Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008470.1 Hibiscus syriacus cultivar Beakdansim tig00111294_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: 393165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3690 original size:24 final size:24
Alignment explanation
Indices: 3645--3694 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
3635 GTGGTGGTTG
3645 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
3669 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
3693 TT
1 TT
3695 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:13456 original size:24 final size:24
Alignment explanation
Indices: 13428--13480 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
13418 GGGTAATGAT
13428 ATTTTTTACAGTAATGGAAATATA
1 ATTTTTTACAGTAATGGAAATATA
13452 ATTTTTTACAGTAATGGAAATATA
1 ATTTTTTACAGTAATGGAAATATA
13476 ATTTT
1 ATTTT
13481 ACAGTATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTTTTTACAGTAATGGAAATATA
Found at i:13483 original size:22 final size:23
Alignment explanation
Indices: 13430--13486 Score: 98
Period size: 24 Copynumber: 2.5 Consensus size: 23
13420 GTAATGATAT
13430 TTTTTACAGTAATGGAAATATAA
1 TTTTTACAGTAATGGAAATATAA
13453 TTTTTTACAGTAATGGAAATATAA
1 -TTTTTACAGTAATGGAAATATAA
13477 -TTTTACAGTA
1 TTTTTACAGTA
13487 TGCCCCACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 10 0.30
24 23 0.70
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (23 bp):
TTTTTACAGTAATGGAAATATAA
Found at i:15785 original size:18 final size:18
Alignment explanation
Indices: 15756--15800 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
15746 ATATAAATAT
* *
15756 AAATGTAAATGAATATTAA
1 AAATG-AAATGAAAATGAA
*
15775 TAATGAAATGAAAATGAA
1 AAATGAAATGAAAATGAA
15793 AAATGAAA
1 AAATGAAA
15801 AAATGCATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.24
Consensus pattern (18 bp):
AAATGAAATGAAAATGAA
Found at i:15789 original size:24 final size:22
Alignment explanation
Indices: 15740--15792 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
15730 AAGCTTTAAT
* *
15740 AAATTAATATAAATATAAATGT
1 AAATGAATATAAATATAAATGA
*
15762 AAATGAATATTAATAATGAAATGA
1 AAATGAATATAAAT-AT-AAATGA
15786 AAATGAA
1 AAATGAA
15793 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 2 0.08
24 12 0.46
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAATGAATATAAATATAAATGA
Found at i:17086 original size:20 final size:18
Alignment explanation
Indices: 17039--17092 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
17029 GGAAGACGAA
17039 CCTC-ACCCATTTGTTTT
1 CCTCAACCCATTTGTTTT
17056 CCTCAACCCATTTGTTTT
1 CCTCAACCCATTTGTTTT
*
17074 CCTCGTGACCCATTTGTTT
1 CCTC--AACCCATTTGTTT
17093 CTTCCATAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
20 12 0.36
ACGTcount: A:0.13, C:0.33, G:0.09, T:0.44
Consensus pattern (18 bp):
CCTCAACCCATTTGTTTT
Found at i:18002 original size:20 final size:20
Alignment explanation
Indices: 17977--18043 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
17967 GTTTGATCGA
17977 CTTGGAGTAAACTCGGTTCT
1 CTTGGAGTAAACTCGGTTCT
17997 CTTGGAGTAAACTCGGTTCT
1 CTTGGAGTAAACTCGGTTCT
18017 CTTGGAGTAAACTCGGTTCT
1 CTTGGAGTAAACTCGGTTCT
18037 CTTGGAG
1 CTTGGAG
18044 CCCTCAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CTTGGAGTAAACTCGGTTCT
Found at i:21843 original size:80 final size:79
Alignment explanation
Indices: 21621--21910 Score: 395
Period size: 80 Copynumber: 3.6 Consensus size: 79
21611 AAAAGGGGAG
* * * *
21621 CCAACCTAAGGATATACCTT-GGATCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAG
1 CCAACCTAAGGATATACCTTGGGACCTACCCAA-GATATCCTTAGGTCCGTAGGGTTACCTTATG
* *
21685 TACACAACTAAGGTAA
65 CACACAACAAAGG-AA
* * *
21701 CCAGCCTAAGGATGTACCTTGGG-CCTATCCAAGATATCCTTAGGTCCGTAGGGTTACCTTATGC
1 CCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTATGC
*
21765 ACATAACAAAGGAA
66 ACACAACAAAGGAA
* *
21779 GCCAAACTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACATTATG
1 -CCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTATG
*
21844 CACGCAACAAAGGGAA
65 CACACAACAAA-GGAA
* *
21860 CTAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCGTA
1 CCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTA
21911 AGGACTTACA
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.01
79 58 0.31
80 120 0.65
81 6 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (79 bp):
CCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTATGC
ACACAACAAAGGAA
Found at i:24904 original size:18 final size:17
Alignment explanation
Indices: 24874--24926 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
24864 GGTCAACACC
*
24874 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCA
*
24891 GGTCAACGGGTCGGGTTA
1 GGTCAAC-GGTCGGGTCA
*
24909 GGTCAACAGATCGGGTCA
1 GGTCAAC-GGTCGGGTCA
24927 AACTGGTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 7 0.23
18 23 0.77
ACGTcount: A:0.19, C:0.21, G:0.42, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCA
Found at i:28826 original size:46 final size:45
Alignment explanation
Indices: 28734--29004 Score: 382
Period size: 46 Copynumber: 5.9 Consensus size: 45
28724 GTAACCATGC
*
28734 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
28778 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
*
28824 AAATAAGCTTACGAGCTTATGGAATAAATGGTTTATGGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGG--TA-AGTATATTGGTA
*
28872 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATA-TTGGTA
* * * * *
28918 AAATAAGCTTACGAGCTTATGAAACATATGGTAAGTATGTTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
28963 AAATAAGCTTACGAGATTATGGGATAAATGGTAAATATATTG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTG
29005 ATAAGAAATG
Statistics
Matches: 204, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
44 22 0.11
45 55 0.27
46 84 0.41
47 2 0.01
48 41 0.20
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:28880 original size:94 final size:89
Alignment explanation
Indices: 28734--29004 Score: 373
Period size: 94 Copynumber: 3.0 Consensus size: 89
28724 GTAACCATGC
*
28734 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
28798 GGTATTAAATGGTAAGTATATTGGTA
66 GG-A-TAAATGGTAAGTATATTGGTA
*
28824 AAATAAGCTTACGAGCTTATGGAATAAATGGTTTATGGTATATTGGTAAAATAAGCTTACGAGCT
1 AAATAAGCTTACGAGCTTATGGAATAAATGG--TA-AGTATATTGGTAAAATAAGCTTACGAGCT
*
28889 TATGGAACAAATGGTAAGTATATTTGGTA
63 TATGG-ATAAATGGTAAGTATA-TTGGTA
* * * * * *
28918 AAATAAGCTTACGAGCTTATGAAACATATGGTAAGTATGTTGATAAAATAAGCTTACGAGATTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
28983 GGGATAAATGGTAAATATATTG
66 -GGATAAATGGTAAGTATATTG
29005 ATAAGAAATG
Statistics
Matches: 162, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
90 28 0.17
91 47 0.29
92 4 0.02
93 15 0.09
94 68 0.42
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (89 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGATAAATGGTAAGTATATTGGTA
Found at i:28968 original size:139 final size:138
Alignment explanation
Indices: 28734--28994 Score: 407
Period size: 139 Copynumber: 1.9 Consensus size: 138
28724 GTAACCATGC
*
28734 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAAAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* ** * *
28799 GTATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTTTATGGTA
66 GAAACAAATGGTAAGTATATTGATAAAATAAGCTTACGAGATTATGGAATAAATGGTTTATGGTA
28864 TATTGGTA
131 TATTGGTA
*
28872 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTTGGTAAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTATGGAA-AAATGGCAAGTATA-TTGGTAAAATAAGCTTACGAGCTTA
* * *
28937 T-GAAACATATGGTAAGTATGTTGATAAAATAAGCTTACGAGATTATGGGATAAATGGT
64 TGGAAACAAATGGTAAGTATATTGATAAAATAAGCTTACGAGATTATGGAATAAATGGT
28995 AAATATATTG
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 24 0.22
139 61 0.55
140 26 0.23
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (138 bp):
AAATAAGCTTACGAGCTTATGGAAAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
GAAACAAATGGTAAGTATATTGATAAAATAAGCTTACGAGATTATGGAATAAATGGTTTATGGTA
TATTGGTA
Found at i:30849 original size:10 final size:10
Alignment explanation
Indices: 30834--30858 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30824 TTTCTAAAGT
30834 AAAAAAATAG
1 AAAAAAATAG
30844 AAAAAAATAG
1 AAAAAAATAG
30854 AAAAA
1 AAAAA
30859 GAAAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAATAG
Found at i:33288 original size:15 final size:15
Alignment explanation
Indices: 33237--33280 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
33227 ACATTTATAC
33237 CCTTTAATTTTCAGT
1 CCTTTAATTTTCAGT
*
33252 CCTTTAAATTTCAGT
1 CCTTTAATTTTCAGT
33267 CCTTTAATTTTCAG
1 CCTTTAATTTTCAG
33281 CATTTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (15 bp):
CCTTTAATTTTCAGT
Found at i:35041 original size:3 final size:3
Alignment explanation
Indices: 35033--35078 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
35023 GCCTTTGCAT
35033 TAA TAA TAA TAA TTAA TAA -ACA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
35079 AAAAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35553 original size:29 final size:30
Alignment explanation
Indices: 35506--35567 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
35496 CATCTTTAGG
* * *
35506 GATAATGGTTTCAAGAGAAACTGACTCAAA
1 GATAATGGTTTCAAAAGAAACAGACCCAAA
35536 GATAAT-GTTTCAAAAGAAACAGACCCAAA
1 GATAATGGTTTCAAAAGAAACAGACCCAAA
35565 GAT
1 GAT
35568 GATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (30 bp):
GATAATGGTTTCAAAAGAAACAGACCCAAA
Found at i:35672 original size:30 final size:30
Alignment explanation
Indices: 35605--35695 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
35595 AGAGACAAAA
*
35605 TTTTGTTTCAAAGGAAAC-GACTCAAAGATTG
1 TTTTGTTTCAAA-GAAACAGACTCAAAGA-TC
*
35636 TTTTGTTTTAATAGAAACAGACTCAAAGA-C
1 TTTTGTTTCAA-AGAAACAGACTCAAAGATC
* *
35666 TTTTGTTTCAAGATAAACAAACTCAAAGAT
1 TTTTGTTTCAA-AGAAACAGACTCAAAGAT
35696 AATGTCTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 25 0.49
31 15 0.29
32 11 0.22
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAGAAACAGACTCAAAGATC
Found at i:38821 original size:124 final size:125
Alignment explanation
