Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 166 of 214
Found at i:49089166 original size:100 final size:100
Alignment explanation
Indices: 49089061--49089488 Score: 578
Period size: 100 Copynumber: 4.3 Consensus size: 100
49089051 CACAAAAACA
* * * * *
49089061 ATAACTTACATAACTTACATAAACTTGCATAAATTAAAT-AACTTGTATAAATTAAATAACTTAT
1 ATAACTTACATAACTTACAT-AACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTAC
* * *
49089125 ATAACTTACATAACCTACATAACTTACATAAATTA-
65 ATAACTTACATAACCTACATAAATTAAATAACTTAC
** * * * * *
49089160 AGTAACTTTACGGAACTTACATAACTTACATAACCTACAT-AACGTACGTAAATTAAGTAACTTA
1 A-TAAC-TTACATAACTTACATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTA
*
49089224 CATAACTTACATAACCTACATAAATAAAATAACTTAC
64 CATAACTTACATAACCTACATAAATTAAATAACTTAC
*
49089261 ATAACTTACATAACCTACATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACA
1 ATAACTTACATAACTTACATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACA
*
49089326 TAACTTACATAACGTACATAAATTAAATAACTTAC
66 TAACTTACATAACCTACATAAATTAAATAACTTAC
* *
49089361 ATAACTTACATAAATTA-AGTAACTTACATAACTCACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACTTACATAACTTACA-TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTAC
*
49089425 ATAACTTACATAACGTACATAAATTAAATAACTTAC
65 ATAACTTACATAACCTACATAAATTAAATAACTTAC
*
49089461 ATAACTTACATAAATTA-AGTAACTTACA
1 ATAACTTACATAACTTACA-TAACTTACA
49089489 AGATTTAGGC
Statistics
Matches: 295, Mismatches: 29, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
99 31 0.11
100 250 0.85
101 14 0.05
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (100 bp):
ATAACTTACATAACTTACATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACA
TAACTTACATAACCTACATAAATTAAATAACTTAC
Found at i:49094184 original size:66 final size:66
Alignment explanation
Indices: 49094107--49094242 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
49094097 GACCACAGTT
* * *
49094107 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAG-TAGATACGGCAGCGAGAGAAG
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCT-GATACGGCAGCCAGAGAAG
49094171 CA
65 CA
* *
49094173 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATACGGCAGCCAGAGAAGC
49094238 A
66 A
49094239 GAGG
1 GAGG
49094243 CTGCAGCGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATACGGCAGCCAGAGAAGC
A
Found at i:49094637 original size:43 final size:43
Alignment explanation
Indices: 49094590--49094679 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
49094580 AACAAAAAAT
*
49094590 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAGCAT-TAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGT-GCTTTAGC
* * * *
49094633 GGCGTTTGTGTTAGAAGTGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGC
49094676 GGCG
1 GGCG
49094680 CTTTTAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGC
Found at i:49098831 original size:4 final size:4
Alignment explanation
Indices: 49098824--49098899 Score: 98
Period size: 4 Copynumber: 18.5 Consensus size: 4
49098814 ATATATATGT
*
49098824 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATTATG
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TA-C
* * *
49098874 TTAT ATAT ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
49098900 TTTTTATAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
4 61 0.94
5 4 0.06
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (4 bp):
ATAC
Found at i:49098891 original size:34 final size:34
Alignment explanation
Indices: 49098824--49098926 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 34
49098814 ATATATATGT
* * *
49098824 ATACATACATACA-TA-CATACATACATACATAC
1 ATACATACATACATTATAATATATATATACATAC
**
49098856 ATACATACATACATTATGTTATATATATACATAC
1 ATACATACATACATTATAATATATATATACATAC
*** *
49098890 ATACATACATTTTTTATAATATATATATACGTAC
1 ATACATACATACATTATAATATATATATACATAC
49098924 ATA
1 ATA
49098927 ATTTTTTAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 13 0.22
33 2 0.03
34 44 0.75
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (34 bp):
ATACATACATACATTATAATATATATATACATAC
Found at i:49098933 original size:30 final size:30
Alignment explanation
Indices: 49098817--49098933 Score: 107
Period size: 30 Copynumber: 4.0 Consensus size: 30
49098807 TTTTGTTATA
* ***
49098817 TATATGTATACATACATACATACA--TACA
1 TATATATATACATACATACATACATTTTTT
* * * *
49098845 TACATACATACATACATACATACATTATGT
1 TATATATATACATACATACATACATTTTTT
49098875 TATATATATACATACATACATACA-TTTTT
1 TATATATATACATACATACATACATTTTTT
* *
49098904 TATAATATATATATACGTACATA-ATTTTTT
1 TAT-ATATATACATACATACATACATTTTTT
49098934 AATTTATTTG
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 21 0.29
29 7 0.10
30 44 0.61
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.40
Consensus pattern (30 bp):
TATATATATACATACATACATACATTTTTT
Found at i:49099071 original size:32 final size:32
Alignment explanation
Indices: 49098988--49099081 Score: 82
Period size: 32 Copynumber: 2.8 Consensus size: 32
49098978 TTTATATATG
*
49098988 TACATATATATACACATACATACATACGTTTTTATAA
1 TACATATATAT--ACATACATATATA---TTTTATAA
* * *
49099025 TACATGTATATACATGCATGTATATTTTATAA
1 TACATATATATACATACATATATATTTTATAA
*
49099057 CT-CATATATGTACATACATATATAT
1 -TACATATATATACATACATATATAT
49099082 GTCTTCTACA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
32 27 0.56
33 1 0.02
35 10 0.21
37 10 0.21
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (32 bp):
TACATATATATACATACATATATATTTTATAA
Found at i:49100242 original size:18 final size:19
Alignment explanation
Indices: 49100199--49100243 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
49100189 AGAACAATGG
*
49100199 TATAATTGTTTTTTAGTCCC
1 TATAATTATTTTTTAGT-CC
*
49100219 TTTAATTATTTTTTAGT-C
1 TATAATTATTTTTTAGTCC
49100237 TATAATT
1 TATAATT
49100244 CAACTTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (19 bp):
TATAATTATTTTTTAGTCC
Found at i:49107906 original size:44 final size:44
Alignment explanation
Indices: 49107753--49107961 Score: 131
Period size: 44 Copynumber: 4.8 Consensus size: 44
49107743 CTTGATGCGA
* * * * * *
49107753 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTT-CTTCAG
* * * * * *** *
49107797 TCCGCTCCACTACAACTTCAGGGAGATAGGA-TTATCGAATTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCT-GCTTCTTCAG
* **
49107841 TCTACTCCACTGCAAGC-TCAGGGAGATAAGATTTGCTTCTTCAG
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGACCTGCTTCTTCAG
** * *
49107885 TCTG-TCCCACTGTGACTTCAGGG-GAAAAAGACCTGCTTTTTCAG
1 TCTGCT-CCACTGCAACTTCAGGGAG-ATAAGACCTGCTTCTTCAG
*
49107929 TCTGCTCCGCTGCAACTTCAGGGAGATAAGACC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACC
49107962 CAATGCGATC
Statistics
Matches: 125, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
43 4 0.03
44 116 0.93
45 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTCTTCAG
Found at i:49108156 original size:44 final size:43
Alignment explanation
Indices: 49108057--49108156 Score: 96
Period size: 44 Copynumber: 2.3 Consensus size: 43
49108047 ATTTCTTTTC
* * *
49108057 TCTGCTTCACTACGGCTTAGGGAGATAAGACTTGTAATTTCCA
1 TCTGCTTCACTGCGGCTCAGGGAGATAAGACTTGTAATTTCAA
* * *
49108100 TCCT-ATTCCACTGCTGGC-CAGGGATATATGACTTGTAATCTTCAA
1 T-CTGCTT-CACTGC-GGCTCAGGGAGATAAGACTTGTAAT-TTCAA
49108145 TCTGCTTCACTG
1 TCTGCTTCACTG
49108157 TCGACACAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
43 3 0.07
44 32 0.71
45 10 0.22
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (43 bp):
TCTGCTTCACTGCGGCTCAGGGAGATAAGACTTGTAATTTCAA
Found at i:49108264 original size:87 final size:87
Alignment explanation
Indices: 49108144--49108843 Score: 958
Period size: 87 Copynumber: 8.1 Consensus size: 87
49108134 GTAATCTTCA
** * * *
49108144 ATCTGCTTCACTGTCGACACAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
* *
49108209 TGGAGGCAAGACTTTATTTT-G
66 TGGAGGCAAGGCTTTGTTTTCG
* * * * * *
49108230 TATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTATATTTAACCAGCACCATTACAACCG
1 -ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
* * *
49108295 ATGGAGGCAAGGCTTTCTTTCCA
65 ATGGAGGCAAGGCTTTGTTTTCG
*
49108318 ATCTGCTTCACTGTTAACGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
* *
49108383 TGGAGGCGAGGCTTTTTTTTCG
66 TGGAGGCAAGGCTTTGTTTTCG
* *
49108405 ATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
* *
49108470 T--AGGTAAGGCTTTGTTTTTG
66 TGGAGGCAAGGCTTTGTTTTCG
* *
49108490 ATCTGCTTCACTATTAACG-AGGAATGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
*
49108554 TAGAGGCAAGGCTTTGTTTTCG
66 TGGAGGCAAGGCTTTGTTTTCG
* * * *
49108576 ATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCCACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
49108641 TGGAGGCAAGGCTTTGTTTTCG
66 TGGAGGCAAGGCTTTGTTTTCG
* ** * * * *
49108663 ATCTGCTTCGCAATTAATGCAGGAAGGCAAGATCTGCTATCTTTAATCAGCTTCACTGCCACCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
*
49108728 TGGAGGTAAGGCTTTGTTTTCG
66 TGGAGGCAAGGCTTTGTTTTCG
* * ** * * *
49108750 ATATGCTTCATTGTTAATACAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAATCGA
1 ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
49108815 TGGAGGCAAGGCTTTGTTTTCG
66 TGGAGGCAAGGCTTTGTTTTCG
49108837 ATCTGCT
1 ATCTGCT
49108844 GATCTGTTCT
Statistics
Matches: 548, Mismatches: 61, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
84 45 0.08
85 31 0.06
86 33 0.06
87 439 0.80
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
ATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGA
TGGAGGCAAGGCTTTGTTTTCG
Found at i:49108801 original size:345 final size:346
Alignment explanation
