Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 179 of 213
Found at i:54046893 original size:21 final size:21
Alignment explanation
Indices: 54046841--54046999 Score: 95
Period size: 21 Copynumber: 7.6 Consensus size: 21
54046831 AAGCCCGAAG
* * * *
54046841 GCTGAACTGAAGCTCATGAGA
1 GCTGAACGGAAACTCGTAAGA
*
54046862 GCTAAACGGAAACTCGTAAGA
1 GCTGAACGGAAACTCGTAAGA
* * *
54046883 GTTGAATGGAAGCTCGTAAGA
1 GCTGAACGGAAACTCGTAAGA
* * *
54046904 GCTGAACGGAAACCCATAAGG
1 GCTGAACGGAAACTCGTAAGA
* * * * *
54046925 GTTAAACAGAAGCTC-AATAGA
1 GCTGAACGGAAACTCGTA-AGA
* *
54046946 GCTGAACGGAAACTCATATGA
1 GCTGAACGGAAACTCGTAAGA
* * * *
54046967 GTTAAACAGAAGCTCGTAAGA
1 GCTGAACGGAAACTCGTAAGA
*
54046988 GCTAAACGGAAA
1 GCTGAACGGAAA
54047000 GTAAACACGA
Statistics
Matches: 99, Mismatches: 37, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
20 1 0.01
21 97 0.98
22 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCTGAACGGAAACTCGTAAGA
Found at i:54046896 original size:42 final size:42
Alignment explanation
Indices: 54046849--54046999 Score: 178
Period size: 42 Copynumber: 3.6 Consensus size: 42
54046839 AGGCTGAACT
* * * **
54046849 GAAGCTCATGAGAGCTAAACGGAAACTCGTAAGAGTTGAATG
1 GAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTAAACA
* * * *
54046891 GAAGCTCGTAAGAGCTGAACGGAAACCCATAAGGGTTAAACA
1 GAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTAAACA
* *
54046933 GAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTAAACA
1 GAAGCTCATA-AGAGCTAAACGGAAACTCATAAGAGTTAAACA
*
54046975 GAAGCTCGTAAGAGCTAAACGGAAA
1 GAAGCTCATAAGAGCTAAACGGAAA
54047000 GTAAACACGA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 90 0.98
43 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTAAACA
Found at i:54048747 original size:26 final size:26
Alignment explanation
Indices: 54048718--54048783 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
54048708 ATTTAATATA
*
54048718 AATATAAATATATATA-ATAATTATTT
1 AATATAAATATATAAATATAATT-TTT
*
54048744 AATATATATA-ATAAATATAATTTTT
1 AATATAAATATATAAATATAATTTTT
*
54048769 TATAATATAATATAT
1 AAT-ATA-AATATAT
54048784 TCGGGCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 9 0.28
26 18 0.56
27 3 0.09
28 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AATATAAATATATAAATATAATTTTT
Found at i:54048755 original size:9 final size:9
Alignment explanation
Indices: 54048713--54048764 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
54048703 TGGTAATTTA
54048713 ATATAA-AT
1 ATATAATAT
54048721 ATA-AATAT
1 ATATAATAT
54048729 ATATAATAATT
1 ATATAAT-A-T
*
54048740 ATTTAATAT
1 ATATAATAT
*
54048749 ATATAATAA
1 ATATAATAT
54048758 ATATAAT
1 ATATAAT
54048765 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 2 0.05
8 8 0.22
9 18 0.49
10 2 0.05
11 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATAATAT
Found at i:54050333 original size:15 final size:15
Alignment explanation
Indices: 54050286--54050333 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
54050276 CAAAACCTTA
54050286 AAAATCCTAAAAACCTT
1 AAAATCC-AAAAACC-T
* * *
54050303 AAAACCCTAAACCCT
1 AAAATCCAAAAACCT
54050318 AAAATCCAAAAACCT
1 AAAATCCAAAAACCT
54050333 A
1 A
54050334 CAAGTTAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.56
16 5 0.20
17 6 0.24
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAAACCT
Found at i:54051327 original size:13 final size:13
Alignment explanation
Indices: 54051309--54051336 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54051299 CTCACTTTAG
54051309 TTCACTTCACTCT
1 TTCACTTCACTCT
54051322 TTCACTTCACTCT
1 TTCACTTCACTCT
54051335 TT
1 TT
54051337 ATCAATGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCACTTCACTCT
Found at i:54057670 original size:105 final size:100
Alignment explanation
Indices: 54057511--54057726 Score: 272
Period size: 105 Copynumber: 2.1 Consensus size: 100
54057501 TATGACCCTG
* ** *
54057511 CCATGGTCTTACTTTGTAGTGCCATAACCCGATTATGGTCTTATCATCAGAATGCCATAGCCCAA
1 CCATGGTCTTACGTTCAAGTGCCATAACCCGATTATGGTCTTATCATCAAAATGCCATAGCCCAA
* * *
54057576 CTATGGTCTTACACATGTATATATATTGCCATGGTCCAA
66 CTATGGTCTT--ACATGTA-AGA-ACTACCATGGTCCAA
* *
54057615 CCATGGTCTTACGTTCAAGGTGCCATAACCC-AGTTATGGTCTTTTCATTAAAATGCCATAGCCC
1 CCATGGTCTTACGTTCAA-GTGCCATAACCCGA-TTATGGTCTTATCATCAAAATGCCATAGCCC
* *
54057679 ATCTATGGTCTTACATTTAAGAACTACCATGGTCCAA
64 AACTATGGTCTTACATGTAAGAACTACCATGGTCCAA
54057716 CCATGGTCTTA
1 CCATGGTCTTA
54057727 TCCGTTAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
101 24 0.24
102 2 0.02
103 6 0.06
104 16 0.16
105 51 0.52
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (100 bp):
CCATGGTCTTACGTTCAAGTGCCATAACCCGATTATGGTCTTATCATCAAAATGCCATAGCCCAA
CTATGGTCTTACATGTAAGAACTACCATGGTCCAA
Found at i:54059891 original size:29 final size:29
Alignment explanation
Indices: 54059826--54059891 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
54059816 CTCCACATTG
*
54059826 ACATGAATTCTCAATGAACAAGTTCTTCA
1 ACATGAACTCTCAATGAACAAGTTCTTCA
* **
54059855 TCGCGAACTCTCAATGAACAAGTTC-TCA
1 ACATGAACTCTCAATGAACAAGTTCTTCA
54059883 ACAATGAAC
1 AC-ATGAAC
54059892 ACCAACCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATGAACTCTCAATGAACAAGTTCTTCA
Found at i:54062434 original size:14 final size:14
Alignment explanation
Indices: 54062415--54062464 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
54062405 CTCCTTTTCC
54062415 ATTTATTCTATTCT
1 ATTTATTCTATTCT
54062429 ATTTATAT-TATTCT
1 ATTTAT-TCTATTCT
*
54062443 AATTATTCTAATTCT
1 ATTTATTCT-ATTCT
*
54062458 ATGTATT
1 ATTTATT
54062465 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 1 0.03
14 18 0.60
15 11 0.37
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTTATTCTATTCT
Found at i:54062717 original size:7 final size:7
Alignment explanation
Indices: 54062707--54062742 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
54062697 TTTAAAAAAT
54062707 AAATAAG
1 AAATAAG
54062714 AAATAAG
1 AAATAAG
*
54062721 TAAACAAG
1 -AAATAAG
54062729 AAATAAG
1 AAATAAG
54062736 AAATAAG
1 AAATAAG
54062743 GGGTTCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (7 bp):
AAATAAG
Found at i:54062729 original size:15 final size:15
Alignment explanation
Indices: 54062706--54062735 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54062696 TTTTAAAAAA
*
54062706 TAAATAAGAAATAAG
1 TAAACAAGAAATAAG
54062721 TAAACAAGAAATAAG
1 TAAACAAGAAATAAG
54062736 AAATAAGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (15 bp):
TAAACAAGAAATAAG
Found at i:54066515 original size:24 final size:24
Alignment explanation
Indices: 54066464--54066516 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
54066454 TAATCCCAAG
* * * *
54066464 TTTTATTATATATATATACATATC
1 TTTTATAATATATACATACACATA
*
54066488 TTTTATAATATATACATGCACATA
1 TTTTATAATATATACATACACATA
54066512 TTTTA
1 TTTTA
54066517 CAATCCGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTTATAATATATACATACACATA
Found at i:54070940 original size:39 final size:40
Alignment explanation
Indices: 54070826--54070940 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
54070816 GTTTGGATAC
* *
54070826 AAAATGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAGG
1 AAAAAGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTAGG
* * * ** *
54070865 AAAAACGCCGCTAAAGATCCAGTATTAGCTACGTTTTTTGG
1 AAAAA-GCCGCTAAAAATCAAGCATTAGCGGCGTTTTTAGG
* *
54070906 AAAAAGCCGCTAAAAAT-GAGCATTAGCGGTGTTTT
1 AAAAAGCCGCTAAAAATCAAGCATTAGCGGCGTTTT
54070941 CCAGAAAGCG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 17 0.28
40 33 0.55
41 10 0.17
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (40 bp):
AAAAAGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTAGG
Found at i:54071054 original size:41 final size:41
Alignment explanation
Indices: 54070992--54071230 Score: 361
Period size: 41 Copynumber: 5.8 Consensus size: 41
54070982 TTTTTATTTT
* * *
54070992 TCGGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
54071033 TCGGGTCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
54071074 TCGGGTCTTTAGCGACGTTTTTGAAAAAGTGCCACTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
54071115 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
54071156 TGGGGTCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
54071197 TCAGGTCTTTAGTGGCGTTTTTTAAAAAGCGCCG
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCG
54071231 TAAAAAATAT
Statistics
Matches: 178, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 178 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:54072044 original size:8 final size:7
Alignment explanation
Indices: 54071959--54072047 Score: 58
Period size: 7 Copynumber: 12.9 Consensus size: 7
54071949 TGTAATTATA
54071959 GTTTAGG
1 GTTTAGG
* **
54071966 GATTATT
1 GTTTAGG
*
54071973 GTTTATG
1 GTTTAGG
*
54071980 GTTTACG
1 GTTTAGG
54071987 GTTTCAGG
1 GTTT-AGG
*
54071995 G-TTGGG
1 GTTTAGG
*
54072001 GTTTAAG
1 GTTTAGG
54072008 GTTTAGG
1 GTTTAGG
*
54072015 G-TCA-G
1 GTTTAGG
54072020 GTTTAGG
1 GTTTAGG
*
54072027 ATTTAGG
1 GTTTAGG
54072034 GTTTAAGG
1 GTTT-AGG
54072042 GTTTAG
1 GTTTAG
54072048 AGTTAATCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
5 2 0.03
6 7 0.11
7 43 0.69
8 10 0.16
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:54072335 original size:21 final size:20
Alignment explanation
Indices: 54072295--54072335 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
54072285 GATTATATAT
*
54072295 AGGGTTGGGATTATGGTTTA
1 AGGGTTGGGATTAAGGTTTA
54072315 AGGGTTGGGATTTAAGGTTTA
1 AGGGTTGGGA-TTAAGGTTTA
54072336 GGTTAGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (20 bp):
AGGGTTGGGATTAAGGTTTA
Found at i:54077829 original size:43 final size:43
Alignment explanation
Indices: 54077722--54077884 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
54077712 GCTAAAGATC
* * * * *
54077722 GGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCATCTAT-
1 GGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG
* * *
54077764 GGAAAAGCGCCGTTAAAAGTCATGATTTTTAGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG
* *
54077807 GGAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG
* * *
54077850 GTAAAAGCGCCGCTAAAGATCATGACCTTTAGCGG
1 GGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
