA
223112 TAAATATATA
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
17 2 0.03
18 8 0.11
19 24 0.32
20 32 0.43
21 9 0.12
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (19 bp):
ATAAAAAATAAAAATAAAG
Found at i:223081 original size:14 final size:14
Alignment explanation
Indices: 223064--223094 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
223054 ATACAAAAAT
*
223064 AAAAATAGAAGATA
1 AAAAATAAAAGATA
223078 AAAAATAAAAGATA
1 AAAAATAAAAGATA
223092 AAA
1 AAA
223095 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAGATA
Found at i:223118 original size:16 final size:17
Alignment explanation
Indices: 223097--223162 Score: 72
Period size: 16 Copynumber: 4.1 Consensus size: 17
223087 AGATAAAATG
223097 AAATATATA-AAATAAT
1 AAATATATATAAATAAT
223113 AAATATATATAACAT-AT
1 AAATATATATAA-ATAAT
223130 -AAT-TATAGT-AATAA-
1 AAATATATA-TAAATAAT
223144 AAATATATATAAATAAT
1 AAATATATATAAATAAT
223161 AA
1 AA
223163 TGATATATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.05
15 10 0.24
16 22 0.52
17 6 0.14
18 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATATATAAATAAT
Found at i:223160 original size:19 final size:19
Alignment explanation
Indices: 223138--223194 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
223128 ATAATTATAG
223138 TAATAAAAATATATATAAA
1 TAATAAAAATATATATAAA
** *
223157 TAATAATGATATATGAAAAA
1 TAATAAAAATATAT-ATAAA
* *
223177 GAATTAAAAGTATATATA
1 TAA-TAAAAATATATATA
223195 TATATATATA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAATAAAAATATATATAAA
Found at i:223182 original size:48 final size:50
Alignment explanation
Indices: 223097--223205 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 50
223087 AGATAAAATG
* * *
223097 AAATATATA-AAATAATAAATATATATAACATATAATT-ATAGTA-ATAA
1 AAATATATATAAATAATAAATATATATAACAAAGAATTAAAAGTATATAA
*
223144 AAATATATATAAATAAT-AATGATATATGAA-AAAGAATTAAAAGTATATAT
1 AAATATATATAAATAATAAAT-ATATAT-AACAAAGAATTAAAAGTATATAA
*
223194 ATATATATATAA
1 AAATATATATAA
223206 CGATAGAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
47 12 0.23
48 19 0.37
49 7 0.13
50 14 0.27
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (50 bp):
AAATATATATAAATAATAAATATATATAACAAAGAATTAAAAGTATATAA
Found at i:227575 original size:23 final size:23
Alignment explanation
Indices: 227545--227591 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
227535 CTCCGTATAT
227545 CTGCAAGGTCTTTACATTTTGCC
1 CTGCAAGGTCTTTACATTTTGCC
227568 CTGCAAGGTCTTTACATTTTGCC
1 CTGCAAGGTCTTTACATTTTGCC
227591 C
1 C
227592 CAGTGCAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (23 bp):
CTGCAAGGTCTTTACATTTTGCC
Found at i:233788 original size:20 final size:20
Alignment explanation
Indices: 233763--233806 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
233753 GCATTTAGCT
233763 TCCATTGATAACGTTCAGCG
1 TCCATTGATAACGTTCAGCG
*
233783 TCCATTGATAACGTTCAGCT
1 TCCATTGATAACGTTCAGCG
233803 TCCA
1 TCCA
233807 GTTCTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (20 bp):
TCCATTGATAACGTTCAGCG
Found at i:236435 original size:14 final size:13
Alignment explanation
Indices: 236412--236459 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
236402 AGATAATAAC
*
236412 AATAACAATACAAA
1 AATAAAAATA-AAA
236426 AATAAAAATAAAA
1 AATAAAAATAAAA
*
236439 GATAAAAAATAAAA
1 AAT-AAAAATAAAA
*
236453 GATAAAA
1 AATAAAA
236460 TGAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:236523 original size:16 final size:16
Alignment explanation
Indices: 236462--236535 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
236452 AGATAAAATG
*
236462 AAATACATA-AAATAA
1 AAATATATATAAATAA
236477 TAAATATATATAACAT-A
1 -AAATATATATAA-ATAA
*
236494 TAAT-TATAGT-AATAA
1 AAATATATA-TAAATAA