Indices: 49108170--49108843 Score: 1001
Period size: 345 Copynumber: 1.9 Consensus size: 346
49108160 ACACAGGAGG
*
49108170 GCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTATTTTGTATCT
1 GCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGACTTTATTTTGTATCT
*
49108235 GCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTATATTTAACCAGCACCATTACAACCGATGGA
66 GCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTATATTTAACCAGCACCACTACAACCGATGGA
**
49108300 GGCAAGGCTTTCTTTCCAATCTGCTTCACTGTTAACGCAGGAAGACAAGATCTGCTATCTTTAAC
131 GGCAAGGCTTTCTTTCCAATCTGCTTCACAATTAACGCAGGAAGACAAGATCTGCTATCTTTAAC
* * * * * *
49108365 CAGCTCCACTGCAACCGATGGAGGCGAGGCTTTTTTTTCGATCTGCTTCGCTGTTAATGCAGGAA
196 CAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATATGCTTCACTGTTAATACAAGAA
* * *
49108430 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGAT-AGGTAAGGCTTTGTTTTTGATCT
261 GGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAGGCAAGGCTTTGTTTTCGATCT
49108494 GCTTCACTATTAACGAGGAAT
326 GCTTCACTATTAACGAGGAAT
* * *
49108515 GCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCG-ATC
1 GCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGACTTTATTTT-GTATC
* * * * * * *
49108579 TGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCCACCGATGG
65 TGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTATATTTAACCAGCACCACTACAACCGATGG
* * * * * *
49108644 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCAATTAATGCAGGAAGGCAAGATCTGCTATCTTTAA
130 AGGCAAGGCTTTCTTTCCAATCTGCTTCACAATTAACGCAGGAAGACAAGATCTGCTATCTTTAA
* * * * *
49108709 TCAGCTTCACTGCCACCGATGGAGGTAAGGCTTTGTTTTCGATATGCTTCATTGTTAATACAAGA
195 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATATGCTTCACTGTTAATACAAGA
*
49108774 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAATCGATGGAGGCAAGGCTTTGTTTTCGAT
260 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT-GAGGCAAGGCTTTGTTTTCGAT
49108839 CTGCT
324 CTGCT
49108844 GATCTGTTCT
Statistics
Matches: 291, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
345 266 0.91
346 1 0.00
347 24 0.08
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (346 bp):
GCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGACTTTATTTTGTATCT
GCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTATATTTAACCAGCACCACTACAACCGATGGA
GGCAAGGCTTTCTTTCCAATCTGCTTCACAATTAACGCAGGAAGACAAGATCTGCTATCTTTAAC
CAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATATGCTTCACTGTTAATACAAGAA
GGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAGGCAAGGCTTTGTTTTCGATCT
GCTTCACTATTAACGAGGAAT
Found at i:49110087 original size:13 final size:13
Alignment explanation
Indices: 49110065--49110090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49110055 ATTTTTACTC
49110065 TTTCATTTTTCAT
1 TTTCATTTTTCAT
49110078 TTTCATTTTTCAT
1 TTTCATTTTTCAT
49110091 CATCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCATTTTTCAT
Found at i:49110539 original size:31 final size:30
Alignment explanation
Indices: 49110476--49110567 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 30
49110466 TCTTTTCATA
49110476 TTTT-ATTTTGACTTTGATTGATTTCTCTT
1 TTTTAATTTTGACTTTGATTGATTTCTCTT
** ** *
49110505 TTTTGCTTTTGACTTTGATTTTTCTTTTCTT
1 TTTTAATTTTGACTTTGATTGAT-TTCTCTT
*
49110536 TTTTAATTTTGATTTTGATTGATTT-T-TT
1 TTTTAATTTTGACTTTGATTGATTTCTCTT
49110564 TTTT
1 TTTT
49110568 GAATCTGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 6 0.12
29 5 0.10
30 17 0.33
31 24 0.46
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.71
Consensus pattern (30 bp):
TTTTAATTTTGACTTTGATTGATTTCTCTT
Found at i:49120218 original size:17 final size:17
Alignment explanation
Indices: 49120196--49120238 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
49120186 CCTATGGCTG
*
49120196 CACGAAGATGAAAATCT
1 CACGAAGACGAAAATCT
49120213 CACGAAGACGAAAATCT
1 CACGAAGACGAAAATCT
49120230 CACGAAGAC
1 CACGAAGAC
49120239 ATAGGTACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.12
Consensus pattern (17 bp):
CACGAAGACGAAAATCT
Found at i:49130886 original size:21 final size:20
Alignment explanation
Indices: 49130820--49130886 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
49130810 TTCCTAATTC
49130820 AATCGATTGTTCTCTTTGTTT
1 AATCGATTGTTCTCTTT-TTT
* * * *
49130841 AATAGATTATTCTCTCATTTC
1 AATCGATTGTTCTCT-TTTTT
*
49130862 AATCGATTGTTTTCTTGTTTT
1 AATCGATTGTTCTCTT-TTTT
49130883 AATC
1 AATC
49130887 CTCAGCCACC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
AATCGATTGTTCTCTTTTTT
Found at i:49141141 original size:27 final size:28
Alignment explanation
Indices: 49141083--49141141 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
49141073 TAATCTAATT
49141083 TAATTTAAATATTTTGTTGTTATATTGA
1 TAATTTAAATATTTTGTTGTTATATTGA
49141111 -AATTT-AATATTTTGTAT-TTATATAT-A
1 TAATTTAAATATTTTGT-TGTTATAT-TGA
49141137 TAATT
1 TAATT
49141142 GGAAGATCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (28 bp):
TAATTTAAATATTTTGTTGTTATATTGA
Found at i:49146150 original size:20 final size:20
Alignment explanation
Indices: 49146125--49146174 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
49146115 TGGCTTAAAA
49146125 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
49146145 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
49146162 GTGGTAGTGGATT
1 TTGGTAGTGGATT
49146175 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:49150790 original size:20 final size:20
Alignment explanation
Indices: 49150765--49150814 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
49150755 TGGCTTAAAA
49150765 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
49150785 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
49150802 GTGGTAGTGGATT
1 TTGGTAGTGGATT
49150815 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:49154642 original size:25 final size:27
Alignment explanation
Indices: 49154612--49154662 Score: 79
Period size: 25 Copynumber: 1.9 Consensus size: 27
49154602 AATACAACTG
49154612 AACTAACTA-TAATTA-CTAACTGATC
1 AACTAACTATTAATTATCTAACTGATC
49154637 AACTAACTATTAATTATTCTAACTGA
1 AACTAACTATTAATTA-TCTAACTGA
49154663 CTTCTGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
28 8 0.35
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (27 bp):
AACTAACTATTAATTATCTAACTGATC
Found at i:49157883 original size:16 final size:19
Alignment explanation
Indices: 49157848--49157888 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
49157838 AAAGAGAAGG
49157848 TAAAAGAAAAACATAAAAT
1 TAAAAGAAAAACATAAAAT
49157867 TAAAAG-AAAA-A-AAAAT
1 TAAAAGAAAAACATAAAAT
49157883 TAAAAG
1 TAAAAG
49157889 TTTTTATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 4 0.18
19 6 0.27
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (19 bp):
TAAAAGAAAAACATAAAAT
Found at i:49159853 original size:21 final size:21
Alignment explanation
Indices: 49159823--49159866 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49159813 CGATAGCAGT
*
49159823 AATAAGAC-TTAACAATTTATC
1 AATAAGACTTTAAC-ATTAATC
*
49159844 AATAATACTTTAACATTAATC
1 AATAAGACTTTAACATTAATC
49159865 AA
1 AA
49159867 GTTTAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAAGACTTTAACATTAATC
Found at i:49162873 original size:19 final size:18
Alignment explanation
Indices: 49162851--49162927 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 18
49162841 ATTACAAAAT
49162851 AATTCAAAAAATTTTCAAA
1 AATTCAAAAAATTTT-AAA
* *
49162870 AATTTAAAATAATTTTTAA
1 AATTCAAAA-AATTTTAAA
*
49162889 AATTCAAAATATTTATAAA
1 AATTCAAAAAATTT-TAAA
*
49162908 AATT-ATAAAATTTTTAAA
1 AATTCA-AAAAATTTTAAA
49162926 AA
1 AA
49162928 ATTAAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.23
19 31 0.65
20 6 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTCAAAAAATTTTAAA
Found at i:49162878 original size:18 final size:17
Alignment explanation
Indices: 49162857--49162958 Score: 71
Period size: 19 Copynumber: 5.6 Consensus size: 17
49162847 AAATAATTCA
49162857 AAAAATTTTCAAAAATTT
1 AAAAATTTT-AAAAATTT
* *
49162875 AAAATAATTTTTAAAATTC
1 -AAA-AATTTTAAAAATTT
49162894 AAAATATTTATAAAAATTAT
1 AAAA-ATTT-TAAAAATT-T
* *
49162914 AAAATTTTTAAAAAATT
1 AAAAATTTTAAAAATTT
*
49162931 AAAAA-TATAAAGAATGTT
1 AAAAATTTTAAA-AAT-TT
*
49162949 AAAAAATTTA
1 AAAAATTTTA
49162959 GAATAATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.08
17 8 0.12
18 21 0.32
19 22 0.33
20 10 0.15
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAAATTTTAAAAATTT
Found at i:49162916 original size:27 final size:27
Alignment explanation
Indices: 49162836--49162919 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
49162826 TCTCTCTCAA
* * *
49162836 CAAAAATTACAAAATAATTCAAAAAATTTT
1 CAAAAATT-TAAAATAATTTATAAAA--TT
*
49162866 CAAAAATTTAAAATAATTTTTAAAATT
1 CAAAAATTTAAAATAATTTATAAAATT
49162893 CAAAATATTTATAAA-AA-TTATAAAATT
1 CAAAA-ATTTA-AAATAATTTATAAAATT
49162920 TTTAAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
27 16 0.34
28 7 0.15
29 16 0.34
30 8 0.17
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (27 bp):
CAAAAATTTAAAATAATTTATAAAATT
Found at i:49162928 original size:19 final size:18
Alignment explanation
Indices: 49162857--49162936 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
49162847 AAATAATTCA
* *
49162857 AAAAATTTTCAAAAATTT
1 AAAAATTTTTAAAAAATT
49162875 AAAATAATTTTT--AAAATT
1 -AAA-AATTTTTAAAAAATT
* *
49162893 CAAAATATTTATAAAAATT
1 AAAAATTTTTA-AAAAATT
49162912 ATAAAATTTTTAAAAAATT
1 A-AAAATTTTTAAAAAATT
49162931 AAAAAT
1 AAAAAT
49162937 ATAAAGAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.12
17 2 0.04
18 10 0.20