54077885 TGCTTTTAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 34 0.33
43 68 0.67
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG
Found at i:54077898 original size:85 final size:85
Alignment explanation
Indices: 54077730--54077910 Score: 213
Period size: 86 Copynumber: 2.1 Consensus size: 85
54077720 TCGGAAAAGT
* **
54077730 GCCGCTAAAGGTCATGGTCTTTAGCGGCATCTATGGAAAAGCGCCGTTAAAAGTCATGATTTTTA
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCATCTATGGAAAAGCGCCGCTAAAAGTCATGACCTTTA
**
54077795 GCGGCGTTTGTGGGAAAAAC
66 GCGGCGTTTGTGAAAAAAAC
* * *
54077815 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCT-AAAGATCATGACCTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCATCTATGG-AAAAGCGCCGCTAAAAG-TCATGACCTT
* *
54077879 TAGCGGTGCTTT-TAAAAAAAAC
64 TAGCGGCG-TTTGTGAAAAAAAC
* *
54077901 ACTGCTAAAG
1 GCCGCTAAAG
54077911 TTGGCGACGC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 37 0.46
86 41 0.51
87 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (85 bp):
GCCGCTAAAGGTCATGGTCTTTAGCGGCATCTATGGAAAAGCGCCGCTAAAAGTCATGACCTTTA
GCGGCGTTTGTGAAAAAAAC
Found at i:54085137 original size:19 final size:19
Alignment explanation
Indices: 54085115--54085159 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
54085105 CAGATAACAT
54085115 ATAAAATTGCA-CCCAATAC
1 ATAAAATTG-AGCCCAATAC
54085134 ATAAAA-TGAGCCCAATAC
1 ATAAAATTGAGCCCAATAC
54085152 ATAAAATT
1 ATAAAATT
54085160 CTATTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 16 0.67
19 7 0.29
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (19 bp):
ATAAAATTGAGCCCAATAC
Found at i:54086787 original size:188 final size:189
Alignment explanation
Indices: 54086470--54086847 Score: 596
Period size: 188 Copynumber: 2.0 Consensus size: 189
54086460 GACTCTTACG
*
54086470 ATTAGCACTAATGTGGAGTTATGCCACACATTTTAGACTAAAAAGTGTGTAACGTCGCAACGATG
1 ATTAGCACTAATGTGGAGTTATGCCACACATTTTAGACTAAAAAGTGTGTAACGTCGCAACGAGG
* * * ** * *
54086535 AACCGTTCTTTGTCCCAATGAGTAGTCGACGTCACGGTGAAAAGAAAGCACTTATCTTCACGATG
66 AACCGTTCTTTGTCCCAACGAGCAGTCGACATCACGACGAAAAGAAAACACTAATCTTCACGATG
* * * * *
54086600 TGATCCTTTTTCGTCCCGATGA-GTAATTCCACGTCACGATGTTGCGACGTGCAGTTCA
131 TGATCCTTTTTCGTCCCGATGACGCAATTCCACCTCACGATGTGGCGACATACAGTTCA
* *
54086658 ATTAGCACTAATGTGGAGTTATGCCACGCATTTTAGACTAAAAATTGTGTAACGTCGCAACGAGG
1 ATTAGCACTAATGTGGAGTTATGCCACACATTTTAGACTAAAAAGTGTGTAACGTCGCAACGAGG
**
54086723 AAGTGTTCTTTGTCCCAACGAGCAGTCGACATCACGACGAAAAGAAAACACTAATCTTCACGATG
66 AACCGTTCTTTGTCCCAACGAGCAGTCGACATCACGACGAAAAGAAAACACTAATCTTCACGATG
54086788 TGATCCTTTTTCGTCCCGATGACGCAATTCCACCTCACGATGTGGCGACATACAGTTCA
131 TGATCCTTTTTCGTCCCGATGACGCAATTCCACCTCACGATGTGGCGACATACAGTTCA
54086847 A
1 A
54086848 GTTTTTCGAC
Statistics
Matches: 172, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
188 140 0.81
189 32 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (189 bp):
ATTAGCACTAATGTGGAGTTATGCCACACATTTTAGACTAAAAAGTGTGTAACGTCGCAACGAGG
AACCGTTCTTTGTCCCAACGAGCAGTCGACATCACGACGAAAAGAAAACACTAATCTTCACGATG
TGATCCTTTTTCGTCCCGATGACGCAATTCCACCTCACGATGTGGCGACATACAGTTCA
Found at i:54088608 original size:131 final size:131
Alignment explanation
Indices: 54088445--54088694 Score: 430
Period size: 131 Copynumber: 1.9 Consensus size: 131
54088435 GCTCCCAACA
* * *
54088445 TGTCAAGCCTCTTAAGTCTGTAGATTTCCTGCAATTCAGTCAACAAAAAGTGTGAGCTTATAAAC
1 TGTCAAGCCCCTTAAGTCTATAGATTTCCTGCAATTCAGTCAACAAAAAGTATGAGCTTAT-AAC
* *
54088510 -CAATGTGTGTAGCCGATATATAGGCAAAACAACAATATAGATATAACAGTAGTTTTCGAAATTC
65 TCAATGTGTCTAGCCGATATATAGGCAAAACAAAAATATAGATATAACAGTAGTTTTCGAAATTC
54088574 AG
130 AG
*
54088576 TGTCAAGCCCCTTAAGTTTATAGATTTCCTGCAATTCAGTCAACAAAAAGTATGAGCTTATAACT
1 TGTCAAGCCCCTTAAGTCTATAGATTTCCTGCAATTCAGTCAACAAAAAGTATGAGCTTATAACT
54088641 CAATGTGTCTAGCCGATATATAGGCAAAACAAAAATATAGATATAACAGTAGTT
66 CAATGTGTCTAGCCGATATATAGGCAAAACAAAAATATAGATATAACAGTAGTT
54088695 GCCCAAATTC
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
130 3 0.03
131 109 0.97
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (131 bp):
TGTCAAGCCCCTTAAGTCTATAGATTTCCTGCAATTCAGTCAACAAAAAGTATGAGCTTATAACT
CAATGTGTCTAGCCGATATATAGGCAAAACAAAAATATAGATATAACAGTAGTTTTCGAAATTCA
G
Found at i:54089517 original size:41 final size:41
Alignment explanation
Indices: 54089360--54089517 Score: 122
Period size: 41 Copynumber: 3.9 Consensus size: 41
54089350 AATAATCCGA
* * * * * * *
54089360 TCTATAGCGGCATTT-TTTATAAACCGCCGCTGATGCTCCGC
1 TCTATAGCGGCGTTTGTGTA-AAAACGCCGCTAATTCTTCGG
* * * * * * *
54089401 TCTAAAGCGGCGTTTATGGAGAATCGTCGCTAATGT-TCCGG
1 TCTATAGCGGCGTTTGTGTAAAAACGCCGCTAAT-TCTTCGG
* * *
54089442 TCTATAGCGGCGTTTGTGTAACAGCGCCGGTAATTCTTCGG
1 TCTATAGCGGCGTTTGTGTAAAAACGCCGCTAATTCTTCGG
*
54089483 TCTATAGCGGCGTTTGTGTAAAAACGGCGCTAATT
1 TCTATAGCGGCGTTTGTGTAAAAACGCCGCTAATT
54089518 AGAAAATCTA
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
40 1 0.01
41 88 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
TCTATAGCGGCGTTTGTGTAAAAACGCCGCTAATTCTTCGG
Found at i:54094867 original size:87 final size:87
Alignment explanation
Indices: 54094770--54094931 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
54094760 GAGGCAACAT
*
54094770 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCAGC-AGCAACTTAAAGCAGATGCGG
*
54094833 CAGTGAGAGAAGCAAAGGCAGCTG
64 CAGCGAGAGAAGCAAAGGCAGCTG
*
54094857 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCAGCAGCAACTTAAAGCAGATGCGGCA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAAGCAGATGCGGCA
54094922 GCGAGAGAAG
66 GCGAGAGAAG
54094932 TAGAGGCTAC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
86 1 0.01
87 65 0.93
88 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.29, T:0.13
Consensus pattern (87 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAAGCAGATGCGGCA
GCGAGAGAAGCAAAGGCAGCTG
Found at i:54094965 original size:21 final size:21
Alignment explanation
Indices: 54094919--54094965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
54094909 AGCAGATGCG
*
54094919 GCAGCGAGAGAAGTAGAGGCT
1 GCAGCAAGAGAAGTAGAGGCT
* * *
54094940 ACAGCAAGGGAAGTAGAGGTT
1 GCAGCAAGAGAAGTAGAGGCT
54094961 GCAGC
1 GCAGC
54094966 GATGGAAGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.40, T:0.11
Consensus pattern (21 bp):
GCAGCAAGAGAAGTAGAGGCT
Found at i:54094972 original size:21 final size:20
Alignment explanation
Indices: 54094919--54094973 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
54094909 AGCAGATGCG
54094919 GCAGCGAGAGAAGTAGAGGCT
1 GCAGCGAG-GAAGTAGAGGCT
* * *
54094940 ACAGCAAGGGAAGTAGAGGTT
1 GCAGCGA-GGAAGTAGAGGCT
54094961 GCAGCGATGGAAG
1 GCAGCGA-GGAAG
54094974 CAGAACAGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.42, T:0.11
Consensus pattern (20 bp):
GCAGCGAGGAAGTAGAGGCT
Found at i:54095345 original size:43 final size:43
Alignment explanation
Indices: 54095296--54095844 Score: 709
Period size: 43 Copynumber: 12.8 Consensus size: 43
54095286 GTTTTTCTAA
* * * *
54095296 AAGCGCCGCTAAAAACCATGAG-CTATAGCGGCGTTTGTTTGTT
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGATGGAT
* * *
54095339 AAGCGCCGCTAAAGACCAAGGTCTATAGCGGCATTTGATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * * *
54095382 AAGCGCCGCGAAAGATCATGGTCTATAGCGGCGTTTTATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
54095425 -A--GCCGCTAAAGACCATAGGT-TATAGCGGTGTTTGATGGGT
1 AAGCGCCGCTAAAGACCAT-GGTCTATAGCGGCGTTTGATGGAT
54095465 AAGCGCCGCTAAAGACCATTGG-CTATAGCGGCGTTTGATGTG-T
1 AAGCGCCGCTAAAGACCA-TGGTCTATAGCGGCGTTTGATG-GAT
* *
54095508 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGCAA
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * * * *
54095551 AAGTGCCTCTAAAGACCATGGTCTATAGCGGCGTTTAATGCAA
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
54095594 AAGCGCCGCTAAAGACCATGGTCTATAGCGGAGTTTTATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
54095637 AAGCGCCGCTAAAGACCATGGTCTATTA-CGACGTTTGATAGAT
1 AAGCGCCGCTAAAGACCATGGTCTA-TAGCGGCGTTTGATGGAT
* *
54095680 AAGCGTCGCTAAAGACCATGGTCTATAGCGACGTTTGATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
54095723 AAGTGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATAGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * *
54095766 AAGCGCCGCTAAAGACCATGGTCTATAGCAGCATTTCATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
*
54095809 AAGCGCTGCTAAAGACCATGGTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT
54095845 ATTATAAAAA
Statistics
Matches: 449, Mismatches: 45, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
40 31 0.07
41 4 0.01
42 7 0.02
43 403 0.90
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGAT
Found at i:54102712 original size:64 final size:62
Alignment explanation
Indices: 54102622--54102743 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 62
54102612 GTGATTATTG
* ** * * *
54102622 TAATATTAAATTTAATTTAATTTTTATCTTATAGATAAATATTCTATTATTTTAAT-TTAAGATT
1 TAATAATAAATTTAACCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATATTAAGATT
54102686 TAATAATAAATTTAACCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAA
1 TAATAATAAATTTAACCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAA
54102744 AGTGATTAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
61 21 0.41
62 5 0.10
63 1 0.02
64 24 0.47
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (62 bp):
TAATAATAAATTTAACCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAGATT
Found at i:54104634 original size:30 final size:30
Alignment explanation
Indices: 54104598--54104697 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
54104588 TTCGGCTACC
54104598 AATTATGAAAAGGGATGGTGACGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
** * *
54104628 AATTATGAAAAGGGATGGCT-TTGGCTAT-A
1 AATTATGAAAAGGGATGG-TGACGACCATCA
54104657 TAATTATGAAAAGGGATGGTGACGACCATCA
1 -AATTATGAAAAGGGATGGTGACGACCATCA
54104688 AATTAT-AAAA
1 AATTATGAAAA
54104698 TAGGATAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
29 6 0.10
30 50 0.86
31 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:54104726 original size:60 final size:60
Alignment explanation
Indices: 54104602--54104732 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
54104592 GCTACCAATT
* * * * **
54104602 ATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTTGGCTATATAATT
1 ATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAAGGATAGCTTCGACTATATAACC
*
54104662 ATGAAAAGGGATGGTGACGACCATCAAATTAT-AAAATAGGATAGCTTCGACTATCA-AGCC
1 ATGAAAAGGGATGGTGACGACCATCAAATTATGAAAA-AGGATAGCTTCGACTAT-ATAACC
54104722 ATG-AAAGGGAT
1 ATGAAAAGGGAT
54104733 AACTTCGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 12 0.19
60 49 0.79
61 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAAGGATAGCTTCGACTATATAACC
Found at i:54104761 original size:30 final size:30
Alignment explanation
Indices: 54104576--54104763 Score: 100
Period size: 30 Copynumber: 6.3 Consensus size: 30
54104566 TCGATGAATA
* * * *
54104576 AAAAAGGATGACTTCGGCTA-CCAATTATG
1 AAAAGGGATAACTTCGACTATCAAATTATG
** * *
54104605 AAAAGGGAT-GGTGACGACCATCAAATTATG
1 AAAAGGGATAACT-TCGACTATCAAATTATG
** * *
54104635 AAAAGGGATGGCTTTGGCTAT-ATAATTATG
1 AAAAGGGATAACTTCGACTATCA-AATTATG
** * *
54104665 AAAAGGGAT-GGTGACGACCATCAAATTAT-
1 AAAAGGGATAACT-TCGACTATCAAATTATG
* * ***
54104694 AAAATAGGATAGCTTCGACTATCAAGCCATG
1 AAAA-GGGATAACTTCGACTATCAAATTATG
*
54104725 -AAAGGGATAACTTCGATTATCAAATTATG
1 AAAAGGGATAACTTCGACTATCAAATTATG
54104754 AAAAGGGATA
1 AAAAGGGATA
54104764 TGTTAACCAT
Statistics
Matches: 119, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
28 1 0.01
29 39 0.33
30 74 0.62
31 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (30 bp):
AAAAGGGATAACTTCGACTATCAAATTATG
Found at i:54112166 original size:30 final size:30
Alignment explanation
Indices: 54112125--54112320 Score: 150
Period size: 30 Copynumber: 6.5 Consensus size: 30
54112115 TTGGGCTATC
* *
54112125 AATTTTGAAAAGGGATAGTGACGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
* *
54112155 AATTATGAAAAGGGATTGTGACGATCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
* * *
54112185 AATTATGAAAAGGGATGGCT-TCGGCTATCA
1 AATTATGAAAAGGGATGG-TGACGACCATCA
* * * *
54112215 TACTATGAAAAGGGATGGCT-TC-AGCTATC-
1 AATTATGAAAAGGGATGG-TGACGA-CCATCA
* *
54112244 GATCTATGAAAAGGGATGGTGAC-AGCCATCG
1 AAT-TATGAAAAGGGATGGTGACGA-CCATCA
* * * *
54112275 AATAATGAAATGGGTTGGTGACGACTATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
*
54112305 TATTATGAAAAGGGAT
1 AATTATGAAAAGGGAT
54112321 AACTTCGGTT
Statistics
Matches: 135, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.01
30 129 0.96
31 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:54112283 original size:90 final size:90
Alignment explanation
Indices: 54112091--54112321 Score: 224
Period size: 90 Copynumber: 2.6 Consensus size: 90
54112081 TAACGGCGAT
* * *
54112091 CATCG-ATGAATGAAAAGGGATGGCTTGGGCTATCA-ATTTTGAAAAGGGATAGTGACGACCATC
1 CATCGAAT-AATGAAAAGGGATGGCTTCGGCTATCATATTATGAAAAGGGATAGTCACGACCATC
* *
54112154 AAATTATGAAAAGGGATTGTGACGAT
65 AAATTATGAAAAGGGATGGTGACGAC
* * * * *
54112180 CATCAAATTATGAAAAGGGATGGCTTCGGCTATCATACTATGAAAAGGGATGGCTTCA-G-CTAT
1 CATCGAATAATGAAAAGGGATGGCTTCGGCTATCATATTATGAAAAGGGATAG--TCACGACCAT
*
54112243 C-GATCTATGAAAAGGGATGGTGAC-AGC
64 CAAAT-TATGAAAAGGGATGGTGACGA-C
* * * *
54112270 CATCGAATAATGAAATGGGTTGG-TGACGACTATCATATTATGAAAAGGGATA
1 CATCGAATAATGAAAAGGGATGGCT-TCGGCTATCATATTATGAAAAGGGATA
54112322 ACTTCGGTTA
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
89 33 0.28
90 80 0.69
91 1 0.01
92 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (90 bp):
CATCGAATAATGAAAAGGGATGGCTTCGGCTATCATATTATGAAAAGGGATAGTCACGACCATCA
AATTATGAAAAGGGATGGTGACGAC
Found at i:54112345 original size:90 final size:90
Alignment explanation
Indices: 54112151--54112350 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 90
54112141 AGTGACGACC
* * * * *
54112151 ATCAAATTATGAAAAGGGATTGTGACGATCATCAAATTATGAAAAGGGATGGCTTCGGCTATCAT
1 ATCAAATTATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATGGCTACGACTATCAT
**
54112216 ACTATGAAAAGGGATGGCTTCAGCT
66 ACTATGAAAAGGGATAACTTCAGCT
* * * *
54112241 ATC-GATCTATGAAAAGGGATGGTGAC-AGCCATCGAATAATGAAATGGGTTGG-TGACGACTAT
1 ATCAAAT-TATGAAAAGGGATGGTGACGA-CCATCAAATAATGAAAAGGGATGGCT-ACGACTAT
* * *
54112303 CATATTATGAAAAGGGATAACTTCGGTT
63 CATACTATGAAAAGGGATAACTTCAGCT
*
54112331 ATCAAATTACGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
54112351 ATGTTAACCA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
89 4 0.04
90 84 0.93
91 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (90 bp):
ATCAAATTATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATGGCTACGACTATCAT
ACTATGAAAAGGGATAACTTCAGCT
Found at i:54115134 original size:22 final size:22
Alignment explanation
Indices: 54115101--54115157 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
54115091 GTAACAGTTC
54115101 AGATA-AGATGCAAAACAAATT
1 AGATATAGATGCAAAACAAATT
* *
54115122 AGATATAGATGCAAAATAGATT
1 AGATATAGATGCAAAACAAATT
54115144 AGA-ATCAGATGCAA
1 AGATAT-AGATGCAA
54115158 TTTCCTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (22 bp):
AGATATAGATGCAAAACAAATT
Found at i:54120809 original size:17 final size:17
Alignment explanation
Indices: 54120787--54120819 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54120777 TAATTCATAG
54120787 CATATTAAATTTTTAGA
1 CATATTAAATTTTTAGA
54120804 CATATTAAATTTTTAG
1 CATATTAAATTTTTAG
54120820 GCTATGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
CATATTAAATTTTTAGA
Found at i:54123341 original size:15 final size:15
Alignment explanation
Indices: 54123321--54123367 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
54123311 TAAAATCCAC
*
54123321 TGAACTACTTTCTAA
1 TGAACTGCTTTCTAA
54123336 TGAACTGCTTTCTAA
1 TGAACTGCTTTCTAA
*
54123351 TGAACTGCTTTCCAA
1 TGAACTGCTTTCTAA
54123366 TG
1 TG
54123368 TTCTTTACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (15 bp):
TGAACTGCTTTCTAA
Found at i:54128349 original size:5 final size:5
Alignment explanation
Indices: 54128339--54128372 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
54128329 GAAACAATAA
54128339 AATTT AATTT AATTT AATTT --TTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT A
54128373 CTTTTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
5 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
AATTT
Found at i:54128364 original size:13 final size:13
Alignment explanation
Indices: 54128346--54128371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54128336 TAAAATTTAA
54128346 TTTAATTTAATTT
1 TTTAATTTAATTT
54128359 TTTAATTTAATTT
1 TTTAATTTAATTT
54128372 ACTTTTAGAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAATTTAATTT
Found at i:54128364 original size:18 final size:18
Alignment explanation
Indices: 54128341--54128377 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
54128331 AACAATAAAA
54128341 TTTAATTTAATTTAATTT
1 TTTAATTTAATTTAATTT
*
54128359 TTTAATTTAATTTACTTT
1 TTTAATTTAATTTAATTT
54128377 T
1 T
54128378 AGAAAAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTTAATTTAATTT
Found at i:54135997 original size:18 final size:17
Alignment explanation
Indices: 54135975--54136109 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 17
54135965 AATACTAAGA
54135975 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
54135992 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
54136008 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
54136022 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
54136041 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
* *
54136057 ATTTTAGTAAATTCATTT
1 ATTTTATTAAATT-ATAT
54136075 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
54136092 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
54136110 TTAATAATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 25
0.68 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 17 0.19
18 41 0.46
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:54137375 original size:205 final size:205
Alignment explanation
Indices: 54137023--54137435 Score: 799
Period size: 205 Copynumber: 2.0 Consensus size: 205
54137013 CCTTCAAAAT
54137023 TTGGGGACCTCGCTCACTTGTTTCCCCGAAAAGGACAGTCATCAGCAAAAAGTAAGTGGGAAATT
1 TTGGGGACCTCGCTCACTTGTTTCCCCGAAAAGGACAGTCATCAGCAAAAAGTAAGTGGGAAATT
*
54137088 TGGGGATCTTGTCTGCTTGCTTTCACACCTTTTAACAACCCTTCCCCAAAGCAAAGACGCATGAG
66 TGGGGACCTTGTCTGCTTGCTTTCACACCTTTTAACAACCCTTCCCCAAAGCAAAGACGCATGAG
54137153 GGTGGATAAACCTTCACTACAAATTAGAAATAAAAAAGGACTTAACGGGTTTTCTTGTCTAAATC
131 GGTGGATAAACCTTCACTACAAATTAGAAATAAAAAAGGACTTAACGGGTTTTCTTGTCTAAATC
54137218 CTCTTTGAGG
196 CTCTTTGAGG
54137228 TTGGGGACCTCGCTCACTTGTTTCCCCGAAAAGGACAGTCATCAGCAAAAAGTAAGTGGGAAATT
1 TTGGGGACCTCGCTCACTTGTTTCCCCGAAAAGGACAGTCATCAGCAAAAAGTAAGTGGGAAATT
* *
54137293 TGGGGACCTTGTCTGCTTGCTTTTACACCTTTTAACAACTCTTCCCCAAAGCAAAGACGCATGAG
66 TGGGGACCTTGTCTGCTTGCTTTCACACCTTTTAACAACCCTTCCCCAAAGCAAAGACGCATGAG
54137358 GGTGGATAAACCTTCACTACAAATTAGAAATAAAAAAGGACTTAACGGGTTTTCTTGTCTAAATC
131 GGTGGATAAACCTTCACTACAAATTAGAAATAAAAAAGGACTTAACGGGTTTTCTTGTCTAAATC
54137423 CTCTTTGAGG
196 CTCTTTGAGG
54137433 TTG
1 TTG
54137436 AAAAGAAACT
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
205 205 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (205 bp):
TTGGGGACCTCGCTCACTTGTTTCCCCGAAAAGGACAGTCATCAGCAAAAAGTAAGTGGGAAATT
TGGGGACCTTGTCTGCTTGCTTTCACACCTTTTAACAACCCTTCCCCAAAGCAAAGACGCATGAG
GGTGGATAAACCTTCACTACAAATTAGAAATAAAAAAGGACTTAACGGGTTTTCTTGTCTAAATC
CTCTTTGAGG
Found at i:54142306 original size:45 final size:44
Alignment explanation
Indices: 54142247--54142337 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
54142237 TTTGGTTCGC
* * *
54142247 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
54142292 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
54142336 TG
1 TG
54142338 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:54142529 original size:18 final size:17
Alignment explanation
Indices: 54142502--54142536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54142492 TTATTTTTAA
*
54142502 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
54142520 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54142537 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54142602 original size:157 final size:157
Alignment explanation
Indices: 54142389--54142705 Score: 553
Period size: 157 Copynumber: 2.0 Consensus size: 157
54142379 TAGAATACCC
*
54142389 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
