Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 162 of 218
Found at i:49157559 original size:65 final size:65
Alignment explanation
Indices: 49157485--49157826 Score: 401
Period size: 65 Copynumber: 5.5 Consensus size: 65
49157475 TTATGTAAGT
* **
49157485 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
* * ** * * *
49157550 TGTAAGTTATGTAATTTATGAATAAT-TAAAAAAAAGTAAGTTATGTAA-GT-TG--TAA-GTT-
1 TGTAAGTTATGTAATTTATGTATAATAT-TAATTAATTAAGTTATGTAATTTATGTATAACATTA
49157608 A
65 A
**
49157609 TGTAAG---T-T-A-T---GTATAATATTAATTAATTAAGTTATGTAATTTATGTATTCCATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
* * *
49157665 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
* *
49157730 TGCAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
*
49157795 TGTAAGTTATGTAATTTATGTTTAATATTAAT
1 TGTAAGTTATGTAATTTATGTATAATATTAAT
49157827 GTAAGTTATG
Statistics
Matches: 232, Mismatches: 28, Indels: 34
0.79 0.10 0.12
Matches are distributed among these distances:
50 22 0.09
51 2 0.01
52 2 0.01
53 1 0.00
54 2 0.01
55 3 0.01
56 8 0.03
59 8 0.03
60 3 0.01
61 2 0.01
62 1 0.00
63 2 0.01
64 2 0.01
65 174 0.75
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (65 bp):
TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
Found at i:49157578 original size:115 final size:116
Alignment explanation
Indices: 49157431--49157889 Score: 592
Period size: 115 Copynumber: 3.9 Consensus size: 116
49157421 TATTATGAAA
49157431 ATTAA-GTAAGTTATGTAATTTATGAATAATTAA-AAAAATGTAAGTTATGTAAGTTGTAAGTTA
1 ATTAATGTAAGTTATGTAATTTATGAATAATTAATAAAAATGTAAGTTATGTAAGTTGTAAGTTA
*
49157494 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGC
66 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTAC
*
49157545 ATTAATGTAAGTTATGTAATTTATGAATAATTAA-AAAAAAGTAAGTTATGTAAGTTGTAAGTTA
1 ATTAATGTAAGTTATGTAATTTATGAATAATTAATAAAAATGTAAGTTATGTAAGTTGTAAGTTA
*
49157609 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTCC
66 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTAC
* * * *
49157660 ATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAAT
1 ATTAATGTAAGTTATGTAATTTATGAAT-A-ATTAA-TAA--AA---ATGTAAGTTATGTA-AGT
* * * *
49157725 AT-TAATGCAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA
57 -TGTAA-G---TTA-TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTA
*
49157789 T
116 C
**
49157790 ATTAATGTAAGTTATGTAATTTATG--T--TTAATATTAATGTAAGTTATGTAAGTTGTAAGTTA
1 ATTAATGTAAGTTATGTAATTTATGAATAATTAATAAAAATGTAAGTTATGTAAGTTGTAAGTTA
*
49157851 TGTAAGTTATATATAATATTAATTAATTAAGTTATGTAA
66 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
49157890 GTTAACTATT
Statistics
Matches: 305, Mismatches: 22, Indels: 38
0.84 0.06 0.10
Matches are distributed among these distances:
112 37 0.12
113 1 0.00
114 5 0.02
115 133 0.44
116 3 0.01
117 10 0.03
118 13 0.04
119 2 0.01
121 3 0.01
123 2 0.01
124 16 0.05
125 5 0.02
126 2 0.01
128 1 0.00
129 1 0.00
130 71 0.23
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (116 bp):
ATTAATGTAAGTTATGTAATTTATGAATAATTAATAAAAATGTAAGTTATGTAAGTTGTAAGTTA
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTAC
Found at i:49157606 original size:16 final size:16
Alignment explanation
Indices: 49157585--49157616 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49157575 TTAAAAAAAA
49157585 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
49157601 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
49157617 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:49157847 original size:16 final size:16
Alignment explanation
Indices: 49157826--49157858 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49157816 TTAATATTAA
49157826 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49157842 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49157858 T
1 T
49157859 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:49157851 original size:47 final size:49
Alignment explanation
Indices: 49157795--49157892 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 49
49157785 ATAATATTAA
* * *
49157795 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
*
49157842 TGTAAGTTATGTAAGTTATATATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATT-AGTAAGTTATGTAAGT
49157892 T
1 T
49157893 AACTATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 28 0.64
48 1 0.02
50 15 0.34
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
Found at i:49157978 original size:16 final size:16
Alignment explanation
Indices: 49157957--49157989 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49157947 AACTCAATTA
*
49157957 TATCTTCGAACTTATT
1 TATCTTCAAACTTATT
49157973 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
49157989 T
1 T
49157990 CTACAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:49158924 original size:33 final size:33
Alignment explanation
Indices: 49158887--49158949 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
49158877 GAAAAATAAT
**
49158887 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAAAAAAAATATAACCAAAAA
49158920 AATTAAACTATACAAAAAAAATATAACCAA
1 AATTAAACTATACAAAAAAAATATAACCAA
49158950 CTTAAAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AATTAAACTATACAAAAAAAATATAACCAAAAA
Found at i:49158931 original size:20 final size:19
Alignment explanation
Indices: 49158903--49158941 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49158893 ACTATACAAC
*
49158903 TAAAATATAACCAAAAAAAT
1 TAAAATAT-ACAAAAAAAAT
*
49158923 TAAACTATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
49158942 ATAACCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:49159348 original size:38 final size:38
Alignment explanation
Indices: 49159304--49159393 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
49159294 AATTTGTAAT
49159304 GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
49159342 GATAAATGACT-GGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGA-TAGGAAGTTGAAATTATTCAAACAAACCG
*
49159380 GATAAATGACAGGA
1 GATAAATGATAGGA
49159394 TTATCTAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
38 48 0.98
39 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (38 bp):
GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
Found at i:49161295 original size:6 final size:6
Alignment explanation
Indices: 49161284--49161311 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49161274 AACCCTTACA
49161284 CCTACC CCTACC CCTACC CCTACC CCTA
1 CCTACC CCTACC CCTACC CCTACC CCTA
49161312 AACCCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.64, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTACC
Found at i:49161410 original size:89 final size:89
Alignment explanation
Indices: 49161308--49161541 Score: 414
Period size: 89 Copynumber: 2.6 Consensus size: 89
49161298 TACCCCTACC
*
49161308 CCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCC
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCC
* *
49161373 TAACTTGACCCCGAATCACTAACA
66 TAACTCGACCCCAAATCACTAACA
*
49161397 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCTTAAACCC
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCC
*
49161462 TAACTCGACCCCAAATCACTAACC
66 TAACTCGACCCCAAATCACTAACA
*
49161486 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACTCTAATTAATCTAAAT
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAAT
49161542 TAATCTTAAA
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 139 1.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (89 bp):
CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCC
TAACTCGACCCCAAATCACTAACA
Found at i:49161919 original size:113 final size:114
Alignment explanation
Indices: 49161752--49161963 Score: 268
Period size: 113 Copynumber: 1.9 Consensus size: 114
49161742 AGCGCCGCAA
* * * *
49161752 AATACCTTAACCAAAACGCAGCGTTTGATTTTGAGGTATATTAGTATTAGTGGCGTTTACAAAAA
1 AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTATTAGTGGCGCTTACAAAAA
*
49161817 AACGCCGCTAAAGAAT-GG-TATCAGCGGCGTTTTACAAAAAGCGCCACC
66 AACGCCGCAAAAGAATGGGATAT-AGCGGCGTTTTACAAAAAGCGCCACC
* * * * **
49161865 AATATCTTAACCAAAACGCACCGTTTGGTATTGAGTTGGATTAG-AGTTAGTGGCGCTTATTAAA
1 AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTA-TTAGTGGCGCTTACAAAA
* *
49161929 AAACGCCGCAAAATATTGGGATATAGCGGCGTTTT
65 AAACGCCGCAAAAGAATGGGATATAGCGGCGTTTT
49161964 GAGAGAAACG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 1 0.01
113 66 0.80
114 13 0.16
115 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (114 bp):
AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTATTAGTGGCGCTTACAAAAA
AACGCCGCAAAAGAATGGGATATAGCGGCGTTTTACAAAAAGCGCCACC
Found at i:49165397 original size:20 final size:20
Alignment explanation
Indices: 49165338--49165397 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
49165328 GTCTTTCTGC
* *
49165338 GATTTCCCCTCATCCTTTCC
1 GATTTCCCATCATCCTTTCT
49165358 GATTTCCCATCATCCTTTCT
1 GATTTCCCATCATCCTTTCT
*
49165378 GATTTCCCTTCATCCTTTCT
1 GATTTCCCATCATCCTTTCT
49165398 TCATCTCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.12, C:0.38, G:0.05, T:0.45
Consensus pattern (20 bp):
GATTTCCCATCATCCTTTCT
Found at i:49166137 original size:31 final size:33
Alignment explanation
Indices: 49166099--49166165 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
49166089 TGGATTTTAG
49166099 TTGGTTTTTGCAACTAAGATGGTA-C-CTTCTA
1 TTGGTTTTTGCAACTAAGATGGTACCGCTTCTA
**
49166130 TTGGTTTTTGCTGCTAAGATGGTACCGCTTCTA
1 TTGGTTTTTGCAACTAAGATGGTACCGCTTCTA
49166163 TTG
1 TTG
49166166 ATTTCTGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 22 0.69
32 1 0.03
33 9 0.28
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGGTTTTTGCAACTAAGATGGTACCGCTTCTA
Found at i:49166175 original size:33 final size:31
Alignment explanation
Indices: 49166112--49166183 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 31
49166102 GTTTTTGCAA
* *
49166112 CTAAGATGGTACCTTCTATTGGTTTTTGCTG
1 CTAAGATGGTACCTTCTATTGATTTCTGCTG
49166143 CTAAGATGGTACCGCTTCTATTGATTTCTGCTG
1 CTAAGATGGTA-C-CTTCTATTGATTTCTGCTG
49166176 CTAA-ATGG
1 CTAAGATGG