Indices: 38595--38827 Score: 317
Period size: 124 Copynumber: 1.9 Consensus size: 125
38585 CGCAACATCA
* * * *
38595 TCTTATACTGGTACATGCCTTCAAAATGCCCCAACATATCAGATTGTAAGGCTTACTCTTAATGC
1 TCTTATACTGGTACAGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
* *
38660 CTTCTTGGTCTAAATCTTGTCCTCTCAATATGATGTGGGTTCAGCCATTCCCCATCAGTG
66 CTCCTTGGTCTAAATCTTGTCCTCTCAACATGATGTGGGTTCAGCCATTCCCCATCAGTG
* * ** * * *
38720 TCTTA-ACTGGTACGGGCCTTCAAAATGCCTCGTCACCTCAAATTGTAAGGCTCATTCTTCATGC
1 TCTTATACTGGTACAGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
*
38784 CTCCTTGGTCTGAATCTTG-CCATCTCAACATGATGTGGGTTCAG
66 CTCCTTGGTCTAAATCTTGTCC-TCTCAACATGATGTGGGTTCAG
38828 TCGTGCCCCA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
123 2 0.02
124 86 0.92
125 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (125 bp):
TCTTATACTGGTACAGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
CTCCTTGGTCTAAATCTTGTCCTCTCAACATGATGTGGGTTCAGCCATTCCCCATCAGTG
Found at i:40151 original size:17 final size:16
Alignment explanation
Indices: 40131--40170 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
40121 CTTCCAATTT
40131 TTTTCTTTTCTTTATTC
1 TTTTCTTTTCTTT-TTC
40148 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
40164 TCTTTCT
1 T-TTTCT
40171 ACATTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTC
Found at i:42442 original size:7 final size:7
Alignment explanation
Indices: 42430--42461 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
42420 AACTACATGC
42430 AATGCAA
1 AATGCAA
42437 AATGCAA
1 AATGCAA
42444 AATGC-A
1 AATGCAA
42450 AATGC-A
1 AATGCAA
42456 AATGCA
1 AATGCA
42462 CGAGGTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (7 bp):
AATGCAA
Found at i:42732 original size:21 final size:20
Alignment explanation
Indices: 42708--42758 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
42698 CAATGAGAAG
42708 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTC-TGTCTTTATGAA
42729 TGGTCTTCTCGTCTTTATGAA
1 TGGTCTTCT-GTCTTTATGAA
*
42750 TGATCTTCT
1 TGGTCTTCT
42759 TGTCCTTGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (20 bp):
TGGTCTTCTGTCTTTATGAA
Found at i:44570 original size:13 final size:13
Alignment explanation
Indices: 44552--44578 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44542 TCCATTTTTT
44552 GTGACAGTGACGG
1 GTGACAGTGACGG
44565 GTGACAGTGACGG
1 GTGACAGTGACGG
44578 G
1 G
44579 ATACACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.48, T:0.15
Consensus pattern (13 bp):
GTGACAGTGACGG
Found at i:46363 original size:2 final size:2
Alignment explanation
Indices: 46356--46381 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46346 CCCATAATAC
46356 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
46382 TTACAGGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49080 original size:18 final size:16
Alignment explanation
Indices: 49048--49078 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49038 AATATTGAAA
49048 CTTGAACTCAAAAAAG
1 CTTGAACTCAAAAAAG
49064 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
49079 AAATTAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:49561 original size:22 final size:21
Alignment explanation
Indices: 49536--49576 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
49526 ATAAAAAAAT
49536 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
49558 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
49577 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:49714 original size:2 final size:2
Alignment explanation
Indices: 49707--49733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49697 GTGAGTCTAA
49707 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49734 ACTTTTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49827 original size:16 final size:16
Alignment explanation
Indices: 49796--49851 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
49786 CGTAAAAATA
*
49796 AAAATAAA-AATAAAT
1 AAAATAAATAATTAAT
*
49811 AAAATATATAATTAAT
1 AAAATAAATAATTAAT
*
49827 AAAATAAATAATGAAT
1 AAAATAAATAATTAAT
49843 CAAAA-AAAT
1 -AAAATAAAT
49852 TATATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.20
16 24 0.69
17 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATAAATAATTAAT
Found at i:50873 original size:29 final size:29
Alignment explanation
Indices: 50828--51160 Score: 235
Period size: 29 Copynumber: 11.6 Consensus size: 29
50818 TTAATTTTAC
50828 ATCTTAACATTAAAAATATATTTTATTCTT
1 ATCTTAAC-TTAAAAATATATTTTATTCTT
50858 ATCTTAACTTAAAAATATATTTTATTCTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* *
50887 ATTTTAACTT--AAATATATTTTAGTCTTT
1 ATCTTAACTTAAAAATATATTTTATTC-TT
*
50915 ATCTTAACTTAAAAAATATATTTTATTGTT
1 ATCTTAACTT-AAAAATATATTTTATTCTT
* * * *
50945 ATCTTAACTTATTACATAAATTATATTC-T
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * *
50974 AACTTTAA-TTATTAAATATATTCTATTTTT
1 ATC-TTAACTTA-AAAATATATTTTATTCTT
* * * * *
51004 A-CCTAA-ATATTAAATATAATTAATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * *
51032 ATTTTAAATTAAAACATATTTTTTATTCTT
1 ATCTTAACTTAAAA-ATATATTTTATTCTT
*
51062 ATCTTAACTTAAAAA-A-A---TATTTTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* *
51086 ATTTTAAC-TAAAAA-ATATTTT-TTTTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* * *
51112 ATCTTAACTACAAAAAATATATTATATTTTT
1 ATCTTAACT--TAAAAATATATTTTATTCTT
* *
51143 ATCTTAAATTTAAAATAT
1 ATCTTAACTTAAAAATAT
51161 TACTAGAATA
Statistics
Matches: 245, Mismatches: 39, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.03
24 14 0.06
26 12 0.05
27 15 0.06
28 33 0.13
29 69 0.28
30 69 0.28
31 26 0.11
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (29 bp):
ATCTTAACTTAAAAATATATTTTATTCTT
Found at i:50932 original size:87 final size:86
Alignment explanation
Indices: 50828--51162 Score: 262
Period size: 87 Copynumber: 3.9 Consensus size: 86
50818 TTAATTTTAC
* *
50828 ATCTTAACATT-AAAAATATATTTTATTCTTATCTTAACTTAAAAATATATTTTATTCTTATTTT
1 ATCTTAAC-TTAAAAAATATATTTTATTCTTATCTTAACTTAAAAATATATTATATTCTTATCTT
* *
50892 AACTTAAATATATTTTAGTCTTT
65 AACTTAAATATATTATA-TTTTT
* * * * *
50915 ATCTTAACTTAAAAAATATATTTTATTGTTATCTTAACTTATTACATAAATTATATTC-TAACTT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTA-AAAATATATTATATTCTTATC-T
* *
50979 TAATTATTAAATATATTCTATTTTT
64 TAA--CTTAAATATATTATATTTTT
* * ** * * * * * *
51004 A-CCTAA-ATATTAAATATAATTAATTCTTATTTTAAATTAAAACATATTTTTTATTCTTATCTT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTAAAA-ATATATTATATTCTTATCTT
*
51067 AACTTAAA-A-A-AATATTTTT
65 AACTTAAATATATTATATTTTT
* * *
51086 ATTTTAAC-TAAAAAATAT-TTTT-TT-TTATCTTAACTACAAAAAATATATTATATTTTTATCT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACT--TAAAAATATATTATATTCTTATCT
*
51147 TAAATTTAAA-ATATTA
64 T-AACTTAAATATATTA
51163 CTAGAATAAA
Statistics
Matches: 192, Mismatches: 42, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
80 9 0.05
81 19 0.10
82 22 0.11
83 13 0.07
84 2 0.01
85 5 0.03
86 3 0.02
87 78 0.41
88 23 0.12
89 5 0.03
90 13 0.07
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (86 bp):
ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTAAAAATATATTATATTCTTATCTTA
ACTTAAATATATTATATTTTT
Found at i:51082 original size:24 final size:23
Alignment explanation
Indices: 51055--51131 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 23
51045 ACATATTTTT
*
51055 TATTCTTATCTTAACTTAAAAAAA
1 TATTTTTATCTTAAC-TAAAAAAA
*
51079 TATTTTTATTTTAACTAAAAAATA
1 TATTTTTATCTTAACTAAAAAA-A
*
51103 TTTTTTTTTATCTTAACTACAAAAAA
1 --TATTTTTATCTTAACTA-AAAAAA
51129 TAT
1 TAT
51132 ATTATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.16
24 16 0.36
26 16 0.36
27 5 0.11
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTTTATCTTAACTAAAAAAA
Found at i:51101 original size:22 final size:24
Alignment explanation
Indices: 51055--51118 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 24
51045 ACATATTTTT
* *
51055 TATTCTTATCTTAACTTAAAAAAA
1 TATTTTTATTTTAACTTAAAAAAA
51079 TATTTTTATTTTAAC-T-AAAAAA
1 TATTTTTATTTTAACTTAAAAAAA
*
51101 TATTTTT-TTTTATCTTAA
1 TATTTTTATTTTAACTTAA
51119 CTACAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 6 0.17
22 14 0.40
23 2 0.06
24 13 0.37
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTTTATTTTAACTTAAAAAAA
Found at i:51286 original size:29 final size:29
Alignment explanation
Indices: 51165--51272 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 29
51155 AAATATTACT
* *
51165 AGAATAAAATATAAATATTTAAGTT-AAATA
1 AGAATAAAATAT--ATTTTTAAATTAAAATA
* *
51195 AGAATAAATTATATATTTTT-ATTTAAAGTA
1 AGAATAAA--ATATATTTTTAAATTAAAATA
*
51225 AGATTAAAATATATTTTTAAATTAAAATA
1 AGAATAAAATATATTTTTAAATTAAAATA
51254 AGAATAAAATATATTTTTA
1 AGAATAAAATATATTTTTA
51273 GGTTACGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
28 10 0.15
29 29 0.43
30 24 0.36
32 4 0.06
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (29 bp):
AGAATAAAATATATTTTTAAATTAAAATA
Found at i:55462 original size:31 final size:32
Alignment explanation
Indices: 55424--55500 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
55414 AGAACGACTT
55424 GAACCCGAATTGAATC-GA-AAATATGATACCC
1 GAACCCGAATTGAATCTGACAAATATGA-ACCC
* * **
55455 GAACCCGAACTGCATCTGACTGATATGAACCC
1 GAACCCGAATTGAATCTGACAAATATGAACCC
55487 GAACCCGAGATTGA
1 GAACCCGA-ATTGA
55501 CCTGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 14 0.38
32 14 0.38
33 9 0.24
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.18
Consensus pattern (32 bp):
GAACCCGAATTGAATCTGACAAATATGAACCC
Found at i:55550 original size:16 final size:16
Alignment explanation
Indices: 55529--55563 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55519 TTATCCGAAT
55529 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACC
*
55545 TGTTTTTAACCTGACC
1 TGTTTTCAACCTGACC
55561 TGT
1 TGT
55564 AAATGATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.43
Consensus pattern (16 bp):
TGTTTTCAACCTGACC
Found at i:55614 original size:16 final size:16
Alignment explanation
Indices: 55593--55630 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
55583 TGACATGATC
55593 TGATATTTACCTGACT
1 TGATATTTACCTGACT