54142454 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
*
54142519 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAACAA
* *
54142546 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
54142611 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
54142676 TATATAATTTAATAAAATTCTTAACAA
131 TATATAATTTAATAAAATTCTTAACAA
54142703 TTA
1 TTA
54142706 ATATTCTTAT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAACAA
Found at i:54142676 original size:16 final size:16
Alignment explanation
Indices: 54142639--54142680 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
54142629 TTAATCATAT
*
54142639 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
54142655 TT-AAATATATTATAA
1 TTAAAATATATTATAA
54142670 TTAAAATATAT
1 TTAAAATATAT
54142681 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:54142687 original size:14 final size:15
Alignment explanation
Indices: 54142648--54142689 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
54142638 TTTAAACATA
*
54142648 ATTATTATTAAATAT
1 ATTATAATTAAATAT
54142663 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
54142677 A-TATAATTTAATA
1 ATTATAATTAAATA
54142690 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:54149673 original size:91 final size:91
Alignment explanation
Indices: 54149505--54149680 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 91
54149495 TATAAATTTT
* * * **
54149505 ATTCAAAATTCCGAAGAATGGAGAGGTGTCTCACATTCAAGAGTCACGATGGACATTGCATATTG
1 ATTCAAAATTCCGAAGAATGGAGAAGTGTCTCACATCCAAGAGCCACGATGGACATTGCATATCA
54149570 ATGTAGCAGTGGACAATATACATTCC
66 ATGTAGCAGTGGACAATATACATTCC
* ** * *
54149596 ATTCGAAATTCCGAATG-ATGGAGAAGTGTCTTGCATCCAAGAGCCACGATGGACGTTGCATGTC
1 ATTCAAAATTCCGAA-GAATGGAGAAGTGTCTCACATCCAAGAGCCACGATGGACATTGCATATC
* *
54149660 AATTTAGCGGTGGACAATATA
65 AATGTAGCAGTGGACAATATA
54149681 GATACGATGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 71 0.99
92 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (91 bp):
ATTCAAAATTCCGAAGAATGGAGAAGTGTCTCACATCCAAGAGCCACGATGGACATTGCATATCA
ATGTAGCAGTGGACAATATACATTCC
Found at i:54159303 original size:2 final size:2
Alignment explanation
Indices: 54159298--54159326 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54159288 CTTTATCATA
54159298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54159327 ATAGCATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54160984 original size:28 final size:28
Alignment explanation
Indices: 54160895--54160984 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
54160885 TAATTAAATT
54160895 AGATAGGTATATATTATTTGGATGAAAA
1 AGATAGGTATATATTATTTGGATGAAAA
* *
54160923 AGATA--TATATGTTGA-AT-GATGATAAAA
1 AGATAGGTATATATT-ATTTGGATG--AAAA
*
54160950 TTAGATAGGTATATCTTATTTGGATGAAAA
1 --AGATAGGTATATATTATTTGGATGAAAA
54160980 AGATA
1 AGATA
54160985 TATATGTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
25 4 0.08
26 8 0.16
27 5 0.10
28 10 0.20
29 5 0.10
30 5 0.10
31 8 0.16
32 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (28 bp):
AGATAGGTATATATTATTTGGATGAAAA
Found at i:54163795 original size:6 final size:6
Alignment explanation
Indices: 54163784--54163809 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54163774 TTTTATTGTA
54163784 GGGAAT GGGAAT GGGAAT GGGAAT GG
1 GGGAAT GGGAAT GGGAAT GGGAAT GG
54163810 AGGTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (6 bp):
GGGAAT
Found at i:54169844 original size:43 final size:43
Alignment explanation
Indices: 54169783--54169874 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
54169773 GTAATATGGT
* * **
54169783 TTCCACTGATACCCTATTACGTGCAACAGTTGAGTACCATGAA
1 TTCCACTGATACCCTATTAAGTACAACAACTGAGTACCATGAA
*
54169826 TTCCACTGATACCCTATTAAGTACAACAACTGATTACCATGAA
1 TTCCACTGATACCCTATTAAGTACAACAACTGAGTACCATGAA
*
54169869 CTCCAC
1 TTCCAC
54169875 AACTCATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (43 bp):
TTCCACTGATACCCTATTAAGTACAACAACTGAGTACCATGAA
Found at i:54177772 original size:15 final size:15
Alignment explanation
Indices: 54177732--54177774 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
54177722 TAAAATGAAA
*
54177732 ATTCGAGTTGAATTG
1 ATTCGAGTTAAATTG
* *
54177747 AATCGAG-TAAATTT
1 ATTCGAGTTAAATTG
54177761 ATTCGAGTTAAATT
1 ATTCGAGTTAAATT
54177775 AAAAAATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (15 bp):
ATTCGAGTTAAATTG
Found at i:54178378 original size:15 final size:14
Alignment explanation
Indices: 54178351--54178377 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54178341 AAATATAGTA
54178351 AAATATTAAAAAAT
1 AAATATTAAAAAAT
54178365 AAATATTAAAAAA
1 AAATATTAAAAAA
54178378 ACATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:54178876 original size:24 final size:24
Alignment explanation
Indices: 54178844--54178895 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
54178834 TTAATCTTTG
*
54178844 ATTATTTGTCCCATTCAAACTCTA
1 ATTATTTGTCCCAGTCAAACTCTA
*
54178868 ATTATTTGTCCCAGTCGAACTCTA
1 ATTATTTGTCCCAGTCAAACTCTA
54178892 ATTA
1 ATTA
54178896 GGGTAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTATTTGTCCCAGTCAAACTCTA
Found at i:54182452 original size:33 final size:33
Alignment explanation
Indices: 54182370--54182479 Score: 87
Period size: 33 Copynumber: 3.3 Consensus size: 33
54182360 TGGTCCAACC
* * ** * *
54182370 ATGGTCTTACGTTCAAGGTGTCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGTCATAGCCCAGCT
*
54182403 ATGGTCTTTTCA-TTAAAATGTCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGTCATAGCCCAGCT
* * * *
54182436 ATGGTCTTACATTTAAACATTTCCATGGCCCAACC
1 ATGGTCTTACATTTAAA-ATGT-CATAGCCCAGCT
54182471 ATGGTCTTA
1 ATGGTCTTA
54182480 TCCGTCAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 4 0.07
33 33 0.54
34 6 0.10
35 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGTCATAGCCCAGCT
Found at i:54186140 original size:17 final size:15
Alignment explanation
Indices: 54186118--54186151 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
54186108 TTTTAGCAAG
54186118 TTTTGTACATTTTTCAA
1 TTTTGT-CATTTTT-AA
54186135 TTTTGTCATTTTTAA
1 TTTTGTCATTTTTAA
54186150 TT
1 TT
54186152 AATTAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTGTCATTTTTAA
Found at i:54191752 original size:17 final size:17
Alignment explanation
Indices: 54191730--54191762 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54191720 TGTTAGTTAA
*
54191730 TATTGTCGTTGCATTGC
1 TATTGTCATTGCATTGC
54191747 TATTGTCATTGCATTG
1 TATTGTCATTGCATTG
54191763 TAATCTTAGT
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:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (17 bp):
TATTGTCATTGCATTGC
Found at i:54194972 original size:23 final size:23
Alignment explanation
Indices: 54194946--54195002 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
54194936 AATGATAAAG
54194946 CAGCATCAATTTTCTCTTATAAT
1 CAGCATCAATTTTCTCTTATAAT
54194969 CAGCATCAATTTTCTCTTATAAT
1 CAGCATCAATTTTCTCTTATAAT
*
54194992 TATGCATCAAT
1 CA-GCATCAAT
54195003 AAAATCATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (23 bp):
CAGCATCAATTTTCTCTTATAAT
Found at i:54195538 original size:42 final size:42
Alignment explanation
Indices: 54195479--54195657 Score: 211
Period size: 42 Copynumber: 4.3 Consensus size: 42
54195469 AAGGAAAGCA
* *
54195479 TTCATTGTATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* *
54195521 TTCATTGCATTTTGAGGCCC-AGATGTGTAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAG-TGTGGAGGTCCATTTACTT
* * *
54195563 TTCATCGTATTTAGA-GCCTCAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTTAGAGGCC-CAAGTGTGGAGGTCC-ATTTACTT
* * *
54195605 TTCATTACATTAAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
*
54195647 TTCATTACATT
1 TTCATTGCATT
54195658 GAATATAAAG
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
41 7 0.06
42 105 0.89
43 6 0.05
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
Found at i:54195622 original size:84 final size:84
Alignment explanation
Indices: 54195479--54195651 Score: 258
Period size: 84 Copynumber: 2.1 Consensus size: 84
54195469 AAGGAAAGCA
* * * **
54195479 TTCATTGTATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTTTTCATTGCATTTTGAGGCCCAGA
1 TTCATCGTATTTAGAGGCCCAAGTGTGGAGGCCTATTTACTTTTCATTACATTAAGAGGCCCAGA
*
54195544 TGTGTAGGTCCATTTACTT
66 TGTGGAGGTCCATTTACTT
*
54195563 TTCATCGTATTTAGA-GCCTCAGGTGTGGAGGCCTATTTACTTTTCATTACATTAAGAGGCCCAG
1 TTCATCGTATTTAGAGGCC-CAAGTGTGGAGGCCTATTTACTTTTCATTACATTAAGAGGCCCAG
*
54195627 GTGTGGAGGTCCATTTACTT
65 ATGTGGAGGTCCATTTACTT
54195647 TTCAT
1 TTCAT
54195652 TACATTGAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 3 0.04
84 77 0.96
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (84 bp):
TTCATCGTATTTAGAGGCCCAAGTGTGGAGGCCTATTTACTTTTCATTACATTAAGAGGCCCAGA
TGTGGAGGTCCATTTACTT
Found at i:54196336 original size:5 final size:5
Alignment explanation
Indices: 54196323--54196352 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
54196313 ATATATACAT
*
54196323 GAAAC GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
54196353 AGGGAGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:54197694 original size:51 final size:51
Alignment explanation
Indices: 54197639--54197741 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
54197629 TAAGATCTTA
54197639 TATACCATTTGAATTTAGAGTTTTAAACTAATTTTAAATATCGTATAGGAT
1 TATACCATTTGAATTTAGAGTTTTAAACTAATTTTAAATATCGTATAGGAT
54197690 TATACCATTTGAATTTAGAGTTTTAAACTAATTTTAAATATCGTATAGGAT
1 TATACCATTTGAATTTAGAGTTTTAAACTAATTTTAAATATCGTATAGGAT
54197741 T
1 T
54197742 CCTCTTTAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (51 bp):
TATACCATTTGAATTTAGAGTTTTAAACTAATTTTAAATATCGTATAGGAT
Found at i:54200067 original size:44 final size:44
Alignment explanation
Indices: 54200018--54200125 Score: 144
Period size: 44 Copynumber: 2.5 Consensus size: 44
54200008 AAACGGTGTA
*
54200018 ATAGCCAACACCGGTACATAATACCTACTTAATATAAATGGCAC
1 ATAGCCAACACCGGTACATAATACCTACTGAATATAAATGGCAC
*** * * *
54200062 ATAGCCAACATTAGTACATAGTACCTGCTGAATGTAAATGGCAC
1 ATAGCCAACACCGGTACATAATACCTACTGAATATAAATGGCAC
*
54200106 ATAGCCAACACCGATACATA
1 ATAGCCAACACCGGTACATA
54200126 TTACATGTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (44 bp):
ATAGCCAACACCGGTACATAATACCTACTGAATATAAATGGCAC