236509 AAATATATATAAATAA
1 AAATATATATAAATAA
*
236525 TAATGATATAT
1 AAAT-ATATAT
236536 GAAAAAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 24 0.51
17 9 0.19
18 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (16 bp):
AAATATATATAAATAA
Found at i:236559 original size:2 final size:2
Alignment explanation
Indices: 236552--236587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
236542 GAATTAAAAG
236552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
236588 ACGATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:238617 original size:41 final size:41
Alignment explanation
Indices: 238555--238641 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
238545 AGTAAAAGAA
* * *
238555 TAAATGCCTAACTATGCAATCATGCAAGTTAGATGAAAGGC
1 TAAATGCCTAACTATGAAATCATGCAAGTCAGATAAAAGGC
238596 TAAATGCCTAACTATGAAATCATGCAAGTCAGATAAAAGGC
1 TAAATGCCTAACTATGAAATCATGCAAGTCAGATAAAAGGC
238637 TAAAT
1 TAAAT
238642 TCCTTTGAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (41 bp):
TAAATGCCTAACTATGAAATCATGCAAGTCAGATAAAAGGC
Found at i:238690 original size:104 final size:104
Alignment explanation
Indices: 238510--238708 Score: 337
Period size: 104 Copynumber: 1.9 Consensus size: 104
238500 AAATGCCTAC
* *
238510 ATCATGCAAGTTCGATGAAAGGCTAAATTCCTTTGAGTAAAAGAATAAATGCCTAACTATGCAAT
1 ATCATGCAAGTTCGATAAAAGGCTAAATTCCTTTGAGTAAAAGAATAAATACCTAACTATGCAAT
238575 CATGCAAGTTAGATGAAAGGCTAAATGCCTAACTATGAA
66 CATGCAAGTTAGATGAAAGGCTAAATGCCTAACTATGAA
* *
238614 ATCATGCAAG-TCAGATAAAAGGCTAAATTCCTTTGAGTAAAAGAATAAATACCTAACTGTGTAA
1 ATCATGCAAGTTC-GATAAAAGGCTAAATTCCTTTGAGTAAAAGAATAAATACCTAACTATGCAA
*
238678 TCATGCAAGTTAGATTAAAGGCTAAATGCCT
65 TCATGCAAGTTAGATGAAAGGCTAAATGCCT
238709 TTTAGTAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 2 0.02
104 87 0.98
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (104 bp):
ATCATGCAAGTTCGATAAAAGGCTAAATTCCTTTGAGTAAAAGAATAAATACCTAACTATGCAAT
CATGCAAGTTAGATGAAAGGCTAAATGCCTAACTATGAA
Found at i:238698 original size:63 final size:63
Alignment explanation
Indices: 238596--239053 Score: 628
Period size: 63 Copynumber: 7.2 Consensus size: 63
238586 GATGAAAGGC
* * * * *
238596 TAAATGCCTAACTATGAAATCATGCAAGTCAGATAAAAGGCTAAATTCCTTTGAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* * * *
238659 TAAATACCTAACTGTGTAATCATGCAAGTTAGATTAAAGGCTAAATGCCTTTTAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* * * * *
238722 TAAATGCCTAATTGTGCAATCATGCATGTTAGATGAAATGATAAAAGCCTTTGAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* *
238785 TAAATTCCTAATTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* * * **
238848 TAAATGTCTAACTTTGCAATTATGCAAGTTAGATGAAAAACTAAATGCCTTTGAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* * *
238911 TAAATGCATAACTCTGCAATCATACAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
* * * * *
238974 TAAATGCCTAAATGTACAATCATACAAGTTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGAC
1 TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCC-TTTGAG-TAAAAGAA
*
239039 TAAATGCCTAGCTGT
1 TAAATGCCTAACTGT
239054 ACATTTGGCA
Statistics
Matches: 350, Mismatches: 43, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
63 324 0.93
64 6 0.02
65 20 0.06
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (63 bp):
TAAATGCCTAACTGTGCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGAA
Found at i:239105 original size:83 final size:83
Alignment explanation
Indices: 239002--239326 Score: 404
Period size: 82 Copynumber: 3.9 Consensus size: 83
238992 ATCATACAAG
* *
239002 TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTACATTTGGCATAA
1 TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTACATTTGGTAGAA
* *
239067 AGGAGCCATTAATTCCAC
66 AGGTGCCATTAATTCCAA