55609 TGATATTTACCTGACT
1 TGATATTTACCTGACT
55625 T-ATATT
1 TGATATT
55631 ACCATGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:56451 original size:20 final size:19
Alignment explanation
Indices: 56414--56460 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
56404 TAGTAGTACA
56414 TGCATATTA--ATTTCATT
1 TGCATATTAGTATTTCATT
*
56431 TGCATAATTAGTATTTTATT
1 TGCAT-ATTAGTATTTCATT
56451 TGCATATTAG
1 TGCATATTAG
56461 GTTAATTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 5 0.19
20 12 0.46
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (19 bp):
TGCATATTAGTATTTCATT
Found at i:56733 original size:15 final size:15
Alignment explanation
Indices: 56713--56749 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
56703 TAATTTACTT
56713 TATATAGTTTATATA
1 TATATAGTTTATATA
56728 TATATAGTTTATATA
1 TATATAGTTTATATA
56743 TACTATA
1 TA-TATA
56750 TATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:56751 original size:20 final size:20
Alignment explanation
Indices: 56722--56765 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56712 TTATATAGTT
56722 TATA-TATATATAGTTTATA
1 TATACTATATATAGTTTATA
*
56741 TATACTATATATGGTTTATA
1 TATACTATATATAGTTTATA
*
56761 CATAC
1 TATAC
56766 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (20 bp):
TATACTATATATAGTTTATA
Found at i:56941 original size:19 final size:21
Alignment explanation
Indices: 56888--56941 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 21
56878 TAGTATTTCT
* *
56888 ATATATATATCTATAGATTAC
1 ATATATATAGCTATACATTAC
* *
56909 TTATAT-TAGTTATACA-TAC
1 ATATATATAGCTATACATTAC
56928 ATATATATA-CTATA
1 ATATATATAGCTATA
56942 TTAATATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 12 0.46
20 9 0.35
21 5 0.19
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATATATAGCTATACATTAC
Found at i:57300 original size:19 final size:19
Alignment explanation
Indices: 57260--57330 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
57250 AAATTTTCTA
**
57260 TTCCCTCTAAATTTTTCAAT
1 TTCCCTCTAAA-TTCACAAT
57280 TTCCCTCTAAATTCACAAT
1 TTCCCTCTAAATTCACAAT
* * * *
57299 TTCCATAT-ATTCTCAAAAT
1 TTCCCTCTAAAT-TCACAAT
57318 TTCCCTCTAAATT
1 TTCCCTCTAAATT
57331 TGCCAATTCC
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 2 0.05
19 25 0.62
20 13 0.32
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCCTCTAAATTCACAAT
Found at i:57385 original size:2 final size:2
Alignment explanation
Indices: 57380--57552 Score: 143
Period size: 2 Copynumber: 89.5 Consensus size: 2
57370 TTTTATAATT
*
57380 TA TA TA TA TA TA TA TA T- TA TA TA TA TA T- TA TA TT 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
*
57420 -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT 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
* * * *
57461 TA GT- TCA CA TA TA TA GT- TCA TA TA AA CA TA -A TT TA TA TA TA
1 TA -TA T-A TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA
* * *
57502 TG T- TA TA -A TA -A T- TA TA TA GTT TA TA TA TA AA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
57540 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
57553 TAGTTGTTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
1 11 0.08
2 124 0.89
3 4 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57661 original size:82 final size:79
Alignment explanation
Indices: 57535--57701 Score: 280
Period size: 82 Copynumber: 2.1 Consensus size: 79
57525 TATATAAATA
* *
57535 TTATATATATATATATATTAGTTGTTTTAATTTTTTTCTTAACTTTTGAAATGAATGCAATTTTT
1 TTATATATATATATATATTAGTTGTTTTAATTTTTTTCTCAACTTTTGAAATGAAT-CAAATTTT
57600 TCATTTTATAATATTT
65 TCATTTTATAAT-TTT
57616 TTATAATATATATATATATTAGTTGTTTTAATTTTTTTCTCAACTTTTGAAATGAATCAAATTTT
1 TTAT-ATATATATATATATTAGTTGTTTTAATTTTTTTCTCAACTTTTGAAATGAATCAAATTTT
57681 TCATTTTATAATTTT
65 TCATTTTATAATTTT
*
57696 TCATAT
1 TTATAT
57702 TTGATCCCTT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
79 2 0.02
80 6 0.07
81 23 0.28
82 51 0.62
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (79 bp):
TTATATATATATATATATTAGTTGTTTTAATTTTTTTCTCAACTTTTGAAATGAATCAAATTTTT
CATTTTATAATTTT
Found at i:58088 original size:214 final size:215
Alignment explanation
Indices: 57719--58410 Score: 1217
Period size: 214 Copynumber: 3.2 Consensus size: 215
57709 CTTCGTATTG
* * *
57719 TTTAATTTACTTAAATTTTTATTTATAATTTCATATTTTTTCAATTTAGTCCTCCAAATTTTATT
1 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
57784 TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATT-GCCCATAACTTTTTAA
66 TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAA
* *
57848 ATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAGTTATTTCGATTTGA
131 ATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTAGATTTGA
*
57913 TCCCTCATCAATGTGTGTTC
196 TCCCTCATCAATGTGTGTTA
*
57933 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAATTTTTATT
1 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
* *
57998 TGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAA
66 TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAA
* *
58063 ATGGGTAT-ATTTATTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTTGATTTGA
131 ATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTAGATTTGA
58127 TCCCTCATCAATGTGTGTTA
196 TCCCTCATCAATGTGTGTTA
* *
58147 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGACCTCCAAATTTTATT
1 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
58212 TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAA
66 TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAA
*
58277 ATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAGTTTAAAATTATTTAGATTTG
131 ATGGGTATAATTTAGTAC-TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTAGATTTG
*
58342 ATCCCTCATCAATGTGTGTTG
195 ATCCCTCATCAATGTGTGTTA
*
58363 TTTAATTTATTTAAATTTTTATTTGTAATTCCATATTTGTTCAATTTA
1 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
58411 ATTCTTAAAT
Statistics
Matches: 454, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
214 312 0.69
215 32 0.07
216 110 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (215 bp):
TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
TGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAA
ATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTAGATTTGA
TCCCTCATCAATGTGTGTTA
Found at i:64940 original size:9 final size:9
Alignment explanation
Indices: 64926--65004 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
64916 GGGAGAAAGA
64926 AAAAAATAG
1 AAAAAATAG
64935 AAAAAATAG
1 AAAAAATAG
64944 AAAAACA-AG
1 AAAAA-ATAG
64953 AAAGAAA-A-
1 AAA-AAATAG
64961 AAATAAATAAAG
1 AAA-AAAT--AG
*
64973 AAAAAACAG
1 AAAAAATAG
*
64982 AAAAAAGAG
1 AAAAAATAG
*
64991 -AAAAAGAG
1 AAAAAATAG
64999 AAAAAA
1 AAAAAA
65005 AGAGAGAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
8 14 0.23
9 36 0.60
10 3 0.05
11 4 0.07
12 3 0.05
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.05
Consensus pattern (9 bp):
AAAAAATAG
Found at i:64959 original size:32 final size:32
Alignment explanation
Indices: 64919--65004 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
64909 TAACACAGGG
*
64919 AGAAAGAAAAAAATAGAAAAAATAGAAAAAC-A
1 AGAAAGAAAAAAATAGAAAAAAGA-AAAAACAA
*
64951 AGAAAGAAAAAAATA-AATAAAGAAAAAACAGA
1 AGAAAGAAAAAAATAGAAAAAAGAAAAAACA-A
* * *
64983 AAAAAGAGAAAAAGAGAAAAAA
1 AGAAAGAAAAAAATAGAAAAAA
65005 AGAGAGAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.13
31 6 0.13
32 28 0.62
33 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (32 bp):
AGAAAGAAAAAAATAGAAAAAAGAAAAAACAA
Found at i:64963 original size:16 final size:16
Alignment explanation
Indices: 64919--64978 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
64909 TAACACAGGG
64919 AGAAAGAAAAAAATAGA
1 AGAAAGAAAAAAATA-A
* * * *
64936 AAAAATAGAAAAA-CA
1 AGAAAGAAAAAAATAA
64951 AGAAAGAAAAAAATAA
1 AGAAAGAAAAAAATAA
*
64967 ATAAAGAAAAAA
1 AGAAAGAAAAAA
64979 CAGAAAAAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
15 11 0.33
16 12 0.36
17 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.07
Consensus pattern (16 bp):
AGAAAGAAAAAAATAA
Found at i:65008 original size:18 final size:18
Alignment explanation
Indices: 64923--65023 Score: 80
Period size: 19 Copynumber: 5.4 Consensus size: 18
64913 ACAGGGAGAA
* *
64923 AGAAAAAAATAGAAAAAAT
1 AGAAAAAAAGAG-AAAAAG
*
64942 AGAAAAACAAGAAAGAAAAAA
1 AGAAAAA-AAG--AGAAAAAG
* * *
64963 ATAAATAAAGA-AAAAAC
1 AGAAAAAAAGAGAAAAAG
64980 AG-AAAAAAGAGAAAAAG
1 AGAAAAAAAGAGAAAAAG
*
64997 AGAAAAAAAGAGAGAAAGG
1 AGAAAAAAAGAGA-AAAAG
65016 AGAAAAAA
1 AGAAAAAA
65024 GAAAGAAGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.10
17 13 0.19
18 11 0.16
19 19 0.28
20 5 0.07
21 10 0.15
22 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AGAAAAAAAGAGAAAAAG
Found at i:65024 original size:18 final size:18
Alignment explanation
Indices: 64975--65039 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
64965 AAATAAAGAA
*
64975 AAAACAGAAAAAAGAGA-
1 AAAAGAGAAAAAAGAGAG
64992 AAAAGAGAAAAAAAGAGAG
1 AAAAGAG-AAAAAAGAGAG
* *
65011 AAAGGAGAAAAAAGAAAG
1 AAAAGAGAAAAAAGAGAG
65029 AAGAA-AGAAAA
1 AA-AAGAGAAAA
65040 CCAATCAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 6 0.15
18 28 0.68
19 7 0.17
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAAAAGAGAG
Found at i:65699 original size:27 final size:28
Alignment explanation
Indices: 65661--65719 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
65651 CAAAGAATCC
* *
65661 AACCTGAAACACATTACC-TCCC-AGATT
1 AACCCGAAACACATGACCTTCCCAAG-TT
65688 AACCCGAAACACATGACCTTCCCAAGTT
1 AACCCGAAACACATGACCTTCCCAAGTT
65716 AACC
1 AACC
65720 TAAGCCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.57
28 10 0.36
29 2 0.07
ACGTcount: A:0.37, C:0.36, G:0.08, T:0.19
Consensus pattern (28 bp):
AACCCGAAACACATGACCTTCCCAAGTT
Found at i:66460 original size:171 final size:173
Alignment explanation
Indices: 66173--66503 Score: 549
Period size: 171 Copynumber: 1.9 Consensus size: 173
66163 TTGATCACTT
*
66173 TTTAAGTCTTAATTTGGTTATGGCATCGTGAAGAGAAGCCCTATGTCAATTCGATAACATTGCTG
1 TTTAAGTCTTAATTTGGTTATGGCATCGTGAAGAGAAGCCCTATGTCAATTCGATAACATTACTG
* *
66238 ATTAGTGACACTAGAGTAAAACAATTCGAGATTAAGATTTTGTCATGAAGAGAGCCATGAGTACC