Found at i:54200138 original size:44 final size:44
Alignment explanation
Indices: 54200018--54200142 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
54200008 AAACGGTGTA
* *
54200018 ATAGCCAACACCGGTACATAATACCTACTT-AATATAAATGGCAC
1 ATAGCCAACACCGATACATAATACCT-GTTGAATATAAATGGCAC
** * * *
54200062 ATAGCCAACA-TTAGTACATAGTACCTGCTGAATGTAAATGGCAC
1 ATAGCCAACACCGA-TACATAATACCTGTTGAATATAAATGGCAC
* *
54200106 ATAGCCAACACCGATACATATTACATGTTGAATATAA
1 ATAGCCAACACCGATACATAATACCTGTTGAATATAA
54200143 CCCTAATGAC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 63 0.97
45 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.25
Consensus pattern (44 bp):
ATAGCCAACACCGATACATAATACCTGTTGAATATAAATGGCAC
Found at i:54201943 original size:13 final size:13
Alignment explanation
Indices: 54201927--54201960 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
54201917 TTTATTTTGG
*
54201927 TTTAATTTTTTAT
1 TTTAATTTTCTAT
54201940 TTTAATTTTCTAT
1 TTTAATTTTCTAT
54201953 TTTAATTT
1 TTTAATTT
54201961 AATCCCCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTAATTTTCTAT
Found at i:54205564 original size:7 final size:7
Alignment explanation
Indices: 54205552--54205586 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
54205542 CATACCGTTT
54205552 TTATTTA
1 TTATTTA
54205559 TTATTTA
1 TTATTTA
54205566 TTATTTA
1 TTATTTA
54205573 TTATTCTA
1 TTATT-TA
54205581 TTATTT
1 TTATTT
54205587 TTCTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:54206939 original size:46 final size:46
Alignment explanation
Indices: 54206882--54207205 Score: 537
Period size: 46 Copynumber: 7.0 Consensus size: 46
54206872 ACTATACTCT
*
54206882 AACTCAGTATGGTTTTCTTTATTGAAATACGATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* *
54206928 AACCCAGTATGGTTTTCTTTATTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
*
54206974 AACTCAGTATGGTTTT-TTTATTGAGATACCATACCTACTTTTTCA-
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAC-TTTTCAC
54207019 ACACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54207066 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54207112 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTTCA-
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAC-TTTTCAC
* *
54207158 ACACTTAGTATGGTTTTCTTTATTGAAATACCATACCTACGTTTCAC
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54207205 A
1 A
54207206 CTTTGCCATG
Statistics
Matches: 262, Mismatches: 9, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
45 21 0.08
46 175 0.67
47 66 0.25
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
Found at i:54207324 original size:31 final size:31
Alignment explanation
Indices: 54207286--54207349 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54207276 TGCGTATCCC
* * *
54207286 TTAATTTGAGCTTACAATTTGATTTTCACAT
1 TTAATTTGAACATACAAATTGATTTTCACAT
54207317 TTAATTTGAACATACAAATTGATTTTCACAT
1 TTAATTTGAACATACAAATTGATTTTCACAT
54207348 TT
1 TT
54207350 TTACCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (31 bp):
TTAATTTGAACATACAAATTGATTTTCACAT
Found at i:54210229 original size:22 final size:22
Alignment explanation
Indices: 54210201--54210245 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
54210191 AAGTTATTAA
*
54210201 ATTAACTGTCTAATATGGGAAG
1 ATTAACTATCTAATATGGGAAG
54210223 ATTAACTATCTAATATGGGAAG
1 ATTAACTATCTAATATGGGAAG
54210245 A
1 A
54210246 GGAAATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (22 bp):
ATTAACTATCTAATATGGGAAG
Found at i:54210259 original size:22 final size:22
Alignment explanation
Indices: 54210209--54210252 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54210199 AAATTAACTG
** *
54210209 TCTAATATGGGAAGATTAACTA
1 TCTAATATGGGAAGAGGAAATA
54210231 TCTAATATGGGAAGAGGAAATA
1 TCTAATATGGGAAGAGGAAATA
54210253 GTTAATAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (22 bp):
TCTAATATGGGAAGAGGAAATA
Found at i:54216768 original size:40 final size:40
Alignment explanation
Indices: 54216724--54216944 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
54216714 AATTATTATA
* *
54216724 TGATTGCACATACGTGTCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
* * ** * *
54216764 TGATTGCCCATACGTGTCTATGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
* *
54216804 TGATTGCACATATGTGCCCCTGATTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
* * * * * *
54216844 TAATTGCACATATGTGCCCATGGTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
* * *
54216884 TGATTGCACATACGTGCCCCTAATTATACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
* * *
54216924 TGAATGCACTTTCGTGCCCCT
1 TGATTGCACATACGTGCCCCT
54216945 ATTTATACTC
Statistics
Matches: 153, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
Found at i:54216815 original size:80 final size:80
Alignment explanation
Indices: 54216724--54216942 Score: 285
Period size: 80 Copynumber: 2.7 Consensus size: 80
54216714 AATTATTATA
* * * * * *
54216724 TGATTGCACATACGTGTCCCTGTTTGTACTTCGGTACCCCTGATTGCCCATACGTGTCTATGTTT
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGATTGCACATACGTGCCCATGGTT
*
54216789 GTACTTTGGTACCCC
66 GTACTTTGATACCCC
* * * *
54216804 TGATTGCACATATGTGCCCCTGATTGTACTTCGGCACCCCTAATTGCACATATGTGCCCATGGTT
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGATTGCACATACGTGCCCATGGTT
54216869 GTACTTTGATACCCC
66 GTACTTTGATACCCC
* * * * * *
54216884 TGATTGCACATACGTGCCCCTAATTATACTTCGATACCCCTGAATGCACTTTCGTGCCC
1 TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGATTGCACATACGTGCCC
54216943 CTATTTATAC
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 118 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (80 bp):
TGATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGATTGCACATACGTGCCCATGGTT
GTACTTTGATACCCC
Found at i:54216825 original size:20 final size:20
Alignment explanation
Indices: 54216800--54216904 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
54216790 TACTTTGGTA
54216800 CCCCTGATTGCACATATGTG
1 CCCCTGATTGCACATATGTG
* * ** **
54216820 CCCCTGATTGTACTTCGGCA
1 CCCCTGATTGCACATATGTG
*
54216840 CCCCTAATTGCACATATGTG
1 CCCCTGATTGCACATATGTG
* * * * *
54216860 CCCATGGTTGTAC-TTTGATA
1 CCCCTGATTGCACATATG-TG
*
54216880 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATATGTG
54216900 CCCCT
1 CCCCT
54216905 AATTATACTT
Statistics
Matches: 58, Mismatches: 25, Indels: 4
0.67 0.29 0.05
Matches are distributed among these distances:
19 3 0.05
20 53 0.91
21 2 0.03
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCCTGATTGCACATATGTG
Found at i:54218050 original size:48 final size:48
Alignment explanation
Indices: 54217978--54218077 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
54217968 TATGCATGTG
*
54217978 AATGATTGGTTTATGATAGTATTAACATGTTGAATAATATGAGGTTTA
1 AATGATTGGTTTATGATAGCATTAACATGTTGAATAATATGAGGTTTA
*
54218026 AATGATTGGTTTATGATTA-CATTAACATGTTGAATCATATGAGGTTTA
1 AATGATTGGTTTATGA-TAGCATTAACATGTTGAATAATATGAGGTTTA
54218074 AATG
1 AATG
54218078 TTTTCGACTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 47 0.96
49 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (48 bp):
AATGATTGGTTTATGATAGCATTAACATGTTGAATAATATGAGGTTTA
Found at i:54226629 original size:21 final size:22
Alignment explanation
Indices: 54226587--54226630 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
54226577 ACAGTAGAAC
*
54226587 AGGTTTTTAGCGGCGTCTTTTT
1 AGGTCTTTAGCGGCGTCTTTTT
54226609 AGGTCTTTAGCGGCG-CTTTTT
1 AGGTCTTTAGCGGCGTCTTTTT
54226630 A
1 A
54226631 ACGCCACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGTCTTTTT
Found at i:54226776 original size:42 final size:42
Alignment explanation
Indices: 54226701--54226859 Score: 239
Period size: 42 Copynumber: 3.8 Consensus size: 42
54226691 ACGCCACTAA
* *
54226701 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* *
54226745 CTTTAGCGGCGCTTAGAAAAAAACGCTGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
54226787 CTTCAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
54226829 CTTTAGCGGCGCTTAG-AAAAAACGCCACTAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAA
54226860 TTTTGGGATT
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.13
42 79 0.75
44 13 0.12
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:54226935 original size:15 final size:15
Alignment explanation
Indices: 54226915--54226948 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54226905 CCTGCAACAG
*
54226915 CAAATCAAAAGTAAC
1 CAAATCAAAACTAAC
*
54226930 CAAATCTAAACTAAC
1 CAAATCAAAACTAAC
54226945 CAAA
1 CAAA
54226949 AACAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.03, T:0.15
Consensus pattern (15 bp):
CAAATCAAAACTAAC
Found at i:54227234 original size:12 final size:12
Alignment explanation
Indices: 54227217--54227256 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
54227207 TTTTGAACCT
*
54227217 CTGCTTCTATTG
1 CTGCTTCTCTTG
*
54227229 CTGCTTCTCTCG
1 CTGCTTCTCTTG
54227241 CTGCTTCTCTTG
1 CTGCTTCTCTTG
54227253 CTGC
1 CTGC
54227257 GGCCTCTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.03, C:0.35, G:0.17, T:0.45
Consensus pattern (12 bp):
CTGCTTCTCTTG
Found at i:54227265 original size:21 final size:21
Alignment explanation
Indices: 54227241--54227309 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
54227231 GCTTCTCTCG
* *
54227241 CTGCTTCTCTTGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
54227262 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
54227283 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
54227304 CTGCTT
1 CTGCTT
54227310 TAAGTTGCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.01, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:54232842 original size:9 final size:9
Alignment explanation
Indices: 54232828--54233101 Score: 250
Period size: 9 Copynumber: 30.2 Consensus size: 9
54232818 TTTTTATGTA
54232828 TTATGTAAG
1 TTATGTAAG
54232837 TTATGTAAG
1 TTATGTAAG
54232846 TTATGTAAG
1 TTATGTAAG
*
54232855 TTACT-TAAT
1 TTA-TGTAAG
54232864 TTATGTAAG
1 TTATGTAAG
54232873 TTATGTAAG
1 TTATGTAAG
* *
54232882 TTATTTAAT
1 TTATGTAAG
*
54232891 TTATGTAGG
1 TTATGTAAG
54232900 TTATGTAAG
1 TTATGTAAG
* *
54232909 TTATTTAAT
1 TTATGTAAG
*
54232918 TTATGCAAG
1 TTATGTAAG
54232927 TTTATGTAAG
1 -TTATGTAAG
*
54232937 TTATGTAGG
1 TTATGTAAG