19 17 0.34
20 15 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTTTTAAAAAATT
Found at i:49162929 original size:38 final size:38
Alignment explanation
Indices: 49162846--49162938 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 38
49162836 CAAAAATTAC
*
49162846 AAAATAATTCAAAAAATTTTCAAAAATTTAAAATAATTTT
1 AAAA-AATTCAAAATATTTTCAAAAATTTAAAAT-ATTTT
*
49162886 -TAAAATTCAAAATATTTAT-AAAAATTATAAAAT-TTTT
1 AAAAAATTCAAAATATTT-TCAAAAATT-TAAAATATTTT
*
49162923 AAAAAATTAAAAATAT
1 AAAAAATTCAAAATAT
49162939 AAAGAATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
37 4 0.09
38 33 0.72
39 9 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (38 bp):
AAAAAATTCAAAATATTTTCAAAAATTTAAAATATTTT
Found at i:49162950 original size:26 final size:26
Alignment explanation
Indices: 49162904--49162956 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
49162894 AAAATATTTA
* *
49162904 TAAAAATTATAAAATTTTTAAAAAAT
1 TAAAAATTATAAAAATGTTAAAAAAT
49162930 TAAAAA-TATAAAGAATGTTAAAAAAT
1 TAAAAATTATAAA-AATGTTAAAAAAT
49162956 T
1 T
49162957 TAGAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (26 bp):
TAAAAATTATAAAAATGTTAAAAAAT
Found at i:49165849 original size:17 final size:16
Alignment explanation
Indices: 49165795--49165850 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
49165785 TAATCTAATA
49165795 AAATAATTACATGTAAA-
1 AAATAA-TACAT-TAAAT
*
49165812 AAATAATAAATTAAAT
1 AAATAATACATTAAAT
49165828 AAATAATACATTAAATT
1 AAATAATACATTAAA-T
49165845 AAATAA
1 AAATAA
49165851 ATAACTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 4 0.11
16 18 0.51
17 13 0.37
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAATACATTAAAT
Found at i:49165919 original size:17 final size:17
Alignment explanation
Indices: 49165894--49165931 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
49165884 ATCTAAAAAT
*
49165894 AAATAAACTCAGTAGAA
1 AAATAAACTCAATAGAA
*
49165911 AAATGAACTCAATAGAA
1 AAATAAACTCAATAGAA
49165928 AAAT
1 AAAT
49165932 TTCTCATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATAAACTCAATAGAA
Found at i:49173592 original size:84 final size:85
Alignment explanation
Indices: 49173441--49173596 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 85
49173431 TTCGTTTTTA
* * * *
49173441 TTTCTCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTATTGAGC
1 TTTCTCGTTTAGCTCTCACAAGCTTCCGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGC
49173506 TTCTGTTTAACCCTTATGGG
66 TTCTGTTTAACCCTTATGGG
* * * *
49173526 TTTC-CGTTTAGCTCTTACAAGCTTCCGTTCAACCCTTATG-GGTTTCTGTTTAGCTCTCA-TGA
1 TTTCTCGTTTAGCTCTCACAAGCTTCCGTTCAACCCATATGAGTTTTC-GTTCAGCTCT-ATTGA
49173588 GCTTCTGTT
64 GCTTCTGTT
49173597 CAGCCTTCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
83 5 0.08
84 51 0.84
85 5 0.08
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (85 bp):
TTTCTCGTTTAGCTCTCACAAGCTTCCGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGC
TTCTGTTTAACCCTTATGGG
Found at i:49173595 original size:21 final size:21
Alignment explanation
Indices: 49173442--49173596 Score: 89
Period size: 21 Copynumber: 7.3 Consensus size: 21
49173432 TCGTTTTTAT
* *
49173442 TTCTCGTTTAGCTCTCACGAGC
1 TTCT-GTTTAGCTCTTATGAGC
* *
49173464 TTCTGTTTAACTCATATGAG-
1 TTCTGTTTAGCTCTTATGAGC
* *
49173484 TTTTCGTTCAGCTC-TATTGAGC
1 TTCT-GTTTAGCTCTTA-TGAGC
* * * *
49173506 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
* **
49173527 TTCCGTTTAGCTCTTACAAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * * * *
49173548 TTCCGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
*
49173569 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
49173590 TTCTGTT
1 TTCTGTT
49173597 CAGCCTTCGG
Statistics
Matches: 95, Mismatches: 34, Indels: 9
0.69 0.25 0.07
Matches are distributed among these distances:
20 5 0.05
21 81 0.85
22 9 0.09
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:49173598 original size:42 final size:43
Alignment explanation
Indices: 49173441--49173598 Score: 180
Period size: 42 Copynumber: 3.7 Consensus size: 43
49173431 TTCGTTTTTA
* * * *
49173441 TTTCTCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
* * *
49173484 TTT-TCGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTCGTTTAGCTCTCA-CGAGCTTCTGTTCAACCCTTATGGG
* * *
49173526 TTTC-CGTTTAGCTCTTACAAGCTTCCGTTCAACCCTTATGGG
1 TTTCTCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
*
49173568 TTTCT-GTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTCGTTTAGCTCTCACGAGCTTCTGTTCA
49173599 GCCTTCGGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 92 0.95
43 4 0.04
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (43 bp):
TTTCTCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
Found at i:49174799 original size:9 final size:9
Alignment explanation
Indices: 49174782--49174848 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
49174772 GTAGTGATTC
49174782 AATTCGGTT
1 AATTCGGTT
*
49174791 AATTTGGTT
1 AATTCGGTT
* *
49174800 AAGTCGGGT
1 AATTCGGTT
49174809 AATTCGGTT
1 AATTCGGTT
*
49174818 AATTCGGGT
1 AATTCGGTT
49174827 AA-TCTGGTT
1 AATTC-GGTT
49174836 AATTCGGTT
1 AATTCGGTT
49174845 AATT
1 AATT
49174849 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 44 0.92
10 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49174811 original size:18 final size:18
Alignment explanation
Indices: 49174782--49174849 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
49174772 GTAGTGATTC
*
49174782 AATTCGGTTAATTTGGTT
1 AATTCGGGTAATTTGGTT
* *
49174800 AAGTCGGGTAATTCGGTT
1 AATTCGGGTAATTTGGTT
*
49174818 AATTCGGGTAATCTGGTT
1 AATTCGGGTAATTTGGTT
*
49174836 AATTCGGTTAATTT
1 AATTCGGGTAATTT
49174850 TTAACCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (18 bp):
AATTCGGGTAATTTGGTT
Found at i:49174814 original size:27 final size:27
Alignment explanation
Indices: 49174782--49174849 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
49174772 GTAGTGATTC
*
49174782 AATTCGGTTAATTTGGTTAAGTC-GGGT
1 AATTCGGTTAATTTGGGTAA-TCTGGGT
* *
49174809 AATTCGGTTAATTCGGGTAATCTGGTT
1 AATTCGGTTAATTTGGGTAATCTGGGT
49174836 AATTCGGTTAATTT
1 AATTCGGTTAATTT
49174850 TTAACCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTTGGGTAATCTGGGT
Found at i:49175566 original size:27 final size:27
Alignment explanation
Indices: 49175516--49175594 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
49175506 AAATATATTT
**
49175516 ATTTTTTTAATTTTTTTAAT-TTTTTTA
1 ATTTTTTTAA-TTTTAAAATATTTTTTA
*
49175543 ATTTTTTTAATTTTAAAATATTTTTTT
1 ATTTTTTTAATTTTAAAATATTTTTTA
49175570 ATTTTTTT-ATTTTAAAAATATTTTT
1 ATTTTTTTAATTTT-AAAATATTTTT
49175595 AAAATTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 12 0.26
27 35 0.74
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (27 bp):
ATTTTTTTAATTTTAAAATATTTTTTA
Found at i:49175572 original size:8 final size:9
Alignment explanation
Indices: 49175516--49175582 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
49175506 AAATATATTT
49175516 ATTTTTTTA
1 ATTTTTTTA
49175525 ATTTTTTTA
1 ATTTTTTTA
49175534 ATTTTTTTA
1 ATTTTTTTA
49175543 ATTTTTTTA
1 ATTTTTTTA
**
49175552 A-TTTTAAA
1 ATTTTTTTA
*
49175560 ATATTTTTTT
1 AT-TTTTTTA
49175570 ATTTTTTT-
1 ATTTTTTTA
49175578 ATTTT
1 ATTTT
49175583 AAAAATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
8 11 0.22
9 34 0.67
10 6 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:49175583 original size:26 final size:29
Alignment explanation
Indices: 49175534--49175594 Score: 101
Period size: 27 Copynumber: 2.2 Consensus size: 29
49175524 AATTTTTTTA
49175534 ATTTTTTTAATTTTTTTAATTTT-AAAAT
1 ATTTTTTTAATTTTTTTAATTTTAAAAAT
49175562 ATTTTTTT-ATTTTTTT-ATTTTAAAAAT
1 ATTTTTTTAATTTTTTTAATTTTAAAAAT
49175589 ATTTTT
1 ATTTTT
49175595 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 5 0.16
27 19 0.59
28 8 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
ATTTTTTTAATTTTTTTAATTTTAAAAAT
Found at i:49175626 original size:12 final size:11
Alignment explanation
Indices: 49175577--49175659 Score: 61
Period size: 11 Copynumber: 7.9 Consensus size: 11
49175567 TTTATTTTTT
49175577 TATTTTAAAAA
1 TATTTTAAAAA
*
49175588 TATTTT-TAAA
1 TATTTTAAAAA
49175598 -A-TTTAAAAA
1 TATTTTAAAAA
*
49175607 -A-ATTAAAAA
1 TATTTTAAAAA
49175616 GTATTTTAAAAA
1 -TATTTTAAAAA
*
49175628 TATTTTTAAAA
1 TATTTTAAAAA
**
49175639 TACTTTTTTAAA
1 TA-TTTTAAAAA
49175651 T-TTTTAAAA
1 TATTTTAAAA
49175660 TAAAATTTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.05
9 12 0.20
10 9 0.15
11 19 0.32
12 16 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:49175668 original size:21 final size:21
Alignment explanation
Indices: 49175629--49175668 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49175619 TTTTAAAAAT
***
49175629 ATTTTTAAAATACTTTTTTAA
1 ATTTTTAAAATAAAATTTTAA
49175650 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
49175669 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTAA
Found at i:49184045 original size:15 final size:15
Alignment explanation
Indices: 49184004--49184046 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
49183994 AATAGACAAT
*
49184004 AAAAGTAAGAGAAAGG
1 AAAAGAAAG-GAAAGG
*
49184020 AAAGGAAAGGAAAGG
1 AAAAGAAAGGAAAGG
*
49184035 AAAAGAGAGGAA
1 AAAAGAAAGGAA
49184047 GCTTGTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGGAAAGG
Found at i:49186711 original size:13 final size:12
Alignment explanation
Indices: 49186680--49186714 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
49186670 TGGGCCAATT
*
49186680 TTTAAAGGAAAA
1 TTTAAAAGAAAA
49186692 TTTAAAAGAAAA
1 TTTAAAAGAAAA