49166184 GAAATAGCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 11 0.30
32 5 0.14
33 21 0.57
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
CTAAGATGGTACCTTCTATTGATTTCTGCTG
Found at i:49167292 original size:12 final size:11
Alignment explanation
Indices: 49167232--49167305 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
49167222 AATAATATTG
49167232 TATTAAATTAT
1 TATTAAATTAT
49167243 TATTAAA-TAT
1 TATTAAATTAT
49167253 TATTAATAATTA-
1 TATT-A-AATTAT
*
49167265 TATTAGTAAAT-T
1 TATTA--AATTAT
49167277 TATTAAATTAT
1 TATTAAATTAT
49167288 ATATT--ATT-T
1 -TATTAAATTAT
49167297 TATTAAATT
1 TATTAAATT
49167306 GTAATTAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
8 4 0.08
9 1 0.02
10 16 0.31
11 10 0.19
12 19 0.37
13 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:49167322 original size:29 final size:26
Alignment explanation
Indices: 49167240--49167323 Score: 64
Period size: 29 Copynumber: 3.0 Consensus size: 26
49167230 TGTATTAAAT
*
49167240 TATTATTAAATATTATT--AATAATTA
1 TATTAGTAAAT-TTATTAAAATAATTA
49167265 TATTAGTAAATTTATTAAATTATATATTA
1 TATTAGTAAATTTATTAAA--ATA-ATTA
* *
49167294 TTTTATTAAATTGTAATTAACAATAATTA
1 TATTAGTAAATT-T-ATTAA-AATAATTA
49167323 T
1 T
49167324 GTTAAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 5 0.10
25 10 0.21
26 1 0.02
28 3 0.06
29 19 0.40
30 4 0.08
31 5 0.10
32 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (26 bp):
TATTAGTAAATTTATTAAAATAATTA
Found at i:49167462 original size:9 final size:9
Alignment explanation
Indices: 49167428--49167873 Score: 224
Period size: 9 Copynumber: 50.9 Consensus size: 9
49167418 CACTTGTACA
*
49167428 TTACAAAAC
1 TTACATAAC
49167437 TTACATAAC
1 TTACATAAC
* *
49167446 CTAAATAAC
1 TTACATAAC
49167455 TTACATAAC
1 TTACATAAC
49167464 TTACATAA-
1 TTACATAAC
49167472 TATA-A-AAC
1 T-TACATAAC
*
49167480 TCACATAAC
1 TTACATAAC
* **
49167489 TTAAATCTC
1 TTACATAAC
*
49167498 TTACACAAC
1 TTACATAAC
49167507 TTACATAAC
1 TTACATAAC
*
49167516 CTACATAA-
1 TTACATAAC
49167524 -TACATTTAAC
1 TTACA--TAAC
49167534 TTACATAAC
1 TTACATAAC
49167543 TTACATAATAC
1 TTACAT-A-AC
*
49167554 ATA-ATAAC
1 TTACATAAC
49167562 TTAC--AAC
1 TTACATAAC
49167569 TTACATAA-
1 TTACATAAC
49167577 -TACATTTAAC
1 TTACA--TAAC
49167587 TTAC--AAC
1 TTACATAAC
49167594 TTACATAA-
1 TTACATAAC
49167602 -TACATTATAAC
1 TTAC---ATAAC
49167613 TTAC--AAC
1 TTACATAAC
49167620 TTACATAA-
1 TTACATAAC
49167628 -TACATTTAAC
1 TTACA--TAAC
**
49167638 TTAGGTAAC
1 TTACATAAC
*
49167647 TTAAATAAC
1 TTACATAAC
*
49167656 TTCCATAATAC
1 TTACAT-A-AC
*
49167667 ATA-ATAAC
1 TTACATAAC
49167675 TTAC--AAC
1 TTACATAAC
49167682 TTACATAA-
1 TTACATAAC
49167690 -TACATTTAAC
1 TTACA--TAAC
49167700 TTAC--AAC
1 TTACATAAC
49167707 TTACATAATAC
1 TTACAT-A-AC
*
49167718 ATA-ATAAC
1 TTACATAAC
49167726 TTACATAA-
1 TTACATAAC
49167734 -TACATTCAAC
1 TTACA-T-AAC
49167744 TTACATAAC
1 TTACATAAC
*
49167753 TTACAAAAC
1 TTACATAAC
49167762 TTACATAACAC
1 TTACAT-A-AC
*
49167773 ATA-ATAAC
1 TTACATAAC
49167781 TTAC--AAC
1 TTACATAAC
49167788 TTACATAAC
1 TTACATAAC
* *
49167797 ATACATTAC
1 TTACATAAC
**
49167806 TTTGATAAC
1 TTACATAAC
49167815 TTACATAAC
1 TTACATAAC
*
49167824 TTACTTAA-
1 TTACATAAC
49167832 -TACATAAC
1 TTACATAAC
49167840 TTACATAAC
1 TTACATAAC
49167849 TT--ATACAC
1 TTACATA-AC
*
49167857 GTACATAAC
1 TTACATAAC
49167866 TTACATAA
1 TTACATAA
49167874 TTGACTTAAT
Statistics
Matches: 334, Mismatches: 45, Indels: 116
0.67 0.09 0.23
Matches are distributed among these distances:
7 77 0.23
8 24 0.07
9 179 0.54
10 20 0.06
11 31 0.09
12 3 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:49167486 original size:43 final size:43
Alignment explanation
Indices: 49167432--49167514 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
49167422 TGTACATTAC
* *
49167432 AAAACTTACATAACCTAAATAACTTACATAACTTACATAATAT
1 AAAACTCACATAACCTAAATAACTTACACAACTTACATAATAT
* **
49167475 AAAACTCACATAACTTAAATCTCTTACACAACTTACATAA
1 AAAACTCACATAACCTAAATAACTTACACAACTTACATAA
49167515 CCTACATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (43 bp):
AAAACTCACATAACCTAAATAACTTACACAACTTACATAATAT
Found at i:49167575 original size:62 final size:56
Alignment explanation
Indices: 49167540--49167838 Score: 231
Period size: 51 Copynumber: 5.3 Consensus size: 56
49167530 TAACTTACAT
49167540 AACTTACATAATACATAATAACTTACA-AC-T-TACATAATACATTTAACTTAC--
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
*
49167591 AACTTACATAATACATTATAACTTACA-AC-T-TACATAATACATTTAACTTAGGTAACTTAAAT
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAAC-T---T-AC----AT
*
49167653 AACTTCCATAATACATAATAACTTACA-AC-T-TACATAATACATTTAACTTAC--
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
*
49167704 AACTTACATAATACATAATAACTTACAT--A-ATACATTCAACTTACA--TAACTTACAA
1 AACTTACATAATACATAATAACTTACATACATATACA-T-AA--TACATTTAACTTACAT
* *
49167759 AACTTACATAACACATAATAACTTACAACTTACATA-ACATACATTACTTTGATAACTTACAT
1 AACTTACATAATACATAATAACTTAC-A--TACATATACATA-A-TACATT--TAACTTACAT
*
49167821 AACTTACTTAATACATAA
1 AACTTACATAATACATAA
49167839 CTTACATAAC
Statistics
Matches: 208, Mismatches: 9, Indels: 51
0.78 0.03 0.19
Matches are distributed among these distances:
51 76 0.37
52 2 0.01
53 10 0.05
55 30 0.14
56 3 0.01
57 2 0.01
58 7 0.03
59 2 0.01
60 4 0.02
61 2 0.01
62 70 0.34
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (56 bp):
AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
Found at i:49167599 original size:44 final size:44
Alignment explanation
Indices: 49167551--49167795 Score: 132
Period size: 44 Copynumber: 5.6 Consensus size: 44
49167541 ACTTACATAA
49167551 TACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
*
49167595 TACATAATACATTATAACTTACAACTTACATAATACATTTAACTTAGGTAACT
1 TAC---AT--A--ATAACTTACAACTTACATAATACATTTAACTTA--CAACT
* * * *
49167648 T--A-AATAACTTCCATA-ATACATAATA-ACTTACAACTTACATA-A
1 TACATAATAACTTACA-ACTTACATAATACA-TT-TAACTTACA-ACT
*
49167690 TACAT-TTAACTTACAACTTACATAATACA--TAA--T--AACT
1 TACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
*
49167727 TACATAAT-ACATT-CAACTTACATAACTTACA--AAACTTACATAAC-
1 TACATAATAAC-TTACAACTTACATAA--TACATTTAACTTAC--AACT
49167771 -ACATAATAACTTACAACTTACATAA
1 TACATAATAACTTACAACTTACATAA
49167796 CATACATTAC
Statistics
Matches: 157, Mismatches: 13, Indels: 62
0.68 0.06 0.27
Matches are distributed among these distances:
36 1 0.01
37 20 0.13
38 3 0.02
39 7 0.04
41 3 0.02
42 3 0.02
43 31 0.20
44 42 0.27
45 5 0.03
47 2 0.01
48 1 0.01
49 1 0.01
51 33 0.21
53 5 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (44 bp):
TACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
Found at i:49167647 original size:113 final size:106
Alignment explanation
Indices: 49167530--49167795 Score: 406
Period size: 113 Copynumber: 2.4 Consensus size: 106
49167520 ATAATACATT
49167530 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
* **
49167595 TACATAATACATTATAACTTACAACTTACATAATACATTTAACTTAGG
66 TACATAATAC---ATAA--T--AACTTACATAATACATTCAACTTACA
* *
49167643 TAACTTAAATAACTTCCATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
49167708 TACATAATACATAATAACTTACATAATACATTCAACTTACA
66 TACATAATACATAATAACTTACATAATACATTCAACTTACA
* *
49167749 TAACTTACAAAACTTACATAACACATAATAACTTACAACTTACATAA
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAA
49167796 CATACATTAC
Statistics
Matches: 144, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
106 66 0.46
108 1 0.01
110 4 0.03
113 73 0.51
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (106 bp):
TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
TACATAATACATAATAACTTACATAATACATTCAACTTACA
Found at i:49167819 original size:34 final size:34
Alignment explanation
Indices: 49167741--49167873 Score: 92
Period size: 34 Copynumber: 3.8 Consensus size: 34
49167731 TAATACATTC
* * *
49167741 AACTTACATAACTTACAAAACTTACATAACACATA-AT
1 AACTTAC--AACTTACATAACATACAT-A-ACTTACAT
* **
49167778 AACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTACAACTTACATAACATACATAACTTACAT
*
49167812 AACTTACATAACTTAC-TTA-ATACATAACTTACAT
1 AACTTAC--AACTTACATAACATACATAACTTACAT
* * *
49167846 AACTTATACACGTACATAACTTACATAA
1 AACTTACA-ACTTACATAACATACATAA
49167874 TTGACTTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
32 1 0.01
33 8 0.10
34 29 0.38
35 25 0.32
36 7 0.09
37 7 0.09
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (34 bp):
AACTTACAACTTACATAACATACATAACTTACAT
Found at i:49173819 original size:42 final size:42
Alignment explanation
Indices: 49173754--49174058 Score: 423
Period size: 42 Copynumber: 7.2 Consensus size: 42
49173744 CAAAAATAGT
* *
49173754 GGCGTTTTTGTATAAAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTT-T-TCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
49173798 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGA
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* * *
49173840 GGCATTTTTTTCAAAGCACCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
49173882 GACGTTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGA
1 GGCG-TTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
49173925 GGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* * *
49173966 GGCATTTTTTTCAAAGCGCCGCAAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
49174008 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
*
49174050 AGCGTTTTT
1 GGCGTTTTT
49174059 GTTTGTAAAC
Statistics
Matches: 232, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 37 0.16
42 147 0.63
43 39 0.17
44 9 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
Found at i:49174812 original size:41 final size:41
Alignment explanation
Indices: 49174767--49175514 Score: 767
Period size: 41 Copynumber: 18.5 Consensus size: 41
49174757 GCGCTTCCTC
*
49174767 AAAAACGCCGCTAAAGGTA-C-GAGTATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTA
*
49174808 AAAAACGCCGCTAAAGAGCTGAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * ****
49174849 AAAAACACCGCTAAAGACCTGAGAATTAGCAATACTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
*