* * * * *
239085 TTAGATGAATGGTTAAATGCC-TTTGAGATAAAAGGCTAAATGCCTAGTTGAAAATTTGGTAGAA
1 TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTACATTTGGTAGAA
*
239149 AGGTGCCATTAATTCCAG
66 AGGTGCCATTAATTCCAA
* * * *
239167 TTTGATGAAAGGTTAAATG-CTTTTAAGATAAAAGACTAAATGCCTAGTTGTGCATTTGGTAGAA
1 TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTACATTTGGTAGAA
* *
239231 AGGTTCCATTAATGCCAA
66 AGGTGCCATTAATTCCAA
** * * * * * *
239249 TTAGATGAAAGGTTAAATGAATTTAG-GATGAAAGACTAAATACTTAACTGTACTTTTTGGTAGA
1 TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTAC-ATTTGGTAGA
239313 AAGGTGCCATTAAT
65 AAGGTGCCATTAAT
239327 GCAAGATAGA
Statistics
Matches: 208, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
81 1 0.00
82 162 0.78
83 45 0.22
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (83 bp):
TTAGATGAAAGGTTAAATGCCTTTTGAGATAAAAGACTAAATGCCTAGCTGTACATTTGGTAGAA
AGGTGCCATTAATTCCAA
Found at i:241040 original size:96 final size:96
Alignment explanation
Indices: 240905--241101 Score: 213
Period size: 96 Copynumber: 2.1 Consensus size: 96
240895 CATGTAATTG
** ** *
240905 TGTGTCATAAATCTATGATGCACATTTATGACAAGCATTTATGA-TGTACATTGA-GTGTCATTG
1 TGTGTCATAAATCTATGACACACATTTATGACAAGCATTTACAACT-TACATT-ACGTGTCATTA
* * * * *
240968 AAGCCCCCGTCA-TAAATGAATATGACACATATT
64 AAGCACACATCATTAAA-AAAGATGACACATATT
* * *
241001 TGTGTCATAAATTTATGACACGCATTTATGACTTA-CATTTACAACTTACATTACGTGTCATTAA
1 TGTGTCATAAATCTATGACACACATTTATGAC-AAGCATTTACAACTTACATTACGTGTCATTAA
241065 AGCACACATCATTAAAAAAGATGACACATATT
65 AGCACACATCATTAAAAAAGATGACACATATT
241097 TGTGT
1 TGTGT
241102 GTCGTGATTG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
95 1 0.01
96 77 0.92
97 6 0.07
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (96 bp):
TGTGTCATAAATCTATGACACACATTTATGACAAGCATTTACAACTTACATTACGTGTCATTAAA
GCACACATCATTAAAAAAGATGACACATATT
Found at i:242252 original size:24 final size:24
Alignment explanation
Indices: 242220--242270 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
242210 TGTACTCTTT
242220 ACATTGAAATCAAATTTTGGTACC
1 ACATTGAAATCAAATTTTGGTACC
242244 ACATTGAAATCAAATTTTGGTACC
1 ACATTGAAATCAAATTTTGGTACC
242268 ACA
1 ACA
242271 GCTTCCACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (24 bp):
ACATTGAAATCAAATTTTGGTACC
Found at i:252123 original size:23 final size:23
Alignment explanation
Indices: 252094--252173 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
252084 ACACTATCCA
*
252094 GTGCATCGATGCATCCTATAAAT
1 GTGCATCGATGCATCCTATGAAT
* *
252117 GTGCATCGATACAT-C-ATGAAG
1 GTGCATCGATGCATCCTATGAAT
*
252138 GTGCACCGATGCACTCCT-TGAAT
1 GTGCATCGATGCA-TCCTATGAAT
252161 GTGCATCGATGCA
1 GTGCATCGATGCA
252174 CTCAGCAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 15 0.32
22 2 0.04
23 30 0.64
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCATCCTATGAAT
Found at i:252579 original size:21 final size:21
Alignment explanation
Indices: 252549--252588 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
252539 AATTTCGTCA
252549 TTTTCAAAAATTTTGAAATTT
1 TTTTCAAAAATTTTGAAATTT
*
252570 TTTTCGAAAATTTTGAAAT
1 TTTTCAAAAATTTTGAAAT
252589 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTCAAAAATTTTGAAATTT
Found at i:255065 original size:21 final size:21
Alignment explanation
Indices: 255040--255091 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
255030 CACTTGATGG
255040 ATCGATGCACCTTGACTATGC
1 ATCGATGCACCTTGACTATGC
255061 ATCGATGCACCTTGACTATGC
1 ATCGATGCACCTTGACTATGC
255082 ATCGATGCAC
1 ATCGATGCAC
255092 ACATGCTCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (21 bp):
ATCGATGCACCTTGACTATGC
Found at i:260998 original size:94 final size:95
Alignment explanation
Indices: 260848--261020 Score: 251