49186704 TTTAAAA-AAAA
1 TTTAAAAGAAAA
49186715 AAAAAACGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (12 bp):
TTTAAAAGAAAA
Found at i:49187262 original size:13 final size:13
Alignment explanation
Indices: 49187244--49187268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49187234 ATTAGAAGAT
49187244 AAAAAATATTTTC
1 AAAAAATATTTTC
49187257 AAAAAATATTTT
1 AAAAAATATTTT
49187269 TATTTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTC
Found at i:49191100 original size:21 final size:22
Alignment explanation
Indices: 49191074--49191128 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
49191064 AACAACGGTG
*
49191074 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATAATGTA
49191095 GCGGTGAGATT-GGATAATGTA
1 GCGGTGAGATTAGGATAATGTA
*
49191116 GCAGTGAGATTAG
1 GCGGTGAGATTAG
49191129 AAACAGCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATAATGTA
Found at i:49191289 original size:13 final size:13
Alignment explanation
Indices: 49191271--49191295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49191261 AAATTAATAA
49191271 ATTATTAAATATT
1 ATTATTAAATATT
49191284 ATTATTAAATAT
1 ATTATTAAATAT
49191296 AATTTAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATTAAATATT
Found at i:49191338 original size:19 final size:18
Alignment explanation
Indices: 49191292--49191330 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
49191282 TTATTATTAA
49191292 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
49191310 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
49191327 ATAT
1 ATAT
49191331 TGAATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:49191344 original size:19 final size:16
Alignment explanation
Indices: 49191292--49191345 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 16
49191282 TTATTATTAA
49191292 ATATAATTTAATAAAAAT
1 ATATAATTT-A-AAAAAT
49191310 ATATAATTTAATAAAAT
1 ATATAATTTAA-AAAAT
49191327 ATATTGAATTTACAAAAAT
1 ATA-T-AATTTA-AAAAAT
49191346 TCAATCACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 10 0.31
19 11 0.34
20 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATATAATTTAAAAAAT
Found at i:49192932 original size:14 final size:15
Alignment explanation
Indices: 49192913--49192941 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49192903 CTGCTGAATG
49192913 AAAAATTTTG-CATT
1 AAAAATTTTGTCATT
49192927 AAAAATTTTGTCATT
1 AAAAATTTTGTCATT
49192942 TTTTTGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
AAAAATTTTGTCATT
Found at i:49196698 original size:33 final size:33
Alignment explanation
Indices: 49196661--49196730 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
49196651 TTAGTTTCAA
*
49196661 AAAATACAATAAATTATTTTAAATTTTAGAAAC
1 AAAATACAATAAATTATTTTAAATTTCAGAAAC
**
49196694 AAAATACGGTAAATTATTTTAAATTTCAGAAAC
1 AAAATACAATAAATTATTTTAAATTTCAGAAAC
49196727 AAAA
1 AAAA
49196731 CACGGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (33 bp):
AAAATACAATAAATTATTTTAAATTTCAGAAAC
Found at i:49196736 original size:33 final size:33
Alignment explanation
Indices: 49196670--49196740 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
49196660 AAAAATACAA
* *
49196670 TAAATTATTTTAAATTTTAGAAACAAAATACGG
1 TAAATTATTTTAAATTTCAGAAACAAAACACGG
49196703 TAAATTATTTTAAATTTCAGAAACAAAACACGG
1 TAAATTATTTTAAATTTCAGAAACAAAACACGG
49196736 TAAAT
1 TAAAT
49196741 ATCTAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (33 bp):
TAAATTATTTTAAATTTCAGAAACAAAACACGG
Found at i:49196752 original size:33 final size:33
Alignment explanation
Indices: 49196670--49196753 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
49196660 AAAAATACAA
* * * *
49196670 TAAATTATTTTAAATTTTAGAAACAAAATACGG
1 TAAATTATCTAAAATTTCAGAAACAAAACACGG
* *
49196703 TAAATTATTTTAAATTTCAGAAACAAAACACGG
1 TAAATTATCTAAAATTTCAGAAACAAAACACGG
49196736 TAAA-TATCTAATAATTTC
1 TAAATTATCTAA-AATTTC
49196754 TCATAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 5 0.11
33 41 0.89
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (33 bp):
TAAATTATCTAAAATTTCAGAAACAAAACACGG
Found at i:49196975 original size:17 final size:17
Alignment explanation
Indices: 49196953--49196985 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49196943 TAAATCAGTA
*
49196953 AAAAAAATTAAATAAAT
1 AAAAAAATCAAATAAAT
49196970 AAAAAAATCAAATAAA
1 AAAAAAATCAAATAAA
49196986 ATTACATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAATCAAATAAAT
Found at i:49197940 original size:60 final size:60
Alignment explanation
Indices: 49197873--49197991 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
49197863 ATACTAAACT
* * *
49197873 AAACACAACAATTTATAACTTAATCCTAAACTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAACTACTAACAAATTAATTTTAAAATAATTAC
*
49197933 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAACTACTAACAAATTAATTTTAAAATAATTA
49197992 TAAAAAGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAACTACTAACAAATTAATTTTAAAATAATTAC
Found at i:49198592 original size:25 final size:25
Alignment explanation
Indices: 49198526--49198593 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
49198516 ATATATATTT
49198526 AAATA-TTTTTAATA-AAAATAAAA
1 AAATATTTTTTAATATAAAATAAAA
* * *
49198549 AATTAATATTTT-ATTTAAACA-AAAA
1 AAAT-ATTTTTTAATATAAA-ATAAAA
49198574 AAATATTTTTTAATATAAAA
1 AAATATTTTTTAATATAAAA
49198594 ATTTGATTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
23 3 0.09
24 10 0.29
25 20 0.59
26 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATATTTTTTAATATAAAATAAAA
Found at i:49198639 original size:36 final size:36
Alignment explanation
Indices: 49198599--49198667 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
49198589 TAAAAATTTG
*
49198599 ATTCGTGCCTGTTAGATAGGCGCGATTAAAAAACGT
1 ATTCGTGCCTGTTAGATAGGCACGATTAAAAAACGT
49198635 ATTCGTGCCTGTTAGATAGGCACGATTAAAAAA
1 ATTCGTGCCTGTTAGATAGGCACGATTAAAAAA
49198668 ATGTACCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
ATTCGTGCCTGTTAGATAGGCACGATTAAAAAACGT
Found at i:49201227 original size:22 final size:22
Alignment explanation
Indices: 49201199--49201241 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49201189 CGTTACATCT
49201199 ATACATTACCATTCAACCAAAA
1 ATACATTACCATTCAACCAAAA
*
49201221 ATACATTACCGTTCAACCAAA
1 ATACATTACCATTCAACCAAA
49201242 GCCACATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (22 bp):
ATACATTACCATTCAACCAAAA
Found at i:49203724 original size:21 final size:21
Alignment explanation
Indices: 49203687--49203733 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
49203677 TTTCCTCTTC
*
49203687 AAAAATTTTAAATTCAACA-A
1 AAAAATTTTAAAATCAACAGA
*
49203707 AAAAATTTTAAAAATCAAGAGA
1 AAAAATTTT-AAAATCAACAGA
49203729 AAAAA
1 AAAAA
49203734 ATCTAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 8 0.35
22 6 0.26
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAATTTTAAAATCAACAGA
Found at i:49204236 original size:16 final size:16
Alignment explanation
Indices: 49204215--49204248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49204205 ATTTAAGTTT
*
49204215 ATTATAATGTTTTTAA
1 ATTATAATGTTATTAA
*
49204231 ATTATAGTGTTATTAA
1 ATTATAATGTTATTAA
49204247 AT
1 AT
49204249 GAATATTTTT
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:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
ATTATAATGTTATTAA
Found at i:49206071 original size:17 final size:19
Alignment explanation
Indices: 49206049--49206084 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
49206039 ACATTATTAG
49206049 GAAAAT-ATTTT-AATTTT
1 GAAAATAATTTTAAATTTT
49206066 GAAAATAATTTTAAATTTT
1 GAAAATAATTTTAAATTTT
49206085 TTTAATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
GAAAATAATTTTAAATTTT
Found at i:49206219 original size:20 final size:21
Alignment explanation
Indices: 49206196--49206240 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
49206186 AATATGAGAA
*
49206196 AAAAATA-TTAAATATATAAT
1 AAAAATAGTTAAATATAAAAT
*
49206216 -AAAATAGTTAGATATAAAAT
1 AAAAATAGTTAAATATAAAAT
49206236 AAAAA
1 AAAAA
49206241 AATAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAAATAGTTAAATATAAAAT
Found at i:49215721 original size:91 final size:91
Alignment explanation
Indices: 49215610--49215782 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 91
49215600 CAAGTATCAT
* * * *
49215610 AATAATACACATATAGATAGTTCAT-GTACCACATT-AATATTTTTCAAAGTATAAGTACCAAAT
1 AATAATACACAAATAGATAGTT-ATAGTACCACATTGAACA-TTTTCAAAGTACAAGCACCAAAT
49215673 TGAACATATTATAAAAGTATAACTACCA
64 TGAACATATTATAAAAGTATAACTACCA
* * **
49215701 AATAATACACAAATTGATAGTTTTAGTACCACATTGGGCATTTTCAAAGTACAAGCACCAAATTG
1 AATAATACACAAATAGATAGTTATAGTACCACATTGAACATTTTCAAAGTACAAGCACCAAATTG
* *
49215766 GACATTTTATAAAAGTA
66 AACATATTATAAAAGTA
49215783 CAGATGCCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 1 0.01
91 68 0.97
92 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (91 bp):
AATAATACACAAATAGATAGTTATAGTACCACATTGAACATTTTCAAAGTACAAGCACCAAATTG
AACATATTATAAAAGTATAACTACCA
Found at i:49221713 original size:19 final size:19
Alignment explanation
Indices: 49221689--49221726 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49221679 TTTAAAACAA
* *
49221689 ATTAAATTATCAATAATTT
1 ATTAAAATATAAATAATTT
49221708 ATTAAAATATAAATAATTT
1 ATTAAAATATAAATAATTT
49221727 CTTTTCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAAATATAAATAATTT
Found at i:49224961 original size:25 final size:25
Alignment explanation
Indices: 49224907--49224961 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
49224897 GGCCCGGCCC
* * *
49224907 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAA-T