49174890 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * *
49174931 AAAAACTCCGCTAAAGACCTGAACATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * * *
49174972 AAAAACACCGCTAAAGACTTAAGAATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * *
49175013 AAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * * * *
49175054 AAAAACGCTGCTAAATACTTGAGCATTAGCGGCACTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
*
49175095 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCACTT-TTCA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-A
* * * *** *
49175136 GAAAATGCCGCTAAAGACC---CCA--A---AAACTCA--A
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * * ** * * * *
49175167 AAAACAGTGACG-T--TGGGCTTAGGCTTTTTGCGGCGCTT-TCCA
1 AAAA-A-CGCCGCTAAAGACCTGA-GC-ATTAGCGGCGCTTAT-TA
* *
49175209 AAAAACGCCGCTAAAAACCTGAGAATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
49175250 AAAAACGCCGCTAAAGACCTGAGCATTTGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
49175291 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * * * *
49175332 AAAAACACCGTTAAATACCTGAGAATTAGCGGCACTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
49175373 AAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * *
49175414 AAAAATGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
*
49175455 AAAAACGCCGCTAAAGACCTGAGCATTAGCGACGCTT-TTCA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-A
* *
49175496 GAAAATGCCGCTAAAGACC
1 AAAAACGCCGCTAAAGACC
49175515 CCAAAAACTC
Statistics
Matches: 587, Mismatches: 96, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
30 2 0.00
31 4 0.01
32 2 0.00
33 7 0.01
34 1 0.00
36 1 0.00
38 2 0.00
39 1 0.00
40 11 0.02
41 546 0.93
42 7 0.01
43 3 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
Found at i:49175497 original size:360 final size:360
Alignment explanation
Indices: 49174848--49175582 Score: 1236
Period size: 360 Copynumber: 2.0 Consensus size: 360
49174838 GGCGCTTATT
* * *
49174848 AAAAAACACCGCTAAAGACCTGAGAATTAGCAATACTTATTAAAAAACGCCGCTAAAGACCTGAG
1 AAAAAACGCCGCTAAAAACCTGAGAATTAGCAACACTTATTAAAAAACGCCGCTAAAGACCTGAG
*
49174913 CATTAGCGGCGCTTATTCAAAAACTCCGCTAAAGACCTGAACATTAGCAGCGCTTATTAAAAAAC
66 CATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAACATTAGCAGCGCTTATTAAAAAAC
* * *
49174978 ACCGCTAAAGACTTAAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGT
131 ACCGCTAAAGACCTAAGAATTAGCGGCACTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGC
* *
49175043 GGCGCTTATTCAAAAACGCTGCTAAATACTTGAGCATTAGCGGCACTTATTCAAAAACGCCGCTA
196 GGCGCTTATTCAAAAACGCCGCTAAATACCTGAGCATTAGCGGCACTTATTCAAAAACGCCGCTA
*
49175108 AAGACCTGAGCATTAGCGGCACTTTTCAGAAAATGCCGCTAAAGACCCCAAAAACTCAAAAAACA
261 AAGACCTGAGCATTAGCGACACTTTTCAGAAAATGCCGCTAAAGACCCCAAAAACTCAAAAAACA
49175173 GTGACGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
326 GTGACGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
** *
49175208 AAAAAACGCCGCTAAAAACCTGAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAG
1 AAAAAACGCCGCTAAAAACCTGAGAATTAGCAACACTTATTAAAAAACGCCGCTAAAGACCTGAG
* * *
49175273 CATTTGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAAC
66 CATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAACATTAGCAGCGCTTATTAAAAAAC
* * *
49175338 ACCGTTAAATACCTGAGAATTAGCGGCACTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGC
131 ACCGCTAAAGACCTAAGAATTAGCGGCACTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGC
* *
49175403 GGCGCTTATTCAAAAATGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTA
196 GGCGCTTATTCAAAAACGCCGCTAAATACCTGAGCATTAGCGGCACTTATTCAAAAACGCCGCTA
* * *
49175468 AAGACCTGAGCATTAGCGACGCTTTTCAGAAAATGCCGCTAAAGACCCCAAAAACTCAGAAAACG
261 AAGACCTGAGCATTAGCGACACTTTTCAGAAAATGCCGCTAAAGACCCCAAAAACTCAAAAAACA
*
49175533 GTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
326 GTGACGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
*
49175568 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
49175583 TGCTTATTTT
Statistics
Matches: 349, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
360 349 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (360 bp):
AAAAAACGCCGCTAAAAACCTGAGAATTAGCAACACTTATTAAAAAACGCCGCTAAAGACCTGAG
CATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAACATTAGCAGCGCTTATTAAAAAAC
ACCGCTAAAGACCTAAGAATTAGCGGCACTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGC
GGCGCTTATTCAAAAACGCCGCTAAATACCTGAGCATTAGCGGCACTTATTCAAAAACGCCGCTA
AAGACCTGAGCATTAGCGACACTTTTCAGAAAATGCCGCTAAAGACCCCAAAAACTCAAAAAACA
GTGACGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
Found at i:49175675 original size:40 final size:39
Alignment explanation
Indices: 49175551--49175685 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
49175541 GGGCTTAGGC
*
49175551 TTTTT-GCGGCG-CTTTCCAAAAAACGCCACTAATGCTTA
1 TTTTTAGCGGCGTTTTTCC-AAAAACGCCACTAATGCTTA
* * * * *
49175589 TTTTTAGCGGCGTTTTT-TAAAAATTGCCGCTAATGATCAA
1 TTTTTAGCGGCGTTTTTCCAAAAA-CGCCACTAATGCT-TA
** *
49175629 CCTTTAGCGGCGTTTTTCCAAAAACGCCACTACTGCTTGA
1 TTTTTAGCGGCGTTTTTCCAAAAACGCCACTAATGCTT-A
*
49175669 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
49175686 TGTCCAAACG
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 10 0.14
39 16 0.22
40 43 0.58
41 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTCCAAAAACGCCACTAATGCTTA
Found at i:49176983 original size:42 final size:42
Alignment explanation
Indices: 49176876--49176983 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
49176866 AGGTCATAAT
** *
49176876 TTTTAGCGACGCTTTTCCCACAAATGCCGCTATAAATCATCAC
1 TTTTAGCGACGCTTTTCCCACAAACACCACTATAAATCAT-AC
* *
49176919 TTTTAGTGACGCTTTTCCCACAAACACCACTATAGAAT-AGA-
1 TTTTAGCGACGCTTTTCCCACAAACACCACTATA-AATCATAC
*
49176960 TCTTTAGCGACGCTTTTCACACAA
1 T-TTTAGCGACGCTTTTCCCACAA
49176984 GCCGCTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 21 0.38
43 31 0.55
44 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (42 bp):
TTTTAGCGACGCTTTTCCCACAAACACCACTATAAATCATAC
Found at i:49177326 original size:43 final size:43
Alignment explanation
Indices: 49177260--49177350 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
49177250 ACATATGCAA
* * *
49177260 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
*
49177303 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
49177346 -GTAAT
1 GGTAAT
49177351 GAACTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:49179977 original size:24 final size:23
Alignment explanation
Indices: 49179924--49179970 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
49179914 ATTAAGTTTT
*
49179924 AACATGTTAGTCATATTCTATAC
1 AACATGTTAGTCATATTATATAC
49179947 AAGCATGTTAGTCTTATATTATAT
1 AA-CATGTTAGTC--ATATTATAT
49179971 GCACATGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.50
26 8 0.40
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (23 bp):
AACATGTTAGTCATATTATATAC
Found at i:49181471 original size:28 final size:28
Alignment explanation
Indices: 49181439--49181496 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
49181429 CCGACCCCAG
* *
49181439 AATCCTTAAACCCTAAATCC-TAACTCTT
1 AATCCCTAAACCCTAAA-CCTTAAATCTT
*
49181467 AATCCCTAACCCCTAAACCTTAAATCTT
1 AATCCCTAAACCCTAAACCTTAAATCTT
49181495 AA
1 AA
49181497 CCCCCAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (28 bp):
AATCCCTAAACCCTAAACCTTAAATCTT
Found at i:49181481 original size:21 final size:21
Alignment explanation
Indices: 49181443--49181490 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
49181433 CCCCAGAATC
*
49181443 CTTAAACCCTAAATCCTAACT
1 CTTAAACCCTAAACCCTAACT
* *
49181464 CTTAATCCCTAACCCCTAAAC-
1 CTTAAACCCTAAACCCT-AACT
49181485 CTTAAA
1 CTTAAA
49181491 TCTTAACCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (21 bp):
CTTAAACCCTAAACCCTAACT
Found at i:49183292 original size:41 final size:41
Alignment explanation
Indices: 49183243--49183346 Score: 140
Period size: 41 Copynumber: 2.5 Consensus size: 41
49183233 TGCAGTGCTT
*
49183243 TCAAAAACGCCGCTAAAACCCCA-AGCATTAGCGGTGCTTAA
1 TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGC-TAA
*
49183284 TCAAAAACGCCGCTAAAA-CCCACAGCATTAGCGGCGCTAC
1 TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGCTAA
* *
49183324 TCCAAAAACGCCACTAAAGCCCC
1 T-CAAAAACGCCGCTAAAACCCC
49183347 TGATAGGTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 7 0.12
41 46 0.82
42 3 0.05
ACGTcount: A:0.37, C:0.35, G:0.15, T:0.13
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGCTAA
Found at i:49183441 original size:37 final size:37
Alignment explanation
Indices: 49183380--49183453 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
49183370 TTGGGTTCGG
*
49183380 TTTTTTGCGGCGTTTTCCCAAAAAATGCCACTAATGC
1 TTTTTTGCGGCGTTTTCCCAAAAAACGCCACTAATGC
** *
49183417 TTTTTTAGCGGCGTTTT-CTTAAAAACGCCGCTAATGC
1 TTTTTT-GCGGCGTTTTCCCAAAAAACGCCACTAATGC
49183454 ACAATCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 22 0.69
38 10 0.31
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (37 bp):
TTTTTTGCGGCGTTTTCCCAAAAAACGCCACTAATGC
Found at i:49183475 original size:40 final size:40
Alignment explanation
Indices: 49183420--49183503 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
49183410 CTAATGCTTT
** *
49183420 TTTAGCGGCGTTTTCT-TAAAAACGCCGCTAATGCACAATC
1 TTTAGCGGCAATTTCTGT-AAAACGCCACTAATGCACAATC
* * *
49183460 TTTAGCGGCAATTTCTGTAAAGCGCCACTAATGCTCAATT
1 TTTAGCGGCAATTTCTGTAAAACGCCACTAATGCACAATC
49183500 TTTA
1 TTTA
49183504 CTGGCGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCAATTTCTGTAAAACGCCACTAATGCACAATC
Found at i:49189821 original size:16 final size:16
Alignment explanation
Indices: 49189784--49189814 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49189774 AGACATAAAG
*
49189784 GAAAAAACCCAACAAC
1 GAAACAACCCAACAAC
49189800 GAAACAACCCAACAA
1 GAAACAACCCAACAA
49189815 GCTAACAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.32, G:0.06, T:0.00
Consensus pattern (16 bp):
GAAACAACCCAACAAC
Found at i:49190719 original size:21 final size:21
Alignment explanation