*
54232946 TTACT-TAAT
1 TTA-TGTAAG
54232955 TTATGTAAG
1 TTATGTAAG
*
54232964 TCATGTAAG
1 TTATGTAAG
* *
54232973 TTATTTAAT
1 TTATGTAAG
*
54232982 TTATGTAGG
1 TTATGTAAG
54232991 TTATGTAAG
1 TTATGTAAG
* *
54233000 TTATG-CAT
1 TTATGTAAG
*
54233008 TCCTATTTAAG
1 T--TATGTAAG
*
54233019 TTATGTAAT
1 TTATGTAAG
*
54233028 TTATGT-TG
1 TTATGTAAG
54233036 TTTATGTAAG
1 -TTATGTAAG
54233046 TTATGTAAG
1 TTATGTAAG
* *
54233055 TTATTTAAT
1 TTATGTAAG
54233064 TTATGTAAG
1 TTATGTAAG
*
54233073 TTATGTAAC
1 TTATGTAAG
* *
54233082 TTATTTAAT
1 TTATGTAAG
*
54233091 TTATGTTAG
1 TTATGTAAG
54233100 TT
1 TT
54233102 TCTATATATG
Statistics
Matches: 209, Mismatches: 46, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
8 4 0.02
9 189 0.90
10 14 0.07
11 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:54232959 original size:82 final size:84
Alignment explanation
Indices: 54232927--54233096 Score: 86
Period size: 82 Copynumber: 2.1 Consensus size: 84
54232917 TTTATGCAAG
* * * * * * **
54232927 TTTATGTAAGTTATGTAGGTTACTTAATTTATGTAAGTCATGTAAGTTATTTAATTTATG---TA
1 TTTATGTAGGTTATGTAAGTTATTTAATTTATGCAAGTTATGTAAGTTATGTAGGTTATGTAATA
**
54232989 GGTTATGTAAGTTA-TGCA
66 GGTTATGTAAGTTATTTAA
* * * * * * **
54233007 TTCCTATTTAAGTTATGTAATTTATGTT-GTTTATGTAAGTTATGTAAGTTATTTAATTTATGT-
1 TT--TATGTAGGTTATGTAAGTTAT-TTAATTTATGCAAGTTATGTAAGTTATGTAGGTTATGTA
*
54233070 A-A-GTTATGTAACTTATTTAA
63 ATAGGTTATGTAAGTTATTTAA
54233090 TTTATGT
1 TTTATGT
54233097 TAGTTTCTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
80 2 0.03
81 4 0.05
82 61 0.82
83 7 0.09
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (84 bp):
TTTATGTAGGTTATGTAAGTTATTTAATTTATGCAAGTTATGTAAGTTATGTAGGTTATGTAATA
GGTTATGTAAGTTATTTAA
Found at i:54233174 original size:20 final size:21
Alignment explanation
Indices: 54233123--54233192 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
54233113 TTATATATTG
*
54233123 TATGTTAGTTA-TTATGTTAT
1 TATGTTAGTTATTTAAGTTAT
* *
54233143 TATATAAGTTATTTAAGTTAT
1 TATGTTAGTTATTTAAGTTAT
*
54233164 TATGTTA-TTATATAA-TGTAT
1 TATGTTAGTTATTTAAGT-TAT
54233184 TATG-TAGTT
1 TATGTTAGTT
54233193 TATTATGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.61
21 13 0.32
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TATGTTAGTTATTTAAGTTAT
Found at i:54233184 original size:29 final size:28
Alignment explanation
Indices: 54233113--54233211 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 28
54233103 CTATATATGT
*
54233113 TTATATATTGTATGTTAGTTATTATGTTA
1 TTATATAATGTAT-TTAGTTATTATGTTA
54233142 TTATATAA-GTTATTTAAGTTATTATGTTA
1 TTATATAATG-TATTT-AGTTATTATGTTA
*
54233171 TTATATAATGTATTATGTAGTTTATTATGTTG
1 TTATATAATGTA-T-T-TAG-TTATTATGTTA
*
54233203 TTACATAAT
1 TTATATAAT
54233212 AAATTATGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 3 0.05
29 33 0.55
30 2 0.03
31 3 0.05
32 19 0.32
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (28 bp):
TTATATAATGTATTTAGTTATTATGTTA
Found at i:54233201 original size:32 final size:31
Alignment explanation
Indices: 54233123--54233228 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 31
54233113 TTATATATTG
54233123 TATGTTAGTTATTATGTTATTATATAA-GTTAT
1 TATG-TAGTTATTATGTTATTATATAATG-TAT
*
54233155 T-T-AAGTTATTATGTTATTATATAATGTAT
1 TATGTAGTTATTATGTTATTATATAATGTAT
* * **
54233184 TATGTAGTTTATTATGTTGTTACATAATAAAT
1 TATGTAG-TTATTATGTTATTATATAATGTAT
54233216 TATGTAAGTTATT
1 TATGT-AGTTATT
54233229 TAATTTATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
29 25 0.40
30 2 0.03
31 3 0.05
32 31 0.49
33 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (31 bp):
TATGTAGTTATTATGTTATTATATAATGTAT
Found at i:54233483 original size:17 final size:17
Alignment explanation
Indices: 54233461--54233493 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54233451 CGCAAAACTT
54233461 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
54233478 ATTTAGAAAACTTATA
1 ATTTAGAAAACTTATA
54233494 TAGATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTTAGAAAACTTATAA
Found at i:54234766 original size:219 final size:219
Alignment explanation
Indices: 54234369--54234769 Score: 562
Period size: 219 Copynumber: 1.8 Consensus size: 219
54234359 CCTCGAAATA
* * * * *
54234369 AAACAGTACCAAATGAGTTCAACACATAAACAGTAACAAAGCATGTGTTCTGTACCTTCAGAACG
1 AAACAGTACAAAACGAGTTCAACAAATAAACAGAAACAAAGCATGTGTTCTGTACCTTAAGAACG
* *
54234434 ATGACGAAAACTGAAACGAAAGCAATGAAATGGATTGACCAAAATCTGGAGAAGAAAAACACAAG
66 ATGACGAAAACAGAAACGAAAGCAATGAAATGGATTGACCAAAATCTGGAGAAAAAAAACACAAG
* *
54234499 TTAAAAGCAGTTCCTAACAAATTAAACCACAGACAAAAACAATAATGAACAATAGAAGCAGTACC
131 TTAAAAACAGTTCCTAACAAACTAAACCACAGACAAAAACAATAATGAACAATAGAAGCAGTACC
54234564 AAATTGACTGAAAATAACGATGTC
196 AAATTGACTGAAAATAACGATGTC
*
54234588 AAACAGTACAAAACGAGTTCAACAAATCAACAGAAACAAAGCATGTGTTCTGTACCTTAAGAACG
1 AAACAGTACAAAACGAGTTCAACAAATAAACAGAAACAAAGCATGTGTTCTGTACCTTAAGAACG
* *
54234653 ATGAATC-AAAA-AGAAATGAAAGCAATGGAATGGATTGACCGAAAA-CTGGAGAAAAAAAACA-
66 ATG-A-CGAAAACAGAAACGAAAGCAATGAAATGGATTGACC-AAAATCTGGAGAAAAAAAACAC
* ** *
54234714 ATAGTTAAAAACGGTTCCTAACACCCTAAACCATTCA-AC-AAAACAGTAATGAACAA
128 A-AGTTAAAAACAGTTCCTAACAAACTAAACCA--CAGACAAAAACAATAATGAACAA
54234770 ATTTCCTAAC
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
218 1 0.01
219 145 0.91
220 11 0.07
221 3 0.02
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (219 bp):
AAACAGTACAAAACGAGTTCAACAAATAAACAGAAACAAAGCATGTGTTCTGTACCTTAAGAACG
ATGACGAAAACAGAAACGAAAGCAATGAAATGGATTGACCAAAATCTGGAGAAAAAAAACACAAG
TTAAAAACAGTTCCTAACAAACTAAACCACAGACAAAAACAATAATGAACAATAGAAGCAGTACC
AAATTGACTGAAAATAACGATGTC
Found at i:54234777 original size:44 final size:46
Alignment explanation
Indices: 54234728--54234815 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 46
54234718 TTAAAAACGG
54234728 TTCCTAACACCCTAAACCATTC-AACAAAA-CAGTAATGAACAAAT
1 TTCCTAACACCCTAAACCATTCGAACAAAATCAGTAATGAACAAAT
* *
54234772 TTCCTAACACCCTAAACCATTCGACCAAAATCTGTAATGAACAA
1 TTCCTAACACCCTAAACCATTCGAACAAAATCAGTAATGAACAA
54234816 TAATAGAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 22 0.55
45 6 0.15
46 12 0.30
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (46 bp):
TTCCTAACACCCTAAACCATTCGAACAAAATCAGTAATGAACAAAT
Found at i:54234951 original size:23 final size:23
Alignment explanation
Indices: 54234925--54234970 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
54234915 AATAAGAAAG
54234925 CAAAATCAAAAT-TAAAAATACGA
1 CAAAA-CAAAATCTAAAAATACGA
* *
54234948 CAAAACCAAATCTATAAATACGA
1 CAAAACAAAATCTAAAAATACGA
54234971 AGAATCGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.17
Consensus pattern (23 bp):
CAAAACAAAATCTAAAAATACGA
Found at i:54238074 original size:39 final size:39
Alignment explanation
Indices: 54238026--54238110 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
54238016 GGTTAAGGTA
*
54238026 TTTTGCGGCG-CTTAAAAATAAACGCCACTAAAGATGTTC
1 TTTTACGGCGTCTTAAAAA-AAACGCCACTAAAGATGTTC
* ***
54238065 TTTTACGGCGTTTTTTTAAAAACGCCACTAAAGATGTTC
1 TTTTACGGCGTCTTAAAAAAAACGCCACTAAAGATGTTC
54238104 TTTTACG
1 TTTTACG
54238111 ACGTTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (39 bp):
TTTTACGGCGTCTTAAAAAAAACGCCACTAAAGATGTTC
Found at i:54238116 original size:39 final size:39
Alignment explanation
Indices: 54238045--54238119 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
54238035 GCTTAAAAAT
*
54238045 AAACGCCACTAAAGATGTTCTTTTACGGCGTTTTTTTAA
1 AAACGCCACTAAAGATGTTCTTTTACGACGTTTTTTTAA
54238084 AAACGCCACTAAAGATGTTCTTTTACGACGTTTTTT
1 AAACGCCACTAAAGATGTTCTTTTACGACGTTTTTT
54238120 AAGATATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (39 bp):
AAACGCCACTAAAGATGTTCTTTTACGACGTTTTTTTAA
Found at i:54238278 original size:212 final size:213
Alignment explanation
Indices: 54237909--54238306 Score: 640
Period size: 212 Copynumber: 1.9 Consensus size: 213
54237899 TTTTAGTACC
* * *
54237909 GATATTTGTGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCAGCGTTTTTCCGTAAAC
1 GATATTTGCGGCGCTTCTAGTAATACGCCGCTAATACTGTTCTTTAGCAGCGTTTTTCCGTAAAC
* * *
54237974 GCCACTAATTTTAATATACCTCAAAACCAAACGTTGCATTTTGGTTAAGGTATTTTGCGGCGCTT
66 GCCACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGGTATTTTGCAGCGCTT
* *
54238039 AAAAATAAACGCCACTAAAGATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAAAGATGTTC
131 AAAAATAAACGCCACTAAAGATGTTCTTTTACGACGTTTTTTTAAAAACACCACTAAAGATGTTC
54238104 TTTTACGACGTTTTTTAA
196 TTTTACGACGTTTTTTAA
* * *
54238122 GATATTTGCGGCGCTTCTAGTAATACGCCGCTAATACTGTTCTTTTGCGGCGTTTTAT-GGTAAA
1 GATATTTGCGGCGCTTCTAGTAATACGCCGCTAATACTGTTCTTTAGCAGCGTTTT-TCCGTAAA
*
54238186 CGCCACTAA-TCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCAGCGCT
65 CGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGGTATTTTGCAGCGCT
*
54238250 TACAAATAAACGCCACTAATAG-TGTTCTTTTACGACGTTTTTTTAAAAACACCACTA
130 TAAAAATAAACGCCACTAA-AGATGTTCTTTTACGACGTTTTTTTAAAAACACCACTA
54238307 GTTCTTCGTG
Statistics
Matches: 170, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
212 102 0.60
213 67 0.39
214 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (213 bp):
GATATTTGCGGCGCTTCTAGTAATACGCCGCTAATACTGTTCTTTAGCAGCGTTTTTCCGTAAAC
GCCACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGGTATTTTGCAGCGCTT
AAAAATAAACGCCACTAAAGATGTTCTTTTACGACGTTTTTTTAAAAACACCACTAAAGATGTTC
TTTTACGACGTTTTTTAA
Found at i:54240064 original size:37 final size:37
Alignment explanation
Indices: 54239999--54240153 Score: 188
Period size: 37 Copynumber: 4.0 Consensus size: 37
54239989 TACGTATGAT
* *
54239999 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
54240034 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
54240071 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
54240114 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
54240154 TAAAGCTATC
Statistics
Matches: 106, Mismatches: 3, Indels: 17
0.84 0.02 0.13
Matches are distributed among these distances:
35 10 0.09
36 3 0.03
37 50 0.47
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 4 0.04
44 2 0.02
46 29 0.27
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:54240124 original size:46 final size:46
Alignment explanation
Indices: 54240071--54240437 Score: 410
Period size: 46 Copynumber: 7.6 Consensus size: 46
54240061 TAAGTGTAGC