66 ATTAGTGACACCAGAGTAAAACAATTCGAGATTAAGATTTTGGCATGAAGAGAGCCATGAGTACC
66303 CACATTGGGGCATTACCTAAACCAGATGTCATTAAGATCACGA
131 CACATTGGGGCATTACCTAAACCAGATGTCATTAAGATCACGA
* * *
66346 TTTAAGTGTTCATTTGGTTATGGCATCGTGAAGAGAAGCCCTA-GTCTATT-GATAACATTACTG
1 TTTAAGTCTTAATTTGGTTATGGCATCGTGAAGAGAAGCCCTATGTCAATTCGATAACATTACTG
* * *
66409 ATTAGTGACACCAGAGTGAAACTATTCGAGATTAAGATTTTGGCATGAAGAGAGCCTTGAGTACC
66 ATTAGTGACACCAGAGTAAAACAATTCGAGATTAAGATTTTGGCATGAAGAGAGCCATGAGTACC
* *
66474 CATATTGGGGCATTATCTAAACCAGATGTC
131 CACATTGGGGCATTACCTAAACCAGATGTC
66504 GTTATGAGAT
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
171 100 0.68
172 6 0.04
173 41 0.28
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (173 bp):
TTTAAGTCTTAATTTGGTTATGGCATCGTGAAGAGAAGCCCTATGTCAATTCGATAACATTACTG
ATTAGTGACACCAGAGTAAAACAATTCGAGATTAAGATTTTGGCATGAAGAGAGCCATGAGTACC
CACATTGGGGCATTACCTAAACCAGATGTCATTAAGATCACGA
Found at i:67836 original size:42 final size:41
Alignment explanation
Indices: 67790--67909 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 41
67780 AACAGTTTCT
67790 TGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCATCA-TAAGTCTTTCGAGCA
* * * * *
67832 TGATGCGTAAGTCCTTTGAGCCATTTATAAGTCTTTCGAGTA
1 TGATGAGTAAGTCCTTCGGGCCA-TCATAAGTCTTTCGAGCA
* *
67874 GGATGA-TAAGTCCTTCGGGCCATCCATAAGACTTTC
1 TGATGAGTAAGTCCTTCGGGCCAT-CATAAGTCTTTC
67910 AGGTAGGATT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 24 0.37
42 38 0.58
43 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (41 bp):
TGATGAGTAAGTCCTTCGGGCCATCATAAGTCTTTCGAGCA
Found at i:68094 original size:261 final size:261
Alignment explanation
Indices: 67497--68241 Score: 1055
Period size: 261 Copynumber: 2.8 Consensus size: 261
67487 AATTTTTATG
* * * *
67497 AGAAACTAAGCTTGATTTTCATGGTTTTATTAATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
1 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
* * ** *
67562 TCGAGCATGATGCTTAAGTCCTTCGGGATATTTATAAGTCTTTCGAGCTAAATGATAAGACCTTC
66 TCGAGCATGATGCGTAAGTCCTTTGGGCCATTTATAAGTCTTTCGAG-TAGATGATAAGACCTTC
* * * * *
67627 GAGCCATCCATAAGACCTTCGGACAAGATGTTTTCAACATTTTTCGTGCTCGATTAATCACATAT
130 GGGCCATCCATAAGACATTCGG-CAAGATGTTTTCAACATTTCTGGTACTCGATTAATCACATAT
*
67692 GGAGTTGAATCAACAACACCTCACTCGAAGGACCAACATAATATGTAGGGGTTCCTTGATGACAA
194 GGAGTTGAATCAACAACACCTCACTCGAAGGACCAACATAATATATAGGGGTTCCTTGATGACAA
*
67757 TTA
259 CTA
** *
67760 AGAAACTAAGCTTGATTTTCAACAGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTT
1 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
* *
67825 TCGAGCATGATGCGTAAGTCCTTTGAGCCATTTATAAGTCTTTCGAGTAGGATGATAAGTCCTTC
66 TCGAGCATGATGCGTAAGTCCTTTGGGCCATTTATAAGTCTTTCGAGTA-GATGATAAGACCTTC
* * * *
67890 GGGCCATCCATAAGACTTTCAGGTAGGATTTTTTCAACATTTCTGGTACTCGATTAATCACATAT
130 GGGCCATCCATAAGACATTC-GGCAAGATGTTTTCAACATTTCTGGTACTCGATTAATCACATAT
* * *
67955 GGAG-T-AATCAGCAATACCTCACTCGAGGGACCAACATAATATATAGGGGTTCCTTGATGACAA
194 GGAGTTGAATCAACAACACCTCACTCGAAGGACCAACATAATATATAGGGGTTCCTTGATGACAA
68018 CTA
259 CTA
*
68021 AGAAACTAAGCATGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
1 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
* * * * *
68086 TTGAGCATGATGCGTAAGT-CTTTCGGGCCATTTATAACTTTTTAGAGCAAGATGATAAGACCTT
66 TCGAGCATGATGCGTAAGTCCTTT-GGGCCATTTATAAGTCTTTCGAG-TAGATGATAAGACCTT
* * * *
68150 CGGGCTATCCATAAGACATTCGGGCAAAATGTTTTCAAAATTTCTGGTACTTGATTAATCACATA
129 CGGGCCATCCATAAGACATTC-GGCAAGATGTTTTCAACATTTCTGGTACTCGATTAATCACATA
*
68215 TAGAGTTGAATCAACAACACCTCACTC
193 TGGAGTTGAATCAACAACACCTCACTC
68242 TAGGAATCAA
Statistics
Matches: 426, Mismatches: 50, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
260 4 0.01
261 227 0.53
262 5 0.01
263 188 0.44
264 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (261 bp):
AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTT
TCGAGCATGATGCGTAAGTCCTTTGGGCCATTTATAAGTCTTTCGAGTAGATGATAAGACCTTCG
GGCCATCCATAAGACATTCGGCAAGATGTTTTCAACATTTCTGGTACTCGATTAATCACATATGG
AGTTGAATCAACAACACCTCACTCGAAGGACCAACATAATATATAGGGGTTCCTTGATGACAACT
A
Found at i:72570 original size:19 final size:19
Alignment explanation
Indices: 72546--72588 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
72536 AAAGAAAAGG
72546 AAAAGAAA-AAGAAAATAAC
1 AAAAGAAAGAA-AAAATAAC
72565 AAAAGAAAGTAAAAAATAAC
1 AAAAGAAAG-AAAAAATAAC
72585 AAAA
1 AAAA
72589 TCAAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.79, C:0.05, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAAATAAC
Found at i:77678 original size:6 final size:5
Alignment explanation
Indices: 77639--77682 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
77629 TAGGCCCTCA
* *
77639 TATTT TATGTT TATTT TAATT TATTT TATGT TATCTT TATTT TA
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TAT-TT TATTT TA
77683 CTGTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 24 0.73
6 9 0.27
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (5 bp):
TATTT
Found at i:83769 original size:21 final size:21
Alignment explanation
Indices: 83744--83791 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
83734 GTTTTGTTTT
83744 GTTTTAATTTAGCCACTGCTA
1 GTTTTAATTTAGCCACTGCTA
* * *
83765 GTTTTTGATTTAGCTACTTCTA
1 G-TTTTAATTTAGCCACTGCTA
83787 -TTTTA
1 GTTTTA
83792 TTTTTTGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 4 0.18
21 1 0.05
22 17 0.77
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (21 bp):
GTTTTAATTTAGCCACTGCTA
Found at i:84011 original size:21 final size:21
Alignment explanation
Indices: 83985--84033 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
83975 TAGGTCCTTA
83985 TATTTTGTGTTTAT-TTTAATT
1 TATTTTGTG-TTATCTTTAATT
*
84006 TATTTTGTGTTATCTTTATTT
1 TATTTTGTGTTATCTTTAATT
84027 TACTTTT
1 TA-TTTT
84034 TTATTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.71
Consensus pattern (21 bp):
TATTTTGTGTTATCTTTAATT
Found at i:85280 original size:45 final size:46
Alignment explanation
Indices: 85173--85280 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
85163 GATGCATGGC
* *
85173 TGGTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTCA
1 TGGTGCATCGATGCATGAAATGCATTCGATG-TTTCATAAAAT-CTCA
**
85221 --GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCA
1 TGGTGCATCGATGCATGAAATGCATTCGATGTTTC-ATAAAATCTCA
85264 TGGTGCATCGATGCATG
1 TGGTGCATCGATGCATG
85281 GATTGGTGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 20 0.38
46 27 0.51
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (46 bp):
TGGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAATCTCA
Found at i:91843 original size:22 final size:21
Alignment explanation
Indices: 91801--91840 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91791 CAGTTTATTT
*
91801 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
91822 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
91841 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:95555 original size:16 final size:16
Alignment explanation
Indices: 95534--95564 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95524 TATGCATGTT
95534 CTCTAAATTCATCCAA
1 CTCTAAATTCATCCAA
95550 CTCTAAATTCATCCA
1 CTCTAAATTCATCCA
95565 TGTTTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (16 bp):
CTCTAAATTCATCCAA
Found at i:101993 original size:5 final size:5
Alignment explanation
Indices: 101974--102029 Score: 76
Period size: 5 Copynumber: 10.8 Consensus size: 5
101964 TAGGTCCTCA
* *
101974 TATTT TATGTT TATTT TATTT TATTT TATGT TATCTT TATTT TACTT TATTT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TAT-TT TATTT TATTT TATTT
102026 TATT
1 TATT
102030 ATTTTTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 36 0.80
6 9 0.20
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:102000 original size:21 final size:21
Alignment explanation
Indices: 101974--102029 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
101964 TAGGTCCTCA
101974 TATTTTATGTTTATTTTATTT
1 TATTTTATGTTTATTTTATTT
101995 TATTTTATG-TTATCTTTATTT
1 TATTTTATGTTTAT-TTTATTT
*
102016 TACTTTAT-TTTATT
1 TATTTTATGTTTATT
102030 ATTTTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTATGTTTATTTTATTT
Found at i:102012 original size:26 final size:26
Alignment explanation
Indices: 101978--102028 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
101968 TCCTCATATT
* *
101978 TTATGTTTATTTTATTTTATTTTATG
1 TTATCTTTATTTTACTTTATTTTATG
102004 TTATCTTTATTTTACTTTATTTTAT
1 TTATCTTTATTTTACTTTATTTTAT
102029 TATTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (26 bp):
TTATCTTTATTTTACTTTATTTTATG
Found at i:108364 original size:22 final size:21
Alignment explanation
Indices: 108322--108361 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
108312 GAGTTTATTT
*
108322 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
108343 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
108362 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:118261 original size:2 final size:2
Alignment explanation
Indices: 118210--118250 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
118200 ATTTATAATT
118210 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118250 T
1 T
118251 GGAGAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118431 original size:22 final size:22
Alignment explanation
Indices: 118383--118431 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
118373 ATCTTGGAGC
* *
118383 AAACCTGAACTGACCCAAGTTG
1 AAACCCGAACCGACCCAAGTTG
*
118405 CAACCCGAACCGACCCAA-TCTG
1 AAACCCGAACCGACCCAAGT-TG
118427 AAACC
1 AAACC
118432 TTAAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.12
Consensus pattern (22 bp):
AAACCCGAACCGACCCAAGTTG
Found at i:119374 original size:13 final size:13
Alignment explanation
Indices: 119356--119380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119346 ATACATATTC
119356 TTTTATTTTTTAT
1 TTTTATTTTTTAT
119369 TTTTATTTTTTA
1 TTTTATTTTTTA
119381 CTATTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:119510 original size:3 final size:3
Alignment explanation
Indices: 119502--119528 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
119492 TATATTTTTC