Indices: 49190690--49190732 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49190680 CATCCATTTC
*
49190690 AAATTTATTGATT-TTTCAAAT
1 AAATATATT-ATTCTTTCAAAT
*
49190711 AAATATATTATTCTTTTAAAT
1 AAATATATTATTCTTTCAAAT
49190732 A
1 A
49190733 TTCAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATATTATTCTTTCAAAT
Found at i:49194255 original size:12 final size:12
Alignment explanation
Indices: 49194238--49194262 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49194228 TCAATAGAAT
49194238 AAAAAAAAATAA
1 AAAAAAAAATAA
49194250 AAAAAAAAATAA
1 AAAAAAAAATAA
49194262 A
1 A
49194263 TGCAACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:49201354 original size:24 final size:24
Alignment explanation
Indices: 49201309--49201354 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
49201299 TATAGCAACA
**
49201309 ATAATAAATAATATTTTTTACTGG
1 ATAATAAATAATATTTACTACTGG
*
49201333 ATAATAAATTATATTTACTACT
1 ATAATAAATAATATTTACTACT
49201355 TAACTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAATAAATAATATTTACTACTGG
Found at i:49207341 original size:17 final size:16
Alignment explanation
Indices: 49207311--49207362 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
49207301 TCTTTTTTTT
* *
49207311 AAACACGAATTTTTTA
1 AAACACAAATTTTTAA
* * *
49207327 AAATACAAGAATTTTAG
1 AAACACAA-ATTTTTAA
49207344 AAACACAAATTTTTAA
1 AAACACAAATTTTTAA
49207360 AAA
1 AAA
49207363 AACACGAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (16 bp):
AAACACAAATTTTTAA
Found at i:49207416 original size:17 final size:17
Alignment explanation
Indices: 49207362--49207711 Score: 181
Period size: 17 Copynumber: 19.9 Consensus size: 17
49207352 ATTTTTAAAA
*
49207362 AAACACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
* *
49207378 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
49207396 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
49207413 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
* *
49207432 AAACGCGAAAGTTTTTG
1 AAACACGAAAATTTTTG
* **
49207449 AAAAACGGGAATTTTTTTTTG
1 AAACAC--GAA--AATTTTTG
*
49207470 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
* *
49207487 AAACATTG-GAA-TTTTG
1 AAACA-CGAAAATTTTTG
** *
49207503 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
49207521 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
49207537 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
49207555 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
49207572 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
* *
49207589 AAACAC-AGAAGTTTTAG
1 AAACACGA-AAATTTTTG
*
49207606 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* ** *
49207624 AAA-ATTGGAATTTTTTTA
1 AAACA--CGAAAATTTTTG
*
49207642 AAACACGAGAATTTTTG
1 AAACACGAAAATTTTTG
*
49207659 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* **
49207678 CAACACGGGAATTTTTG
1 AAACACGAAAATTTTTG
49207695 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
49207712 CTAATTTTTT
Statistics
Matches: 245, Mismatches: 65, Indels: 45
0.69 0.18 0.13
Matches are distributed among these distances:
16 20 0.08
17 116 0.47
18 63 0.26
19 35 0.14
21 11 0.04
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:49207451 original size:36 final size:37
Alignment explanation
Indices: 49207387--49207456 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
49207377 GAAACACGAG
* *
49207387 ATTTCTTTGAAACACGAAAATTTATGAAACACGGTCA
1 ATTTCTTTAAAACACGAAAATTTATGAAAAACGGTCA
* * *
49207424 ATTTC-TTAAAACGCGAAAGTTTTTGAAAAACGG
1 ATTTCTTTAAAACACGAAAATTTATGAAAAACGG
49207457 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 23 0.82
37 5 0.18
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
ATTTCTTTAAAACACGAAAATTTATGAAAAACGGTCA
Found at i:49207485 original size:21 final size:21
Alignment explanation
Indices: 49207443--49207485 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49207433 AACGCGAAAG
** *
49207443 TTTTTGAAAAACGGGAATTTT
1 TTTTTGAAAAACGAAAAATTT
*
49207464 TTTTTGAAACACGAAAAATTT
1 TTTTTGAAAAACGAAAAATTT
49207485 T
1 T
49207486 GAAACATTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTTTGAAAAACGAAAAATTT
Found at i:49207655 original size:19 final size:19
Alignment explanation
Indices: 49207572--49207703 Score: 77
Period size: 19 Copynumber: 7.4 Consensus size: 19
49207562 AAAATTTTAG
*
49207572 AAACACGAAAATTTTTG--
1 AAACACGAGAATTTTTGAA
*
49207589 AAACAC-AGAAGTTTT-AGA
1 AAACACGAGAATTTTTGA-A
* *
49207607 AAACACGAAAAATTTTG-A
1 AAACACGAGAATTTTTGAA
** **
49207625 AAA-TTG-GAATTTTTTTA
1 AAACACGAGAATTTTTGAA
49207642 AAACACGAGAATTTTTGAA
1 AAACACGAGAATTTTTGAA
* *
49207661 AAACATGAAAATTTTTG--
1 AAACACGAGAATTTTTGAA
* *
49207678 CAACACGGGAATTTTTG-A
1 AAACACGAGAATTTTTGAA
49207696 AAACACGA
1 AAACACGA
49207704 AAAATTTTCT
Statistics
Matches: 85, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
16 13 0.15
17 24 0.28
18 17 0.20
19 31 0.36
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (19 bp):
AAACACGAGAATTTTTGAA
Found at i:49208072 original size:6 final size:6
Alignment explanation
Indices: 49208028--49208084 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
49208018 AAATTATTTA
* *
49208028 AAATA- AAATA- AAATAA AAAT-T AAAT-T AAATTAA AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA-TAT AAATAT AAATAT
49208073 AAATAT AAATAT
1 AAATAT AAATAT
49208085 GCATAAAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
5 18 0.39
6 25 0.54
7 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:49208235 original size:14 final size:14
Alignment explanation
Indices: 49208216--49208285 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
49208206 GAATTGAACC
49208216 TCTTTTTTCTTTTT
1 TCTTTTTTCTTTTT
49208230 TCTTTTTTCCTTCTTT
1 TCTTTTTT-CTT-TTT
**
49208246 T-TTCCTTCTCTTTT
1 TCTTTTTTCT-TTTT
*
49208260 TCTTCTTTT-TCTTT
1 TCTT-TTTTCTTTTT
49208274 TCTTTTTT-TTTT
1 TCTTTTTTCTTTT
49208286 CTGCTGGGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 7 0.16
14 21 0.47
15 11 0.24
16 6 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTTTTTCTTTTT
Found at i:49208245 original size:11 final size:11
Alignment explanation
Indices: 49208229--49208269 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
49208219 TTTTTCTTTT
49208229 TTCTTTTTTCC
1 TTCTTTTTTCC
49208240 TTCTTTTTTCC
1 TTCTTTTTTCC
49208251 TTCTCTTTTT-C
1 TTCT-TTTTTCC
49208262 TTCTTTTT
1 TTCTTTTT
49208270 CTTTTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.14
11 20 0.69
12 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTTTCC
Found at i:49208276 original size:22 final size:22
Alignment explanation
Indices: 49208219--49208287 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
49208209 TTGAACCTCT
*
49208219 TTTTTCTTTTTTCTTTTTTCCTTC
1 TTTTTCTTTTCTC-TTTTT-CTTC
*
49208243 TTTTT-TCCTTCTCTTTTTCTTC
1 TTTTTCT-TTTCTCTTTTTCTTC
* *
49208265 TTTTTCTTTTCTTTTTTTTTTC
1 TTTTTCTTTTCTCTTTTTCTTC
49208287 T
1 T
49208288 GCTGGGCCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 22 0.58
23 7 0.18
24 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTCTCTTTTTCTTC
Found at i:49208569 original size:3 final size:3
Alignment explanation
Indices: 49208552--49208608 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
49208542 TTTTTATTAT
* *
49208552 TTC TT- TTC TTT TTC TTC TTC CTC TT- TTC TTC TTC TTTC TTC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TT-C
49208597 TTC TTC TTC TTC
1 TTC TTC TTC TTC
49208609 AAAGTCTAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:49208576 original size:20 final size:21
Alignment explanation
Indices: 49208553--49208608 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
49208543 TTTTATTATT
*
49208553 TCTTTTCTTTTTC-TTCTTCC
1 TCTTTTCTTCTTCTTTCTTCC
*
49208573 TCTTTTCTTCTTCTTTCTTCT
1 TCTTTTCTTCTTCTTTCTTCC
49208594 TCCTTCTTCTTCTTC
1 T-CTT-TTCTTCTTC
49208609 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 12 0.39
21 7 0.23
22 3 0.10
23 9 0.29
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TCTTTTCTTCTTCTTTCTTCC
Found at i:49208591 original size:10 final size:10
Alignment explanation
Indices: 49208556--49208607 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
49208546 TATTATTTCT
*
49208556 TTTCTTTTTC
1 TTTCTTCTTC
*
49208566 -TTCTTCCTC
1 TTTCTTCTTC
49208575 TTTTCTTCTTC
1 -TTTCTTCTTC
49208586 TTTCTTCTTC
1 TTTCTTCTTC
*
49208596 CTTCTTCTTC
1 TTTCTTCTTC
49208606 TT
1 TT
49208608 CAAAGTCTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.20
10 20 0.57
11 8 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:49209014 original size:29 final size:29
Alignment explanation
Indices: 49208981--49209097 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
49208971 TGTAATTTTT
*
49208981 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
49209010 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
49209040 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
49209069 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
49209098 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:49209036 original size:30 final size:30
Alignment explanation
Indices: 49208996--49209097 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
49208986 ATTTAGGATT
*
49208996 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
49209026 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
49209056 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
49209086 AAAATGCAATTT
1 AAAATGAAATTT
49209098 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:49209118 original size:14 final size:16
Alignment explanation
Indices: 49209093--49209127 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
49209083 GTCAAAATGC
49209093 AATTTTTATTTTT-AA
1 AATTTTTATTTTTGAA
49209108 AATTTTT-TTTTTGAA
1 AATTTTTATTTTTGAA
49209123 AATTT
1 AATTT
49209128 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
AATTTTTATTTTTGAA
Found at i:49209555 original size:54 final size:55
Alignment explanation
Indices: 49209369--49209586 Score: 324
Period size: 54 Copynumber: 4.1 Consensus size: 55
49209359 CACGTGAGCC
* *