49224933 ATTTTAAAAATAAAAAAATAAAAAA-
1 ATTTTAAAAAT-AAAAAATAAAAAAT
49224958 ATTT
1 ATTT
49224962 ATTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTTAAAAATAAAAAATAAAAAAT
Found at i:49224970 original size:28 final size:25
Alignment explanation
Indices: 49224909--49224970 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 25
49224899 CCCGGCCCAT
* *
49224909 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
49224934 TTTTAAAAATAAAAAAATAAAAAAATTTA
1 TTTT-AAAAT--AAAAATAAAAAAA-TTA
49224963 TTTTAAAA
1 TTTTAAAA
49224971 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
28 15 0.48
29 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:49225005 original size:40 final size:41
Alignment explanation
Indices: 49224913--49225006 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 41
49224903 GCCCATTTTT
* * *
49224913 AAAATAAACATTAAAAAATTATTTTAAAAATAAAAAAATAA
1 AAAATAAATATTTAAAAAGTATTTTAAAAATAAAAAAATAA
** *
49224954 AAAA-ATTTATTTTAAAAGTATTTTAAAAAT-AAAAAATAA
1 AAAATAAATATTTAAAAAGTATTTTAAAAATAAAAAAATAA
49224993 AAAATAAATATTTA
1 AAAATAAATATTTA
49225007 TTATATTCGA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
39 13 0.30
40 26 0.60
41 4 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (41 bp):
AAAATAAATATTTAAAAAGTATTTTAAAAATAAAAAAATAA
Found at i:49225458 original size:15 final size:16
Alignment explanation
Indices: 49225434--49225467 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
49225424 TAACCACGTC
49225434 ATTGTCATTATCAT-T
1 ATTGTCATTATCATCT
*
49225449 ATTGTTATTATCATCT
1 ATTGTCATTATCATCT
49225465 ATT
1 ATT
49225468 TGTGTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTGTCATTATCATCT
Found at i:49231741 original size:94 final size:94
Alignment explanation
Indices: 49231478--49231982 Score: 453
Period size: 92 Copynumber: 5.5 Consensus size: 94
49231468 TAATAGATTG
* * ** * ** *
49231478 GATTGCAGCTATAAATCCCGTACCCCTAAAGTTGCAGTGGGTCGGATT-AATTCTACCATAGTAA
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAA-TCTACCATAGCAA
** *
49231542 ATCTTATCTCTATGAA-TTGTAGTGGAGCA
65 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * * **
49231571 TATTGAAGCTACAAATCCTATACCCCTG-AGTTGTAGTAGGTC-----GGATGTACCATAGTGAA
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCAAA
* * *
49231630 TCTTATCTCCCTAAAGTTACAGTGAAGCA
66 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * * *
49231659 GATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAATGGGCCAAGTTGAATCTACCATAGCAAA
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCAAA
49231724 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * *
49231753 AATTGAAGCTATAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAAC-A-AAT-GACAA
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAATCTACCATAG-CAA
* **
49231815 ATCTTATCTCCTTGAAGTTATAGTGGAGCAA
65 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-A
* * * * * * *
49231846 GA-TAAAGCTACAAGTCCTATACCTCTGAAGTTGCAGTGGGTCAAAATGAAACTA-CAAATGACG
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAATCTACCATA-G-CA
*
49231909 AATCTTATCTCCCTGAAATTGCAGTGGAGCAA
64 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-A
* *
49231941 GA-TGAAACTACAAATCCTATACCCTTGAAGTTGCAGTGGGTC
1 GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTC
49231983 GGATTGAAAC
Statistics
Matches: 338, Mismatches: 61, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
87 24 0.07
88 36 0.11
89 11 0.03
91 1 0.00
92 89 0.26
93 27 0.08
94 82 0.24
95 68 0.20
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (94 bp):
GATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCAAA
TCTTATCTCCCTGAAGTTGCAGTGGAGCA
Found at i:49231784 original size:44 final size:43
Alignment explanation
Indices: 49231734--49231979 Score: 171
Period size: 44 Copynumber: 5.3 Consensus size: 43
49231724 TCTTATCTCC
* *
49231734 CTGAAGTTGCAGTGGAGCAAATTGAAGCTATAAATCCTATACCT
1 CTGAAGTTGCAGTGGAGCAAA-TGAAACTACAAATCCTATACCT
* *
49231778 CTGAAGTTGCAGTGG-GTCAAATTGAAACAAATGACAAATCTTATCTCCT
1 CTGAAGTTGCAGTGGAG-CAAA-TGAAAC---T-ACAAATCCTAT-ACCT
** *
49231827 -TGAAGTTATAGTGGAGCAAGAT-AAAGCTACAAGTCCTATACCT
1 CTGAAGTTGCAGTGGAGCAA-ATGAAA-CTACAAATCCTATACCT
*
49231870 CTGAAGTTGCAGTGG-GTCAAAATGAAACTACAAATGACGAATCT-TATCTCC
1 CTGAAGTTGCAGTGGAG-C-AAATGAAACTACAAAT--C----CTATA-C-CT
*
49231921 CTGAAATTGCAGTGGAGCAAGATGAAACTACAAATCCTATACC-
1 CTGAAGTTGCAGTGGAGCAA-ATGAAACTACAAATCCTATACCT
49231964 CTTGAAGTTGCAGTGG
1 C-TGAAGTTGCAGTGG
49231980 GTCGGATTGA
Statistics
Matches: 162, Mismatches: 15, Indels: 50
0.71 0.07 0.22
Matches are distributed among these distances:
43 6 0.04
44 70 0.43
45 9 0.06
46 3 0.02
47 4 0.02
48 26 0.16
49 8 0.05
50 5 0.03
51 30 0.19
52 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAAATGAAACTACAAATCCTATACCT
Found at i:49231934 original size:187 final size:183
Alignment explanation
Indices: 49231530--49231992 Score: 490
Period size: 187 Copynumber: 2.5 Consensus size: 183
49231520 CGGATTAATT
* * ** * *
49231530 CTACCATAGTAAATCTTATCTCTATG-AATTGTAGTGGAGCATATTGAAGCTACAAATCCTATAC
1 CTACAATAGCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAATTGAAGCTACAAATCCTATA-
* * * * *
49231594 CCCTG-AGTTGTAGTAGGTCGGA-TGTACCATAGTGAATCTTATCTCCCTAAAGTTACAGTGAAG
65 CCCTGAAGTTGCAGTGGGTCGGATTGAAACATAATGAATCTTATCTCCCTAAAGTTACAGTGAAG
* * * ** *
49231657 CAGATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAATGGGCCAAGTTGAAT
130 CAGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGCCAAAATGAAA
* * *
49231711 CTACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATAAATCCTATAC
1 CTACAATAGCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAATTGAAGCTACAAATCCTATAC
** * * *
49231776 CTCTGAAGTTGCAGTGGGTCAAATTGAAACA-AATGACAAATCTTATCTCCTTGAAGTTATAGTG
66 C-CTGAAGTTGCAGTGGGTCGGATTGAAACATAATG---AATCTTATCTCCCTAAAGTTACAGTG
* * * * * *
49231840 GAGCAAGA-TAAAGCTACAAGTCCTATACCTCTGAAGTTGCAGTGGGTCAAAATGAAA
127 AAGC-AGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGCCAAAATGAAA
* *
49231897 CTACAA-ATGACGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA-TGAAACTACAAATCCTA
1 CTACAATA-G-CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAA-ATTGAAGCTACAAATCCTA
49231960 TACCCTTGAAGTTGCAGTGGGTCGGATTGAAAC
63 TACCC-TGAAGTTGCAGTGGGTCGGATTGAAAC
49231993 TACAATGGTG
Statistics
Matches: 234, Mismatches: 36, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
181 25 0.11
182 36 0.15
183 16 0.07
184 5 0.02
185 1 0.00
186 71 0.30
187 79 0.34
188 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (183 bp):
CTACAATAGCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAATTGAAGCTACAAATCCTATAC
CCTGAAGTTGCAGTGGGTCGGATTGAAACATAATGAATCTTATCTCCCTAAAGTTACAGTGAAGC
AGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGCCAAAATGAAA
Found at i:49231952 original size:95 final size:95
Alignment explanation
Indices: 49231627--49232013 Score: 416
Period size: 94 Copynumber: 4.1 Consensus size: 95
49231617 GTACCATAGT
* * * * *
49231627 GAATCTTATCTCCCT-AAAGTTACAGTGAAGC-AGATTGAAGCTACAAATCTTATACCCCTAAAG
1 GAATCTTATCTCCCTGAAA-TTACAGTGGAGCAAGATTGAAACTACAAATCCTATACCTCTGAAG
* * * * * *
49231690 TTGTAATGGGCCAAGTTGAATCTACCAT-AGC
65 TTGCAGTGGGTCAAATTGAAACTACAATGA-C
* * * * *
49231721 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTGAAGCTATAAATCCTATACCTCTGAAGT
1 GAATCTTATCTCCCTGAAATTACAGTGGAGCAAGATTGAAACTACAAATCCTATACCTCTGAAGT
49231785 TGCAGTGGGTCAAATTGAAAC-A-AATGAC
66 TGCAGTGGGTCAAATTGAAACTACAATGAC
* * * * *
49231813 AAATCTTATCTCCTTGAAGTTATAGTGGAGCAAGA-T-AAAGCTACAAGTCCTATACCTCTGAAG
1 GAATCTTATCTCCCTGAAATTACAGTGGAGCAAGATTGAAA-CTACAAATCCTATACCTCTGAAG
*
49231876 TTGCAGTGGGTCAAAATGAAACTACAAATGAC
65 TTGCAGTGGGTCAAATTGAAACTAC-AATGAC
*
49231908 GAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA-TGAAACTACAAATCCTATACC-CTTGAAG
1 GAATCTTATCTCCCTGAAATTACAGTGGAGCAAGATTGAAACTACAAATCCTATACCTC-TGAAG
** **
49231971 TTGCAGTGGGTCGGATTGAAACTACAATGGT
65 TTGCAGTGGGTCAAATTGAAACTACAATGAC
49232002 GAATCTTATCTC
1 GAATCTTATCTC
49232014 TTTCAACTCT
Statistics
Matches: 251, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
91 2 0.01
92 76 0.30
93 4 0.02
94 84 0.33
95 82 0.33
96 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (95 bp):
GAATCTTATCTCCCTGAAATTACAGTGGAGCAAGATTGAAACTACAAATCCTATACCTCTGAAGT
TGCAGTGGGTCAAATTGAAACTACAATGAC
Found at i:49236914 original size:23 final size:23
Alignment explanation
Indices: 49236883--49236933 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
49236873 ACCTACTTTC
*
49236883 TTACTGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
*
49236906 TTACAGTAGTTATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
49236929 TTACA
1 TTACA
49236934 CTTGATGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:49237278 original size:21 final size:20
Alignment explanation
Indices: 49237252--49237349 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 20
49237242 GAATCCCGAA
49237252 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGC-CATAAG
* * *
49237273 TGCTAAACAAAAACCCATAAG
1 GGCTAAAC-AGAAGCCATAAG
* * *
49237294 GGTTGAATAGAAGCTCATAAG
1 GGCTAAACAGAAGC-CATAAG
* * *
49237315 AGCTGAACAGAAACCTATAAG
1 GGCTAAACAGAAGCC-ATAAG
*
49237336 GGTTAAACAGAAGC
1 GGCTAAACAGAAGC
49237350 TCAAAAGAGC
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
20 5 0.09
21 48 0.84
22 4 0.07
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (20 bp):
GGCTAAACAGAAGCCATAAG
Found at i:49237329 original size:42 final size:42
Alignment explanation
Indices: 49237257--49237385 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 42