*
54240071 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
54240117 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
54240163 CACTTATCACTTTGTCTCTTGATTAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
54240209 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC-TTT--GTT-T--CTTGATCAGATAAGTGTAGCTGAAGCTAT
*
54240261 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCACTTT---GTT-T--CTTGATCAGATAAGTGTAGCTGAAGCTAT
** * *
54240313 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
54240359 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCACTTT---GTT-T--CTTGATCAGATAAGTGTAGCTGAAGCTAT
*
54240411 CACTTATCACTTTGTTACTTGATCAGA
1 CACTTATCACTTTGTTTCTTGATCAGA
54240438 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 146 0.52
47 3 0.01
49 5 0.02
50 1 0.00
51 3 0.01
52 124 0.44
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:54240207 original size:52 final size:51
Alignment explanation
Indices: 54240114--54240422 Score: 306
Period size: 52 Copynumber: 6.2 Consensus size: 51
54240104 TAGCTAAAGC
* *
54240114 TATCACTTATCACTTTGTCTCTTGATCAGATAAG-T----GTAGCTA-AAGC-
1 TATCACTTATCAC-TTGTCACTTGATCAGATAAGTTAGCCGAAGCTATAA-CT
* * *
54240160 TATCACTTATCACTTTGTCTCTTGATTAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTATCAC-TTGTCACTTGATCAGATAAGT-TAGCCGAAGCTATAACT
* * *
54240213 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACT
1 TATCACTTATCACTTGTCACTTGATCAGATAAGT-TAGCCGAAGCTATAACT
* *
54240265 TATCACTT-TCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTAT-CACTTGTCACTTGATCAGATAAGT-TAGCCGAAGCTATAACT
*
54240317 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTATCACTTGTCACTTGATCAGATAAGT-TAGCCGAAGCTATAACT
* *
54240363 TATCACTT-TCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTAT-CACTTGTCACTTGATCAGATAAGT-TAGCCGAAGCTATAACT
54240415 TATCACTT
1 TATCACTT
54240423 TGTTACTTGA
Statistics
Matches: 232, Mismatches: 16, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 75 0.32
48 2 0.01
50 1 0.00
51 1 0.00
52 140 0.60
53 13 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (51 bp):
TATCACTTATCACTTGTCACTTGATCAGATAAGTTAGCCGAAGCTATAACT
Found at i:54240269 original size:98 final size:94
Alignment explanation
Indices: 54240071--54240437 Score: 454
Period size: 98 Copynumber: 3.8 Consensus size: 94
54240061 TAAGTGTAGC
** * *
54240071 CACTTATCAC-T-TTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCT
1 CACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCA
**
54240134 CTTGATCAGATAAGTGTAGCTAAAGCTAT
66 CTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
54240163 CACTTATCAC-T-TTGTCTCTTGATTAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCAC
1 CACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---T---
*
54240226 TTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
60 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
54240261 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
1 CACTTATCAC-TT---CTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
*
54240326 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
62 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
54240359 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
1 CACTTATCAC-TT---CTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
*
54240424 GTTACTTGATCAGA
62 GTCACTTGATCAGA
54240438 AGTACTCAAA
Statistics
Matches: 246, Mismatches: 17, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
92 51 0.21
95 1 0.00
98 151 0.61
100 1 0.00
101 1 0.00
104 41 0.17
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (94 bp):
CACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCA
CTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:54240353 original size:150 final size:146
Alignment explanation
Indices: 54240088--54240437 Score: 546
Period size: 150 Copynumber: 2.4 Consensus size: 146
54240078 CACTTTGTTT
* *
54240088 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--TTTGTCTCTTGATCAGATAAGTGT
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTTGTCACTTGATCAGATAAGTGT
* *
54240151 AGCTAAAGCTATCACTTATCACTTTGTCTCTTGATTAGATAAGTATAGCCGAAGCTATCACTTAT
66 AGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
54240216 CACTTTTCACTTGTCA
131 CACTTTCCACTTGTCA
* *
54240232 CTTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT----TTGTCACTTGATCAGATAA
* *
54240297 GTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
62 GTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
54240362 TTATCACTTTCCACTTGTCA
127 TTATCACTTTCCACTTGTCA
*
54240382 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--TTTGTTACTTGATCAGA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTTGTCACTTGATCAGA
54240438 AGTACTCAAA
Statistics
Matches: 188, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
144 51 0.27
146 1 0.01
148 1 0.01
150 135 0.72
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (146 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTTGTCACTTGATCAGATAAGTGT
AGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
CACTTTCCACTTGTCA
Found at i:54246817 original size:6 final size:6
Alignment explanation
Indices: 54246806--54246851 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
54246796 AAGTGCTTGC
* * *
54246806 GATAGA GATAGA GATAGA GATAGG GATAGA GATAGG GATAGG GATA
1 GATAGA GATAGA GATAGA GATAGA GATAGA GATAGA GATAGA GATA
54246852 ATAGAGACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.17
Consensus pattern (6 bp):
GATAGA
Found at i:54246823 original size:12 final size:12
Alignment explanation
Indices: 54246806--54246851 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
54246796 AAGTGCTTGC
*
54246806 GATAGAGATAGA
1 GATAGAGATAGG
54246818 GATAGAGATAGG
1 GATAGAGATAGG
54246830 GATAGAGATAGG
1 GATAGAGATAGG
*
54246842 GATAGGGATA
1 GATAGAGATA
54246852 ATAGAGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.17
Consensus pattern (12 bp):
GATAGAGATAGG
Found at i:54246833 original size:18 final size:18
Alignment explanation
Indices: 54246806--54246851 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
54246796 AAGTGCTTGC
*
54246806 GATAGAGATAGAGATAGA
1 GATAGGGATAGAGATAGA
*
54246824 GATAGGGATAGAGATAGG
1 GATAGGGATAGAGATAGA
54246842 GATAGGGATA
1 GATAGGGATA
54246852 ATAGAGACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.17
Consensus pattern (18 bp):
GATAGGGATAGAGATAGA
Found at i:54255603 original size:40 final size:40
Alignment explanation
Indices: 54255548--54255631 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
54255538 TTATTGGCTG
54255548 GTAAGATATAATATATTTACATATATATCGTTACATGGGC
1 GTAAGATATAATATATTTACATATATATCGTTACATGGGC
54255588 GTAAGATATAATATATTTACATATATATCGTTACATGGGC
1 GTAAGATATAATATATTTACATATATATCGTTACATGGGC
54255628 GTAA
1 GTAA
54255632 ATTGTTGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (40 bp):
GTAAGATATAATATATTTACATATATATCGTTACATGGGC
Found at i:54261123 original size:15 final size:16
Alignment explanation
Indices: 54261090--54261134 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
54261080 ACTTTTAGGT
*
54261090 AATAAAATTGTAATGG
1 AATAAAATTGTAATAG
54261106 AATAAAATT-TAATAG
1 AATAAAATTGTAATAG
* *
54261121 AATAGAGTTGTAAT
1 AATAAAATTGTAAT
54261135 TAGTAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (16 bp):
AATAAAATTGTAATAG
Found at i:54261198 original size:16 final size:16
Alignment explanation
Indices: 54261179--54261224 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
54261169 ACTCTTAGGT
*
54261179 AATAAAATTGTAATGG
1 AATAAAATTGTAATAG
54261195 AATAAAATTGTAATAG
1 AATAAAATTGTAATAG
* *
54261211 AATAGAGTTGTAAT
1 AATAAAATTGTAAT
54261225 TAGTAATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (16 bp):
AATAAAATTGTAATAG
Found at i:54261236 original size:90 final size:89
Alignment explanation
Indices: 54261079--54261251 Score: 328
Period size: 90 Copynumber: 1.9 Consensus size: 89
54261069 ATTGCTGTTC
*
54261079 AACTTTTAGGTAATAAAATTGTAATGGAATAAAATTTAATAGAATAGAGTTGTAATTAGTAATTT
1 AACTCTTAGGTAATAAAATTGTAATGGAATAAAATTTAATAGAATAGAGTTGTAATTAGTAATTT
54261144 CATTATTTGATTGAATGGTTCTAA
66 CATTATTTGATTGAATGGTTCTAA
54261168 AACTCTTAGGTAATAAAATTGTAATGGAATAAAATTGTAATAGAATAGAGTTGTAATTAGTAATT
1 AACTCTTAGGTAATAAAATTGTAATGGAATAAAATT-TAATAGAATAGAGTTGTAATTAGTAATT
54261233 TCATTATTTGATTGAATGG
65 TCATTATTTGATTGAATGG
54261252 AATGAAATAG
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 35 0.43
90 47 0.57
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.39
Consensus pattern (89 bp):
AACTCTTAGGTAATAAAATTGTAATGGAATAAAATTTAATAGAATAGAGTTGTAATTAGTAATTT
CATTATTTGATTGAATGGTTCTAA
Found at i:54261409 original size:25 final size:26
Alignment explanation
Indices: 54261381--54261431 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
54261371 ATAATTATTG
*
54261381 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
54261406 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
54261432 ATAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:54261423 original size:26 final size:26
Alignment explanation
Indices: 54261394--54261490 Score: 86
Period size: 26 Copynumber: 3.5 Consensus size: 26
54261384 TTGTTATTAA
*
54261394 ATTTTAATAAAATTATTGTTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
* *
54261420 ATTTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAAT-AAAAT--T--ATTATTAAAT-AT
* *
54261452 ATTTTAATATAATTATTATTAAATAC
1 ATTTTAATAAAATTATTATTAAATAT
*
54261478 AATTTAATAAAAT
1 ATTTTAATAAAAT
54261491 AATATATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
26 20 0.36
27 13 0.23
29 2 0.04
31 11 0.20
32 10 0.18
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTTTAATAAAATTATTATTAAATAT
Found at i:54261466 original size:58 final size:57
Alignment explanation
Indices: 54261394--54261529 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 57
54261384 TTGTTATTAA
* * * * * *
54261394 ATTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAAATAATAAATAATTTAATAAG
*
54261452 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAG
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAG
*
54261509 ATTCTAATATAATTATTATTA
1 ATTTTAATATAATTATTATTA
54261530 TATGAATTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 40 0.57
58 30 0.43