49209369 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
49209424 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
49209475 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
49209529 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
49209584 AAG
1 AAG
49209587 TAGAAATTGA
Statistics
Matches: 150, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 14 0.09
51 34 0.23
52 1 0.01
54 52 0.35
55 37 0.25
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:49209584 original size:14 final size:14
Alignment explanation
Indices: 49209565--49209599 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49209555 GAGTTGATTT
49209565 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
49209579 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
49209593 TTGAAAA
1 TTGAAAA
49209600 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:49209831 original size:85 final size:85
Alignment explanation
Indices: 49209687--49209934 Score: 284
Period size: 89 Copynumber: 2.8 Consensus size: 85
49209677 AACATAAATT
* * *
49209687 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GT-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
49209752 TTGATTTGAAAAG-TAGAATT-AG
63 TTGATTTGAAAAGATAG-ATTGAA
* * * *
49209774 TAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGTT
49209839 GATTTTTGAAAAGCATAGATTGAA
65 GA--TTTGAAAAG-ATAGATTGAA
* * *
49209863 AAAAACATAAATTGAAAATACCTCAGCATGCGAGCCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGC---CTGAGGCTCAACTCACCTCTTGCAATATGAG
49209928 TTGATTT
63 TTGATTT
49209935 TTGAAAAACA
Statistics
Matches: 137, Mismatches: 15, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 34 0.25
91 31 0.23
92 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (85 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
ATTTGAAAAGATAGATTGAA
Found at i:49209880 original size:15 final size:16
Alignment explanation
Indices: 49209847--49209880 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49209837 TTGATTTTTG
* *
49209847 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
49209863 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
49209879 AA
1 AA
49209881 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:49209922 original size:91 final size:88
Alignment explanation
Indices: 49209687--49209941 Score: 313
Period size: 91 Copynumber: 2.9 Consensus size: 88
49209677 AACATAAATT
* * * *
49209687 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCGGCC-GAGGCTCAACTCACCTCTTGCAATATGAG
*
49209752 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * * *
49209774 TAAAGCAGAAATTGAAAATACCTCAGCGTGC--CTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCGGC-CGAGGCTCAACTCACCTCTTGCAATATGAG
49209837 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
* *
49209863 AAAAACATAAATTGAAAATACCTCAGCATGCGAGCCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCG-GCCGAGGCTCAACTCACCTCTTGCAATATGAG
49209928 TTGATTTTTGAAAA
65 TTGATTTTTGAAAA
49209942 ACAAAAATTA
Statistics
Matches: 142, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
85 31 0.22
87 35 0.25
88 3 0.02
89 31 0.22
91 41 0.29
92 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCGGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:49210654 original size:191 final size:192
Alignment explanation
Indices: 49209899--49211280 Score: 2626
Period size: 192 Copynumber: 7.2 Consensus size: 192
49209889 CATGCGAGCC
** *
49209899 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
49209964 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCTCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* **
49210029 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49210092 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAAATTAAAAGGCTTAACT
49210157 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
49210222 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49210285 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
49210350 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
49210415 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49210477 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
49210541 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
49210606 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49210668 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
49210732 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
49210797 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAA-TTTAAAAATACCTCAACGTGTCTT
49210861 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
49210926 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
49210991 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49211053 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
49211118 ACCTCTCGTAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
49211183 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTT-AAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
49211244 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
49211281 CCTTGGAAAA
Statistics
Matches: 1175, Mismatches: 9, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
190 5 0.00
191 352 0.30
192 409 0.35
193 293 0.25
194 116 0.10
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:49210914 original size:72 final size:70
Alignment explanation
Indices: 49210721--49210915 Score: 196
Period size: 72 Copynumber: 2.7 Consensus size: 70
49210711 AAAAATTAAA
* * * * * * **
49210721 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
49210785 CCCCG
66 CCCCG
* **
49210790 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAA-AAATTTTAAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTAAAACAAAAATTAAAAATACCTCAAC
* **
49210854 GTGTCTTG
63 GTGCCCCG
*
49210862 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
49210916 GGCTTAACTC
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
69 30 0.30
70 2 0.02
71 3 0.03
72 60 0.59
73 6 0.06
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:49219441 original size:16 final size:16
Alignment explanation
Indices: 49219420--49219521 Score: 55
Period size: 16 Copynumber: 6.0 Consensus size: 16
49219410 TTTTCCTTTT
49219420 TTTTTTAAAACACGAA
1 TTTTTTAAAACACGAA
*
49219436 TTTTTTAAAATACAAGAA
1 TTTTTT-AAA-ACACGAA
*
49219454 --TTTTAGAAACACAAA
1 TTTTTTA-AAACACGAA
*
49219469 TTTTTAAAAAAAACACGAA
1 TTTTT---TAAAACACGAA
** *
49219488 AATTTTGAAACACGAGA
1 TTTTTTAAAACACGA-A
*
49219505 TTTCTTTGAAACACGAA
1 TTT-TTTAAAACACGAA
49219522 AATTTATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
15 6 0.09
16 20 0.31
17 9 0.14
18 18 0.28
19 11 0.17
20 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (16 bp):
TTTTTTAAAACACGAA
Found at i:49219454 original size:18 final size:17
Alignment explanation
Indices: 49219419--49219457 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
49219409 TTTTTCCTTT
* *
49219419 TTTTTTTAAAACACGAA
1 TTTTTTAAAAACAAGAA
49219436 TTTTTTAAAATACAAGAA
1 TTTTTTAAAA-ACAAGAA
49219454 TTTT
1 TTTT
49219458 AGAAACACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTTTTAAAAACAAGAA
Found at i:49219533 original size:17 final size:17
Alignment explanation
Indices: 49219479--49219830 Score: 185
Period size: 17 Copynumber: 19.9 Consensus size: 17
49219469 TTTTTAAAAA
49219479 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
49219495 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
49219513 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
49219530 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
* *
49219549 AAACGCGAAAGTTTTTG
1 AAACACGAAAATTTTTG
* **
49219566 AAAAACGGGAATTTTTTTTTG
1 AAACAC--GAA--AATTTTTG
*
49219587 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
49219604 AAACACTG-GAA-TTTTG
1 AAACAC-GAAAATTTTTG
** *
49219620 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
49219638 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
49219654 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
** *
49219672 AAATGCGAAAATTTTAG
1 AAACACGAAAATTTTTG
49219689 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
49219706 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
49219724 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* ** *
49219742 AAA-ATTGGAATTTTTTTTA
1 AAACA--CGAA-AATTTTTG
*
49219761 AAACACGAGAATTTTTG
1 AAACACGAAAATTTTTG
*
49219778 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* **
49219797 CAACACGGGAATTTTTG
1 AAACACGAAAATTTTTG
49219814 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
49219831 CTGATTTTTT
Statistics
Matches: 248, Mismatches: 62, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
16 20 0.08
17 115 0.46
18 48 0.19
19 52 0.21
20 2 0.01
21 11 0.04
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:49219602 original size:21 final size:21
Alignment explanation
Indices: 49219560--49219602 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49219550 AACGCGAAAG
** *
49219560 TTTTTGAAAAACGGGAATTTT
1 TTTTTGAAAAACGAAAAATTT
*
49219581 TTTTTGAAACACGAAAAATTT
1 TTTTTGAAAAACGAAAAATTT
49219602 T
1 T
49219603 GAAACACTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTTTGAAAAACGAAAAATTT
Found at i:49219775 original size:19 final size:19
Alignment explanation
Indices: 49219760--49219830 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
49219750 AATTTTTTTT
*
49219760 AAAACACGAGAATTTTTGA
1 AAAACACGAAAATTTTTGA
*
49219779 AAAACATGAAAATTTTTG-
1 AAAACACGAAAATTTTTGA
* **
49219797 -CAACACGGGAATTTTTG-
1 AAAACACGAAAATTTTTGA
*
49219814 AAAACACGAAAAATTTT
1 AAAACACGAAAATTTTT
49219831 CTGATTTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
17 13 0.32
18 12 0.29
19 16 0.39
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.28
Consensus pattern (19 bp):
AAAACACGAAAATTTTTGA
Found at i:49219795 original size:36 final size:34
Alignment explanation
Indices: 49219478--49219830 Score: 174
Period size: 36 Copynumber: 10.0 Consensus size: 34
49219468 ATTTTTAAAA
* * *
49219478 AAAACACGAAAA-TTTTGAAACACGAGATTTCTTT
1 AAAACACGAAAATTTTTGAAAAACGAAAATT-TTT
* * * **