Period size: 94 Copynumber: 1.8 Consensus size: 95
260838 TACTAAAGTG
*
260848 AGTATCGATACTAAGAAAAAAGTATCGAAACCTTGGAATCCAGAAAGTAGAAATGGTATCGATAC
1 AGTATCGATACTAAGAAAAAAGTATCGAAACCATGGAATCCAGAAAGTAGAAATGGTATCGATAC
260913 GGAAACGAAGTATAGGTACCATAGTATAGA
66 GGAAACGAAGTATAGGTACCATAGTATAGA
* * * * *
260943 AGTATCGGTACTAGGAGAGAAGTATC-AATACCATGG-ATCCAGAATGTAGAAATGGTATCGATA
1 AGTATCGATACTAAGAAAAAAGTATCGAA-ACCATGGAATCCAGAAAGTAGAAATGGTATCGATA
* *
261006 CTGAAAGGAAGTATA
65 CGGAAACGAAGTATA
261021 AAAGTATTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
94 41 0.59
95 28 0.41
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (95 bp):
AGTATCGATACTAAGAAAAAAGTATCGAAACCATGGAATCCAGAAAGTAGAAATGGTATCGATAC
GGAAACGAAGTATAGGTACCATAGTATAGA
Found at i:263488 original size:63 final size:63
Alignment explanation
Indices: 263416--263540 Score: 250
Period size: 63 Copynumber: 2.0 Consensus size: 63
263406 TGTGCTCCTC
263416 TACTTGTAAATTGCAATGTACTTTTTAGTTTATATATATGATTTTTTATGTTGTATTTATAGA
1 TACTTGTAAATTGCAATGTACTTTTTAGTTTATATATATGATTTTTTATGTTGTATTTATAGA
263479 TACTTGTAAATTGCAATGTACTTTTTAGTTTATATATATGATTTTTTATGTTGTATTTATAG
1 TACTTGTAAATTGCAATGTACTTTTTAGTTTATATATATGATTTTTTATGTTGTATTTATAG
263541 TTTTTAAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (63 bp):
TACTTGTAAATTGCAATGTACTTTTTAGTTTATATATATGATTTTTTATGTTGTATTTATAGA
Found at i:267661 original size:13 final size:13
Alignment explanation
Indices: 267643--267668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
267633 CGGTGATGTG
267643 ATTTATTTTAATA
1 ATTTATTTTAATA
267656 ATTTATTTTAATA
1 ATTTATTTTAATA
267669 TTTTCTCTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTATTTTAATA
Found at i:273511 original size:15 final size:16
Alignment explanation
Indices: 273491--273532 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
273481 GATTAGAATA
273491 AAATAAATAAAAGAT-
1 AAATAAATAAAAGATG
*
273506 AAATAAATGAAAGATG
1 AAATAAATAAAAGATG
273522 AAATAAGATAA
1 AAATAA-ATAA
273533 TAAAGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 6 0.26
17 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (16 bp):
AAATAAATAAAAGATG
Found at i:277015 original size:17 final size:16
Alignment explanation
Indices: 276995--277030 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
276985 TTTTTTGAAA
*
276995 TTTTGGCTTTTTTGTTT
1 TTTTGCCTTTTTT-TTT
277012 TTTTGCCTTTTTTTTT
1 TTTTGCCTTTTTTTTT
277028 TTT
1 TTT
277031 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.81
Consensus pattern (16 bp):
TTTTGCCTTTTTTTTT
Found at i:278992 original size:141 final size:139
Alignment explanation
Indices: 278734--279014 Score: 472
Period size: 141 Copynumber: 2.0 Consensus size: 139
278724 TATTTTATGT
*
278734 AATTAATATTGATATAATATTTTATTATCATAAATATTTAAAAAATATTTACAAGTCAAGGTAAA
1 AATTAATATTAATATAATATTTTATTATCATAAATATTTAAAAAATATTTACAAGTCAAGGTAAA
* * *
278799 ATGATAAAAGAAAGTAAAAATGATAATATTATATTAGAATGGGAAGTAAGTCCAAATGATTATAT
66 ATGATAAAAGAAAGTAAAAATGAGAATATTATATTAGAATGAGAAGTAAGTCCAAATGATGATAT
*
278864 GTGCATAGG
131 ATGCATAGG
*
278873 AATTGATATTAATATAATATTTTATTATCATAAATATTTTAAGAAAATATTTACAAGTCAAGGTA
1 AATTAATATTAATATAATATTTTATTATCATAAATA-TTTAA-AAAATATTTACAAGTCAAGGTA
*
278938 AAATGATAAAAGAAAGTAAAAATGAGAATATTATATTAGAATGAGAAGTTAGTCCAAATGATGAT
64 AAATGATAAAAGAAAGTAAAAATGAGAATATTATATTAGAATGAGAAGTAAGTCCAAATGATGAT
*
279003 ATATGTATAGG
129 ATATGCATAGG
279014 A
1 A
279015 GTTGGGGTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
139 34 0.26
140 5 0.04
141 93 0.70
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (139 bp):
AATTAATATTAATATAATATTTTATTATCATAAATATTTAAAAAATATTTACAAGTCAAGGTAAA
ATGATAAAAGAAAGTAAAAATGAGAATATTATATTAGAATGAGAAGTAAGTCCAAATGATGATAT
ATGCATAGG
Done.