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAG
Found at i:54261550 original size:57 final size:57
Alignment explanation
Indices: 54261398--54261557 Score: 180
Period size: 57 Copynumber: 2.8 Consensus size: 57
54261388 TATTAAATTT
* * * * * * * *
54261398 TAATAAAATTATTGTTAAATATATTTTAATAAAAATAATAAATAATTTAATCATATTT
1 TAATATAATTATTATTAAATACAATTTAA-AAAAATAATATATAATTTAATAAGATTC
*
54261456 TAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAGATTC
1 TAATATAATTATTATTAAATACAATTTAAAAAAATAATATATAATTTAATAAGATTC
* *
54261513 TAATATAATTATTATTATAT-GAA-TTAAAAAATCATAATATATAAT
1 TAATATAATTATTATTAAATACAATTTAAAAAA--ATAATATATAAT
54261558 ATTATAAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
55 7 0.08
56 2 0.02
57 54 0.61
58 25 0.28
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (57 bp):
TAATATAATTATTATTAAATACAATTTAAAAAAATAATATATAATTTAATAAGATTC
Found at i:54270927 original size:45 final size:45
Alignment explanation
Indices: 54270811--54270917 Score: 151
Period size: 46 Copynumber: 2.4 Consensus size: 45
54270801 TCTTGAAGGA
* * *
54270811 AAATGATTAAGACCATAGTTGAAAGGCACTATGGCACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACCAG
* *
54270856 AGAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACTAG
1 A-AATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACCAG
*
54270902 AAATGAGTAAGACCAT
1 AAATGAATAAGACCAT
54270918 GACTGAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 14 0.26
46 40 0.74
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACCAG
Found at i:54270935 original size:45 final size:42
Alignment explanation
Indices: 54270886--54271071 Score: 133
Period size: 45 Copynumber: 4.1 Consensus size: 42
54270876 TGAAAGACAC
54270886 TATGGCACCATACTAGAAATGAGTAAGACCATGACTGAAAGATGT
1 TATGGCACCATACT---AATGAGTAAGACCATGACTGAAAGATGT
* * *
54270931 TATGGCATCACGATTCTATTGAGTAAGATCATGACTGAAAGATGT
1 TATGGCA-C-C-ATACTAATGAGTAAGACCATGACTGAAAGATGT
* * * *
54270976 TATGGCTTCACA-ATTTTATCAAGTAAGACCATGACTGAAAGATGT
1 TATGGC-AC-CATA-CTAAT-GAGTAAGACCATGACTGAAAGATGT
* * * *
54271021 TATGGCATCACGATTCTATTGAGTAAGACCAT-AGCTGAAAGACGC
1 TATGGCA-C-C-ATACTAATGAGTAAGACCATGA-CTGAAAGATGT
54271066 TATGGC
1 TATGGC
54271072 TTCACGAATC
Statistics
Matches: 113, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
44 4 0.04
45 100 0.88
46 4 0.04
47 1 0.01
48 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (42 bp):
TATGGCACCATACTAATGAGTAAGACCATGACTGAAAGATGT
Found at i:54271001 original size:90 final size:90
Alignment explanation
Indices: 54270907--54271076 Score: 297
Period size: 90 Copynumber: 1.9 Consensus size: 90
54270897 ACTAGAAATG
*
54270907 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGATCAT-GACTGAAA
1 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATAG-CTGAAA
* *
54270971 GATGTTATGGCTTCACAATTTTATCA
65 GACGCTATGGCTTCACAATTTTATCA
54270997 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATAGCTGAAAG
54271062 ACGCTATGGCTTCAC
66 ACGCTATGGCTTCAC
54271077 GAATCAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
90 75 0.99
91 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATAGCTGAAAG
ACGCTATGGCTTCACAATTTTATCA
Found at i:54271077 original size:45 final size:45
Alignment explanation
Indices: 54270905--54271078 Score: 251
Period size: 45 Copynumber: 3.9 Consensus size: 45
54270895 ATACTAGAAA
54270905 TGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
1 TGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
* * * *
54270950 TGAGTAAGATCATGACTGAAAGATGTTATGGCTTCACAATTTTAT
1 TGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
**
54270995 CAAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
1 TGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
* * *
54271040 TGAGTAAGACCAT-AGCTGAAAGACGCTATGGCTTCACGA
1 TGAGTAAGACCATGA-CTGAAAGATGTTATGGCATCACGA
54271079 ATCAAACGAA
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 112 0.99
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
TGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
Found at i:54271093 original size:45 final size:45
Alignment explanation
Indices: 54270999--54271166 Score: 133
Period size: 45 Copynumber: 3.7 Consensus size: 45
54270989 TTTTATCAAG
* * * * ** *
54270999 TAAGACCAT-GACTGAAAGATGTTATGGCATCACGATTCTATTGAG
1 TAAGACCATAG-CTGAAAGACGCTATGGCATCACGAATCAAACGAA
*
54271044 TAAGACCATAGCTGAAAGACGCTATGGCTTCACGAATCAAACGAA
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATCAAACGAA
* * * * * *
54271089 TAAGACCATAGTTGAAAGACACTATGACAACACGACGA-AAAATGAA
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGA--ATCAAACGAA
* * * *
54271135 TAAGACCATGGTTTAAAGACACTATGGCATCA
1 TAAGACCATAGCTGAAAGACGCTATGGCATCA
54271167 AAACAAGAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
45 65 0.64
46 35 0.35
47 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATCAAACGAA
Found at i:54271107 original size:90 final size:90
Alignment explanation
Indices: 54270907--54271097 Score: 280
Period size: 90 Copynumber: 2.1 Consensus size: 90
54270897 ACTAGAAATG
*
54270907 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGATCATGACTGAAAG
1 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATGACTGAAAG
* * ** *
54270972 ATGTTATGGCTTCACAATTTTATCA
66 ACGCTATGGCTTCACAATTCAAACA
54270997 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCAT-AGCTGAAA
1 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATGA-CTGAAA
54271061 GACGCTATGGCTTCACGAA-TCAAACGA
65 GACGCTATGGCTTCAC-AATTCAAAC-A
54271088 A-TAAGACCAT
1 AGTAAGACCAT
54271098 AGTTGAAAGA
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
89 1 0.01
90 87 0.95
91 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (90 bp):
AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATGACTGAAAG
ACGCTATGGCTTCACAATTCAAACA
Found at i:54271123 original size:90 final size:90
Alignment explanation
Indices: 54270907--54271123 Score: 217
Period size: 90 Copynumber: 2.4 Consensus size: 90
54270897 ACTAGAAATG
*** * * *
54270907 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGATCATGACTGAAAG
1 AGTAAGACCATGACTGAAAGACACTATGACAACACGATTCTATTGAGTAAGACCATGACTGAAAG
* * ** *
54270972 ATGTTATGGCTTCACAATTTTATCA
66 ACGCTATGGCTTCACAATTCAAACA
*** * *
54270997 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCAT-AGCTGAAA
1 AGTAAGACCATGACTGAAAGACACTATGACAACACGATTCTATTGAGTAAGACCATGA-CTGAAA
54271061 GACGCTATGGCTTCACGAA-TCAAACGA
65 GACGCTATGGCTTCAC-AATTCAAAC-A
*
54271088 A-TAAGACCAT-AGTTGAAAGACACTATGACAACACGA
1 AGTAAGACCATGA-CTGAAAGACACTATGACAACACGA
54271124 CGAAAAATGA
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
89 2 0.02
90 105 0.95
91 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (90 bp):
AGTAAGACCATGACTGAAAGACACTATGACAACACGATTCTATTGAGTAAGACCATGACTGAAAG
ACGCTATGGCTTCACAATTCAAACA
Found at i:54271153 original size:46 final size:45
Alignment explanation
Indices: 54271086--54271201 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 45
54271076 CGAATCAAAC
* **
54271086 GAATAAGACCATAGTTGAAAGACACTATGACAACACGACGAAAAAT
1 GAATAAGACCATGGTTGAAAGACACTATGACAACAAAAC-AAAAAT
* * * *
54271132 GAATAAGACCATGGTTTAAAGACACTATGGCATCAAAACAAGAAT
1 GAATAAGACCATGGTTGAAAGACACTATGACAACAAAACAAAAAT
*
54271177 AAATAAGACCATGGTTGAAAGACAC
1 GAATAAGACCATGGTTGAAAGACAC
54271202 CATGGTACAC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 28 0.46
46 33 0.54
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.17
Consensus pattern (45 bp):
GAATAAGACCATGGTTGAAAGACACTATGACAACAAAACAAAAAT
Found at i:54271189 original size:45 final size:46
Alignment explanation
Indices: 54271087--54271206 Score: 152
Period size: 45 Copynumber: 2.6 Consensus size: 46
54271077 GAATCAAACG
* * ** *
54271087 AATAAGACCATAGTTGAAAGACACTATGACAACACGACGAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAATA
* * *
54271133 AATAAGACCATGGTTTAAAGACACTATGGCATCAAAAC-AAGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAATA
*
54271178 AATAAGACCATGGTTGAAAGACACCATGG
1 AATAAGACCATGGTTGAAAGACACTATGG
54271207 TACACTTCGA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
45 32 0.50
46 32 0.50
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.17
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAATA
Found at i:54275875 original size:18 final size:19
Alignment explanation
Indices: 54275852--54275893 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
54275842 ATAATAATTT
* *
54275852 ATATTATGTTATTTTTAA-
1 ATATTATGTAATTTGTAAC
54275870 ATATTATGTAATTTGTAAC
1 ATATTATGTAATTTGTAAC
54275889 ATATT
1 ATATT
54275894 GAAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
ATATTATGTAATTTGTAAC
Found at i:54278363 original size:42 final size:42
Alignment explanation
Indices: 54278231--54278384 Score: 177
Period size: 43 Copynumber: 3.6 Consensus size: 42
54278221 TTATGTGAAA
* * * * *
54278231 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCCCTTTTATCAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGC-TTTAGCAC
* *
54278274 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTAG-CAC
* * *
54278317 AAACGCCGCGAAAGAACA-AACCTTTAGCGGCGCTTCTCGCAA
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTT-TAGCAC
54278359 AAACGCCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGAACATAACCTTTA
54278385 AAAAATATAT
Statistics
Matches: 99, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 4 0.04
42 42 0.42
43 53 0.54
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTAGCAC
Found at i:54280271 original size:9 final size:9
Alignment explanation
Indices: 54280257--54280293 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
54280247 TATAGTTTGA
54280257 TATTCGAAT
1 TATTCGAAT
54280266 TATTCGAAT
1 TATTCGAAT
*
54280275 TATTCGAGT
1 TATTCGAAT
54280284 TATTCGAAT
1 TATTCGAAT
54280293 T
1 T
54280294 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:54280367 original size:18 final size:19
Alignment explanation
Indices: 54280336--54280374 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
54280326 GAAAAAAAAT
*
54280336 TCGAGTTAATTCGAATAAC
1 TCGAGTTAACTCGAATAAC
54280355 TCGA-TTAACTCGAATAAC
1 TCGAGTTAACTCGAATAAC
54280373 TC
1 TC
54280375 TATTCGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (19 bp):
TCGAGTTAACTCGAATAAC
Done.