49219512 GAAACACGAAAATTTATGAAACACGGTCAATTTCTT
1 AAAACACGAAAATTTTTGAAAAAC-GAAAATTT-TT
* * **
49219548 AAAACGCGAAAGTTTTTGAAAAACGGGAATTTTTTTTT
1 AAAACACGAAAATTTTTGAAAAAC--GAA--AATTTTT
* * * * *
49219586 GAAACACGAAAAATTTTGAAACACTG-GAATTTTG
1 AAAACACGAAAATTTTTGAAAAAC-GAAAATTTTT
** * * * *
49219620 AAAACACGAGGATTTTTTAAATACGAAAAATTTG
1 AAAACACGAAAATTTTTGAAAAACGAAAATTTTT
* **
49219654 AAAACAAGAAAATTTTTGAAATGCGAAAA-TTTT
1 AAAACACGAAAATTTTTGAAAAACGAAAATTTTT
* *
49219687 AGAAACACGAAAATTTTTGAAACAC-AGAAGTTTTT
1 A-AAACACGAAAATTTTTGAAAAACGA-AAATTTTT
* ** **
49219722 AGAAAACACGAAAAATTTTGAAAATTGGAATTTTTTTT
1 --AAAACACGAAAATTTTTGAAAA-ACGAA-AATTTTT
*
49219760 AAAACACGAGAATTTTTGAAAAACATGAAAATTTTT
1 AAAACACGAAAATTTTTGAAAAAC--GAAAATTTTT
** ** *
49219796 GCAACACGGGAATTTTTGAAAACACGAAAAATTTT
1 AAAACACGAAAATTTTTGAAAA-ACGAAAATTTTT
49219831 CTGATTTTTT
Statistics
Matches: 243, Mismatches: 58, Indels: 35
0.72 0.17 0.10
Matches are distributed among these distances:
33 6 0.02
34 85 0.35
35 24 0.10
36 88 0.36
37 10 0.04
38 27 0.11
39 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.30
Consensus pattern (34 bp):
AAAACACGAAAATTTTTGAAAAACGAAAATTTTT
Found at i:49219971 original size:22 final size:22
Alignment explanation
Indices: 49219936--49219979 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49219926 TGTTACCTTA
49219936 TTTTTGAAAAACACGAGAAATTT
1 TTTTTGAAAAACACGA-AAATTT
*
49219959 TTTTTG-AAGACACGAAAATTT
1 TTTTTGAAAAACACGAAAATTT
49219980 CGAAACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTTTGAAAAACACGAAAATTT
Found at i:49220201 original size:8 final size:6
Alignment explanation
Indices: 49220145--49220198 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
49220135 AAATTATTTA
* *
49220145 AAATA- AAATA- AAATAA AAAT-T AAAT-T AAATTAA AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA-TAT AAATAT AAATAT
49220190 AAATAT AAA
1 AAATAT AAA
49220199 AATGCATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
5 18 0.42
6 22 0.51
7 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:49220359 original size:11 final size:11
Alignment explanation
Indices: 49220343--49220380 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
49220333 TCTTTTTTCT
49220343 TTTTTTCCTTC
1 TTTTTTCCTTC
49220354 TTTTTTCCTTC
1 TTTTTTCCTTC
49220365 TCTTTTT-CTTC
1 T-TTTTTCCTTC
49220376 TTTTT
1 TTTTT
49220381 CTTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 4 0.15
11 17 0.65
12 5 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:49220692 original size:24 final size:24
Alignment explanation
Indices: 49220672--49220731 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
49220662 CTTTTCTTTT
*
49220672 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
49220696 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
49220720 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
49220732 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:49220694 original size:3 final size:3
Alignment explanation
Indices: 49220660--49220731 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
49220650 TTTTTATTAT
* *
49220660 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
49220703 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
49220732 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:49220699 original size:13 final size:13
Alignment explanation
Indices: 49220683--49220731 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
49220673 CTTTTTTCTT
49220683 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
49220696 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
49220709 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
49220720 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
49220732 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:49220715 original size:10 final size:10
Alignment explanation
Indices: 49220700--49220728 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49220690 TCTTCCTCTT
49220700 TTCTTCTTCC
1 TTCTTCTTCC
49220710 TTCTTCTTCC
1 TTCTTCTTCC
49220720 TTCTTCTTC
1 TTCTTCTTC
49220729 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:49221132 original size:29 final size:28
Alignment explanation
Indices: 49221099--49221215 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 28
49221089 TGTAATTTTT
*
49221099 AGAAAATTTAGGATTAAAATGAAATTTA
1 AGAAAATTTAGGGTTAAAATGAAATTTA
* **
49221127 ATGAAAGTTTAGGGGTCT-AAGGGAAATTTAA
1 A-GAAAATTTA-GGGT-TAAAATGAAATTT-A
* *
49221158 AGAAAGTTTAAGGGTCAAAATGAAATTTA
1 AGAAAATTT-AGGGTTAAAATGAAATTTA
* *
49221187 AGAAAACTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
49221216 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.01
29 15 0.21
30 52 0.72
31 4 0.06
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.29
Consensus pattern (28 bp):
AGAAAATTTAGGGTTAAAATGAAATTTA
Found at i:49221208 original size:30 final size:30
Alignment explanation
Indices: 49221114--49221215 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
49221104 ATTTAGGATT
49221114 AAAATGAAATTTAATG-AAAGTTTAGGGGTC
1 AAAATGAAATTTAA-GAAAAGTTTAGGGGTC
* ** *
49221144 TAAGGGAAATTTAA-AGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAGA-AAAGTTTAGGGGTC
*
49221174 AAAATGAAATTTAAGAAAACTTTAGGGGTC
1 AAAATGAAATTTAAGAAAAGTTTAGGGGTC
*
49221204 AAAATGCAATTT
1 AAAATGAAATTT
49221216 TTATTTTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
30 58 0.98
31 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAGAAAAGTTTAGGGGTC
Found at i:49221246 original size:14 final size:15
Alignment explanation
Indices: 49221211--49221246 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
49221201 GTCAAAATGC
49221211 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
* *
49221226 AATTTTTTTTTTTGA
1 AATTTTTATTTTTAA
49221241 AATTTT
1 AATTTT
49221247 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:49222474 original size:11 final size:11
Alignment explanation
Indices: 49222436--49222478 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
49222426 ATGTGAGAAA
49222436 AAAAATTATAT
1 AAAAATTATAT
*
49222447 AATAAATTTATAA
1 AA-AAA-TTATAT
*
49222460 AAAAATGATAT
1 AAAAATTATAT
49222471 AAAAATTA
1 AAAAATTA
49222479 AATGTGATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 13 0.50
12 6 0.23
13 7 0.27
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:49227499 original size:19 final size:20
Alignment explanation
Indices: 49227471--49227515 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
49227461 ACATTTATAA
* *
49227471 AAAAACTATTTTAATAATT-
1 AAAAATTATTTAAATAATTC
*
49227490 AAAAATTATTTAAATTATTC
1 AAAAATTATTTAAATAATTC
49227510 AAAAAT
1 AAAAAT
49227516 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATTTAAATAATTC
Found at i:49228983 original size:8 final size:8
Alignment explanation
Indices: 49228950--49228987 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
49228940 AATATTTCTT
*
49228950 ATTTCTCT
1 ATTTCTCC
49228958 ATTTCTCC
1 ATTTCTCC
49228966 ATTTCTCC
1 ATTTCTCC
*
49228974 ATTTCACC
1 ATTTCTCC
49228982 ATTTCT
1 ATTTCT
49228988 ATTCATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTTCTCC
Found at i:49230593 original size:21 final size:22
Alignment explanation
Indices: 49230553--49230598 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
49230543 AACAAATGAA
*
49230553 AAAAGAAAATCAGAAAGGAAAG
1 AAAAGAAAAACAGAAAGGAAAG
*
49230575 AAAAGAAAAAC-GGAAGGAAAG
1 AAAAGAAAAACAGAAAGGAAAG
49230596 AAA
1 AAA
49230599 GAAGAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.70, C:0.04, G:0.24, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAACAGAAAGGAAAG
Found at i:49231413 original size:42 final size:41
Alignment explanation
Indices: 49231377--49231484 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 41
49231367 TTCGGCTTCG
* *
49231377 AGTCGATGAGACATTGGGTGTCAATTTATTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGCCAATTTATTACTTCGGATTA
* * *
49231418 ATTCGATGAGGCACTGGGTGCCAA--T-TTACTTC-GATTT
1 AGTCGATGAGACACTGGGTGCCAATTTATTACTTCGGATTA
* * * *
49231455 TGTTGATGAGGCACTGGGTGTCAATTTATT
1 AGTCGATGAGACACTGGGTGCCAATTTATT
49231485 CCTTTAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
37 24 0.44
38 7 0.13
39 2 0.04
40 2 0.04
41 20 0.36
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (41 bp):
AGTCGATGAGACACTGGGTGCCAATTTATTACTTCGGATTA
Found at i:49247186 original size:17 final size:17
Alignment explanation
Indices: 49247141--49247186 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
49247131 TTACTTGAAA
*
49247141 TTTAAATATTTTTTATT
1 TTTAAATATTTTTAATT
49247158 TTTATAATATTTTTAAATT
1 TTTA-AATATTTTT-AATT
49247177 TTTAAA-ATTT
1 TTTAAATATTT
49247187 AAAATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAAATATTTTTAATT
Found at i:49247204 original size:23 final size:24
Alignment explanation
Indices: 49247174--49247243 Score: 78
Period size: 23 Copynumber: 3.1 Consensus size: 24
49247164 ATATTTTTAA
49247174 ATTTTTAAAATTTA-AAATTATAT
1 ATTTTTAAAATTTATAAATTATAT
*
49247197 ATTTTTAAATTTTATTAAA--A-AT
1 ATTTTTAAAATTTA-TAAATTATAT
*
49247219 ATTTTTAAAA-TTATATATTATAT
1 ATTTTTAAAATTTATAAATTATAT
49247242 AT
1 AT
49247244 GATTTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 12 0.31
23 18 0.46
25 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTTAAAATTTATAAATTATAT
Found at i:49249606 original size:25 final size:27
Alignment explanation
Indices: 49249578--49249636 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
49249568 GTGTAATATA
*
49249578 CACGAGCTGA-GAATCAGTAAGCTC-T
1 CACGAGCTGACAAATCAGTAAGCTCAT
*
49249603 CACGAGCT-ACAAATCGGTAAGCTCAT
1 CACGAGCTGACAAATCAGTAAGCTCAT
49249629 -ACGAGCTG
1 CACGAGCTG
49249637 TGTGTGTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (27 bp):
CACGAGCTGACAAATCAGTAAGCTCAT
Found at i:49253156 original size:21 final size:22
Alignment explanation
Indices: 49253128--49253172 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
49253118 TTATTAGATG
49253128 CTTGGAATAT-TCAG-TATCAT
1 CTTGGAATATATCAGATATCAT
49253148 CTTGAGAATATATCAGAATATCAT