119502 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
119529 TATTTATTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:119574 original size:22 final size:22
Alignment explanation
Indices: 119546--119587 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
119536 TTAAACTACA
119546 TTTTATT-TTATATTTATTGTAT
1 TTTTATTCTTAT-TTTATTGTAT
*
119568 TTTTATTCTTATTTTTTTGT
1 TTTTATTCTTATTTTATTGT
119588 TTGTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTATTCTTATTTTATTGTAT
Found at i:119656 original size:25 final size:25
Alignment explanation
Indices: 119628--119677 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
119618 TCTTCCTTAT
119628 TTTATTTTTACTTTT-TATTTATTTA
1 TTTATTTTTA-TTTTATATTTATTTA
*
119653 TTTATTTTTATTTTATTTTTATTTA
1 TTTATTTTTATTTTATATTTATTTA
119678 AATTTCACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTTTATTTTATATTTATTTA
Found at i:119664 original size:6 final size:6
Alignment explanation
Indices: 119627--119676 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
119617 TTCTTCCTTA
*
119627 TTTTAT TTTTACT TTTTAT TTATT-T ATTTAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTA-T TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT
119675 TT
1 TT
119677 AAATTTCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 7 0.18
6 23 0.61
7 8 0.21
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:119667 original size:11 final size:11
Alignment explanation
Indices: 119624--119676 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 11
119614 TTTTTCTTCC
119624 TTATTTTATTT
1 TTATTTTATTT
119635 TTACTTTTTATTT
1 TTA--TTTTATTT
119648 ATT-TATTTATTT
1 -TTAT-TTTATTT
119660 TTATTTTATTT
1 TTATTTTATTT
119671 TTATTT
1 TTATTT
119677 AAATTTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
11 19 0.51
12 8 0.22
13 8 0.22
14 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:120605 original size:22 final size:23
Alignment explanation
Indices: 120558--120605 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
120548 ACAATTTTTT
* * *
120558 AAATATTTTTGTATTTTATTATA
1 AAATATATTTGTAATTTAATATA
120581 AAATATATTT-TAATTTAATATA
1 AAATATATTTGTAATTTAATATA
120603 AAA
1 AAA
120606 CAAATGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATATATTTGTAATTTAATATA
Found at i:120615 original size:23 final size:22
Alignment explanation
Indices: 120572--120616 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
120562 ATTTTTGTAT
* * *
120572 TTTATTATAAAATATATTTTAA
1 TTTAATATAAAACAAATTTTAA
120594 TTTAATATAAAACAAATGTTTAA
1 TTTAATATAAAACAAAT-TTTAA
120617 ATTATATCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAATATAAAACAAATTTTAA
Found at i:134709 original size:16 final size:16
Alignment explanation
Indices: 134688--134718 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
134678 TGAATATTTA
134688 ATAATATATTATTATT
1 ATAATATATTATTATT
134704 ATAATATATTATTAT
1 ATAATATATTATTAT
134719 AATATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATATATTATTATT
Found at i:134712 original size:39 final size:40
Alignment explanation
Indices: 134643--134753 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 40
134633 TTAATATCAT
*
134643 TTTAATAAAACTATTAATTATTA-AATTATATTTATT-GAATA
1 TTTAATAATA-TATT-ATTATTATAA-TATATTTATTAGAATA
*
134684 TTTAATAATATATTATTATTATAATATA-TTATTATAATA
1 TTTAATAATATATTATTATTATAATATATTTATTAGAATA
*
134723 TTTAATAGTATACTT-TTATTTTATAATATAT
1 TTTAATAATATA-TTATTA--TTATAATATAT
134754 AAATTATTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
38 5 0.08
39 29 0.48
40 8 0.13
41 19 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (40 bp):
TTTAATAATATATTATTATTATAATATATTTATTAGAATA
Found at i:134715 original size:13 final size:13
Alignment explanation
Indices: 134697--134723 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
134687 AATAATATAT
134697 TATTATTATAATA
1 TATTATTATAATA
134710 TATTATTATAATA
1 TATTATTATAATA
134723 T
1 T
134724 TTAATAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTATAATA
Found at i:134904 original size:28 final size:27
Alignment explanation
Indices: 134860--134912 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
134850 TTCATATTTT
* *
134860 AATATTAATTTTTTAATATTTTAATAAA
1 AATATTAATTTTATAAT-TATTAATAAA
134888 AATATT-ATTTTAATAATTATTAATA
1 AATATTAATTTT-ATAATTATTAATA
134913 TAATTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATATTAATTTTATAATTATTAATAAA
Found at i:136043 original size:3 final size:3
Alignment explanation
Indices: 136035--136059 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
136025 GAATTGGGAT
136035 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
136060 ATTGTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:138144 original size:16 final size:17
Alignment explanation
Indices: 138112--138144 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
138102 TAATATCCCA
138112 ATAATATGTTAAGTAAT
1 ATAATATGTTAAGTAAT
*
138129 ATAATAT-TTCAGTAAT
1 ATAATATGTTAAGTAAT
138145 CTTATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (17 bp):
ATAATATGTTAAGTAAT
Found at i:138311 original size:24 final size:24
Alignment explanation
Indices: 138269--138345 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 24
138259 GGAAAAATGT
* *
138269 TTTTTTGGGTCGTTAACGAACGATA
1 TTTTTTAGGTGGTT-ACGAACGATA
138294 TTTTTTAGGTGGTTACGAACGATATA
1 TTTTTTAGGTGGTTACGAACG--ATA
*
138320 TTTTTTAGGTCGTTATACGAACGATA
1 TTTTTTAGGT-GGT-TACGAACGATA
138346 AATTTGTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 7 0.16
25 12 0.27
26 16 0.36
27 2 0.04
28 8 0.18
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (24 bp):
TTTTTTAGGTGGTTACGAACGATA
Found at i:138344 original size:28 final size:28
Alignment explanation
Indices: 138269--138350 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
138259 GGAAAAATGT
*
138269 TTTTTTGGGTCGTTA-ACGAACG--ATA
1 TTTTTTAGGTCGTTATACGAACGATATA
*
138294 TTTTTTAGGT-GGT-TACGAACGATATA
1 TTTTTTAGGTCGTTATACGAACGATATA
*
138320 TTTTTTAGGTCGTTATACGAACGATAAA
1 TTTTTTAGGTCGTTATACGAACGATATA
138348 TTT
1 TTT
138351 GTGATTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 9 0.19
25 9 0.19
26 13 0.27
27 2 0.04
28 15 0.31
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.43
Consensus pattern (28 bp):
TTTTTTAGGTCGTTATACGAACGATATA
Found at i:140577 original size:7 final size:7
Alignment explanation
Indices: 140562--140592 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
140552 TGTCCGTACT
*
140562 TCGTGTC
1 TCGTTTC
140569 TCGTTTC
1 TCGTTTC
140576 TCGTTTC
1 TCGTTTC
140583 TCGTTTC
1 TCGTTTC
140590 TCG
1 TCG
140593 GTCACCTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.29, G:0.19, T:0.52
Consensus pattern (7 bp):
TCGTTTC
Found at i:141882 original size:468 final size:468
Alignment explanation
Indices: 141001--141936 Score: 1737
Period size: 468 Copynumber: 2.0 Consensus size: 468
140991 GTCTACGTCC
*
141001 ACTACCTTAGCTATCAACACTAAGGATTTTCTAACAAATTCACTAATTTGTTCTTTCTTTTAAAG
1 ACTACCTTAGCTATCAACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTAAAG
*
141066 ACAAAGAGTAACCTTACAACTTTCTCAAGAATTATACCTCAAATTCTTGAGAACACTCTCTCCCA
66 ACAAAGAGTAACCTTACAACTTTCTCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCA
141131 AAGAGAAATACAAAAATTTGCTAACTTACAAAAAAACCTCACAAGGTAAGATGTTTTCACAATTC
131 AAGAGAAATACAAAAATTTGCTAACTTACAAAAAAACCTCACAAGGTAAGATGTTTTCACAATTC
141196 TAGAACAAAGAAAGAACACTAAAAAATAAATACAATTGAGCACAATAAGTGTTCTTGAAAGAAAA
196 TAGAACAAAGAAAGAACACTAAAAAATAAATACAATTGAGCACAATAAGTGTTCTTGAAAGAAAA
141261 ATGAATATTGAATGAAAAATAGGTTTGAAATGCTCAAACTTGAGGTTTGATGCTTTCACTTTGAT
261 ATGAATATTGAATGAAAAATAGGTTTGAAATGCTCAAACTTGAGGTTTGATGCTTTCACTTTGAT
* * *
141326 TCTCTAGCTTCTCTTCTTAATGGTTGTTAATCAATGGCTCCTAAGCTTTTTTAAATACTCCTTTG
326 TCTCTAGCTTCTCTTCTTAATGGTTGTTAATCAATGGCTCCTAAGCTTGTTTAAATACTCATTGG
141391 ATCACTTCTGAACGTTGAGGATCATTAGTGGAGTCAATAGAGTCGTTATTGTGTGAAAACAATTA
391 ATCACTTCTGAACGTTGAGGATCATTAGTGGAGTCAATAGAGTCGTTATTGTGTGAAAACAATTA
141456 ATAAAACAATTGA
456 ATAAAACAATTGA
* * *
141469 ACTATCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTAAGG
1 ACTACCTTAGCTATCAACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTAAAG
*
141534 ACAAAGAGTGACCTTACAACTTTCTCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCA
66 ACAAAGAGTAACCTTACAACTTTCTCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCA
* * *
141599 AAGAGAAATACACAAATTTGCTAACTTACAAGAAAACCTCACAAGGTAAGATGTTTTTACAATTC
131 AAGAGAAATACAAAAATTTGCTAACTTACAAAAAAACCTCACAAGGTAAGATGTTTTCACAATTC
*
141664 TAGAACAAAGAAAGAATACTAAAAAATAAATACAATTGAGCACAATAAGTGTTCTTGAAAGAAAA
196 TAGAACAAAGAAAGAACACTAAAAAATAAATACAATTGAGCACAATAAGTGTTCTTGAAAGAAAA
*
141729 TTGAATATTGAATGAAAAATAGGTTTGAAATGCTCAAACTTGAGGTTTGATGCTTTCACTTTGAT
261 ATGAATATTGAATGAAAAATAGGTTTGAAATGCTCAAACTTGAGGTTTGATGCTTTCACTTTGAT
141794 TCTCTAGCTTCTCTTCTTAATGGTTGTTAATCAATGGCTCCTAAGCTTGTTTAAATACTCATTGG
326 TCTCTAGCTTCTCTTCTTAATGGTTGTTAATCAATGGCTCCTAAGCTTGTTTAAATACTCATTGG
*
141859 ATCTCTTCTGAACGTTGAGGATCATTAGTGGAGTCAATAGAGTCGTTATTGTGTGAAAACAATTA
391 ATCACTTCTGAACGTTGAGGATCATTAGTGGAGTCAATAGAGTCGTTATTGTGTGAAAACAATTA
141924 ATAAAACAATTGA
456 ATAAAACAATTGA
141937 GAGCGTATGG
Statistics
Matches: 453, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
468 453 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (468 bp):
ACTACCTTAGCTATCAACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTAAAG
ACAAAGAGTAACCTTACAACTTTCTCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCA
AAGAGAAATACAAAAATTTGCTAACTTACAAAAAAACCTCACAAGGTAAGATGTTTTCACAATTC
TAGAACAAAGAAAGAACACTAAAAAATAAATACAATTGAGCACAATAAGTGTTCTTGAAAGAAAA
ATGAATATTGAATGAAAAATAGGTTTGAAATGCTCAAACTTGAGGTTTGATGCTTTCACTTTGAT
TCTCTAGCTTCTCTTCTTAATGGTTGTTAATCAATGGCTCCTAAGCTTGTTTAAATACTCATTGG
ATCACTTCTGAACGTTGAGGATCATTAGTGGAGTCAATAGAGTCGTTATTGTGTGAAAACAATTA
ATAAAACAATTGA
Found at i:150819 original size:64 final size:65
Alignment explanation
Indices: 150684--150839 Score: 228
Period size: 64 Copynumber: 2.4 Consensus size: 65
150674 TACACTAGGA
* * * *
150684 GTGCATCAGTACACTAATTACATTCGATGTTTCAAAGAAGCCTGGAGTGCATCGATGCATGGTCT
1 GTGCATCGGTACACTAAATGCATTCGATGTTTCAAAGAACCCTGGAGTGCATCGATGCATGGTCT