49237247 CCGAAGGCTA
* * * *
49237257 AACAGAAGCACATAAGTGCTAAACAAAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTG
* * *
49237299 AATAGAAGCTCATAAGAGCTGAACAGAAACCTATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTG
* * * *
49237341 AACAGAAGCTCAAAAGAGCTGATCGGAAACCCATTAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTG
49237383 AAC
1 AAC
49237386 GAAAACTCAT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTG
Found at i:49237632 original size:45 final size:45
Alignment explanation
Indices: 49237577--49237669 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
49237567 CTTCAAATTC
* * *
49237577 ATAATTTAACAATATTCCATTTTTCAACAACATGCTAAATACATA
1 ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
*
49237622 ATAATCTAACAATATTACATTTTTCAACAACATATTAAATACATA
1 ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
49237667 ATA
1 ATA
49237670 TCATTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.35
Consensus pattern (45 bp):
ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
Found at i:49241235 original size:16 final size:16
Alignment explanation
Indices: 49241212--49241267 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
49241202 CGTTTGGTTC
49241212 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* * *
49241228 GATGTAATTGAATAAA
1 GCTGTAATGGAATAGA
49241244 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49241260 GCTGTAAT
1 GCTGTAAT
49241268 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:49241339 original size:44 final size:46
Alignment explanation
Indices: 49241249--49241343 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
49241239 ATAAAGCTGT
* * *
49241249 AATGGAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAGCTGCAATAAGTAATTCAATTGTTTAGTTGAATGG
*
49241295 AATGAAATAGAGCTGCAATAA-T-ATTC-TTGTGTTTAGTTGAATGG
1 AATGAAATAGAGCTGCAATAAGTAATTCAAT-TGTTTAGTTGAATGG
49241339 AATGA
1 AATGA
49241344 TGTTGTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 1 0.02
46 19 0.43
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (46 bp):
AATGAAATAGAGCTGCAATAAGTAATTCAATTGTTTAGTTGAATGG
Found at i:49243840 original size:4 final size:4
Alignment explanation
Indices: 49243833--49243859 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49243823 CATGCATATA
49243833 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
49243860 ATTGCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:49245894 original size:32 final size:34
Alignment explanation
Indices: 49245831--49245894 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
49245821 TCTAATAATT
* *
49245831 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
49245865 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
49245895 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:49246786 original size:22 final size:21
Alignment explanation
Indices: 49246759--49246850 Score: 71
Period size: 23 Copynumber: 4.1 Consensus size: 21
49246749 AAATTGTTGC
*
49246759 ATTTGTTTTGATATTGTTCTTG
1 ATTTGTTTTGAAATTGTT-TTG
*
49246781 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTTTGAAATTGTTTTG
*
49246802 A-TTGTTTGCTGGAAATTGTTATG
1 ATTTGTTT--T-GAAATTGTTTTG
*
49246825 A-TTGTCTGCTGGAAATTGTTTTG
1 ATTTGT-T--TTGAAATTGTTTTG
49246848 ATT
1 ATT
49246851 GTCTGCTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.09
21 4 0.07
22 17 0.30
23 28 0.49
24 2 0.04
26 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.22, T:0.54
Consensus pattern (21 bp):
ATTTGTTTTGAAATTGTTTTG
Found at i:49246818 original size:23 final size:23
Alignment explanation
Indices: 49246790--49246865 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
49246780 GATTTGTTCT
*
49246790 GAAATTGTTTTGATTGTTTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
49246813 GAAATTGTTATGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
49246836 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
49246859 GAAATTG
1 GAAATTG
49246866 AATTTGTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:49247668 original size:85 final size:85
Alignment explanation
Indices: 49247525--49247699 Score: 350
Period size: 85 Copynumber: 2.1 Consensus size: 85
49247515 TATTAGTACG
49247525 TTAATGTCGGATATTTTGTTTAAGATTTTCAAATAATCGAAAGAATATTATAAATTTGAAATTAA
1 TTAATGTCGGATATTTTGTTTAAGATTTTCAAATAATCGAAAGAATATTATAAATTTGAAATTAA
49247590 ATGGGATCACAATCCTGCAT
66 ATGGGATCACAATCCTGCAT
49247610 TTAATGTCGGATATTTTGTTTAAGATTTTCAAATAATCGAAAGAATATTATAAATTTGAAATTAA
1 TTAATGTCGGATATTTTGTTTAAGATTTTCAAATAATCGAAAGAATATTATAAATTTGAAATTAA
49247675 ATGGGATCACAATCCTGCAT
66 ATGGGATCACAATCCTGCAT
49247695 TTAAT
1 TTAAT
49247700 TCTATATAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (85 bp):
TTAATGTCGGATATTTTGTTTAAGATTTTCAAATAATCGAAAGAATATTATAAATTTGAAATTAA
ATGGGATCACAATCCTGCAT
Found at i:49248178 original size:25 final size:24
Alignment explanation
Indices: 49248144--49248263 Score: 117
Period size: 23 Copynumber: 5.0 Consensus size: 24
49248134 TACATCAATA
49248144 ATTAAAATAAGGACTTCAATATTT
1 ATTAAAATAAGGACTTCAATATTT
49248168 CATTAAAATAAGGACTAATCAATA---
1 -ATTAAAATAAGGACT--TCAATATTT
* *
49248192 ATTAAAATAAGGACTTTAATCTTTT
1 ATTAAAATAAGGACTTCAAT-ATTT
49248217 ATTAAAATAAGGACTAATCAATA--T
1 ATTAAAATAAGGACT--TCAATATTT
*
49248241 -TTAAAATAAGGACTTTAATATTT
1 ATTAAAATAAGGACTTCAATATTT
49248264 TACTAAAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
21 9 0.11
23 30 0.38
24 1 0.01
25 30 0.38
27 10 0.12
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (24 bp):
ATTAAAATAAGGACTTCAATATTT
Found at i:49248199 original size:23 final size:23
Alignment explanation
Indices: 49248137--49248254 Score: 132
Period size: 25 Copynumber: 5.0 Consensus size: 23
49248127 AAATAATTAC
49248137 ATCAATAATTAAAATAAGGACT-
1 ATCAATAATTAAAATAAGGACTA
49248159 -TCAATATTTCATTAAAATAAGGACTA
1 ATCAATA----ATTAAAATAAGGACTA
49248185 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
** *
49248210 ATCTTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTA
*
49248233 ATCAATATTTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
49248255 TTAATATTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
21 6 0.07
23 34 0.42
25 35 0.43
27 6 0.07
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.33
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:49248265 original size:48 final size:48
Alignment explanation
Indices: 49248137--49248271 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
49248127 AAATAATTAC
* *
49248137 ATCAATAATTAAAATAAGGACTTCAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
49248185 ATCAATAATTAAAATAAGGACTTTAATCTTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
* *
49248233 ATCAATATTTAAAATAAGGACTTTAATATTTTACTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
49248272 ATCAAGAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:49248270 original size:25 final size:25
Alignment explanation
Indices: 49248144--49248290 Score: 126
Period size: 25 Copynumber: 6.0 Consensus size: 25
49248134 TACATCAATA
* *
49248144 ATTAAAATAAGGACTTCAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* *
49248169 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
49248192 ATTAAAATAAGGACTTTAATCTTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
49248217 ATTAAAATAAGGAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
49248241 -TTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* * *
49248265 ACTAAAAATCAAGAAATTTAATATTT
1 A-TTAAAAT-AAGGACTTTAATATTT
49248291 AAATAAAGAA
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
23 35 0.36
24 6 0.06
25 37 0.38
26 6 0.06
27 14 0.14
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:49248294 original size:21 final size:20
Alignment explanation
Indices: 49248270--49248310 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
49248260 ATTTTACTAA
*
49248270 AAATCAAGAAATTTAATATTT
1 AAATAAAGAAATTTAA-ATTT
49248291 AAATAAAGAAATTTAAATTT
1 AAATAAAGAAATTTAAATTT
49248311 GGAATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATAAAGAAATTTAAATTT
Found at i:49250618 original size:92 final size:92
Alignment explanation
Indices: 49250464--49250657 Score: 250
Period size: 92 Copynumber: 2.1 Consensus size: 92
49250454 TTGATTTTAG
* ** * *
49250464 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAAATTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
49250529 ATTTAAT-ATTAATGATTTTAAATTGTA
66 ATGTAATAATTAAT-ATTTTAAATTATA
*
49250556 TAAATTCATATAAGAA-AAATTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAACAAATTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
*
49250619 ATATGTAATAATTAGTATTTTAAATTATA
64 ATATGTAATAATTAATATTTTAAATTATA
*
49250648 CAAATTCATA
1 TAAATTCATA
49250658 AAATATAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
90 1 0.01
91 28 0.31
92 55 0.62
93 5 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (92 bp):
TAAATTCATATAAGAACAAATTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
ATGTAATAATTAATATTTTAAATTATA
Found at i:49250848 original size:15 final size:15
Alignment explanation
Indices: 49250813--49250864 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49250803 TTAAGAATTT
*
49250813 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49250827 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49250841 TATTTAATAATAAT-
1 TATTTAATTATAATA
49250855 TATGTTAATT
1 TAT-TTAATT
49250865 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49250923 original size:118 final size:119
Alignment explanation
Indices: 49250688--49250977 Score: 480