1 CTTG-GAATATATCAG-ATATCAT
49253172 C
1 C
49253173 AATAAATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 4 0.19
24 7 0.33
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (22 bp):
CTTGGAATATATCAGATATCAT
Found at i:49256110 original size:15 final size:13
Alignment explanation
Indices: 49256067--49256105 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
49256057 ATGTAGGGGA
49256067 CACATGGCCATGT
1 CACATGGCCATGT
49256080 CACATGGCCATGT
1 CACATGGCCATGT
*
49256093 CACTTGGCCATGT
1 CACATGGCCATGT
49256106 GTCACACACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:49256912 original size:21 final size:21
Alignment explanation
Indices: 49256886--49256928 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49256876 ATACATGTAT
*
49256886 GCTCATACGAGCTGTGAATCG
1 GCTCATACGAGCTGAGAATCG
*
49256907 GCTCATACGAGTTGAGAATCG
1 GCTCATACGAGCTGAGAATCG
49256928 G
1 G
49256929 TAAGCTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTCATACGAGCTGAGAATCG
Found at i:49263053 original size:24 final size:24
Alignment explanation
Indices: 49263026--49263102 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
49263016 GTGCTTTCTA
49263026 GTTAAGTGCT-TTTCGGAGCTTCCC
1 GTTAAGTGCTCTTT-GGAGCTTCCC
* *
49263050 GTTAAGTGCTCTTTGAAGCTACCC
1 GTTAAGTGCTCTTTGGAGCTTCCC
*
49263074 GATATAG-GCTCTTTGTGAGCTTCCC
1 GTTA-AGTGCTCTTTG-GAGCTTCCC
49263099 GTTA
1 GTTA
49263103 TTAAGCCCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 29 0.66
25 15 0.34
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (24 bp):
GTTAAGTGCTCTTTGGAGCTTCCC
Found at i:49266188 original size:22 final size:22
Alignment explanation
Indices: 49266144--49266202 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
49266134 ATGAATGTTG
*
49266144 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
49266168 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
49266190 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
49266203 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:49270235 original size:3 final size:3
Alignment explanation
Indices: 49270227--49270253 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49270217 TGTCTATCAA
49270227 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
49270254 TTTCTCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:49272824 original size:21 final size:21
Alignment explanation
Indices: 49272800--49272839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49272790 CGTATAAGAA
* *
49272800 ATTAATTTATTAGAGAAATGC
1 ATTAATTTATCAGAAAAATGC
49272821 ATTAATTTATCAGAAAAAT
1 ATTAATTTATCAGAAAAAT
49272840 AAAATACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTAATTTATCAGAAAAATGC
Found at i:49283520 original size:16 final size:16
Alignment explanation
Indices: 49283499--49283532 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49283489 GTGTGGAGAA
*
49283499 TTTTAGCACTTATTTT
1 TTTTAGAACTTATTTT
*
49283515 TTTTAGAACTTGTTTT
1 TTTTAGAACTTATTTT
49283531 TT
1 TT
49283533 AGAGTGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTTAGAACTTATTTT
Found at i:49285532 original size:9 final size:9
Alignment explanation
Indices: 49285515--49285569 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
49285505 TGAGTTTTCG
49285515 AATTCGAAT
1 AATTCGAAT
*
49285524 AACTCGAAT
1 AATTCGAAT
*
49285533 AATTTGAAT
1 AATTCGAAT
49285542 AATTCGAAT
1 AATTCGAAT
*
49285551 AATTTGAAT
1 AATTCGAAT
49285560 AATTCGAAT
1 AATTCGAAT
49285569 A
1 A
49285570 TCAAACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49285541 original size:18 final size:18
Alignment explanation
Indices: 49285515--49285569 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
49285505 TGAGTTTTCG
* *
49285515 AATTCGAATAACTCGAAT
1 AATTTGAATAATTCGAAT
49285533 AATTTGAATAATTCGAAT
1 AATTTGAATAATTCGAAT
49285551 AATTTGAATAATTCGAAT
1 AATTTGAATAATTCGAAT
49285569 A
1 A
49285570 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAATTCGAAT
Found at i:49288103 original size:164 final size:164
Alignment explanation
Indices: 49287817--49288220 Score: 718
Period size: 164 Copynumber: 2.5 Consensus size: 164
49287807 TTTATTTTGG
49287817 TTGCTCTTGTTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGA
1 TTGCTCTTG-TTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGA
* ** *
49287882 GCTACAAGAGCCTTGTTGATAGCTGAATCGAAAGTAATTTAAAGATTCATGACTAAAGTAGATTA
65 GCTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTA
* **
49287947 CATGTCAGAACTCAAAATAGAAAATGAAACACAGT
130 CATGTCAGAACTCAAAATAGAAAATAAAACACAAA
49287982 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
* *
49288047 CTACAAGAGCCTTGTTGAGAGCCCAATCGAAATTATTTTAAAGATTCATAACTAAAGTAGATTAC
66 CTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC
49288112 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
131 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
49288146 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
49288211 CTACAAGAGC
66 CTACAAGAGC
49288221 TGCTTGGTAA
Statistics
Matches: 230, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
164 221 0.96
165 9 0.04
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (164 bp):
TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG
CTACAAGAGCCTTGTTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC
ATGTCAGAACTCAAAATAGAAAATAAAACACAAA
Found at i:49294834 original size:27 final size:26
Alignment explanation
Indices: 49294779--49294841 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
49294769 TTTAAAGCAC
* *
49294779 AAAAGTATATATACATAAATATTTAA
1 AAAAGTATATAAAAATAAATATTTAA
*
49294805 AAAAGTATCATAAAAATAAA-ATTATTA
1 AAAAGTAT-ATAAAAATAAATATT-TAA
49294832 AAAA-TATATA
1 AAAAGTATATA
49294842 GATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAGTATATAAAAATAAATATTTAA
Found at i:49294991 original size:18 final size:18
Alignment explanation
Indices: 49294970--49295010 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49294960 CAGTAATACC
49294970 AATAAT-AACAAAAGTAAT
1 AATAATGAACAAAA-TAAT
*
49294988 AATAATGAACTAAATAAT
1 AATAATGAACAAAATAAT
49295006 AATAA
1 AATAA
49295011 CAAAATAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAATGAACAAAATAAT
Found at i:49299923 original size:6 final size:6
Alignment explanation
Indices: 49299906--49299943 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
49299896 AAGCATGTTA
*
49299906 TATCTG TTTCTG TATCTG TATCTG TATTCTG TATCTG T
1 TATCTG TATCTG TATCTG TATCTG TA-TCTG TATCTG T
49299944 TTTTGGAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.55
Consensus pattern (6 bp):
TATCTG
Found at i:49299937 original size:19 final size:18
Alignment explanation
Indices: 49299906--49299943 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
49299896 AAGCATGTTA
49299906 TATCTGTTTCTGTATCTG
1 TATCTGTTTCTGTATCTG
49299924 TATCTGTATTCTGTATCTG
1 TATCTGT-TTCTGTATCTG
49299943 T
1 T
49299944 TTTTGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.55
Consensus pattern (18 bp):
TATCTGTTTCTGTATCTG
Found at i:49301641 original size:50 final size:50
Alignment explanation
Indices: 49301517--49301763 Score: 228
Period size: 50 Copynumber: 4.8 Consensus size: 50
49301507 GATAATAACA
* ** * * *
49301517 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
49301566 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * ** * *
49301616 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
*
49301666 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCATTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * * *
49301722 TGCTAATGCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
49301764 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 80 0.50
53 1 0.01
56 39 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:49301692 original size:100 final size:103
Alignment explanation
Indices: 49301566--49301752 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 103
49301556 TTTCCTGTAC
* * ** *
49301566 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCAT-A-TC-GGTGCCCATGCCAT
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAACTCTGGTGCCAATGCCAT
49301628 GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
* *
49301666 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCATTGGTGCTAATGC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAA-CTC--TGGTGCCAATGC
*
49301731 CATGTCTCAGACATGGTCTTAC
63 CATGTCCCAGACATGGTCTTAC
49301753 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 1 0.01
103 2 0.03
106 30 0.41
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAACTCTGGTGCCAATGCCAT
GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:49309447 original size:49 final size:49
Alignment explanation
Indices: 49309324--49309451 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
49309314 GGGTAAATAG
* * * * *
49309324 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAA
1 ATCCCATGTAAGACCATGTCTGGGACATGACATGAGCA-CGACAAGAAAA
* * * * *
49309374 CTCCCATGTAAGACCATATTTGGGATATGACATTAGCA-GTACAAGAAAA
1 ATCCCATGTAAGACCATGTCTGGGACATGACATGAGCACG-ACAAGAAAA
49309423 ATCCCATGTAAGACCATGTCTGGGACATG
1 ATCCCATGTAAGACCATGTCTGGGACATG
49309452 GCTTTGGCAT
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.02
49 31 0.49
50 31 0.49
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (49 bp):
ATCCCATGTAAGACCATGTCTGGGACATGACATGAGCACGACAAGAAAA
Found at i:49312149 original size:18 final size:18
Alignment explanation
Indices: 49312101--49312164 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
49312091 AAGCCAAGTT
*
49312101 GGGCTTGTGGGCCCACAC
1 GGGCATGTGGGCCCACAC
49312119 GGGCA--T--G-CCACAC
1 GGGCATGTGGGCCCACAC
*
49312132 GGGTATGTGGGCCCACAC
1 GGGCATGTGGGCCCACAC
*
49312150 GGGCGTGTGGGCCCA
1 GGGCATGTGGGCCCA
49312165 AACAGGCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 23 0.62
ACGTcount: A:0.14, C:0.31, G:0.41, T:0.14
Consensus pattern (18 bp):
GGGCATGTGGGCCCACAC
Found at i:49313812 original size:37 final size:37
Alignment explanation
Indices: 49313757--49313829 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
49313747 CTTTGAGAGG