150749 GTGCATCGGTACA-TAAAATGCATTCGATGTTTCAATA-AACCCT-GAGTGCATCGATGCATGGT
1 GTGCATCGGTACACT-AAATGCATTCGATGTTTCAA-AGAACCCTGGAGTGCATCGATGCATGGT
*
150811 GT
64 CT
150813 GTGCATCGGTACACTAAATGCATTCGA
1 GTGCATCGGTACACTAAATGCATTCGA
150840 AATGGGGTGT
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
64 46 0.55
65 36 0.43
66 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACTAAATGCATTCGATGTTTCAAAGAACCCTGGAGTGCATCGATGCATGGTCT
Found at i:161920 original size:15 final size:15
Alignment explanation
Indices: 161902--162015 Score: 69
Period size: 14 Copynumber: 7.7 Consensus size: 15
161892 AGAAGAAGAT
161902 AAAAAAGAAAG-AAA
1 AAAAAAGAAAGAAAA
161916 AAAAAA-AAAG-AAA
1 AAAAAAGAAAGAAAA
* *
161929 AAAAAAGAAAAGATAG
1 AAAAAAG-AAAGAAAA
**
161945 AAAAAAG-AAGAACG
1 AAAAAAGAAAGAAAA
*
161959 GAAAAAG--AGAAAA
1 AAAAAAGAAAGAAAA
*
161972 GAAAAATATAGAAGAAGAA
1 -AAAAA-AGA-AAGAA-AA
* *
161991 AAGAAAGAAAGAGAA
1 AAAAAAGAAAGAAAA
162006 AAAAAAGAAA
1 AAAAAAGAAA
162016 AAACAAATCA
Statistics
Matches: 78, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
13 17 0.22
14 21 0.27
15 16 0.21
16 12 0.15
17 2 0.03
18 8 0.10
19 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAGAAAA
Found at i:161924 original size:17 final size:17
Alignment explanation
Indices: 161902--161950 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
161892 AGAAGAAGAT
161902 AAAAAAGAAAGAAAAAA
1 AAAAAAGAAAGAAAAAA
161919 AAAAAAG-AA-AAAAAA
1 AAAAAAGAAAGAAAAAA
* *
161934 AGAAAAGATAGAAAAAA
1 AAAAAAGAAAGAAAAAA
161951 GAAGAACGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAA
Found at i:161951 original size:16 final size:14
Alignment explanation
Indices: 161892--162016 Score: 110
Period size: 15 Copynumber: 8.4 Consensus size: 14
161882 AAAAGGAGAG
*
161892 AGAAGAAGATAAAAA
1 AGAA-AAGAAAAAAA
161907 AG-AAAGAAAAAAA
1 AGAAAAGAAAAAAA
161920 A-AAAAGAAAAAAAA
1 AGAAAAG-AAAAAAA
161934 AGAAAAGATAGAAAAA
1 AGAAAAGA-A-AAAAA
* *
161950 AGAAGAACGGAAAAAG
1 AGAA-AA-GAAAAAAA
*
161966 AGAAAAGAAAAATAT
1 AGAAAAGAAAAA-AA
*
161981 AGAAGAAGAAAAGAA
1 AGAA-AAGAAAAAAA
161996 AGAAAGAGAAAAAAA
1 AGAAA-AGAAAAAAA
162011 AGAAAA
1 AGAAAA
162017 AACAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
13 14 0.15
14 17 0.18
15 33 0.36
16 24 0.26
17 3 0.03
18 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (14 bp):
AGAAAAGAAAAAAA
Found at i:161990 original size:21 final size:19
Alignment explanation
Indices: 161892--162018 Score: 79
Period size: 19 Copynumber: 6.7 Consensus size: 19
161882 AAAAGGAGAG
161892 AGAAGAAGATAAAAA-AG-AA
1 AGAA-AAGA-AAAAAGAGAAA
*
161911 AGAAAA-AAAAAAAAGAAA
1 AGAAAAGAAAAAAGAGAAA
* *
161929 AAAAAAGAAAAGATAGAAAAA
1 AGAAAAGAAAA-A-AGAGAAA
*
161950 AGAAGAACGGAAAAAGAGAAA
1 AGAA-AA-GAAAAAAGAGAAA
* * *
161971 AG-AAA-AATATAGA-AGA
1 AGAAAAGAAAAAAGAGAAA
161987 AGAAAAGAAAGAAAGAGAAA
1 AGAAAAGAAA-AAAGAGAAA
162007 A-AAAAGAAAAAA
1 AGAAAAGAAAAAA
162019 CAAATCAAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
16 9 0.11
17 11 0.13
18 14 0.17
19 22 0.26
20 5 0.06
21 16 0.19
22 3 0.04
23 4 0.05
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (19 bp):
AGAAAAGAAAAAAGAGAAA
Found at i:162012 original size:11 final size:10
Alignment explanation
Indices: 161916--162018 Score: 55
Period size: 10 Copynumber: 9.6 Consensus size: 10
161906 AAGAAAGAAA
161916 AAAAAAAAAG
1 AAAAAAAAAG
161926 AAAAAAAAAG
1 AAAAAAAAAG
* *
161936 -AAAAGATAG
1 AAAAAAAAAG
*
161945 AAAAAAGAAG
1 AAAAAAAAAG
*
161955 AACGGAAAAAGAG
1 AA---AAAAAAAG
*
161968 AAAAGAAAAAT
1 AAAA-AAAAAG
* * *
161979 ATAGAAGAAG
1 AAAAAAAAAG
161989 AAAAGAAAGAAAG
1 -AAA-AAA-AAAG
162002 AGAAAAAAAAG
1 A-AAAAAAAAG
162013 AAAAAA
1 AAAAAA
162019 CAAATCAAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 18
0.67 0.16 0.18
Matches are distributed among these distances:
9 7 0.10
10 29 0.43
11 13 0.19
12 6 0.09
13 13 0.19
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:163285 original size:32 final size:31
Alignment explanation
Indices: 163222--163285 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
163212 TTATTTCGTC
* *
163222 ACTAAATATTTTTTATAACTTTTTTACTGTG
1 ACTAAATATTTTTTACAACTTTGTTACTGTG
*
163253 ACTAAATAATTTTGTTACAA-TTTGTTATTGTG
1 ACTAAAT-ATTTT-TTACAACTTTGTTACTGTG
163285 A
1 A
163286 AAGAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.25
32 16 0.57
33 5 0.18
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (31 bp):
ACTAAATATTTTTTACAACTTTGTTACTGTG
Found at i:163541 original size:17 final size:17
Alignment explanation
Indices: 163521--163558 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
163511 TTATGATGAG
163521 AAATTAATA-TTTGATAT
1 AAATTAATATTTTGAT-T
*
163538 AAATTATTATTTTGATT
1 AAATTAATATTTTGATT
163555 AAAT
1 AAAT
163559 AAATTTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AAATTAATATTTTGATT
Found at i:163663 original size:100 final size:98
Alignment explanation
Indices: 163355--163666 Score: 237
Period size: 98 Copynumber: 3.1 Consensus size: 98
163345 TTATTTTGAT
* * * * *
163355 TAAATAAATTTGTCATAA-TTTTTATTTTGACAAAATATTGAGACGAAATAAATTTGACATAACT
1 TAAATAAATTTGTCAGAATTTTTTAATTTGACAAAATATTGTGACAAAATAAATTTGACATAAAT
* *
163419 GTTTACTTTGACTAAATTTA--ACGTGTTATTGTGAA
66 TTTTA-TTTGAATAAATTTATTAC--GTTATTGT-AA
* * * * * * ***
163454 TAAATCATTTTGTTACAGAATTTTTT-ATTGTGAAAAAATATTACTTGTCACAATTCTTTATGAT
1 TAAATAAATTTG-T-CAGAATTTTTTAATT-TGACAAAATATT--GTGACAAAATAAATT-TGA-
* * ** *
163518 GAGAAATTAATATTTGATATAAA-TTATTA--TT-TTG-AT
59 CATAAATTTTTATTTGA-ATAAATTTATTACGTTATTGTAA
*
163554 TAAATAAATTTGTCAGAATTTTTTAATTTGACAAAATATTGTGACAAAATAAATTTGACATAATT
1 TAAATAAATTTGTCAGAATTTTTTAATTTGACAAAATATTGTGACAAAATAAATTTGACATAAAT
163619 TTTTATTTTGAATAAATTTATTACGTTATTGTAA
66 TTTTA-TTTGAATAAATTTATTACGTTATTGTAA
163653 CTAAATAAATTTGT
1 -TAAATAAATTTGT
163667 TACAATTTGT
Statistics
Matches: 158, Mismatches: 36, Indels: 37
0.68 0.16 0.16
Matches are distributed among these distances:
94 12 0.08
95 14 0.09
96 9 0.06
97 2 0.01
98 25 0.16
99 15 0.09
100 25 0.16
101 6 0.04
102 19 0.12
103 2 0.01
104 7 0.04
105 11 0.07
106 10 0.06
107 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (98 bp):
TAAATAAATTTGTCAGAATTTTTTAATTTGACAAAATATTGTGACAAAATAAATTTGACATAAAT
TTTTATTTGAATAAATTTATTACGTTATTGTAA
Found at i:163668 original size:200 final size:196
Alignment explanation
Indices: 163249--163727 Score: 633
Period size: 200 Copynumber: 2.4 Consensus size: 196
163239 ACTTTTTTAC
*
163249 TGTG-ACTAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACATTTGTTTT
1 TGTGAACTAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAATT-TTTT
* * * *
163313 ATAAATGAGAAATTATTATTTGTTACAAATTGTTATTTTGATTAAATAAATTTGTCATAATTTTT
65 AT--ATGAGAAATTAATATTTGATACAAATTATTATTTTGATTAAATAAATTTGTCAGAATTTTT
* * *
163378 ATTTTGACAAAATATTGAGACGAAATAAATTTGACATAACTGTTTACTTTGACTAAATTTAACGT
128 AATTTGACAAAATATTGAGACAAAATAAATTTGACATAACTGTTTACTTTGAATAAATTTAACG-
163443 GTTAT
192 GTTAT
* * * * *
163448 TGTGAA-TAAATCATTTTGTTACAGAATTTTTTATTGTGAAAAAATATTACTTGTCACAATTCTT
1 TGTGAACTAAATAATTTTGTTAC--AATTTGTTATTGTGAAAGAATATTATTTGTCACAATTTTT
*
163512 TATGATGAGAAATTAATATTTGATATAAATTATTATTTTGATTAAATAAATTTGTCAGAATTTTT
64 TAT-ATGAGAAATTAATATTTGATACAAATTATTATTTTGATTAAATAAATTTGTCAGAA-TTTT
* * * *
163577 TAATTTGACAAAATATTGTGACAAAATAAATTTGACATAATTTTTTATTTTGAATAAATTTATTA
127 TAATTTGACAAAATATTGAGACAAAATAAATTTGACATAACTGTTTACTTTGAATAAATTTA--A
163642 C-GTTAT
190 CGGTTAT
* * * *
163648 TGT-AACTAAATAAATTTGTTACAATTTGTTATTATGAAAGAATATTTTTTGTCATAATTTTTTA
1 TGTGAACTAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAATTTTTTA
163712 TATTGAGAAATTAATA
66 TA-TGAGAAATTAATA
163728 ATTGTTATTA
Statistics
Matches: 244, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
197 1 0.00
198 49 0.20
199 72 0.30
200 87 0.36
201 33 0.14
202 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (196 bp):
TGTGAACTAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAATTTTTTA
TATGAGAAATTAATATTTGATACAAATTATTATTTTGATTAAATAAATTTGTCAGAATTTTTAAT
TTGACAAAATATTGAGACAAAATAAATTTGACATAACTGTTTACTTTGAATAAATTTAACGGTTA
T
Found at i:165557 original size:3 final size:3
Alignment explanation
Indices: 165549--165580 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
165539 TTTTCTTAAG
165549 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
165581 TAAAGCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:168193 original size:3 final size:3
Alignment explanation
Indices: 168185--168218 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
168175 TTTTCTTAAG
168185 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
168219 TAAAGCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:168207 original size:14 final size:14
Alignment explanation
Indices: 168188--168216 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
168178 TCTTAAGATA
168188 ATAATAATAATAAT
1 ATAATAATAATAAT
168202 ATAATAATAATAAT
1 ATAATAATAATAAT
168216 A
1 A
168217 ATTAAAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:168229 original size:17 final size:17
Alignment explanation
Indices: 168185--168218 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
168175 TTTTCTTAAG
168185 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
168202 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
168219 TAAAGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:172158 original size:45 final size:45
Alignment explanation
Indices: 172109--172194 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
172099 TAAAAAGAAG
* *
172109 TCAATCTTTCAGTACTATCTTTCTTGACTCCCTCGTGAAGAAAAA
1 TCAATCTTTCAGTACTATATTTCTTGACACCCTCGTGAAGAAAAA
172154 TCAATCTTTCAGTACTATATTTCTTGACACCCTCGTGAAGA
1 TCAATCTTTCAGTACTATATTTCTTGACACCCTCGTGAAGA
172195 GGATTCGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (45 bp):
TCAATCTTTCAGTACTATATTTCTTGACACCCTCGTGAAGAAAAA
Found at i:172258 original size:38 final size:38
Alignment explanation
Indices: 172203--172657 Score: 606
Period size: 38 Copynumber: 11.9 Consensus size: 38
172193 GAGGATTCGA
* * *
172203 TCAATCTTTGTTGTTCTTAACTTCCTCTTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* * *