Period size: 118 Copynumber: 2.4 Consensus size: 119
49250678 AATTATTTTA
* * *
49250688 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
*
49250752 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCA-ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49250808 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-T
49250871 TTACAGTATC-ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCAATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49250926 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
49250978 CAAAATATGA
Statistics
Matches: 163, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
118 97 0.60
119 6 0.04
120 58 0.36
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ACAGTATCAATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:49250966 original size:15 final size:15
Alignment explanation
Indices: 49250931--49250972 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49250921 TTAAGAATTT
*
49250931 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49250945 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49250959 TATTTAATAATAAT
1 TATTTAATTATAAT
49250973 TATGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49251112 original size:18 final size:17
Alignment explanation
Indices: 49251084--49251118 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49251074 ATTATTAAGA
*
49251084 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49251101 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49251119 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49251201 original size:157 final size:157
Alignment explanation
Indices: 49250915--49251231 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
49250905 ATAAGAATAT
*
49250915 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTCA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCA
* *
49250980 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
49251045 TAATAATTTACGAAAACAAATTTTTGC
131 TAATAATTTACCAAAACAAATTTATGC
**
49251072 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCA
49251137 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
49251202 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
49251229 TAA
1 TAA
49251232 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCA
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:49251375 original size:16 final size:16
Alignment explanation
Indices: 49251354--49251389 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
49251344 GATTTGCTAT
49251354 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49251370 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49251386 TACA
1 TACA
49251390 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49260293 original size:27 final size:27
Alignment explanation
Indices: 49260263--49260315 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49260253 TGAGGGATTA
49260263 AATTGTAAAATTTGTAAAAATT-AGGGT
1 AATTGTAAAATTT-TAAAAATTGAGGGT
**
49260290 AATTGTGTAATTTTAAAAATTGAGGG
1 AATTGTAAAATTTTAAAAATTGAGGG
49260316 GTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (27 bp):
AATTGTAAAATTTTAAAAATTGAGGGT
Found at i:49260661 original size:25 final size:24
Alignment explanation
Indices: 49260627--49260749 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
49260617 TCGTTCTGTG
49260627 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGGT-AAAT
*
49260652 GCAAAGGATGAATTAACGGTAAAAT
1 GCAAAGGATGAATTGACGGT-AAAT
**
49260677 GCAAAGGATGAATTGACGGTCTAT
1 GCAAAGGATGAATTGACGGTAAAT
* *
49260701 GCAAATGATGAATTGACGGTATAT
1 GCAAAGGATGAATTGACGGTAAAT
* *
49260725 GCAAAGGATGAATTGATGGCAAAT
1 GCAAAGGATGAATTGACGGTAAAT
49260749 G
1 G
49260750 TACTCAAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 45 0.51
25 43 0.49
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.23
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGTAAAT
Found at i:49260710 original size:24 final size:25
Alignment explanation
Indices: 49260627--49260740 Score: 169
Period size: 25 Copynumber: 4.6 Consensus size: 25
49260617 TCGTTCTGTG
49260627 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
*
49260652 GCAAAGGATGAATTAACGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
**
49260677 GCAAAGGATGAATTGACGGT-CTAT
1 GCAAAGGATGAATTGACGGTAAAAT
* *
49260701 GCAAATGATGAATTGACGGT-ATAT
1 GCAAAGGATGAATTGACGGTAAAAT
49260725 GCAAAGGATGAATTGA
1 GCAAAGGATGAATTGA
49260741 TGGCAAATGT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 39 0.48
25 43 0.52
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGGTAAAAT
Found at i:49264110 original size:2 final size:2
Alignment explanation
Indices: 49264105--49264140 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49264095 ATATATATAT
49264105 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
49264141 CAAGAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49267489 original size:18 final size:19
Alignment explanation
Indices: 49267459--49267496 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49267449 TAATAATAAT
*
49267459 AATAATAATAAA-TAAATA
1 AATAATAAAAAATTAAATA
49267477 AATAATAAAAAATTAAATA
1 AATAATAAAAAATTAAATA
49267496 A
1 A
49267497 TAGCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAATAAAAAATTAAATA
Found at i:49267493 original size:15 final size:15
Alignment explanation
Indices: 49267421--49267498 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 15
49267411 ATAACCAAAT
*
49267421 ATAATAATATCAAT-A
1 ATAATAA-ATAAATAA
49267436 ATAATAAGAGT-AAT-A
1 ATAATAA-A-TAAATAA
49267451 ATAAT-AAT-AAT-A
1 ATAATAAATAAATAA
49267463 ATAATAAATAAATAA
1 ATAATAAATAAATAA
49267478 ATAATAAA-AAATTAA
1 ATAATAAATAAA-TAA
49267493 ATAATA
1 ATAATA
49267499 GCAAAATAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
12 10 0.18
13 4 0.07
14 7 0.12
15 35 0.61
16 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAATAAATAAATAA
Found at i:49267498 original size:3 final size:3
Alignment explanation
Indices: 49267421--49267484 Score: 67
Period size: 3 Copynumber: 20.3 Consensus size: 3
49267411 ATAACCAAAT
* *
49267421 ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49267466 ATAA ATAA ATAA ATA ATA A
1 AT-A AT-A AT-A ATA ATA A
49267485 AAAATTAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 39 0.72
4 13 0.24
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49267498 original size:18 final size:17
Alignment explanation
Indices: 49267456--49267498 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
49267446 TAATAATAAT
*
49267456 AATAATAATAATAAATA
1 AATAATAATAAAAAATA
49267473 AATAAATAATAAAAAATTA
1 AAT-AATAATAAAAAA-TA
49267492 AATAATA
1 AATAATA
49267499 GCAAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 15 0.65
19 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAATAAAAAATA
Found at i:49277215 original size:33 final size:31
Alignment explanation
Indices: 49277141--49277216 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
49277131 ATTTGAATGC
*
49277141 TTAATTAAAA--TTTTTAAATTTTTGTGAAA
1 TTAATTAAAATTTTTTTAAATTTTAGTGAAA
49277170 TTAA-TAAGAATTTTTTTAATATTTTAAGTG-AA
1 TTAATTAA-AATTTTTTTAA-ATTTT-AGTGAAA
49277202 TATAATTAAAATTTT
1 T-TAATTAAAATTTT
49277217 CAAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 3 0.08
29 6 0.15
31 7 0.18
32 8 0.21
33 12 0.31
34 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (31 bp):
TTAATTAAAATTTTTTTAAATTTTAGTGAAA
Found at i:49278718 original size:20 final size:21
Alignment explanation
Indices: 49278693--49278733 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49278683 CACCGGCAGA
*
49278693 AATTTTTGGAA-TTTCCACGT
1 AATTTTTGCAATTTTCCACGT
*
49278713 AATTTTTTCAATTTTCCACGT
1 AATTTTTGCAATTTTCCACGT
49278734 GGGCAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (21 bp):
AATTTTTGCAATTTTCCACGT
Found at i:49281821 original size:17 final size:18
Alignment explanation
Indices: 49281780--49281814 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49281770 TTATTATTAA
*
49281780 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
49281798 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
49281815 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:49281898 original size:120 final size:118
Alignment explanation
Indices: 49281760--49282075 Score: 499
Period size: 120 Copynumber: 2.6 Consensus size: 118
49281750 TTAATCATAT
*
49281760 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TTAATAAT
* * *
49281825 CAATATTGTTATATGAATTTACTCAAATCATAATTTATGATACTATAAAATATAA
64 CAATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49281880 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TTAATAAT
* *
49281945 CAATATTATTATATGAATTTCCTAAAATCATAATATATGATAGTATAAAATATAA
64 CAATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
49282000 TTTGAAATCATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTTAAATAAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTT-AATAAT
49282065 -AATAATTATTA
64 CAAT-ATTATTA
49282076 AATATAATTT
Statistics
Matches: 184, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 5 0.03
120 177 0.96
121 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (118 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTTAATAATCA
ATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:49281921 original size:18 final size:17
Alignment explanation
Indices: 49281898--49281934 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
49281888 AATTATTATT
49281898 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
49281914 AAATATATGATTTAATA
1 AAATATATGATTTAATA