49313757 GTTGAATCTTAACGTTTTG-GTAGAAACCTTAAGGGA
1 GTTGAATCTTAACGTTTTGAGTAGAAACCTTAAGGGA
* *
49313793 GTTGCAATCTTAA-GATTTTGATTAGAAATCTTAAGGG
1 GTTG-AATCTTAACG-TTTTGAGTAGAAACCTTAAGGG
49313830 GGATTGTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.16
37 13 0.41
38 14 0.44
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (37 bp):
GTTGAATCTTAACGTTTTGAGTAGAAACCTTAAGGGA
Found at i:49315523 original size:10 final size:10
Alignment explanation
Indices: 49315469--49315524 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 10
49315459 TATATACTTA
49315469 AATTAATAATT
1 AATTAAT-ATT
*
49315480 AATTAATTTT
1 AATTAATATT
49315490 AATTAAT-TT
1 AATTAATATT
49315499 AATTAAACATAATT
1 AATT--A-AT-ATT
49315513 AATTAATATT
1 AATTAATATT
49315523 AA
1 AA
49315525 ACTTAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.15
10 14 0.36
11 10 0.26
12 3 0.08
14 6 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
AATTAATATT
Found at i:49315525 original size:20 final size:19
Alignment explanation
Indices: 49315489--49315532 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
49315479 TAATTAATTT
*
49315489 TAATTAATTTAATTAAACA
1 TAATTAATTAAATTAAACA
*
49315508 TAATTAATTAATATTAAACT
1 TAATTAATTAA-ATTAAACA
49315528 TAATT
1 TAATT
49315533 TAATAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTAATTAAATTAAACA
Found at i:49315928 original size:60 final size:61
Alignment explanation
Indices: 49315857--49315977 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 61
49315847 GGTGCATTAC
49315857 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTA-TTTTTTTGAATTG
1 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTTGAATTG
*
49315917 CTACTAGGATTTTTTCCATTAGTGTAGTGATTTTGTCATGACTAGTATTTTTTTTGAATTG
1 CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTTGAATTG
49315978 ATGGAATAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 46 0.78
61 13 0.22
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (61 bp):
CTACTAGGATTTTTTCCATTAGTGCAGTGATTTTGTCATGACTAGTATTTTTTTTGAATTG
Found at i:49317757 original size:41 final size:41
Alignment explanation
Indices: 49317687--49317824 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 41
49317677 CTTCGGTGGC
*
49317687 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCTGGGT
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGGGGT
* * * * * * *
49317728 TTTAGCGGCGTTTTTGTAGATGCGTCGCTAATGTTGGGGGT
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGGGGT
* * * * * * *
49317769 TTTAGTGGCATTTTTCAAGAAGCACGGCTAATGGTAGTGGT
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGGGGT
*
49317810 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
49317825 CAGGTTCACC
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.38
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGGGGT
Found at i:49317896 original size:16 final size:15
Alignment explanation
Indices: 49317863--49317917 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
49317853 TAATTGGGTT
*
49317863 ATTATTT-ATATT-A
1 ATTATTTAAAATTGA
49317876 ATTATTTAAAATTGA
1 ATTATTTAAAATTGA
**
49317891 ACTTATTTCTAATTGA
1 A-TTATTTAAAATTGA
49317907 A-TATTTAAAAT
1 ATTATTTAAAAT
49317918 CTTCAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 12 0.35
15 2 0.06
16 13 0.38
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATTTAAAATTGA
Found at i:49318233 original size:14 final size:15
Alignment explanation
Indices: 49318207--49318244 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
49318197 GGGGTTTATA
49318207 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
49318222 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
49318236 TATGG-TTTA
1 TATGGATTTA
49318245 ATTAAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:49318864 original size:19 final size:18
Alignment explanation
Indices: 49318835--49318888 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
49318825 GGACCAAATT
*
49318835 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
49318853 ATAGAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
49318872 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
49318889 TTGATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:49318967 original size:50 final size:48
Alignment explanation
Indices: 49318873--49318974 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 48
49318863 AAAAATGAAA
*
49318873 TAAAAACACTAAAATTTTGATTTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTTAATTTTTATCTAATTTTTATAAATATTACT
49318921 TAAAAA-ACTAAAATTTATAATTTTTA-CTACTATATTTTATAAATATTACT
1 TAAAAACACTAAAATTT-TAATTTTTATCTA--AT-TTTTATAAATATTACT
49318971 TAAA
1 TAAA
49318975 CAAAACTATG
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
47 13 0.27
48 14 0.29
49 2 0.04
50 20 0.41
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTTAATTTTTATCTAATTTTTATAAATATTACT
Found at i:49319697 original size:47 final size:50
Alignment explanation
Indices: 49319627--49319728 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
49319617 AAAAATGAAA
* *
49319627 TAAAAACACTAGAATTTTGAA-TTTTATCTA-ATA-TTTATAACTATTACT
1 TAAAAACACTAAAATTTTGAATTTTTA-CTACATATTTTATAAATATTACT
49319675 TAAAAA-ACTAAAATTTAT-AATTTTTACTACTATATTTTATAAATATTACT
1 TAAAAACACTAAAATTT-TGAATTTTTACTAC-ATATTTTATAAATATTACT
49319725 TAAA
1 TAAA
49319729 CAAAACTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
47 14 0.30
48 12 0.26
49 3 0.06
50 18 0.38
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (50 bp):
TAAAAACACTAAAATTTTGAATTTTTACTACATATTTTATAAATATTACT
Found at i:49320323 original size:16 final size:16
Alignment explanation
Indices: 49320274--49320324 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
49320264 CCGGTGCTCG
*
49320274 TCTACCGTCGCACTCG
1 TCTACCGTCGCACTCC
** **
49320290 TGGACCGTCGCAGGCC
1 TCTACCGTCGCACTCC
49320306 TCTACCGTCGCACTCC
1 TCTACCGTCGCACTCC
49320322 TCT
1 TCT
49320325 GTCGTGGGAG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.43, G:0.22, T:0.24
Consensus pattern (16 bp):
TCTACCGTCGCACTCC
Found at i:49321087 original size:22 final size:22
Alignment explanation
Indices: 49321055--49321098 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
49321045 CATTTGATTA
49321055 ATTGTTGTAGCCAATGCAAATT
1 ATTGTTGTAGCCAATGCAAATT
*
49321077 ATTGTTTTAGCCAATGCAAATT
1 ATTGTTGTAGCCAATGCAAATT
49321099 TTATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (22 bp):
ATTGTTGTAGCCAATGCAAATT
Found at i:49321536 original size:50 final size:52
Alignment explanation
Indices: 49321479--49321603 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 52
49321469 TTATTTTAAA
* ** *
49321479 AATACATAACATACATAATATATTAAAACCTATAT-TTTTAA-TATATATAT
1 AATACATAACTTACATAATATATTAAAACCTATATATAATAACTACATATAT
* *
49321529 AATACATAACTTACATAACTTATATTGAAACTTATATATAATAACTTACATATAT
1 AATACATAACTTACATAA--TATATTAAAACCTATATATAATAAC-TACATATAT
49321584 AATACATAACTTACATAATA
1 AATACATAACTTACATAATA
49321604 ACTTACATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
50 17 0.27
52 15 0.23
53 6 0.09
55 26 0.41
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.38
Consensus pattern (52 bp):
AATACATAACTTACATAATATATTAAAACCTATATATAATAACTACATATAT
Found at i:49321545 original size:9 final size:9
Alignment explanation
Indices: 49321531--49321887 Score: 109
Period size: 9 Copynumber: 40.2 Consensus size: 9
49321521 ATATATATAA
49321531 TACATAACT
1 TACATAACT
49321540 TACATAACT
1 TACATAACT
*
49321549 TATATTGAAACT
1 TACA-T--AACT
*
49321561 TATAT-A--
1 TACATAACT
49321567 TA-ATAACT
1 TACATAACT
49321575 TACATATA-T
1 TACATA-ACT
49321584 AATACATAACT
1 --TACATAACT
49321595 TACATAATAACT
1 TAC---ATAACT
49321607 TACATAACT
1 TACATAACT
*
49321616 TATATAGAAACTT
1 TACAT---AAC-T
*
49321629 ATATATAAACT
1 -TACAT-AACT
*
49321640 TGCATAACT
1 TACATAACT
49321649 TACATAA-T
1 TACATAACT
*
49321657 AACATAACAACT
1 TACAT---AACT
*
49321669 TAGATAA--
1 TACATAACT
* *
49321676 TACATATCC
1 TACATAACT
49321685 TACATAACT
1 TACATAACT
49321694 TACATAACT
1 TACATAACT
49321703 TACATAA-T
1 TACATAACT
*
49321711 AACATAACAACT
1 TACAT---AACT
*
49321723 TAGATAA--
1 TACATAACT
* *
49321730 TACATATCC
1 TACATAACT
49321739 TACATAACT
1 TACATAACT
49321748 TACATAACT
1 TACATAACT
49321757 TACATAA--
1 TACATAACT
**
49321764 TACACCACT
1 TACATAACT
49321773 TACAT-A--
1 TACATAACT
49321779 -A-ATAACT
1 TACATAACT
*
49321786 TGCATAA--
1 TACATAACT
* *
49321793 TACATAGCC
1 TACATAACT
49321802 TACATAACT
1 TACATAACT
* *
49321811 TATAAAACT
1 TACATAACT
*
49321820 TACATGA--
1 TACATAACT
**
49321827 TACACCACT
1 TACATAACT
49321836 TACATAA--
1 TACATAACT
*
49321843 TACATTACT
1 TACATAACT
49321852 TACATAACT
1 TACATAACT
*
49321861 TACATTA--
1 TACATAACT
*
49321868 TACACAACT
1 TACATAACT
49321877 TACATAACT
1 TACATAACT
49321886 TA
1 TA
49321888 ATTAATATTA
Statistics
Matches: 260, Mismatches: 42, Indels: 92
0.66 0.11 0.23
Matches are distributed among these distances:
4 2 0.01
5 4 0.02
6 3 0.01
7 36 0.14
8 14 0.05
9 144 0.55
10 6 0.02
11 13 0.05
12 32 0.12
13 1 0.00
14 5 0.02
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:49321581 original size:16 final size:16
Alignment explanation
Indices: 49321562--49321612 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
49321552 ATTGAAACTT
49321562 ATATATAATAACTTAC
1 ATATATAATAACTTAC
*
49321578 ATATATAAT-ACATAAC
1 ATATATAATAAC-TTAC
* *
49321594 TTACATAATAACTTAC
1 ATATATAATAACTTAC
49321610 ATA
1 ATA
49321613 ACTTATATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATATAATAACTTAC
Found at i:49321606 original size:12 final size:12
Alignment explanation
Indices: 49321566--49321613 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
49321556 AAACTTATAT
49321566 ATAATAACTTAC
1 ATAATAACTTAC
49321578 AT-AT-A--TA-
1 ATAATAACTTAC
49321585 ATACATAACTTAC
1 ATA-ATAACTTAC
49321598 ATAATAACTTAC
1 ATAATAACTTAC
49321610 ATAA
1 ATAA
49321614 CTTATATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 2 0.07
8 2 0.07
9 2 0.07
10 2 0.07
11 2 0.07
12 17 0.57
13 3 0.10
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATAACTTAC
Done.