172241 TCAATATTTGTTATTCTTGACTTCCTCGTGAATAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172279 TCAATCTTTGTTACTCTTGACTTTCTCATGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172317 TCAATCTTTGTTATTCTTTACTTTCTCATGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* **
172355 TCGATCTTTGTTATTCTTGACTTCCTTGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172393 TCAATCTTTTTTATTCTTGACTT-CTCATGAAGAAAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172430 TCGATCTTTGTTATTCTTGACTTCCTCATGAAGAAAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* **
172468 TCGATCTTTGTTATTCTTGACTTCCTTGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172506 TCAATCTTTGTTATTCTTGACTTCCTCGTAAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* *
172544 TCAATCTTTGTTATTATTGACTTCCTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
* * *
172582 TCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
**
172620 TCAATCTTTTAGTGTTATTCTTGACTTTATCATGAAGA
1 TCAATC--TT--TGTTATTCTTGACTTCCTCATGAAGA
172658 AAATTCACTC
Statistics
Matches: 373, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
37 32 0.09
38 317 0.85
40 2 0.01
42 22 0.06
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (38 bp):
TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAG
Found at i:172601 original size:227 final size:231
Alignment explanation
Indices: 172206--172660 Score: 684
Period size: 227 Copynumber: 2.0 Consensus size: 231
172196 GATTCGATCA
* * *
172206 ATCTTTGTTGTTCTTAACTTCCTCTTGAAGAGAAGTCAATATTTGTTATTCTTGACTTCCTCGTG
1 ATCTTTGTTATTCTTAACTTCCTCATGAAGAAAAGTCAATATTTGTTATTCTTGACTTCCTCGTG
* * * * *
172271 AATAGAAGTCAATCTTTGTTACTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATTCTTT
66 AAGAGAAGTCAATCTTTGTTACTCTTGACTTCCTCATAAAGAGAAGTCAATCTTTGTTATTATTG
* * * *
172336 ACTTTCTCATGAAGAGAAGTCGATCTTTGTTATTCTTGACTTCCTTGTGAAGAGAAGTCAATC-T
131 ACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCTT
*
172400 TT-T-TTATTCTTGAC-TTCTCATGAAGAAAAGTCG
196 TTATGTTATTCTTGACTTTATCATGAAGAAAAGTCG
* * * *
172433 ATCTTTGTTATTCTTGACTTCCTCATGAAGAAAAGTCGATCTTTGTTATTCTTGACTTCCTTGTG
1 ATCTTTGTTATTCTTAACTTCCTCATGAAGAAAAGTCAATATTTGTTATTCTTGACTTCCTCGTG
* *
172498 AAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATTATTG
66 AAGAGAAGTCAATCTTTGTTACTCTTGACTTCCTCATAAAGAGAAGTCAATCTTTGTTATTATTG
* *
172563 ACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTT
131 ACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCTT
172628 TTAGTGTTATTCTTGACTTTATCATGAAGAAAA
196 TTA-TGTTATTCTTGACTTTATCATGAAGAAAA
172661 TTCACTCTTA
Statistics
Matches: 202, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
227 173 0.86
228 3 0.01
230 1 0.00
231 11 0.05
232 14 0.07
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (231 bp):
ATCTTTGTTATTCTTAACTTCCTCATGAAGAAAAGTCAATATTTGTTATTCTTGACTTCCTCGTG
AAGAGAAGTCAATCTTTGTTACTCTTGACTTCCTCATAAAGAGAAGTCAATCTTTGTTATTATTG
ACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCTT
TTATGTTATTCTTGACTTTATCATGAAGAAAAGTCG
Found at i:172729 original size:45 final size:45
Alignment explanation
Indices: 172612--173076 Score: 338
Period size: 45 Copynumber: 10.4 Consensus size: 45
172602 CTCCCTCGTG
* * *
172612 AAGAGGAGTCAATCTTTTAGTG-T-T-ATTCTTGACTTTATCATG
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
** * * * * *
172654 AAGAAAATTC-A-CTCTTAGTATTGTCATTCTTGACTTTCTCGTA
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
* * ****
172697 AAGAGGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTTATTGCG
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
* *** **
172742 AAGAGGAGTCAATATCCCAGTGTTGTCCTTCTTGACTTTCTCACG
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
** * * * *
172787 AAGAGGAGTCAATCTTTCGGTGTTTTCTTTTTTGACTTTCTCGTTA
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTC-ATA
* ** **
172833 AA-AGGAGTAAATCTTTTAGTGTTACCCTTCTTGACTTTCTCGCGA
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTC-ATA
* * *
172878 AA-AGGAGTCAATCTTTTAGTGTTATCTTTCTTGACTTTCTCACA
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
* * * * *
172922 AATAGGAGTCAATATTTT-GATGTTAT-CTTCCTTGACTTTCTAATG
1 AAGAGGAGTCAATCTTTTAG-TGTTGTCCTT-CTTGACTTTCTCATA
* * *
172967 AATAGGAGTTAATCTTTTAGTGTTGT-CTTCCTTGACTTTCTCATG
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTT-CTTGACTTTCTCATA
* * ** * *
173012 AATAGGAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCAAA
1 AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
* **
173057 AAGAGAAGTTGATCTTTTAG
1 AAGAGGAGTCAATCTTTTAG
173077 AGATGTCATT
Statistics
Matches: 342, Mismatches: 70, Indels: 19
0.79 0.16 0.04
Matches are distributed among these distances:
40 7 0.02
41 2 0.01
42 8 0.02
43 22 0.06
44 7 0.02
45 291 0.85
46 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (45 bp):
AAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCATA
Found at i:172855 original size:135 final size:135
Alignment explanation
Indices: 172682--173061 Score: 386
Period size: 135 Copynumber: 2.8 Consensus size: 135
172672 TATTGTCATT
* * * *
172682 CTTGACTTTCTCG-TAAAGAGGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTTATTGCGAAGA
1 CTTGACTTTCTCGTTAAA-AGGAGTAAATCTTTTAGTGTTGTCCTTCTTGACTTTATCGCGAAAA
* * * *
172746 GGAGTCAATATCCCAGTGTTGTCCTTCTTGACTTTCTCACGAAGAGGAGTCAATCTTTCGGTGTT
65 GGAGTCAATATCCCAGTGTTATCCTTCTTGACTTTCTCACAAAGAGGAGTCAATATTTCGATGTT
* *
172811 TTCTTT
130 ATCTTC
* ** *
172817 TTTGACTTTCTCGTTAAAAGGAGTAAATCTTTTAGTGTTACCCTTCTTGACTTTCTCGCGAAAAG
1 CTTGACTTTCTCGTTAAAAGGAGTAAATCTTTTAGTGTTGTCCTTCTTGACTTTATCGCGAAAAG
* *** * * *
172882 GAGTCAATCTTTTAGTGTTATCTTTCTTGACTTTCTCACAAATAGGAGTCAATATTTTGATGTTA
66 GAGTCAATATCCCAGTGTTATCCTTCTTGACTTTCTCACAAAGAGGAGTCAATATTTCGATGTTA
172947 TCTTC
131 TCTTC
** * * * * ** *
172952 CTTGACTTTCTAATGAATAGGAGTTAATCTTTTAGTGTTGT-CTTCCTTGACTTTCTCATGAATA
1 CTTGACTTTCTCGTTAAAAGGAGTAAATCTTTTAGTGTTGTCCTT-CTTGACTTTATCGCGAAAA
* ** ** * * *
173016 GGAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCAAAAAGAG
65 GGAGTCAATATCCCAGTGTTATCCTTCTTGACTTTCTCACAAAGAG
173062 AAGTTGATCT
Statistics
Matches: 204, Mismatches: 39, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
134 3 0.01
135 197 0.97
136 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (135 bp):
CTTGACTTTCTCGTTAAAAGGAGTAAATCTTTTAGTGTTGTCCTTCTTGACTTTATCGCGAAAAG
GAGTCAATATCCCAGTGTTATCCTTCTTGACTTTCTCACAAAGAGGAGTCAATATTTCGATGTTA
TCTTC
Found at i:173933 original size:134 final size:134
Alignment explanation
Indices: 173686--174055 Score: 564
Period size: 134 Copynumber: 2.8 Consensus size: 134
173676 TTGATTTTCA
* * * *
173686 GATTAAATATTCCCTGAAGATCACTGAAGTGGATCAAAGATTTCTCGAGTTTGATCTCCCCTAAA
1 GATTCAATATTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTTTGATCTCCCCTAAA
* * * * * *
173751 GAGTAGTAGAGTAGATTCTTCTTCTTTAAGATTTGGTATTCCTGAAGAGTAGGGAAGCAAATCAA
66 GAGTAGTGGAGCATATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGGGAAGCAAATCAA
173816 GTTC-
131 -TTCT
*
173820 GATTCAATATTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
1 GATTCAATATTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTTTGATCTCCCCTAAA
* **
173885 GAGTAGTGGAGCATATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGTGAAGCAAATTGA
66 GAGTAGTGGAGCATATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGGGAAGCAAATCAA
173950 TTCT
131 TTCT
* *
173954 GATTCAATCTTTCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGA-TTTGATCTCCCCTAAA
1 GATTCAATATTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTTTGATCTCCCCTAAA
*
174018 GAGTAGTGGAGCATATTTTTCTTCTTTCAGATTTGGTC
66 GAGTAGTGGAGCATATTCTTCTTCTTTCAGATTTGGTC
174056 ATCTGATAAC
Statistics
Matches: 217, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
133 55 0.25
134 162 0.75
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (134 bp):
GATTCAATATTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTTTGATCTCCCCTAAA
GAGTAGTGGAGCATATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGGGAAGCAAATCAA
TTCT
Found at i:179057 original size:17 final size:19
Alignment explanation
Indices: 179035--179077 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
179025 AAAAACTCGA
*
179035 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
179052 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
179071 ATGCACT
1 ATGCACT
179078 AAGGTTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:186796 original size:3 final size:3
Alignment explanation
Indices: 186788--186823 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
186778 GAATTGGGTT
186788 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TATG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T-TG TT
186824 ATTTGGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.03, C:0.00, G:0.31, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:188500 original size:21 final size:21
Alignment explanation
Indices: 188458--188501 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
188448 ACTCCAGGAG
* * *
188458 CTAGTTCCTCTCGAGCTGCTC
1 CTAGCTCCTCTCGAGATCCTC
*
188479 CTAGCTCCTCTCGTGATCCTC
1 CTAGCTCCTCTCGAGATCCTC
188500 CT
1 CT
188502 CCTCCTCCTT
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:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCCTCTCGAGATCCTC
Found at i:189217 original size:19 final size:19
Alignment explanation
Indices: 189193--189230 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
189183 AAAGGGGGAG
189193 AAATGTTAAGTGTTGAAAT
1 AAATGTTAAGTGTTGAAAT
*
189212 AAATGTTAAGTGTTTAAAT
1 AAATGTTAAGTGTTGAAAT
189231 GTTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (19 bp):
AAATGTTAAGTGTTGAAAT
Found at i:189680 original size:17 final size:17
Alignment explanation
Indices: 189660--189692 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
189650 CAAATGCATT
*
189660 CCATGCATCGATGCACA
1 CCATGCACCGATGCACA
189677 CCATGCACCGATGCAC
1 CCATGCACCGATGCAC
189693 TGAGGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.15
Consensus pattern (17 bp):
CCATGCACCGATGCACA
Found at i:189732 original size:63 final size:65
Alignment explanation
Indices: 189595--189801 Score: 205
Period size: 65 Copynumber: 3.2 Consensus size: 65