49281931 AAAT
1 AAAT
49281935 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:49281983 original size:61 final size:59
Alignment explanation
Indices: 49281795--49282075 Score: 183
Period size: 59 Copynumber: 4.7 Consensus size: 59
49281785 TTTTAATTAA
* *
49281795 AATATATAATTTAATAAAATTATTAATAATCAATATTGTTATATGAATTTACTCAAATCAT
1 AATATATGATTTAATAAAATTATTAATAATCAATATTATTATATGAATTT-CT-AAATCAT
* * * * * *
49281856 AATTTATGATACT-ATAAAATATAATTTAA-GAT-AATTATTATTAAAT-ATATTT-T-AATTAA
1 AATATATGAT-TTAATAAAAT-T-A-TTAATAATCAA-TATTATTATATGA-ATTTCTAAATCAT
*
49281915 AATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCCTAAAATCAT
1 AATATATGATTTAATAAAATTATTAATAATCAATATTATTATATGAATTT-CT-AAATCAT
* * * * * *
49281976 AATATATGATAGT-ATAAAATATAATTTGA-AATCATTATTATTAAAT-ATATTT-T-AATTAA
1 AATATATGAT-TTAATAAAAT-T-A-TTAATAATCAATATTATTATATGA-ATTTCTAAATCAT
49282035 AATATATGATTTAATAAAATT-TTAAATAAT-AATAATTATTA
1 AATATATGATTTAATAAAATTATT-AATAATCAAT-ATTATTA
49282076 AATATAATTT
Statistics
Matches: 172, Mismatches: 25, Indels: 50
0.70 0.10 0.20
Matches are distributed among these distances:
55 2 0.01
56 7 0.04
57 26 0.15
58 7 0.04
59 42 0.24
61 38 0.22
62 8 0.05
63 35 0.20
64 7 0.04
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (59 bp):
AATATATGATTTAATAAAATTATTAATAATCAATATTATTATATGAATTTCTAAATCAT
Found at i:49282017 original size:63 final size:60
Alignment explanation
Indices: 49281822--49282018 Score: 165
Period size: 63 Copynumber: 3.2 Consensus size: 60
49281812 AATTATTAAT
* *
49281822 AATCAATATTGTTATATGAATTTACTCAAATCATAATTTATGATACTATAAAATATAATTTA
1 AATCAATATTATTATATGAATTT-CT-AAATCATAATATATGATACTATAAAATATAATTTA
* * * * * *
49281884 AGAT-AATTATTATTAAAT-ATATTT-T-AATTAAAATATATGAT-TTAATAAAAT-T-CTTAA
1 A-ATCAA-TATTATTATATGA-ATTTCTAAATCATAATATATGATACT-ATAAAATATAATTTA
*
49281941 TAATCAATATTATTATATGAATTTCCTAAAATCATAATATATGATAGTATAAAATATAATTTGA
1 -AATCAATATTATTATATGAATTT-CT-AAATCATAATATATGATACTATAAAATATAATTT-A
*
49282005 AATCATTATTATTA
1 AATCAATATTATTA
49282019 AATATATTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 29
0.70 0.10 0.19
Matches are distributed among these distances:
57 19 0.18
58 6 0.06
59 21 0.20
61 22 0.21
62 6 0.06
63 30 0.29
64 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (60 bp):
AATCAATATTATTATATGAATTTCTAAATCATAATATATGATACTATAAAATATAATTTA
Found at i:49282056 original size:29 final size:29
Alignment explanation
Indices: 49282015--49282090 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
49282005 AATCATTATT
*
49282015 ATTAAAT-ATATTTTAATTAA-AATATATG
1 ATTAAATAAAATTTTAATTAATAATA-ATG
* * *
49282043 ATTTAATAAAATTTTAAATAATAATAATT
1 ATTAAATAAAATTTTAATTAATAATAATG
*
49282072 ATTAAATATAA-TTTAATTA
1 ATTAAATAAAATTTTAATTA
49282091 TATGAATTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 13 0.33
29 22 0.56
30 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
ATTAAATAAAATTTTAATTAATAATAATG
Found at i:49282088 original size:18 final size:18
Alignment explanation
Indices: 49282012--49282137 Score: 56
Period size: 16 Copynumber: 7.1 Consensus size: 18
49282002 TGAAATCATT
*
49282012 ATTATTAAATATATTTTA
1 ATTATTAAATATAATTTA
49282030 ATTA--AAATATATGATTTA
1 ATTATTAAATATA--ATTTA
*
49282048 ATAAAATTTTAAATAATAA--TA
1 AT----TATTAAAT-ATAATTTA
49282069 ATTATTAAATATAATTTA
1 ATTATTAAATATAATTTA
* *
49282087 ATTA-T--AT-GAATTTGT
1 ATTATTAAATATAATTT-A
* *
49282102 ATAATTTAATATAA-TT-
1 ATTATTAAATATAATTTA
49282118 ATTATTAAATATAATTTA
1 ATTATTAAATATAATTTA
49282136 AT
1 AT
49282138 AATAATGTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 36
0.64 0.07 0.29
Matches are distributed among these distances:
14 5 0.06
15 5 0.06
16 24 0.30
17 10 0.12
18 22 0.27
19 2 0.02
21 4 0.05
22 1 0.01
23 1 0.01
24 4 0.05
25 3 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTATTAAATATAATTTA
Found at i:49282176 original size:91 final size:91
Alignment explanation
Indices: 49282088--49282735 Score: 1156
Period size: 91 Copynumber: 7.1 Consensus size: 91
49282078 TATAATTTAA
* * * * * *
49282088 TTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAATAATGTATAACTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
*
49282153 CATCAAATTCTTGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
49282179 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
49282244 CATAAAATTCTTGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
49282270 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
49282335 CATAAAATTCTTGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
* *
49282361 TTATATGAATTTATATAATTTAAAATAAGTAATATTAAATATAACTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
49282426 CATAAAATTCTTGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
49282452 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
*
49282517 CATAAAATTCTAGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
* *
49282543 TTATATGAATTTATATAATTTAAAACAATGAATATTAAATATAATTTAATAATGATATA-AATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
49282607 CATAAAATTCTTGATAATAAATTTTC
66 CATAAAATTCTTGATAATAAATTTTC
49282633 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAA-TT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
* *
49282697 CATAAAATTCTTAATAATAAATATTC
66 CATAAAATTCTTGATAATAAATTTTC
49282723 TTATATGAATTTA
1 TTATATGAATTTA
49282736 CTAAAATCAT
Statistics
Matches: 537, Mismatches: 19, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
90 126 0.23
91 411 0.77
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
CATAAAATTCTTGATAATAAATTTTC
Found at i:49286674 original size:25 final size:25
Alignment explanation
Indices: 49286623--49286676 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
49286613 GTTACTAGAG
* * *
49286623 GTTGTTAGCTATTTTCTTGTTTCTA
1 GTTGTTAGCTACTTCCTTATTTCTA
49286648 GTTGTTAGCTACTTCCTTA-TTCTTA
1 GTTGTTAGCTACTTCCTTATTTC-TA
49286673 GTTG
1 GTTG
49286677 AGTAGTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.13, C:0.15, G:0.17, T:0.56
Consensus pattern (25 bp):
GTTGTTAGCTACTTCCTTATTTCTA
Found at i:49294944 original size:31 final size:31
Alignment explanation
Indices: 49294909--49294975 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
49294899 AAAAACACTT
49294909 AATAGGCCAATAACTTAAATAAAAACTTTGG
1 AATAGGCCAATAACTTAAATAAAAACTTTGG
*** * *
49294940 AATAGTTGAATGACTTTAATAAAAACTTTGG
1 AATAGGCCAATAACTTAAATAAAAACTTTGG
49294971 AATAG
1 AATAG
49294976 CTCAATGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (31 bp):
AATAGGCCAATAACTTAAATAAAAACTTTGG
Found at i:49294983 original size:31 final size:31
Alignment explanation
Indices: 49294916--49294984 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
49294906 CTTAATAGGC
* *
49294916 CAATAACTTAAATAAAAACTTTGGAATAGTT
1 CAATGACTTAAATAAAAACTTTGGAATAGCT
* *
49294947 GAATGACTTTAATAAAAACTTTGGAATAGCT
1 CAATGACTTAAATAAAAACTTTGGAATAGCT
49294978 CAATGAC
1 CAATGAC
49294985 AAAATTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTGGAATAGCT
Found at i:49300722 original size:21 final size:21
Alignment explanation
Indices: 49300696--49300736 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49300686 AGACGAGCAA
* *
49300696 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
49300717 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
49300737 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:49306135 original size:42 final size:42
Alignment explanation
Indices: 49306056--49306228 Score: 224
Period size: 42 Copynumber: 4.1 Consensus size: 42
49306046 GCACTTAGCT
* * * *
49306056 TGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTAAGCC
1 TGCTAGACGTAAAGTCTGATATTGTTTCACCGGAATTAAGCC
*
49306097 TGCTAGACGTAAAGTTTGATATTGTTTCACCGGAATTAAGCC
1 TGCTAGACGTAAAGTCTGATATTGTTTCACCGGAATTAAGCC
** * * *
49306139 TGCTAGACGTAAAGTCAAAAATTATTTCACCGGCATTAAGCC
1 TGCTAGACGTAAAGTCTGATATTGTTTCACCGGAATTAAGCC
*
49306181 TGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAA-TAAGCC
1 TGCTAGACGTAAAGTCTGATATTGTTTCACCGG-AATTAAGCC
49306223 TGCTAG
1 TGCTAG
49306229 GCGGTAAGCC
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.14
42 96 0.85
43 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
TGCTAGACGTAAAGTCTGATATTGTTTCACCGGAATTAAGCC
Found at i:49307188 original size:4 final size:4
Alignment explanation
Indices: 49307179--49307260 Score: 164
Period size: 4 Copynumber: 20.5 Consensus size: 4
49307169 AATACAATAG
49307179 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
49307227 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
49307261 TAATTTAATA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 78 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:49308348 original size:4 final size:4
Alignment explanation
Indices: 49308332--49308361 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
49308322 GGCTGTTACA
*
49308332 TAAC TAGC TAAC TAAC TAAC TAAC TAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TA
49308362 TTAGATACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAC
Found at i:49309526 original size:32 final size:32
Alignment explanation
Indices: 49309485--49309553 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
49309475 ATTGTAACTT
* * * *
49309485 TTCTATTCTCATTTTCATCAATTGGTTGTTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
* *
49309517 TTCTCTTCTCGTCTTCATCAGTTGATTGCTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
49309549 TTCTC
1 TTCTC
49309554 CATCTGTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.54
Consensus pattern (32 bp):
TTCTCTTCTCATCTTCATCAATTGATTGCTTC
Done.