189585 TTTTTCAGAG
* * ** * *
189595 TGATGCATCGATGCACCAATCCATGCATCGATGCAC-CATGA-A-TTAAATTGAACATCAAATGC
1 TGATGCATCGATGCACC-AGCCATGCACCGATGCACTCGGGATATTTTAA--GAACATCGAATGC
189657 ATT
63 ATT
** *
189660 CCATGCATCGATGCA-CA-CCATGCACCGATGCACT-GAGGAT-TTTATAAGAACATCGAATACA
1 TGATGCATCGATGCACCAGCCATGCACCGATGCACTCG-GGATATTT-TAAGAACATCGAATGCA
189721 TT
64 TT
* * *
189723 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCGGGCTATTTTAA-AACATCGAATGCACT
1 TGATGCATCGATGCACCAGCCATGCACCGATGCACTCGGGATATTTTAAGAACATCGAATGCATT
189787 TGATGCATCGATGCA
1 TGATGCATCGATGCA
189802 ATCTTAGTGC
Statistics
Matches: 119, Mismatches: 14, Indels: 19
0.78 0.09 0.12
Matches are distributed among these distances:
62 15 0.13
63 30 0.25
64 33 0.28
65 37 0.31
66 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (65 bp):
TGATGCATCGATGCACCAGCCATGCACCGATGCACTCGGGATATTTTAAGAACATCGAATGCATT
Found at i:189791 original size:64 final size:62
Alignment explanation
Indices: 189644--189801 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 62
189634 GAATTAAATT
* *
189644 GAACATCAAATGCATTCCATGCATCGATGCACACCATGCACCGATGCACTGAGGATTTTATAA
1 GAACATCGAATGCATT-GATGCATCGATGCACACCATGCACCGATGCACTGAGGATTTTATAA
* * *
189707 GAACATCGAATACATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCG-GGCTATTT-T
1 GAACATCGAATGCA-TTGATGCATCGATGCA-CA-CCATGCACCGATGCACT-GAGGAT-TTTAT
189770 AA
61 AA
189772 -AACATCGAATGCACTTGATGCATCGATGCA
1 GAACATCGAATGCA-TTGATGCATCGATGCA
189802 ATCTTAGTGC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 25 0.30
64 32 0.39
65 22 0.27
66 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (62 bp):
GAACATCGAATGCATTGATGCATCGATGCACACCATGCACCGATGCACTGAGGATTTTATAA
Found at i:189822 original size:64 final size:64
Alignment explanation
Indices: 189662--189801 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 64
189652 AATGCATTCC
*
189662 ATGCATCGATGCACA-CCATGCACCGATGCACTGAGGATTTTATAAGAACATCGAATACATTTG
1 ATGCATCGATGCACAGCCATGCACCGATGCACTGAGGATTTTATAAGAACATCGAATACACTTG
* * *
189725 ATGCATCGATGCACCAGCCATGCATCGATGCACTCG-GGCTATTT-TAA-AACATCGAATGCACT
1 ATGCATCGATGCA-CAGCCATGCACCGATGCACT-GAGGAT-TTTATAAGAACATCGAATACACT
189787 TG
63 TG
189789 ATGCATCGATGCA
1 ATGCATCGATGCA
189802 ATCTTAGTGC
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
63 13 0.19
64 30 0.43
65 22 0.32
66 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (64 bp):
ATGCATCGATGCACAGCCATGCACCGATGCACTGAGGATTTTATAAGAACATCGAATACACTTG
Found at i:197633 original size:134 final size:134
Alignment explanation
Indices: 197389--197849 Score: 661
Period size: 134 Copynumber: 3.4 Consensus size: 134
197379 ACACGCTACA
* * * * *
197389 TCTTCTTGAAGAGCAGTGAAGCTAATCGATTCTGATTCAATCTTCCCTAAAGAGCAGTGAAGTGA
1 TCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTGAAGTGG
* * * * * * *
197454 ATCAAAGTTTGCTCGAGTCTGAACTCCCCCAAAGAGCAGTGGAGCAGATTCTTTTTATTTTAGAT
66 ATCAAAATTTCCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTTAGAT
197519 TTGG
131 TTGG
* * *
197523 TCTTCCTGAAGAGCAATGAAGCAAATCAATTCTAATTCAATTTTCCCTGAAGAGCAGTGAAGTGG
1 TCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTGAAGTGG
* * *
197588 ATCAAAATTTCCTAGAGTCTGATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTTCTTTTAGAT
66 ATCAAAATTTCCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTTAGAT
197653 TTGG
131 TTGG
* * * * *
197657 TCTTCTTAAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCCATGAAGAGTAGTGAAGTGG
1 TCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTGAAGTGG
* * * *
197722 ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGACCAGATTCATCTTCTTTTATAT
66 ATCAAAATTTCCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTTAGAT
197787 TTGG
131 TTGG
* *
197791 TTTTCCTGAAGAGCATTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTG
1 TCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTG
197850 GAATGAATCA
Statistics
Matches: 287, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
134 287 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (134 bp):
TCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTAATTCAATCTTCCCTGAAGAGCAGTGAAGTGG
ATCAAAATTTCCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTTAGAT
TTGG
Found at i:200897 original size:25 final size:25
Alignment explanation
Indices: 200867--200921 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
200857 AAAATTTTTC
200867 ATTAACTTATAGTACATAAACAAAT
1 ATTAACTTATAGTACATAAACAAAT
200892 ATTAACTTATAGTACATAAACAAAT
1 ATTAACTTATAGTACATAAACAAAT
200917 ATTAA
1 ATTAA
200922 AGTTCAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTAACTTATAGTACATAAACAAAT
Found at i:203482 original size:18 final size:18
Alignment explanation
Indices: 203459--203496 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
203449 AAAAGTTGTG
203459 CTGAAATTCAATCGAGTA
1 CTGAAATTCAATCGAGTA
203477 CTGAAATTCAATCGAGTA
1 CTGAAATTCAATCGAGTA
203495 CT
1 CT
203497 CAATGCCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (18 bp):
CTGAAATTCAATCGAGTA
Found at i:210534 original size:22 final size:19
Alignment explanation
Indices: 210485--210538 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 19
210475 TGTAAAAATG
210485 GTATCGATACCATAATATA
1 GTATCGATACCATAATATA
*
210504 GTATTGATACCATAGTATAGTA
1 GTATCGATACCATA--ATA-TA
210526 GTATCGATACCAT
1 GTATCGATACCAT
210539 GGTAAGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
21 3 0.10
22 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
GTATCGATACCATAATATA
Found at i:211088 original size:109 final size:110
Alignment explanation
Indices: 210897--211109 Score: 322
Period size: 109 Copynumber: 1.9 Consensus size: 110
210887 TGCAAAAAGG
* *
210897 TAAGAAATTCATAATTTGTTTATGAATTTCTGTATGGGCACTTTATATGTAAACTTAAGAAATTC
1 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTATATGAAAACTTAAGAAATTC
** ***
210962 ATAATTTGTTTATGAA-TTCCGTATGGGCACTTTATGTGTATACT
66 ATAATAAGAGGATGAATTTCCGTATGGGCACTTTATGTGTATACT
* *
211006 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTATGTGAAAACTTCAGAAATTC
1 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTATATGAAAACTTAAGAAATTC
211071 A-AACTAAGAGGATGAATTTCCGTATGGGCACTTTATGTG
66 ATAA-TAAGAGGATGAATTTCCGTATGGGCACTTTATGTG
211110 CAAAACTAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
108 2 0.02
109 69 0.74
110 22 0.24
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (110 bp):
TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTATATGAAAACTTAAGAAATTC
ATAATAAGAGGATGAATTTCCGTATGGGCACTTTATGTGTATACT
Found at i:211146 original size:55 final size:55
Alignment explanation
Indices: 210870--211128 Score: 326
Period size: 55 Copynumber: 4.7 Consensus size: 55
210860 TGGTGATTGT
* **
210870 CGTATGGGCACTTTGTGTGCAAAAAGGTAAGAAATTCATAATTTGTTTATGAATTTC
1 CGTATGGGCACTTTATGTG--AAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* * *
210927 TGTATGGGCACTTTATATGTAAACTTAAGAAATTCATAATTTGTTTATGAA-TTC
1 CGTATGGGCACTTTATGTGAAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* *
210981 CGTATGGGCACTTTATGTGTATACTTAAGAAATTCATAATTTGTTTATGAATTTC
1 CGTATGGGCACTTTATGTGAAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* ** ***
211036 CGTATGGGCACTTTATGTGAAAACTTCAGAAATTCA-AACTAAGAGGATGAATTTC
1 CGTATGGGCACTTTATGTGAAAACTTAAGAAATTCATAA-TTTGTTTATGAATTTC
*
211091 CGTATGGGCACTTTATGTGCAAAAC-TAGGAAATTCATA
1 CGTATGGGCACTTTATGTG-AAAACTTAAGAAATTCATA
211129 CTAGGTGTAT
Statistics
Matches: 179, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
54 53 0.30
55 104 0.58
56 6 0.03
57 16 0.09
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (55 bp):
CGTATGGGCACTTTATGTGAAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
Found at i:217732 original size:55 final size:55
Alignment explanation
Indices: 217586--217844 Score: 333
Period size: 55 Copynumber: 4.7 Consensus size: 55
217576 TGGTGATTGT
* * *
217586 CGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTC
1 CGTATGGGCACTTTATGTG--TAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
*
217643 CGTAT-GGCACTTTATGTGTAAACTTAAGAAATTCATAATTTGTTTATGAATTTT
1 CGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* * *
217697 CGTATGGGCACTTTATGTGTATACTTAAAAAATTCATAATTTGTTTATGAATTCC
1 CGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* ** **
217752 CGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTC
1 CGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
* * * *
217807 CGTATGAGTACTTTATGTGCAAAAC-TAGGAAATTCATA
1 CGTATGGGCACTTTATGTG-TAAACTTAAGAAATTCATA
217845 CTAGGTATAT
Statistics
Matches: 180, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
54 38 0.21
55 121 0.67
56 16 0.09
57 5 0.03
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (55 bp):
CGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTTGTTTATGAATTTC
Found at i:219126 original size:18 final size:19
Alignment explanation
Indices: 219103--219142 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
219093 AAAATCGGAT
219103 GCTCACTAGTAGC-TAATA
1 GCTCACTAGTAGCTTAATA
*
219121 GCTCACTATTAGCTTAATA
1 GCTCACTAGTAGCTTAATA
219140 GCT
1 GCT
219143 TTGCTACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (19 bp):
GCTCACTAGTAGCTTAATA
Found at i:220005 original size:54 final size:54
Alignment explanation
Indices: 219923--220155 Score: 308
Period size: 54 Copynumber: 4.3 Consensus size: 54
219913 ATTACATGGG
* *
219923 GTTGCACACATAGTGCTAATAC-GAAAATTCATAAACTTATTATGAATTTCTTAA
1 GTTGCACACACAGTGCCAATACAG-AAATTCATAAACTTATTATGAATTTCTTAA
* * * *
219977 GTTGCACACACAGTCCCAATACATAAATTCACAAACTCATTATGAATTTCTTAA
1 GTTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAA
* * * *
220031 GTTGCACACACAGTACCAATACGGAAATTCATAAACATATAATGAATTTCTTAA
1 GTTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAA
* **
220085 GTTGTACACACAGTGGTAATA-AGGAAATTCATAAACTTATTATGAATTTCTTAA
1 GTTGCACACACAGTGCCAATACA-GAAATTCATAAACTTATTATGAATTTCTTAA
*
220139 GTTGCACACACAATGCC
1 GTTGCACACACAGTGCC
220156 CATTCGGTAA
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 153 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (54 bp):
GTTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAA
Done.